Pfam
Names
More detailed information about this field from each metasource.
Pfam
metasource: Fairsharing.org
version: FAIRsharing.org: Pfam; Pfam; DOI: https://doi.org/10.25504/FAIRsharing.y3scf6; Last edited: Feb. 23, 2021, 3:52 p.m.; Last accessed: Jan 03 2022 7:08 p.m.
metasource: Nucleic Acid Research database catalogue
version: extracted_at: 2022-11-04T11:16:25.468657
metasource: re3data.org
version: re3data.org: Pfam Protein Families; editing status 2022-09-13; re3data.org - Registry of Research Data Repositories. http://doi.org/10.17616/R3QV4F last accessed: 2022-11-04
metasource: bio.tools
version: extracted_at: 2022-11-04T11:24:11.823842
Pfam Protein Families
metasource: re3data.org
version: re3data.org: Pfam Protein Families; editing status 2022-09-13; re3data.org - Registry of Research Data Repositories. http://doi.org/10.17616/R3QV4F last accessed: 2022-11-04
pfam
metasource: bio.tools
version: extracted_at: 2022-11-04T11:24:11.823842
Names
More detailed information about this field from each metasource.
Pfam
metasource: Fairsharing.orgversion: FAIRsharing.org: Pfam; Pfam; DOI: https://doi.org/10.25504/FAIRsharing.y3scf6; Last edited: Feb. 23, 2021, 3:52 p.m.; Last accessed: Jan 03 2022 7:08 p.m.
metasource: Nucleic Acid Research database catalogue
version: extracted_at: 2022-11-04T11:16:25.468657
metasource: re3data.org
version: re3data.org: Pfam Protein Families; editing status 2022-09-13; re3data.org - Registry of Research Data Repositories. http://doi.org/10.17616/R3QV4F last accessed: 2022-11-04
metasource: bio.tools
version: extracted_at: 2022-11-04T11:24:11.823842
Pfam Protein Families
metasource: re3data.orgversion: re3data.org: Pfam Protein Families; editing status 2022-09-13; re3data.org - Registry of Research Data Repositories. http://doi.org/10.17616/R3QV4F last accessed: 2022-11-04
pfam
metasource: bio.toolsversion: extracted_at: 2022-11-04T11:24:11.823842
Other names: Pfam Protein Families, pfam
Names
More detailed information about this field from each metasource.
Pfam
metasource: Fairsharing.orgversion: FAIRsharing.org: Pfam; Pfam; DOI: https://doi.org/10.25504/FAIRsharing.y3scf6; Last edited: Feb. 23, 2021, 3:52 p.m.; Last accessed: Jan 03 2022 7:08 p.m.
metasource: Nucleic Acid Research database catalogue
version: extracted_at: 2022-11-04T11:16:25.468657
metasource: re3data.org
version: re3data.org: Pfam Protein Families; editing status 2022-09-13; re3data.org - Registry of Research Data Repositories. http://doi.org/10.17616/R3QV4F last accessed: 2022-11-04
metasource: bio.tools
version: extracted_at: 2022-11-04T11:24:11.823842
Pfam Protein Families
metasource: re3data.orgversion: re3data.org: Pfam Protein Families; editing status 2022-09-13; re3data.org - Registry of Research Data Repositories. http://doi.org/10.17616/R3QV4F last accessed: 2022-11-04
pfam
metasource: bio.toolsversion: extracted_at: 2022-11-04T11:24:11.823842
The Pfam database is a large collection of protein families, each represented by multiple sequence alignments and hidden Markov models (HMMs). Pfam also generates higher-level groupings of related entries, known as clans. A clan is a collection of Pfam entries which are related by similarity of sequence, structure or profile-HMM.
Description
More detailed information about this field from each metasource.
The Pfam database is a large collection of protein families, each represented by multiple sequence alignments and hidden Markov models (HMMs). Pfam also generates higher-level groupings of related entries, known as clans. A clan is a collection of Pfam entries which are related by similarity of sequence, structure or profile-HMM.
metasource: Fairsharing.orgversion: FAIRsharing.org: Pfam; Pfam; DOI: https://doi.org/10.25504/FAIRsharing.y3scf6; Last edited: Feb. 23, 2021, 3:52 p.m.; Last accessed: Jan 03 2022 7:08 p.m.
The Pfam database is a widely used resource for classifying protein sequences into families and domains. Since Pfam was last described in this journal, over 350 new families have been added in Pfam 33.1 and numerous improvements have been made to existing entries. To facilitate research on COVID-19, we have revised the Pfam entries that cover the SARS-CoV-2 proteome, and built new entries for regions that were not covered by Pfam. We have reintroduced Pfam-B which provides an automatically generated supplement to Pfam and contains 136 730 novel clusters of sequences that are not yet matched by a Pfam family. The new Pfam-B is based on a clustering by the MMseqs2 software. We have compared all of the regions in the RepeatsDB to those in Pfam and have started to use the results to build and refine Pfam repeat families. Pfam is freely available for browsing and download at http://pfam.xfam.org/.
metasource: Nucleic Acid Research database catalogueversion: extracted_at: 2022-11-04T11:16:25.468657
The Pfam database is a large collection of protein families, each represented by multiple sequence alignments and hidden Markov models (HMMs). !!! Powering down the Pfam website On October 5th, redirecting the traffic from Pfam (pfam.xfam.org) to InterPro (www.ebi.ac.uk/interpro) will start. The Pfam website will be available at legacy.pfam.xfam.org until January 2023, when it will be decommissioned. You can read more about the sunset period in the blog post (https://xfam.wordpress.com/2022/08/04/pfam-website-decommission/). !!!
metasource: re3data.orgversion: re3data.org: Pfam Protein Families; editing status 2022-09-13; re3data.org - Registry of Research Data Repositories. http://doi.org/10.17616/R3QV4F last accessed: 2022-11-04
Database which contains information about protein domains and families. For each entry a protein sequence alignment and a Hidden Markov Model is stored.
metasource: bio.toolsversion: extracted_at: 2022-11-04T11:24:11.823842
Webpage:
http://pfam.xfam.org/Webpage
More detailed information about this field from each metasource.
http://pfam.xfam.org/
metasource: Fairsharing.orgversion: FAIRsharing.org: Pfam; Pfam; DOI: https://doi.org/10.25504/FAIRsharing.y3scf6; Last edited: Feb. 23, 2021, 3:52 p.m.; Last accessed: Jan 03 2022 7:08 p.m.
metasource: Nucleic Acid Research database catalogue
version: extracted_at: 2022-11-04T11:16:25.468657
metasource: re3data.org
version: re3data.org: Pfam Protein Families; editing status 2022-09-13; re3data.org - Registry of Research Data Repositories. http://doi.org/10.17616/R3QV4F last accessed: 2022-11-04
metasource: bio.tools
version: extracted_at: 2022-11-04T11:24:11.823842
Licence:
Name: Creative Commons CC0 1.0 Universal (CC0 1.0) Public Domain DedicationLicence name
More detailed information about this field from each metasource.
Creative Commons CC0 1.0 Universal (CC0 1.0) Public Domain Dedication
metasource: Fairsharing.orgversion: FAIRsharing.org: Pfam; Pfam; DOI: https://doi.org/10.25504/FAIRsharing.y3scf6; Last edited: Feb. 23, 2021, 3:52 p.m.; Last accessed: Jan 03 2022 7:08 p.m.
CC0
metasource: re3data.orgversion: re3data.org: Pfam Protein Families; editing status 2022-09-13; re3data.org - Registry of Research Data Repositories. http://doi.org/10.17616/R3QV4F last accessed: 2022-11-04
CC0-1.0
metasource: bio.toolsversion: extracted_at: 2022-11-04T11:24:11.823842
Licence URL
More detailed information about this field from each metasource.
https://creativecommons.org/publicdomain/zero/1.0/
metasource: Fairsharing.orgversion: FAIRsharing.org: Pfam; Pfam; DOI: https://doi.org/10.25504/FAIRsharing.y3scf6; Last edited: Feb. 23, 2021, 3:52 p.m.; Last accessed: Jan 03 2022 7:08 p.m.
https://creativecommons.org/
metasource: re3data.orgversion: re3data.org: Pfam Protein Families; editing status 2022-09-13; re3data.org - Registry of Research Data Repositories. http://doi.org/10.17616/R3QV4F last accessed: 2022-11-04
Publications:
(10)
Publications
More detailed information about this field from each metasource.
Pfam: the protein families database
PMID: 24288371
metasource: Fairsharing.org
version: FAIRsharing.org: Pfam; Pfam; DOI: https://doi.org/10.25504/FAIRsharing.y3scf6; Last edited: Feb. 23, 2021, 3:52 p.m.; Last accessed: Jan 03 2022 7:08 p.m.
metasource: bio.tools
version: extracted_at: 2022-11-04T11:24:11.823842
The Pfam protein families database: towards a more sustainable future
PMID: 26673716
metasource: Fairsharing.org
version: FAIRsharing.org: Pfam; Pfam; DOI: https://doi.org/10.25504/FAIRsharing.y3scf6; Last edited: Feb. 23, 2021, 3:52 p.m.; Last accessed: Jan 03 2022 7:08 p.m.
metasource: bio.tools
version: extracted_at: 2022-11-04T11:24:11.823842
The Pfam protein families database
PMID: 22127870
metasource: Fairsharing.org
version: FAIRsharing.org: Pfam; Pfam; DOI: https://doi.org/10.25504/FAIRsharing.y3scf6; Last edited: Feb. 23, 2021, 3:52 p.m.; Last accessed: Jan 03 2022 7:08 p.m.
The Pfam protein families database
PMID: 19920124
metasource: Fairsharing.org
version: FAIRsharing.org: Pfam; Pfam; DOI: https://doi.org/10.25504/FAIRsharing.y3scf6; Last edited: Feb. 23, 2021, 3:52 p.m.; Last accessed: Jan 03 2022 7:08 p.m.
The Pfam protein families database in 2019
PMID: 30357350
metasource: Fairsharing.org
version: FAIRsharing.org: Pfam; Pfam; DOI: https://doi.org/10.25504/FAIRsharing.y3scf6; Last edited: Feb. 23, 2021, 3:52 p.m.; Last accessed: Jan 03 2022 7:08 p.m.
The Pfam protein families database
PMID: 18039703
metasource: Fairsharing.org
version: FAIRsharing.org: Pfam; Pfam; DOI: https://doi.org/10.25504/FAIRsharing.y3scf6; Last edited: Feb. 23, 2021, 3:52 p.m.; Last accessed: Jan 03 2022 7:08 p.m.
Pfam: clans, web tools and services
PMID: 16381856
metasource: Fairsharing.org
version: FAIRsharing.org: Pfam; Pfam; DOI: https://doi.org/10.25504/FAIRsharing.y3scf6; Last edited: Feb. 23, 2021, 3:52 p.m.; Last accessed: Jan 03 2022 7:08 p.m.
Pfam: The protein families database in 2021
PMID: 33125078
metasource: Fairsharing.org
version: FAIRsharing.org: Pfam; Pfam; DOI: https://doi.org/10.25504/FAIRsharing.y3scf6; Last edited: Feb. 23, 2021, 3:52 p.m.; Last accessed: Jan 03 2022 7:08 p.m.
metasource: bio.tools
version: extracted_at: 2022-11-04T11:24:11.823842
Pfam: a comprehensive database of protein domain families based on seed alignments
PMID: 9223186
metasource: Fairsharing.org
version: FAIRsharing.org: Pfam; Pfam; DOI: https://doi.org/10.25504/FAIRsharing.y3scf6; Last edited: Feb. 23, 2021, 3:52 p.m.; Last accessed: Jan 03 2022 7:08 p.m.
metasource: Fairsharing.org
version: FAIRsharing.org: Pfam; Pfam; DOI: https://doi.org/10.25504/FAIRsharing.y3scf6; Last edited: Feb. 23, 2021, 3:52 p.m.; Last accessed: Jan 03 2022 7:08 p.m.
metasource: bio.tools
version: extracted_at: 2022-11-04T11:24:11.823842
http://dx.doi.org/10.1093/nar/gkaa913
metasource: Nucleic Acid Research database catalogue
version: extracted_at: 2022-11-04T11:16:25.468657
Publications
More detailed information about this field from each metasource.
Pfam: the protein families database
PMID: 24288371
metasource: Fairsharing.org
version: FAIRsharing.org: Pfam; Pfam; DOI: https://doi.org/10.25504/FAIRsharing.y3scf6; Last edited: Feb. 23, 2021, 3:52 p.m.; Last accessed: Jan 03 2022 7:08 p.m.
metasource: bio.tools
version: extracted_at: 2022-11-04T11:24:11.823842
The Pfam protein families database: towards a more sustainable future
PMID: 26673716
metasource: Fairsharing.org
version: FAIRsharing.org: Pfam; Pfam; DOI: https://doi.org/10.25504/FAIRsharing.y3scf6; Last edited: Feb. 23, 2021, 3:52 p.m.; Last accessed: Jan 03 2022 7:08 p.m.
metasource: bio.tools
version: extracted_at: 2022-11-04T11:24:11.823842
The Pfam protein families database
PMID: 22127870
metasource: Fairsharing.org
version: FAIRsharing.org: Pfam; Pfam; DOI: https://doi.org/10.25504/FAIRsharing.y3scf6; Last edited: Feb. 23, 2021, 3:52 p.m.; Last accessed: Jan 03 2022 7:08 p.m.
The Pfam protein families database
PMID: 19920124
metasource: Fairsharing.org
version: FAIRsharing.org: Pfam; Pfam; DOI: https://doi.org/10.25504/FAIRsharing.y3scf6; Last edited: Feb. 23, 2021, 3:52 p.m.; Last accessed: Jan 03 2022 7:08 p.m.
The Pfam protein families database in 2019
PMID: 30357350
metasource: Fairsharing.org
version: FAIRsharing.org: Pfam; Pfam; DOI: https://doi.org/10.25504/FAIRsharing.y3scf6; Last edited: Feb. 23, 2021, 3:52 p.m.; Last accessed: Jan 03 2022 7:08 p.m.
The Pfam protein families database
PMID: 18039703
metasource: Fairsharing.org
version: FAIRsharing.org: Pfam; Pfam; DOI: https://doi.org/10.25504/FAIRsharing.y3scf6; Last edited: Feb. 23, 2021, 3:52 p.m.; Last accessed: Jan 03 2022 7:08 p.m.
Pfam: clans, web tools and services
PMID: 16381856
metasource: Fairsharing.org
version: FAIRsharing.org: Pfam; Pfam; DOI: https://doi.org/10.25504/FAIRsharing.y3scf6; Last edited: Feb. 23, 2021, 3:52 p.m.; Last accessed: Jan 03 2022 7:08 p.m.
Pfam: The protein families database in 2021
PMID: 33125078
metasource: Fairsharing.org
version: FAIRsharing.org: Pfam; Pfam; DOI: https://doi.org/10.25504/FAIRsharing.y3scf6; Last edited: Feb. 23, 2021, 3:52 p.m.; Last accessed: Jan 03 2022 7:08 p.m.
metasource: bio.tools
version: extracted_at: 2022-11-04T11:24:11.823842
Pfam: a comprehensive database of protein domain families based on seed alignments
PMID: 9223186
metasource: Fairsharing.org
version: FAIRsharing.org: Pfam; Pfam; DOI: https://doi.org/10.25504/FAIRsharing.y3scf6; Last edited: Feb. 23, 2021, 3:52 p.m.; Last accessed: Jan 03 2022 7:08 p.m.
metasource: Fairsharing.org
version: FAIRsharing.org: Pfam; Pfam; DOI: https://doi.org/10.25504/FAIRsharing.y3scf6; Last edited: Feb. 23, 2021, 3:52 p.m.; Last accessed: Jan 03 2022 7:08 p.m.
metasource: bio.tools
version: extracted_at: 2022-11-04T11:24:11.823842
http://dx.doi.org/10.1093/nar/gkaa913
metasource: Nucleic Acid Research database catalogueversion: extracted_at: 2022-11-04T11:16:25.468657
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Pfam: the protein families database
PubMed citations: 2674.
2674 articles citing: Pfam: the protein families database
Genome-wide identification and expression analysis of phospholipase D gene in leaves of sorghum in response to abiotic stresses. PMID:35910446
Novel Microorganisms Contribute to Biosulfidogenesis in the Deep Layer of an Acidic Pit Lake. PMID:35910036
Genome-Wide Analysis of Anthocyanin Biosynthesis Regulatory WD40 Gene FcTTG1 and Related Family in Ficus carica L. PMID:35909733
Mutations in SORL1 and MTHFDL1 possibly contribute to the development of Alzheimer's disease in a multigenerational Colombian Family. PMID:35905044
Dynamic Transcriptomic Profiling During Liver Development in Schizothorax Prenanti. PMID:35899028
Potential Autoimmunity Resulting from Molecular Mimicry between SARS-CoV-2 Spike and Human Proteins. PMID:35891400
Integrated Analysis of Single-Molecule Real-Time Sequencing and Next-Generation Sequencing Eveals Insights into Drought Tolerance Mechanism of Lolium multiflorum. PMID:35887272
Identification of New Toxicity Mechanisms in Drug-Induced Liver Injury through Systems Pharmacology. PMID:35886075
Mining Amphibian and Insect Transcriptomes for Antimicrobial Peptide Sequences with rAMPage. PMID:35884206
Identification of sugar transporter (SWEET) genes involved in pomegranate seed coat sugar accumulation. PMID:35875178
Analysis of phylogenetic markers for classification of a hydrogen peroxide producing Streptococcus oralis isolated from saliva by a newly devised differential medium. PMID:35835959
Genomics analysis and degradation characteristics of lignin by Streptomyces thermocarboxydus strain DF3-3. PMID:35831866
Genome-Wide Identification of PLATZ Transcription Factors in Ginkgo biloba L. and Their Expression Characteristics During Seed Development. PMID:35812908
The Hidden Potential of High-Throughput RNA-Seq Re-Analysis, a Case Study for DHDPS, Key Enzyme of the Aspartate-Derived Lysine Biosynthesis Pathway and Its Role in Abiotic and Biotic Stress Responses in Soybean. PMID:35807714
Transcript Complexity and New Insights of Restorer Line in CMS-D8 Cotton Through Full-Length Transcriptomic Analysis. PMID:35800603
Biomimetic generation of the strongest known biomaterial found in limpet tooth. PMID:35798724
Meta-omics approaches reveal unique small RNAs exhibited by the uncultured microorganisms dwelling deep-sea hydrothermal sediment in Guaymas Basin. PMID:35792953
Integrated Metabolomics and Transcriptome Analyses Unveil Pathways Involved in Sugar Content and Rind Color of Two Sugarcane Varieties. PMID:35783968
Heterotrophic Sulfur Oxidation of Halomonas titanicae SOB56 and Its Habitat Adaptation to the Hydrothermal Environment. PMID:35774465
Genome-wide identification and characterization of long noncoding RNAs during peach (Prunus persica) fruit development and ripening. PMID:35773470
VisProDom: an interactive Shiny/R application for displaying protein domains with transcriptional features. PMID:35761171
Metagenomic Screening for Lipolytic Genes Reveals an Ecology-Clustered Distribution Pattern. PMID:35756004
Whole-genome sequence analysis of Bipolaris sorokiniana infecting wheat in India and characterization of ToxA gene in different isolates as pathogenicity determinants. PMID:35747503
Assembly and Comparison of Ca. Neoehrlichia mikurensis Genomes. PMID:35744652
Identification and Regulatory Network Analysis of Genes Related to Reproductive Performance in the Hypothalamus and Pituitary of Angus Cattle. PMID:35741727
SeqScreen: accurate and sensitive functional screening of pathogenic sequences via ensemble learning. PMID:35725628
A Phage Receptor-Binding Protein as a Promising Tool for the Detection of Escherichia coli in Human Specimens. PMID:35722298
RIViT-seq enables systematic identification of regulons of transcriptional machineries. PMID:35715393
Prediction of Plant Resistance Proteins Based on Pairwise Energy Content and Stacking Framework. PMID:35712582
Efficient and specific DNA oligonucleotide rRNA probe-based rRNA removal in Talaromyces marneffei. PMID:35711330
Genome-wide identification of R2R3-MYB gene family and association with anthocyanin biosynthesis in Brassica species. PMID:35701743
Complete genome sequence of the Pogostemon cablin bacterial wilt pathogen Ralstonia solanacearum strain SY1. PMID:35670995
Widespread phages of endosymbionts: Phage WO genomics and the proposed taxonomic classification of Symbioviridae. PMID:35666732
Full-Length Transcriptional Analysis of the Same Soybean Genotype With Compatible and Incompatible Reactions to Heterodera glycines Reveals Nematode Infection Activating Plant Defense Response. PMID:35665156
Genomic insights into the recent chromosome reduction of autopolyploid sugarcane Saccharum spontaneum. PMID:35654976
A Standardized Framework for Better Understanding of Phenotypic Differences within Bacterial Phyla Based on Protein Domain. PMID:35652670
The GP-45 Protein, a Highly Variable Antigen from Babesia bigemina, Contains Conserved B-Cell Epitopes in Geographically Distant Isolates. PMID:35631112
Dynamic Changes in Ascorbic Acid Content during Fruit Development and Ripening of Actinidia latifolia (an Ascorbate-Rich Fruit Crop) and the Associated Molecular Mechanisms. PMID:35628618
Genome-Wide Identification, Characterization, and Expression Profiling Analysis of SPL Gene Family during the Inflorescence Development in Trifolium repens. PMID:35627286
Functional Characterization and Whole-Genome Analysis of an Aflatoxin-Degrading Rhodococcus pyridinivorans Strain. PMID:35625502
PepNN: a deep attention model for the identification of peptide binding sites. PMID:35618814
Profile of the in silico secretome of the palm dieback pathogen, Fusarium oxysporum f. sp. albedinis, a fungus that puts natural oases at risk. PMID:35617325
Genome-Wide Identification and Expression of FAR1 Gene Family Provide Insight Into Pod Development in Peanut (Arachis hypogaea). PMID:35592563
Physiological Effects and Transcriptomic Analysis of sbGnRH on the Liver in Pompano (Trachinotus ovatus). PMID:35586618
CFVisual: an interactive desktop platform for drawing gene structure and protein architecture. PMID:35562653
Transcriptomic profile of the predatory mite Amblyseius swirskii (Acari: Phytoseiidae) on different host plants. PMID:35534782
Long Noncoding RNA Expression Rofiles Elucidate the Potential Roles of lncRNA- XR_003496198 in Duck Hepatitis A Virus Type 1 Infection. PMID:35531338
Sugars dominate the seagrass rhizosphere. PMID:35501482
Microbial Ecology of Sulfur Biogeochemical Cycling at a Mesothermal Hot Spring Atop Northern Himalayas, India. PMID:35495730
A Novel Efficient L-Lysine Exporter Identified by Functional Metagenomics. PMID:35495724
Research on lncRNA related to drought resistance of Shanlan upland rice. PMID:35490237
A periplasmic cinched protein is required for siderophore secretion and virulence of Mycobacterium tuberculosis. PMID:35474308
Integrative Analysis of Long- and Short-Read Transcriptomes Identify the Regulation of Terpenoids Biosynthesis Under Shading Cultivation in Oenanthe javanica. PMID:35464839
The Genome of Bacillus velezensis SC60 Provides Evidence for Its Plant Probiotic Effects. PMID:35456817
Complete genome sequence of pueraria virus A, a new member of the genus Caulimovirus. PMID:35451686
In-Silico Functional Annotation of Plasmodium falciparum Hypothetical Proteins to Identify Novel Drug Targets. PMID:35444689
Molecular characterization of matrix metalloproteinase gene family across primates. PMID:35444067
Integration of Aspergillus niger transcriptomic profile with metabolic model identifies potential targets to optimise citric acid production from lignocellulosic hydrolysate. PMID:35418297
Filling gaps in bacterial catabolic pathways with computation and high-throughput genetics. PMID:35417463
Precise genotyping of circular mobile elements from metagenomic data uncovers human-associated plasmids with recent common ancestors. PMID:35414589
SSGraphCPI: A Novel Model for Predicting Compound-Protein Interactions Based on Deep Learning. PMID:35409140
A New Ilarvirus Found in French Hydrangea. PMID:35406923
Pangenome Analysis of the Soilborne Fungal Phytopathogen Rhizoctonia solani and Development of a Comprehensive Web Resource: RsolaniDB. PMID:35401459
CsrD regulates amylovoran biosynthesis and virulence in Erwinia amylovora in a novel cyclic-di-GMP dependent manner. PMID:35396793
Inter-species geographic signatures for tracing horizontal gene transfer and long-term persistence of carbapenem resistance. PMID:35379360
Investigating the Functional Role of Hypothetical Proteins From an Antarctic Bacterium Pseudomonas sp. Lz4W: Emphasis on Identifying Proteins Involved in Cold Adaptation. PMID:35360867
Tracing back variations in archaeal ESCRT-based cell division to protein domain architectures. PMID:35358274
Innovation and Emerging Roles of Populus trichocarpa TEOSINTE BRANCHED1/CYCLOIDEA/PROLIFERATING CELL FACTOR Transcription Factors in Abiotic Stresses by Whole-Genome Duplication. PMID:35356113
Multiple Profile Models Extract Features from Protein Sequence Data and Resolve Functional Diversity of Very Different Protein Families. PMID:35353898
In silico analysis of nitrilase-3 protein from Corynebacterium glutamicum for bioremediation of nitrile herbicides. PMID:35348933
Chromosome-Level Reference Genomes for Two Strains of Caenorhabditis briggsae: An Improved Platform for Comparative Genomics. PMID:35348662
De novo assembly of a fruit transcriptome set identifies AmMYB10 as a key regulator of anthocyanin biosynthesis in Aronia melanocarpa. PMID:35337270
Genomic Characterisation of UFJF_PfDIW6: A Novel Lytic Pseudomonas fluorescens-Phage with Potential for Biocontrol in the Dairy Industry. PMID:35337036
Donor Splice Site Variant in SLC9A6 Causes Christianson Syndrome in a Lithuanian Family: A Case Report. PMID:35334527
Systematic identification and expression profiles of the BAHD superfamily acyltransferases in barley (Hordeum vulgare). PMID:35332203
Functional Classification and Characterization of the Fungal Glycoside Hydrolase 28 Protein Family. PMID:35330219
Theoretical Studies of Cyanophycin Dipeptides as Inhibitors of Tyrosinases. PMID:35328756
The Genome of Rhyzopertha dominica (Fab.) (Coleoptera: Bostrichidae): Adaptation for Success. PMID:35328000
Draft genomes assembly and annotation of Carex parvula and Carex kokanica reveals stress-specific genes. PMID:35322069
Metagenomic mining and structure-function studies of a hyper-thermostable cellobiohydrolase from hot spring sediment. PMID:35318423
A Novel and Ubiquitous Marine Methylophage Provides Insights into Viral-Host Coevolution and Possible Host-Range Expansion in Streamlined Marine Heterotrophic Bacteria. PMID:35311512
Transcriptome Analysis Revealed a Cold Stress-Responsive Transcription Factor, PaDREB1A, in Plumbago auriculata That Can Confer Cold Tolerance in Transgenic Arabidopsis thaliana. PMID:35310656
Detection and Analysis of Syntenic Quantitative Trait Loci Controlling Cell Wall Quality in Angiosperms. PMID:35310628
CIAlign: A highly customisable command line tool to clean, interpret and visualise multiple sequence alignments. PMID:35310163
Genome-wide Identification, Expression, and Functional Analysis of MdMSI Genes in Apples (Malus domestica Borkh.). PMID:35309144
Comprehensive Transcriptome Analysis of Stem-Differentiating Xylem Upon Compression Stress in Cunninghamia Lanceolata. PMID:35309135
Identification and characterization of heat-responsive lncRNAs in maize inbred line CM1. PMID:35291949
Multi-Approach Analysis Reveals Pathways of Cold Tolerance Divergence in Camellia japonica. PMID:35283896
A near-chromosome level genome assembly of the European hoverfly, Sphaerophoria rueppellii (Diptera: Syrphidae), provides comparative insights into insecticide resistance-related gene family evolution. PMID:35279098
The expanded inhibitor of apoptosis gene family in oysters possesses novel domain architectures and may play diverse roles in apoptosis following immune challenge. PMID:35279090
Complete Genome Sequence Analysis of Ralstonia solanacearum Strain PeaFJ1 Provides Insights Into Its Strong Virulence in Peanut Plants. PMID:35273586
The UV-B-Induced Transcription Factor HY5 Regulated Anthocyanin Biosynthesis in Zanthoxylum bungeanum. PMID:35269793
Deciphering the Host-Pathogen Interactome of the Wheat-Common Bunt System: A Step towards Enhanced Resilience in Next Generation Wheat. PMID:35269732
RNA-Seq reveals miRNA role in thermogenic regulation in brown adipose tissues of goats. PMID:35255830
Genome-wide identification and expression analysis of HAK/KUP/KT potassium transporter provides insights into genes involved in responding to potassium deficiency and salt stress in pepper (Capsicum annuum L.). PMID:35251880
A High-Quality, Chromosome-Level Genome Provides Insights Into Determinate Flowering Time and Color of Cotton Rose (Hibiscus mutabilis). PMID:35251086
Computational Systems Biology of Alfalfa - Bacterial Blight Host-Pathogen Interactions: Uncovering the Complex Molecular Networks for Developing Durable Disease Resistant Crop. PMID:35251063
Genomic Analysis of Molecular Bacterial Mechanisms of Resistance to Phage Infection. PMID:35250902
Mammary epithelial cell transcriptome reveals potential roles of lncRNAs in regulating milk synthesis pathways in Jersey and Kashmiri cattle. PMID:35246027
Genome-wide evolution and expression analysis of the MYB-CC gene family in Brassica spp. PMID:35237467
SMRT sequencing of full-length transcriptome and gene expression analysis in two chemical types of Pogostemon cablin (Blanco) Benth. PMID:35223208
Identification of Type VI Secretion Systems Effector Proteins That Contribute to Interbacterial Competition in Salmonella Dublin. PMID:35222335
Dynamic Gene Expression and Alternative Splicing Events Demonstrate Co-Regulation of Testicular Differentiation and Maturation by the Brain and Gonad in Common Carp. PMID:35222265
Genome-Wide Analysis of LBD Transcription Factor Genes in Dendrobiumcatenatum. PMID:35216201
Identification of Peanut Aux/IAA Genes and Functional Prediction during Seed Development and Maturation. PMID:35214804
Genome-Wide Association Study Reveals Genetic Architecture and Candidate Genes for Yield and Related Traits under Terminal Drought, Combined Heat and Drought in Tropical Maize Germplasm. PMID:35205393
IMA Genome - F16 : Draft genome assemblies of Fusarium marasasianum, Huntiella abstrusa, two Immersiporthe knoxdaviesiana isolates, Macrophomina pseudophaseolina, Macrophomina phaseolina, Naganishia randhawae, and Pseudocercospora cruenta. PMID:35197126
Insights into glucosinolate accumulation and metabolic pathways in Isatis indigotica Fort. PMID:35193497
Metabolic Diversity and Aero-Tolerance in Anammox Bacteria from Geochemically Distinct Aquifers. PMID:35191775
Identification, Molecular Characteristics, and Evolution of GRF Gene Family in Foxtail Millet (Setaria italica L.). PMID:35185998
Insight Into Pituitary lncRNA and mRNA at Two Estrous Stages in Small Tail Han Sheep With Different FecB Genotypes. PMID:35178025
Comparative transcriptome and weighted correlation network analyses reveal candidate genes involved in chlorogenic acid biosynthesis in sweet potato. PMID:35177832
Whole-transcriptome analysis and construction of an anther development-related ceRNA network in Chinese cabbage (Brassica campestris L. ssp. pekinensis). PMID:35177672
Active anaerobic methane oxidation and sulfur disproportionation in the deep terrestrial subsurface. PMID:35173296
METABOLIC: high-throughput profiling of microbial genomes for functional traits, metabolism, biogeochemistry, and community-scale functional networks. PMID:35172890
Impairment of a cyanobacterial glycosyltransferase that modifies a pilin results in biofilm development. PMID:35172394
Isolation and Characterization of Novel Lytic Phages Infecting Multidrug-Resistant Escherichia coli. PMID:35171030
Genome-wide analysis of the rose (Rosa chinensis) NAC family and characterization of RcNAC091. PMID:35169911
Genome-wide identification and expression profiling analysis of maize AP2/ERF superfamily genes reveal essential roles in abiotic stress tolerance. PMID:35151253
ProtPlat: an efficient pre-training platform for protein classification based on FastText. PMID:35148686
The dynamic trophic architecture of open-ocean protist communities revealed through machine-guided metatranscriptomics. PMID:35145022
Giant sponge grounds of Central Arctic seamounts are associated with extinct seep life. PMID:35136058
Ionotropic receptors in the turnip moth Agrotis segetum respond to repellent medium-chain fatty acids. PMID:35130883
Leaf color formation mechanisms in Alternanthera bettzickiana elucidated by metabolite and transcriptome analyses. PMID:35128619
EST-SSR Marker Development and Full-Length Transcriptome Sequence Analysis of Tiger Lily (Lilium lancifolium Thunb). PMID:35126662
Deeply conserved synteny and the evolution of metazoan chromosomes. PMID:35108053
Database of glutamate-gated chloride (GluCl) subunits across 125 nematode species: patterns of gene accretion and sequence diversification. PMID:35100348
The highly continuous reference genome of a leaf-chimeric red pineapple (Ananas comosus var. bracteatus f. tricolor) provides insights into elaboration of leaf color. PMID:35100332
Proteomics Uncovers Novel Components of an Interactive Protein Network Supporting RNA Export in Trypanosomes. PMID:35091090
A molecular map of long non-coding RNA expression, isoform switching and alternative splicing in osteoarthritis. PMID:35088088
A Peroxide-Responding sRNA Evolved from a Peroxidase mRNA. PMID:35084505
Nicotinamide Riboside-Conditioned Microbiota Deflects High-Fat Diet-Induced Weight Gain in Mice. PMID:35076278
Genome-Wide Identification and Co-Expression Analysis of ARF and IAA Family Genes in Euscaphis konishii: Potential Regulators of Triterpenoids and Anthocyanin Biosynthesis. PMID:35069676
Mobile Genetic Elements Drive Antimicrobial Resistance Gene Spread in Pasteurellaceae Species. PMID:35069478
CANT-HYD: A Curated Database of Phylogeny-Derived Hidden Markov Models for Annotation of Marker Genes Involved in Hydrocarbon Degradation. PMID:35069469
Isolation, Classification, and Growth-Promoting Effects of Pantoea sp. YSD J2 from the Aboveground Leaves of Cyperus Esculentus L. var. sativus. PMID:35059843
Genetic and Comparative Genome Analysis of Exiguobacterium aurantiacum SW-20, a Petroleum-Degrading Bacteria with Salt Tolerance and Heavy Metal-Tolerance Isolated from Produced Water of Changqing Oilfield, China. PMID:35056515
Identification of an Amylomaltase from the Halophilic Archaeon Haloquadratum walsbyi by Functional Metagenomics: Structural and Functional Insights. PMID:35054477
A Large-Scale Multiple Genome Comparison of Acidophilic Archaea (pH ≤ 5.0) Extends Our Understanding of Oxidative Stress Responses in Polyextreme Environments. PMID:35052563
Chitinase Chi 2 Positively Regulates Cucumber Resistance against Fusarium oxysporum f. sp. cucumerinum. PMID:35052402
Actinoporin-like Proteins Are Widely Distributed in the Phylum Porifera. PMID:35049929
An Integrative Sialomic Analysis Reveals Molecules From Triatoma sordida (Hemiptera: Reduviidae). PMID:35047420
Proteome-scale mapping of binding sites in the unstructured regions of the human proteome. PMID:35044719
Chromosomal-level genome and multi-omics dataset of Pueraria lobata var. thomsonii provide new insights into legume family and the isoflavone and puerarin biosynthesis pathways. PMID:35043180
Universal gene co-expression network reveals receptor-like protein genes involved in broad-spectrum resistance in pepper (Capsicum annuum L.). PMID:35043174
Association between Arsenic Level, Gene Expression in Asian Population, and In Vitro Carcinogenic Bladder Tumor. PMID:35039759
Enrichment of phosphate-accumulating organisms (PAOs) in a microfluidic model biofilm system by mimicking a typical aerobic granular sludge feast/famine regime. PMID:35032186
Mining for novel cyclomaltodextrin glucanotransferases unravels the carbohydrate metabolism pathway via cyclodextrins in Thermoanaerobacterales. PMID:35031648
Heat shock transcription factor (Hsf) gene family in common bean (Phaseolus vulgaris): genome-wide identification, phylogeny, evolutionary expansion and expression analyses at the sprout stage under abiotic stress. PMID:35031009
Newly identified HMO-2011-type phages reveal genomic diversity and biogeographic distributions of this marine viral group. PMID:35022515
A scaffold-level genome assembly of a minute pirate bug, Orius laevigatus (Hemiptera: Anthocoridae), and a comparative analysis of insecticide resistance-related gene families with hemipteran crop pests. PMID:35012450
Genome-Wide Identification of Stress-Associated Proteins (SAPs) Encoding A20/AN1 Zinc Finger in Almond (Prunus dulcis) and Their Differential Expression during Fruit Development. PMID:35009120
Bidirectional lncRNA Transfer between Cuscuta Parasites and Their Host Plant. PMID:35008986
MYB transcription factor family in sweet cherry (Prunus avium L.): genome-wide investigation, evolution, structure, characterization and expression patterns. PMID:34979911
Insights into phosphatase-activated chemical defense in a marine sponge holobiont. PMID:34977575
Interference With ACSL1 Gene in Bovine Adipocytes: Transcriptome Profiling of mRNA and lncRNA Related to Unsaturated Fatty Acid Synthesis. PMID:34977220
Investigation and Computational Analysis of the Sulfotransferase (SOT) Gene Family in Potato (Solanum tuberosum): Insights into Sulfur Adjustment for Proper Development and Stimuli Responses. PMID:34961068
Functional Characterization of Cotton C-Repeat Binding Factor Genes Reveal Their Potential Role in Cold Stress Tolerance. PMID:34956264
Genome-Wide Analysis of the Soybean Calmodulin-Binding Protein 60 Family and Identification of GmCBP60A-1 Responses to Drought and Salt Stresses. PMID:34948302
Genome Mining of Pseudomonas Species: Diversity and Evolution of Metabolic and Biosynthetic Potential. PMID:34946606
Characterization of a Secretory YML079-like Cupin Protein That Contributes to Sclerotinia sclerotiorum Pathogenicity. PMID:34946121
Identification, Synthesis, Conformation and Activity of an Insulin-like Peptide from a Sea Anemone. PMID:34944429
Recombinant Production and Characterization of a New Toxin from Cryptops iheringi Centipede Venom Revealed by Proteome and Transcriptome Analysis. PMID:34941696
Amyloid-like aggregating proteins cause lysosomal defects in neurons via gain-of-function toxicity. PMID:34933920
BrCNGC gene family in field mustard: genome-wide identification, characterization, comparative synteny, evolution and expression profiling. PMID:34921218
Worldwide distribution and environmental origin of the Adelaide imipenemase (AIM-1), a potent carbapenemase in Pseudomonas aeruginosa. PMID:34919514
Genomic analysis of Elsinoë arachidis reveals its potential pathogenic mechanism and the biosynthesis pathway of elsinochrome toxin. PMID:34914789
Cryptosporidium felis differs from other Cryptosporidium spp. in codon usage. PMID:34907893
A review of computational tools for generating metagenome-assembled genomes from metagenomic sequencing data. PMID:34900140
The genome of the zebra mussel, Dreissena polymorpha: a resource for comparative genomics, invasion genetics, and biocontrol. PMID:34897429
Deep Conservation of Histone Variants in Thermococcales Archaea. PMID:34894218
Structural Predictive Model of Presenilin-2 Protein and Analysis of Structural Effects of Familial Alzheimer's Disease Mutations. PMID:34881055
Circular RNA Expression and Regulation Profiling in Testicular Tissues of Immature and Mature Wandong Cattle (Bos taurus). PMID:34880896
RNA-Binding Protein Expression Alters Upon Differentiation of Human B Cells and T Cells. PMID:34867946
Compound heterozygous c.598_612del and c.1746-20C > G CAPN3 genotype cause autosomal recessive limb-girdle muscular dystrophy-1: a case report. PMID:34863162
Identification of genes related to tipburn resistance in Chinese cabbage and preliminary exploration of its molecular mechanism. PMID:34861825
Structural dynamics in the evolution of a bilobed protein scaffold. PMID:34845009
Nanopore-Based Comparative Transcriptome Analysis Reveals the Potential Mechanism of High-Temperature Tolerance in Cotton (Gossypium hirsutum L.). PMID:34834881
Comprehensive Comparative Analysis of the GATA Transcription Factors in Four Rosaceae Species and Phytohormonal Response in Chinese Pear (Pyrus bretschneideri) Fruit. PMID:34830372
Infection Process and Genome Assembly Provide Insights into the Pathogenic Mechanism of Destructive Mycoparasite Calcarisporium cordycipiticola with Host Specificity. PMID:34829206
Selective Sweeps and Polygenic Adaptation Drive Local Adaptation along Moisture and Temperature Gradients in Natural Populations of Coast Redwood and Giant Sequoia. PMID:34828432
Genome-Wide Analysis of the Glutathione S-Transferase (GST) Genes and Functional Identification of MdGSTU12 Reveals the Involvement in the Regulation of Anthocyanin Accumulation in Apple. PMID:34828339
In Silico and Transcription Analysis of Trehalose-6-phosphate Phosphatase Gene Family of Wheat: Trehalose Synthesis Genes Contribute to Salinity, Drought Stress and Leaf Senescence. PMID:34828258
Integrated Analysis of lncRNA and mRNA Reveals Novel Insights into Wool Bending in Zhongwei Goat. PMID:34828057
De Novo Reconstruction of Transcriptome Identified Long Non-Coding RNA Regulator of Aging-Related Brown Adipose Tissue Whitening in Rabbits. PMID:34827171
First Report of OvoA Gene in Marine Arthropods: A New Candidate Stress Biomarker in Copepods. PMID:34822518
Single-cell RNA sequencing of the Strongylocentrotus purpuratus larva reveals the blueprint of major cell types and nervous system of a non-chordate deuterostome. PMID:34821556
MicroRNA-222 Transferred From Semen Extracellular Vesicles Inhibits Sperm Apoptosis by Targeting BCL2L11. PMID:34820370
Genome-Wide Investigation of the NAC Transcription Factor Family in Miscanthus sinensis and Expression Analysis Under Various Abiotic Stress. PMID:34804100
Comparative analysis of transposable elements provides insights into genome evolution in the genus Camelus. PMID:34800971
Diversity, multifaceted evolution, and facultative saprotrophism in the European Batrachochytrium salamandrivorans epidemic. PMID:34795258
Telomere-to-telomere genome assembly of asparaginase-producing Trichoderma simmonsii. PMID:34789157
Unveiling Ecological and Genetic Novelty within Lytic and Lysogenic Viral Communities of Hot Spring Phototrophic Microbial Mats. PMID:34787442
Characterisation of a putative M23-domain containing protein in Mycobacterium tuberculosis. PMID:34784363
Neuroprotective effects of long noncoding RNAs involved in ischemic postconditioning after ischemic stroke. PMID:34782575
Whole-transcriptome sequencing reveals a vernalization-related ceRNA regulatory network in chinese cabbage (Brassica campestris L. ssp. pekinensis). PMID:34773977
Computationally Reconstructed Interactome of Bradyrhizobium diazoefficiens USDA110 Reveals Novel Functional Modules and Protein Hubs for Symbiotic Nitrogen Fixation. PMID:34769335
Current Approaches in Supersecondary Structures Investigation. PMID:34769310
Antimicrobial Peptides: An Update on Classifications and Databases. PMID:34769122
Transcriptome based identification and validation of heat stress transcription factors in wheat progenitor species Aegilops speltoides. PMID:34764387
Vibrio neptunius Produces Piscibactin and Amphibactin and Both Siderophores Contribute Significantly to Virulence for Clams. PMID:34760718
Verification of TRI3 Acetylation of Trichodermol to Trichodermin in the Plant Endophyte Trichoderma taxi. PMID:34759898
High viral abundance and low diversity are associated with increased CRISPR-Cas prevalence across microbial ecosystems. PMID:34758284
Genome-Wide Analysis of Major Facilitator Superfamily and Its Expression in Response of Poplar to Fusarium oxysporum. PMID:34745233
Genome-wide in silico analysis of long intergenic non-coding RNAs from rice peduncles at the heading stage. PMID:34744373
Viral community analysis in a marine oxygen minimum zone indicates increased potential for viral manipulation of microbial physiological state. PMID:34743175
Genomic Insights Into the Archaea Inhabiting an Australian Radioactive Legacy Site. PMID:34737728
Recurrent mutations promote widespread structural and functional divergence of MULE-derived genes in plants. PMID:34725701
DNA Viral Diversity, Abundance, and Functional Potential Vary across Grassland Soils with a Range of Historical Moisture Regimes. PMID:34724822
Integrating full-length transcriptomics and metabolomics reveals the regulatory mechanisms underlying yellow pigmentation in tree peony (Paeonia suffruticosa Andr.) flowers. PMID:34719694
Identification of defense related gene families and their response against powdery and downy mildew infections in Vitis vinifera. PMID:34717533
Genomic and Transcriptomic Insight of Giant Sclerotium Formation of Wood-Decay Fungi. PMID:34712214
In action-an early warning system for the detection of unexpected or novel pathogens. PMID:34703624
The GH19 Engineering Database: Sequence diversity, substrate scope, and evolution in glycoside hydrolase family 19. PMID:34699529
Transcriptome Analysis Reveals the Complex Molecular Mechanisms of Brassica napus-Sclerotinia sclerotiorum Interactions. PMID:34691098
Arabidopsis MED18 Interaction With RNA Pol IV and V Subunit NRPD2a in Transcriptional Regulation of Plant Immune Responses. PMID:34691090
Characterization of Inducible HSP70 Genes in an Antarctic Yeast, Glaciozyma antarctica PI12, in Response to Thermal Stress. PMID:34683390
Genomic Characterization of Two Novel RCA Phages Reveals New Insights into the Diversity and Evolution of Marine Viruses. PMID:34668749
A histidine kinase and a response regulator provide phage resistance to Marinomonas mediterranea via CRISPR-Cas regulation. PMID:34663886
Pan-Genome of the Genus Streptomyces and Prioritization of Biosynthetic Gene Clusters With Potential to Produce Antibiotic Compounds. PMID:34659136
Class-II dihydroorotate dehydrogenases from three phylogenetically distant fungi support anaerobic pyrimidine biosynthesis. PMID:34656184
Thinopyrum intermedium TiAP1 interacts with a chitin deacetylase from Blumeria graminis f. sp. tritici and increases the resistance to Bgt in wheat. PMID:34651397
The Distinct Properties of the Consecutive Disordered Regions Inside or Outside Protein Domains and Their Functional Significance. PMID:34639018
Genome-Wide Analysis of the TCP Transcription Factor Genes in Dendrobium catenatum Lindl. PMID:34638610
Transcriptomics Reveals the Putative Mycoparasitic Strategy of the Mushroom Entoloma abortivum on Species of the Mushroom Genus Armillaria. PMID:34636668
The Biocontrol and Plant Growth-Promoting Properties of Streptomyces alfalfae XN-04 Revealed by Functional and Genomic Analysis. PMID:34630371
Distribution of bacteriocin genes in the lineages of Lactiplantibacillus plantarum. PMID:34625657
Whole Genome Sequence of Alternaria alternata, the Causal Agent of Black Spot of Kiwifruit. PMID:34616379
Identification of ABC transporter G subfamily in white lupin and functional characterization of L.albABGC29 in phosphorus use. PMID:34615466
An automated and combinative method for the predictive ranking of candidate effector proteins of fungal plant pathogens. PMID:34611252
Complete genome sequence of a putative novel ilarvirus isolated from Eleocharis dulcis. PMID:34608526
Comparative genome-wide analysis of WRKY, MADS-box and MYB transcription factor families in Arabidopsis and rice. PMID:34608238
Transcriptome Analysis Revealed Potential Mechanisms of Resistance to Trichomoniasis gallinae Infection in Pigeon (Columba livia). PMID:34595226
Mining nematode protein secretomes to explain lifestyle and host specificity. PMID:34587193
Analysis of PRX Gene Family and Its Function on Cell Lignification in Pears (Pyrus bretschneideri). PMID:34579408
Improved draft reference genome for the Glassy-winged Sharpshooter (Homalodisca vitripennis), a vector for Pierce's disease. PMID:34568917
Profiling of MicroRNAs in Midguts of Plutella xylostella Provides Novel Insights Into the Bacillus thuringiensis Resistance. PMID:34567090
StAR-Related Lipid Transfer (START) Domains Across the Rice Pangenome Reveal How Ontogeny Recapitulated Selection Pressures During Rice Domestication. PMID:34567086
Insights Into the Molecular Evolution of AT-Hook Motif Nuclear Localization Genes in Brassica napus. PMID:34567028
Marine Transcriptomics Analysis for the Identification of New Antimicrobial Peptides. PMID:34564152
Transcriptome-based analysis reveals that the biosynthesis of anthocyanins is more active than that of flavonols and proanthocyanins in the colorful flowers of Lagerstroemia indica. PMID:34554492
Proteomic Tools for the Analysis of Cytoskeleton Proteins. PMID:34542864
Improvement of the Catalytic Ability of a Thermostable and Acidophilic β-Mannanase Using a Consensus Sequence Design Strategy. PMID:34539615
Genome-wide identification, phylogeny, and expression analysis of the bHLH gene family in tobacco (Nicotiana tabacum). PMID:34539114
D-SCRIPT translates genome to phenome with sequence-based, structure-aware, genome-scale predictions of protein-protein interactions. PMID:34536380
Identification and Expression Analyses of Invertase Genes in Moso Bamboo Reveal Their Potential Drought Stress Functions. PMID:34527019
PathFams: statistical detection of pathogen-associated protein domains. PMID:34521345
GTDB: an ongoing census of bacterial and archaeal diversity through a phylogenetically consistent, rank normalized and complete genome-based taxonomy. PMID:34520557
Prokaryotic viruses impact functional microorganisms in nutrient removal and carbon cycle in wastewater treatment plants. PMID:34518545
Full-length transcriptome analysis of Spodoptera frugiperda larval brain reveals detoxification genes. PMID:34513339
Complete genome sequence and identification of polyunsaturated fatty acid biosynthesis genes of the myxobacterium Minicystis rosea DSM 24000T. PMID:34511070
A highly-contiguous genome assembly of the Eurasian spruce bark beetle, Ips typographus, provides insight into a major forest pest. PMID:34504275
A high-quality chromosome-level genome of wild Rosa rugosa. PMID:34499118
Genome-wide analysis of OSCA gene family members in Vigna radiata and their involvement in the osmotic response. PMID:34493199
Packpred: Predicting the Functional Effect of Missense Mutations. PMID:34490344
Comparative genomic analysis reveals metabolic flexibility of Woesearchaeota. PMID:34489402
Zanthoxylum-specific whole genome duplication and recent activity of transposable elements in the highly repetitive paleotetraploid Z. bungeanum genome. PMID:34480029
A high-quality chromosome-scale assembly of the centipedegrass [Eremochloa ophiuroides (Munro) Hack.] genome provides insights into chromosomal structural evolution and prostrate growth habit. PMID:34465733
ProteinEvolverABC: Coestimation of Recombination and Substitution Rates in Protein Sequences by approximate Bayesian computation. PMID:34450622
Moisture modulates soil reservoirs of active DNA and RNA viruses. PMID:34446837
Pan-transcriptome identifying master genes and regulation network in response to drought and salt stresses in Alfalfa (Medicago sativa L.). PMID:34446782
OTX2 Homeoprotein Functions in Adult Choroid Plexus. PMID:34445655
Metatranscriptomic Analysis of Bacterial Communities on Laundered Textiles: A Pilot Case Study. PMID:34442670
Comparative Transcriptomic Analysis Reveals the Effects of Drought on the Biosynthesis of Methyleugenol in Asarum sieboldii Miq. PMID:34439899
A Computational Approach to Evaluate the Combined Effect of SARS-CoV-2 RBD Mutations and ACE2 Receptor Genetic Variants on Infectivity: The COVID-19 Host-Pathogen Nexus. PMID:34434902
Identification of Oral Bacterial Biosynthetic Gene Clusters Associated with Caries. PMID:34410645
DiTing: A Pipeline to Infer and Compare Biogeochemical Pathways From Metagenomic and Metatranscriptomic Data. PMID:34408730
Comprehensive in silico Characterization of Universal Stress Proteins in Rice (Oryza sativa L.) With Insight Into Their Stress-Specific Transcriptional Modulation. PMID:34394169
A Chromosome-Scale Assembly of the Wheat Leaf Rust Pathogen Puccinia triticina Provides Insights Into Structural Variations and Genetic Relationships With Haplotype Resolution. PMID:34394053
Pseudomonas nanhaiensis sp. nov., a lipase-producing bacterium isolated from deep-sea sediment of the South China Sea. PMID:34392431
Comparative evolution of vegetative branching in sorghum. PMID:34388196
Antimicrobial Resistance Profiling and Phylogenetic Analysis of Neisseria gonorrhoeae Clinical Isolates From Kenya in a Resource-Limited Setting. PMID:34385981
Evolution and origin of sliding clamp in bacteria, archaea and eukarya. PMID:34379636
P2T2: Protein Panoramic annoTation Tool for the interpretation of protein coding genetic variants. PMID:34377961
Insight into membraneless organelles and their associated proteins: Drivers, Clients and Regulators. PMID:34377363
De novo genome assembly of the potent medicinal plant Rehmannia glutinosa using nanopore technology. PMID:34377362
Conversion of dietary inositol into propionate and acetate by commensal Anaerostipes associates with host health. PMID:34376656
Transcriptome and Small RNA Combined Sequencing Analysis of Cold Tolerance in Non-heading Chinese Cabbage. PMID:34367230
Transcriptome analysis of differentially expressed genes in chrysanthemum MET1 RNA interference lines. PMID:34366589
Integrated Analysis of Long Non-Coding RNA and mRNA Expression Profiles in Testes of Calves and Sexually Mature Wandong Bulls (Bos taurus). PMID:34359134
Male Differentiation in the Marine Copepod Oithona nana Reveals the Development of a New Nervous Ganglion and Lin12-Notch-Repeat Protein-Associated Proteolysis. PMID:34356512
Haplotype-resolved genome assembly and allele-specific gene expression in cultivated ginger. PMID:34354050
An Ecological Basis for Dual Genetic Code Expansion in Marine Deltaproteobacteria. PMID:34335502
Taxallnomy: an extension of NCBI Taxonomy that produces a hierarchically complete taxonomic tree. PMID:34325658
An astonishing wealth of new proteasome homologs. PMID:34323935
Targeted immune epitope prediction to HHLA2 and MAGEB5 protein variants as therapeutic approach to related viral diseases. PMID:34320928
Genome-wide identification of candidate aquaporins involved in water accumulation of pomegranate outer seed coat. PMID:34316414
Comparative genome and transcriptome analyses reveal innate differences in response to host plants by two color forms of the two-spotted spider mite Tetranychus urticae. PMID:34301178
Genome-Wide Identification of GRAS Gene Family and Their Responses to Abiotic Stress in Medicago sativa. PMID:34299352
Genomics and transcriptomics yields a system-level view of the biology of the pathogen Naegleria fowleri. PMID:34294116
The complete mitochondrial genome of Cycas debaoensis revealed unexpected static evolution in gymnosperm species. PMID:34293066
Single-Molecule Real-Time and Illumina-Based RNA Sequencing Data Identified Vernalization-Responsive Candidate Genes in Faba Bean (Vicia faba L.). PMID:34290734
Genetic association studies of alterations in protein function expose recessive effects on cancer predisposition. PMID:34290314
Evolution of Toll, Spatzle and MyD88 in insects: the problem of the Diptera bias. PMID:34289811
Co-evolutionary landscape at the interface and non-interface regions of protein-protein interaction complexes. PMID:34285778
Transcriptome and proteome of the corm, leaf and flower of Hypoxis hemerocallidea (African potato). PMID:34283859
Leri: A web-server for identifying protein functional networks from evolutionary couplings. PMID:34257835
The Welwitschia genome reveals a unique biology underpinning extreme longevity in deserts. PMID:34253727
High-quality genome assembly of Huazhan and Tianfeng, the parents of an elite rice hybrid Tian-you-hua-zhan. PMID:34251582
A Chromosome-Level Genome Assembly of the Mandarin Fish (Siniperca chuatsi). PMID:34249093
Genome-wide characterization of MATE gene family and expression profiles in response to abiotic stresses in rice (Oryza sativa). PMID:34243710
Transcriptome Profile Analysis of Strawberry Leaves Reveals Flowering Regulation under Blue Light Treatment. PMID:34235213
Genomic diversity, life strategies and ecology of marine HTVC010P-type pelagiphages. PMID:34227930
Cloning, expression analysis and In silico characterization of HSP101: a potential player conferring heat stress in Aegilops speltoides (Tausch) Gren. PMID:34220041
Microbiome diversity and host immune functions influence survivorship of sponge holobionts under future ocean conditions. PMID:34218251
Integrated Insight into the Molecular Mechanisms of Spontaneous Abortion during Early Pregnancy in Pigs. PMID:34205766
Nanopore-based full-length transcriptome sequencing of Muscovy duck (Cairina moschata) ovary. PMID:34198095
Multiple responses contribute to the enhanced drought tolerance of the autotetraploid Ziziphus jujuba Mill. var. spinosa. PMID:34193297
Development and Interrogation of a Transcriptomic Resource for the Giant Triton Snail (Charonia tritonis). PMID:34191212
LncRNA VEAL2 regulates PRKCB2 to modulate endothelial permeability in diabetic retinopathy. PMID:34180064
Characterization of a Hyaluronic Acid Utilization Locus and Identification of Two Hyaluronate Lyases in a Marine Bacterium Vibrio alginolyticus LWW-9. PMID:34177877
Identification, evolution, expression analysis of phospholipase D (PLD) gene family in tea (Camellia sinensis). PMID:34177145
Genome-wide characterization of LTR retrotransposons in the non-model deep-sea annelid Lamellibrachia luymesi. PMID:34157969
Duplication and Functional Divergence of Branched-Chain Amino Acid Biosynthesis Genes in Aspergillus nidulans. PMID:34154419
The extracellular contractile injection system is enriched in environmental microbes and associates with numerous toxins. PMID:34145238
A chromosome-level genome assembly of rugged rose (Rosa rugosa) provides insights into its evolution, ecology, and floral characteristics. PMID:34145222
COSMIC Cancer Gene Census 3D database: understanding the impacts of mutations on cancer targets. PMID:34137435
Differential responses of anthers of stress tolerant and sensitive wheat cultivars to high temperature stress. PMID:34131818
Novel clades of soil biphenyl degraders revealed by integrating isotope probing, multi-omics, and single-cell analyses. PMID:34117322
Genomic adaptations enabling Acidithiobacillus distribution across wide-ranging hot spring temperatures and pHs. PMID:34116726
Differences in Precipitation Regime Shape Microbial Community Composition and Functional Potential in Namib Desert Soils. PMID:34105010
Translation role of circRNAs in cancers. PMID:34097315
Genome-Wide Analysis of DA1-Like Genes in Gossypium and Functional Characterization of GhDA1-1A Controlling Seed Size. PMID:34093610
Genome-Wide Study of NOT2_3_5 Protein Subfamily in Cotton and Their Necessity in Resistance to Verticillium wilt. PMID:34073210
TILLING-by-Sequencing+ Reveals the Role of Novel Fatty Acid Desaturases (GmFAD2-2s) in Increasing Soybean Seed Oleic Acid Content. PMID:34069320
Avian Influenza H7N9 Virus Adaptation to Human Hosts. PMID:34068495
Homology and Modular Evolution of CATCHR at the Origin of the Eukaryotic Endomembrane System. PMID:34061181
Nutrient Loading and Viral Memory Drive Accumulation of Restriction Modification Systems in Bloom-Forming Cyanobacteria. PMID:34060332
Systematic screening of long intergenic noncoding RNAs expressed during chicken embryogenesis. PMID:34058566
Maize Endochitinase Expression in Response to Fall Armyworm Herbivory. PMID:34056671
Pretraining model for biological sequence data. PMID:34050350
Comparative proteomic analysis to annotate the structural and functional association of the hypothetical proteins of S. maltophilia k279a and predict potential T and B cell targets for vaccination. PMID:34043709
Draft Genome Sequences of Five Fungal Strains Isolated from Kefir. PMID:34042484
Structure-based protein function prediction using graph convolutional networks. PMID:34039967
Gene Ontology Meta Annotator for Plants (GOMAP). PMID:34034755
De novo transcriptome sequencing and anthocyanin metabolite analysis reveals leaf color of Acer pseudosieboldianum in autumn. PMID:34034673
MyCLADE: a multi-source domain annotation server for sequence functional exploration. PMID:34023906
Microbial sulfate reduction by Desulfovibrio is an important source of hydrogen sulfide from a large swine finishing facility. PMID:34021225
Profile hidden Markov model sequence analysis can help remove putative pseudogenes from DNA barcoding and metabarcoding datasets. PMID:34011275
Characterization of a new bifunctional endo-1,4-β-xylanase/esterase found in the rumen metagenome. PMID:34001974
On the evolution of chaperones and cochaperones and the expansion of proteomes across the Tree of Life. PMID:34001607
Abundance Imparts Evolutionary Constraints of Similar Magnitude on the Buried, Surface, and Disordered Regions of Proteins. PMID:33996892
Genome-wide identification and characterization of NAC genes in Brassica juncea var. tumida. PMID:33996278
Genome-wide analysis of the serine carboxypeptidase-like protein family in Triticum aestivum reveals TaSCPL184-6D is involved in abiotic stress response. PMID:33992092
Adhesive Functions or Pseudogenization of Type Va Autotransporters in Brucella Species. PMID:33987105
Viruses infecting a warm water picoeukaryote shed light on spatial co-occurrence dynamics of marine viruses and their hosts. PMID:33972727
Single-cell transcriptome profiling of buffelgrass (Cenchrus ciliaris) eggs unveils apomictic parthenogenesis signatures. PMID:33972603
Identification and characterization of proteins of unknown function (PUFs) in Clostridium thermocellum DSM 1313 strains as potential genetic engineering targets. PMID:33971924
The order of PDZ3 and TrpCage in fusion chimeras determines their properties-a biophysical characterization. PMID:33969912
Elucidating the Regulatory Elements for Transcription Termination and Posttranscriptional Processing in the Streptomyces clavuligerus Genome. PMID:33947798
Integrating taxonomic, functional, and strain-level profiling of diverse microbial communities with bioBakery 3. PMID:33944776
Genomic analysis of novel Yarrowia-like yeast symbionts associated with the carrion-feeding burying beetle Nicrophorus vespilloides. PMID:33941076
Genome-wide characterization and expression and co-expression analysis suggested diverse functions of WOX genes in bread wheat. PMID:33937537
Comprehensive analysis of coding and non-coding RNA transcriptomes related to hypoxic adaptation in Tibetan chickens. PMID:33934713
How Quality Control Systems AID Sec-Dependent Protein Translocation. PMID:33928127
Genome-wide identification of superoxide dismutase gene families and their expression patterns under low-temperature, salt and osmotic stresses in watermelon and melon. PMID:33927985
Transcription-dependent domain-scale three-dimensional genome organization in the dinoflagellate Breviolum minutum. PMID:33927397
Stepwise pathogenic evolution of Mycobacterium abscessus. PMID:33926925
Structural, Evolutionary, and Functional Analysis of the Protein O-Mannosyltransferase Family in Pathogenic Fungi. PMID:33922798
Deep Learning in Virtual Screening: Recent Applications and Developments. PMID:33922714
A First Insight into the Gonad Transcriptome of Hong Kong Catfish (Clarias fuscus). PMID:33920938
Novel Siphoviridae Bacteriophages Infecting Bacteroides uniformis Contain Diversity Generating Retroelement. PMID:33919474
Chromosome-scale assembly and analysis of biomass crop Miscanthus lutarioriparius genome. PMID:33911077
Molecular mechanism of lateral bud differentiation of Pinus massoniana based on high-throughput sequencing. PMID:33907200
Forecasting the dissemination of antibiotic resistance genes across bacterial genomes. PMID:33893312
Biological structure and function emerge from scaling unsupervised learning to 250 million protein sequences. PMID:33876751
Large-Scale Phylogenomic Analyses Reveal the Monophyly of Bryophytes and Neoproterozoic Origin of Land Plants. PMID:33871608
A pan-cancer transcriptome analysis of exitron splicing identifies novel cancer driver genes and neoepitopes. PMID:33861991
Structure-based phylogeny identifies avoralstat as a TMPRSS2 inhibitor that prevents SARS-CoV-2 infection in mice. PMID:33844653
LncRNA lnc_13814 promotes the cells apoptosis in granulosa cells of duck by acting as apla-miR-145-4 sponge. PMID:33843432
Gene and Transposable Element Expression Evolution Following Recent and Past Polyploidy Events in Spartina (Poaceae). PMID:33841492
Identification and evolution analysis of the JAZ gene family in maize. PMID:33838665
Evolutionary research on the expansin protein family during the plant transition to land provides new insights into the development of Tartary buckwheat fruit. PMID:33836656
Aspirin Modulation of the Colorectal Cancer-Associated Microbe Fusobacterium nucleatum. PMID:33824205
In silico identification of Capsicum type III polyketide synthase genes and expression patterns in Capsicum annuum. PMID:33817263
Characterization of Haemophilus Parasuis Serovar 2 CL120103, a Moderately Virulent Strain in China. PMID:33817086
Method for Essential Protein Prediction Based on a Novel Weighted Protein-Domain Interaction Network. PMID:33815480
Single individual structural variant detection uncovers widespread hemizygosity in molluscs. PMID:33813894
Genome-wide Identification and Characterization of FCS-Like Zinc Finger (FLZ) Family Genes in Maize (Zea mays) and Functional Analysis of ZmFLZ25 in Plant Abscisic Acid Response. PMID:33805388
The Mitochondrial Genome of a Plant Fungal Pathogen Pseudocercospora fijiensis (Mycosphaerellaceae), Comparative Analysis and Diversification Times of the Sigatoka Disease Complex Using Fossil Calibrated Phylogenies. PMID:33803147
Full-Length Transcriptome Sequencing Provides Insights into Flavonoid Biosynthesis in Fritillaria hupehensis. PMID:33800612
Genome Wide Analysis of U-Box E3 Ubiquitin Ligases in Wheat (Triticum aestivum L.). PMID:33800063
Bacterial cyclic diguanylate signaling networks sense temperature. PMID:33790266
Immunity proteins of dual nuclease T6SS effectors function as transcriptional repressors. PMID:33786997
Expansion and persistence of antibiotic-specific resistance genes following antibiotic treatment. PMID:33779498
Two-step functional screen on multiple proteinaceous substrates reveals temperature-robust proteases with a broad-substrate range. PMID:33770243
Comparative population genomic analyses of transporters within the Asgard archaeal superphylum. PMID:33770091
Full length sequencing reveals novel transcripts of detoxification genes along with related alternative splicing events and lncRNAs in Phyllotreta striolata. PMID:33760871
Molecular Evolution and Local Root Heterogeneous Expression of the Chenopodium quinoa ARF Genes Provide Insights into the Adaptive Domestication of Crops in Complex Environments. PMID:33755734
Integrating structure-based machine learning and co-evolution to investigate specificity in plant sesquiterpene synthases. PMID:33750949
Dissemination of novel Tn7 family transposons carrying genes for synthesis and uptake of fimsbactin siderophores among Acinetobacter baumannii isolates. PMID:33749577
Insights into the genome and secretome of Fusarium metavorans DSM105788 by cultivation on agro-residual biomass and synthetic nutrient sources. PMID:33743779
Understanding and exploiting the fatty acid desaturation system in Rhodotorula toruloides. PMID:33741038
High-Fiber, Whole-Food Dietary Intervention Alters the Human Gut Microbiome but Not Fecal Short-Chain Fatty Acids. PMID:33727392
Genome-wide transcriptome profiling uncovers differential miRNAs and lncRNAs in ovaries of Hu sheep at different developmental stages. PMID:33712687
Genome-wide identification, characterization, and expression analysis of the NAC transcription factor family in orchardgrass (Dactylis glomerata L.). PMID:33711917
Adaptive Gene Content and Allele Distribution Variations in the Wild and Domesticated Populations of Saccharomyces cerevisiae. PMID:33679656
Defining a novel domain that provides an essential contribution to site-specific interaction of Rep protein with DNA. PMID:33660784
A novel family of secreted insect proteins linked to plant gall development. PMID:33657407
The soybean (Glycine max L.) cytokinin oxidase/dehydrogenase multigene family; Identification of natural variations for altered cytokinin content and seed yield. PMID:33644633
A gene expression atlas for kiwifruit (Actinidia chinensis) and network analysis of transcription factors. PMID:33639842
Transcriptome analysis of the role of autophagy in plant response to heat stress. PMID:33635879
Generating functional protein variants with variational autoencoders. PMID:33635868
Genome-wide characterization of PEBP family genes in nine Rosaceae tree species and their expression analysis in P. mume. PMID:33622244
Characteristic and evolution of HAT and HDAC genes in Gramineae genomes and their expression analysis under diverse stress in Oryza sativa. PMID:33606144
Draft Genome Sequences of Pelagimyophage Mosig EXVC030M and Pelagipodophage Lederberg EXVC029P, Isolated from Devil's Hole, Bermuda. PMID:33602731
DeepRTCP: Predicting ATP-Binding Cassette Transporters Based on 1-Dimensional Convolutional Network. PMID:33598454
Limited effects of long-term daily cranberry consumption on the gut microbiome in a placebo-controlled study of women with recurrent urinary tract infections. PMID:33596852
High Quality Aspergillus aculeatus Genomes and Transcriptomes: A Platform for Cellulase Activity Optimization Toward Industrial Applications. PMID:33585410
Domain Unknown Function DUF1668-Containing Genes in Multiple Lineages Are Responsible for F1 Pollen Sterility in Rice. PMID:33574828
A High-Quality Reference Genome for a Parasitic Bivalve with Doubly Uniparental Inheritance (Bivalvia: Unionida). PMID:33570560
Genome-wide identification and characterization of long non-coding RNAs involved in flag leaf senescence of rice. PMID:33569692
Evolution, expression and functional analysis of cultivated allotetraploid cotton DIR genes. PMID:33568051
A Novel Trichomonas vaginalis Surface Protein Modulates Parasite Attachment via Protein:Host Cell Proteoglycan Interaction. PMID:33563826
Combined Metabolome and Transcriptome Profiling Reveal Optimal Harvest Strategy Model Based on Different Production Purposes in Olive. PMID:33562421
De novo genome assembly of the tobacco hornworm moth (Manduca sexta). PMID:33561252
Activity of bacteria isolated from bats against Pseudogymnoascus destructans in China. PMID:33559264
Identification of differentially expressed genes involved in amino acid and lipid accumulation of winter turnip rape (Brassica rapa L.) in response to cold stress. PMID:33556109
prPred: A Predictor to Identify Plant Resistance Proteins by Incorporating k-Spaced Amino Acid (Group) Pairs. PMID:33553134
Genome-wide identification, evolution, expression, and alternative splicing profiles of peroxiredoxin genes in cotton. PMID:33552724
Intrinsic disorder in protein domains contributes to both organism complexity and clade-specific functions. PMID:33542394
Four families of folate-independent methionine synthases. PMID:33534785
From genomes to molecular dynamics - A bottom up approach in extrication of SARS CoV-2 main protease inhibitors. PMID:33532671
Long-Term Waterlogging as Factor Contributing to Hypoxia Stress Tolerance Enhancement in Cucumber: Comparative Transcriptome Analysis of Waterlogging Sensitive and Tolerant Accessions. PMID:33525400
A Transcriptomic Approach to the Recruitment of Venom Proteins in a Marine Annelid. PMID:33525375
Insights into triterpene synthesis and unsaturated fatty-acid accumulation provided by chromosomal-level genome analysis of Akebia trifoliata subsp. australis. PMID:33518712
Impacts of fludioxonil resistance on global gene expression in the necrotrophic fungal plant pathogen Sclerotinia sclerotiorum. PMID:33516198
The rise and fall of the ancient northern pike master sex-determining gene. PMID:33506762
Bridging Themes: Short Protein Segments Found in Different Architectures. PMID:33502503
Genomic analysis of WD40 protein family in the mango reveals a TTG1 protein enhances root growth and abiotic tolerance in Arabidopsis. PMID:33500544
Comparative transcriptomics and host-specific parasite gene expression profiles inform on drivers of proliferative kidney disease. PMID:33495500
Design and evaluation of synthetic bacterial consortia for optimized phenanthrene degradation through the integration of genomics and shotgun proteomics. PMID:33489789
BSR-Seq analysis provides insights into the cold stress response of Actinidia arguta F1 populations. PMID:33482717
Metagenomic analysis of the cow, sheep, reindeer and red deer rumen. PMID:33479378
Integrative multiomics analysis of Premolis semirufa caterpillar venom in the search for molecules leading to a joint disease. PMID:33479267
Comprehensive analysis of NAC transcription factor family uncovers drought and salinity stress response in pearl millet (Pennisetum glaucum). PMID:33478383
A genomic view of the microbiome of coral reef demosponges. PMID:33469166
Discovery of a hidden transient state in all bromodomain families. PMID:33468647
Phytoplankton consortia as a blueprint for mutually beneficial eukaryote-bacteria ecosystems based on the biocoenosis of Botryococcus consortia. PMID:33462312
Investigation of circular RNAs in an ectoparasitic mite Varroa destructor (Acarina: Varroidae) of the honey bee. PMID:33452589
Newly discovered Asgard archaea Hermodarchaeota potentially degrade alkanes and aromatics via alkyl/benzyl-succinate synthase and benzoyl-CoA pathway. PMID:33452484
The pineapple MADS-box gene family and the evolution of early monocot flower. PMID:33441609
Genomic signatures of the evolution of defence against its natural enemies in the poisonous and medicinal plant Datura stramonium (Solanaceae). PMID:33441607
Distribution of Mixotrophy and Desiccation Survival Mechanisms across Microbial Genomes in an Arid Biological Soil Crust Community. PMID:33436509
Transcriptomic analysis of early stages of intestinal regeneration in Holothuria glaberrima. PMID:33431961
Genome-wide identification of the histone acetyltransferase gene family in Triticum aestivum. PMID:33430760
Analysis of Apoptosis-Related Genes Reveals that Apoptosis Functions in Conidiation and Pathogenesis of Fusarium pseudograminearum. PMID:33408234
Transcriptional response of Asarum heterotropoides Fr. Schmidt var. mandshuricum (Maxim.) Kitag. leaves grown under full and partial daylight conditions. PMID:33407099
Sequencing, de novo assembly and annotation of Digitalis ferruginea subsp. schischkinii transcriptome. PMID:33403559
Dinoflagellates alter their carbon and nutrient metabolic strategies across environmental gradients in the central Pacific Ocean. PMID:33398100
The Complete Genome of Probiotic Lactobacillus sakei Derived from Plateau Yak Feces. PMID:33371298
RELT stains prominently in B-cell lymphomas and binds the hematopoietic transcription factor MDFIC. PMID:33367115
Functional metagenomics of the thioredoxin superfamily. PMID:33361108
Physiological and transcriptomic analyses of yellow horn (Xanthoceras sorbifolia) provide important insights into salt and saline-alkali stress tolerance. PMID:33351842
Functional and computational identification of a rescue mutation near the active site of an mRNA methyltransferase. PMID:33318548
Deciphering the functional role of hypothetical proteins from Chloroflexus aurantiacs J-10-f1 using bioinformatics approach. PMID:33313333
Identification of chalcone synthase genes and their expression patterns reveal pollen abortion in cotton. PMID:33304181
Chromosome-level draft genome of a diploid plum (Prunus salicina). PMID:33300949
Microbe-set enrichment analysis facilitates functional interpretation of microbiome profiling data. PMID:33293650
Multiple Sequence Alignment Computation Using the T-Coffee Regressive Algorithm Implementation. PMID:33289888
Genome-wide characterization, expression analyses, and functional prediction of the NPF family in Brassica napus. PMID:33287703
Comparative Genomics Analysis Provides New Strategies for Bacteriostatic Ability of Bacillus velezensis HAB-2. PMID:33281792
Long noncoding RNAs implicated in embryonic development in Ybx1 knockout zebrafish. PMID:33278865
NemChR-DB: a database of parasitic nematode chemosensory G-protein coupled receptors. PMID:33275943
CCDC66 frameshift variant associated with a new form of early-onset progressive retinal atrophy in Portuguese Water Dogs. PMID:33273526
Genome-wide characterization of WRKY gene family in Helianthus annuus L. and their expression profiles under biotic and abiotic stresses. PMID:33270651
Identification and functional characterization of ABCC transporters for Cd tolerance and accumulation in Sedum alfredii Hance. PMID:33262396
Genome-wide identification and characterization of long non-coding RNAs related to grain yield in foxtail millet [Setaria italica (L.) P. Beauv.]. PMID:33261549
The Two TpsB-Like Proteins in Anabaena sp. Strain PCC 7120 Are Involved in Secretion of Selected Substrates. PMID:33257527
Remote homology search with hidden Potts models. PMID:33253143
The Draft Genome of Red Lechwe, Kobus leche leche. PMID:33250921
Expression profiling of MADS-box gene family revealed its role in vegetative development and stem ripening in S. spontaneum. PMID:33239664
Genome-Wide Characterization of OFP Family Genes in Wheat (Triticum aestivum L.) Reveals That TaOPF29a-A Promotes Drought Tolerance. PMID:33224986
Prophages are associated with extensive CRISPR-Cas auto-immunity. PMID:33219687
The emergence and evolution of intron-poor and intronless genes in intron-rich plant gene families. PMID:33217085
Anaerobic bacterial degradation of protein and lipid macromolecules in subarctic marine sediment. PMID:33208892
Disease-associated gut microbiome and metabolome changes in patients with chronic obstructive pulmonary disease. PMID:33208745
Analysis and Screening of Reproductive Long Non-coding RNAs Through Genome-Wide Analyses of Goat Endometrium During the Pre-attachment Phase. PMID:33193661
Transcriptome analysis reveals mechanism of early ripening in Kyoho grape with hydrogen peroxide treatment. PMID:33176674
Identification, evolution, expression, and docking studies of fatty acid desaturase genes in wheat (Triticum aestivum L.). PMID:33167859
Genome-wide analysis of PHD finger gene family and identification of potential miRNA and their PHD finger gene specific targets in Oryza sativa indica. PMID:33163736
Coevolution, Dynamics and Allostery Conspire in Shaping Cooperative Binding and Signal Transmission of the SARS-CoV-2 Spike Protein with Human Angiotensin-Converting Enzyme 2. PMID:33158276
The Transcriptome of Cunninghamia lanceolata male/female cone reveal the association between MIKC MADS-box genes and reproductive organs development. PMID:33153428
Genome-wide analysis of acute traumatic spinal cord injury-related RNA expression profiles and uncovering of a regulatory axis in spinal fibrotic scars. PMID:33150698
In-depth transcriptome reveals the potential biotechnological application of Bothrops jararaca venom gland. PMID:33149734
(p)ppGpp-Dependent Regulation of the Nucleotide Hydrolase PpnN Confers Complement Resistance in Salmonella enterica Serovar Typhimurium. PMID:33139383
Opposing functions of Fng1 and the Rpd3 HDAC complex in H4 acetylation in Fusarium graminearum. PMID:33137093
Model-based and phylogenetically adjusted quantification of metabolic interaction between microbial species. PMID:33125363
Identification and Characterization of New Bacteriophages to Control Multidrug-Resistant Pseudomonas aeruginosa Biofilm on Endotracheal Tubes. PMID:33123112
Structure-Function Characterization of the Conserved Regulatory Mechanism of the Escherichia coli M48 Metalloprotease BepA. PMID:33106348
Pacific Biosciences assembly with Hi-C mapping generates an improved, chromosome-level goose genome. PMID:33099628
Sensing of autoinducer-2 by functionally distinct receptors in prokaryotes. PMID:33097715
Assessing the Genomic Variability of Gardnerella vaginalis through Comparative Genomic Analyses: Evolutionary and Ecological Implications. PMID:33097505
Genome-scale analyses and characteristics of putative pathogenicity genes of Stagonosporopsis cucurbitacearum, a pumpkin gummy stem blight fungus. PMID:33093634
In Silico Analyses of Autophagy-Related Genes in Rapeseed (Brassica napus L.) under Different Abiotic Stresses and in Various Tissues. PMID:33092180
Implementation of homology based and non-homology based computational methods for the identification and annotation of orphan enzymes: using Mycobacterium tuberculosis H37Rv as a case study. PMID:33076816
A high-quality Brassica napus genome reveals expansion of transposable elements, subgenome evolution and disease resistance. PMID:33073445
Chlorella vulgaris and Its Phycosphere in Wastewater: Microalgae-Bacteria Interactions During Nutrient Removal. PMID:33072721
Role of BgaA as a Pneumococcal Virulence Factor Elucidated by Molecular Evolutionary Analysis. PMID:33072054
Aspergillus sydowii: Genome Analysis and Characterization of Two Heterologous Expressed, Non-redundant Xylanases. PMID:33071998
PacBio Long-Read Sequencing Transcriptome Dataset of Adult Harmonia axyridis Under Diapause Inducing and Reproductive Inducing Photoperiod. PMID:33061940
Ancestral Reconstructions Decipher Major Adaptations of Ammonia-Oxidizing Archaea upon Radiation into Moderate Terrestrial and Marine Environments. PMID:33051370
Analysis of lncRNA Expression Profile during the Formation of Male Germ Cells in Chickens. PMID:33050652
Agasicles hygrophila attack increases nerolidol synthase gene expression in Alternanthera philoxeroides, facilitating host finding. PMID:33046727
Growth Performance and Transcriptomic Response of Warm-Acclimated Hybrid Abalone Haliotis rufescens (♀) × H. corrugata (♂). PMID:33040235
Identification of a hippocampal lncRNA-regulating network in cognitive dysfunction caused by chronic cerebral hypoperfusion. PMID:33040050
Terpenes and Terpenoids in Plants: Interactions with Environment and Insects. PMID:33036280
Identification and Characterization of lncRNAs Related to the Muscle Growth and Development of Japanese Flounder (Paralichthys olivaceus). PMID:33033494
In silico identification and validation of miRNA and their DIR specific targets in Oryza sativa Indica under abiotic stress. PMID:33024905
A high-quality chromosome-level genome assembly reveals genetics for important traits in eggplant. PMID:33024567
Molecular characterization and functional annotation of a hypothetical protein (SCO0618) of Streptomyces coelicolor A3(2). PMID:33017872
Development of a relevant strategy using de novo transcriptome assembly method for transcriptome comparisons between Muscovy and common duck species and their reciprocal inter-specific mule and hinny hybrids fed ad libitum and overfed. PMID:33008290
F-Box Genes in the Wheat Genome and Expression Profiling in Wheat at Different Developmental Stages. PMID:33007852
Molecular Simulations and Network Modeling Reveal an Allosteric Signaling in the SARS-CoV-2 Spike Proteins. PMID:33006900
Full-length transcriptome sequencing analysis and development of EST-SSR markers for the endangered species Populus wulianensis. PMID:33004908
DeeplyEssential: a deep neural network for predicting essential genes in microbes. PMID:32998698
Genome-wide detection and sequence conservation analysis of long non-coding RNA during hair follicle cycle of yak. PMID:32998696
A Fluorescence Polarization-Based High-Throughput Screen to Identify the First Small-Molecule Modulators of the Human Adenylyltransferase HYPE/FICD. PMID:32992526
The evolution of TNF signaling in platyhelminths suggests the cooptation of TNF receptor in the host-parasite interplay. PMID:32977830
Metagenomic Insights into the Sewage RNA Virosphere of a Large City. PMID:32967111
Expanded genome-wide comparisons give novel insights into population structure and genetic heterogeneity of Leishmania tropica complex. PMID:32946436
Whole transcriptome approach to evaluate the effect of aluminium hydroxide in ovine encephalon. PMID:32943671
Potential Pathogenicity Determinants Identified from Structural Proteomics of SARS-CoV and SARS-CoV-2. PMID:32941612
Long-read sequencing and de novo genome assembly of marine medaka (Oryzias melastigma). PMID:32938378
Bioinformatic Characterization of Sulfotransferase Provides New Insights for the Exploitation of Sulfated Polysaccharides in Caulerpa. PMID:32932673
A large accessory protein interactome is rewired across environments. PMID:32924934
Chlamydial contribution to anaerobic metabolism during eukaryotic evolution. PMID:32923644
Distribution, evolution and expression of GATA-TFs provide new insights into their functions in light response and fruiting body development of Tolypocladium guangdongense. PMID:32923181
A case study of salivary microbiome in smokers and non-smokers in Hungary: analysis by shotgun metagenome sequencing. PMID:32922678
A flavin-dependent monooxygenase catalyzes the initial step in cyanogenic glycoside synthesis in ferns. PMID:32917937
Draft Genome Assembly of the Freshwater Apex Predator Wels Catfish (Silurus glanis) Using Linked-Read Sequencing. PMID:32917720
In silico functional prediction of hypothetical proteins from the core genome of Corynebacterium pseudotuberculosis biovar ovis. PMID:32913672
Increased resolution of African swine fever virus genome patterns based on profile HMMs of protein domains. PMID:32913663
Response of Downy Oak (Quercus pubescens Willd.) to Climate Change: Transcriptome Assembly, Differential Gene Analysis and Targeted Metabolomics. PMID:32899727
RNA-Seq Reveals the Expression Profiles of Long Non-Coding RNAs in Lactating Mammary Gland from Two Sheep Breeds with Divergent Milk Phenotype. PMID:32899158
Analysis of insect nuclear small heat shock proteins and interacting proteins. PMID:32888179
RRE-Finder: a Genome-Mining Tool for Class-Independent RiPP Discovery. PMID:32873609
Genome-wide identification and analysis of GRAS transcription factors in the bottle gourd genome. PMID:32868844
Transcriptomic and anatomic profiling reveal the germination process of different wheat varieties in response to waterlogging stress. PMID:32859149
The Phylogeny of Class B Flavoprotein Monooxygenases and the Origin of the YUCCA Protein Family. PMID:32854417
Determining the interaction status and evolutionary fate of duplicated homomeric proteins. PMID:32853212
Chromosome-level genome assembly of the female western mosquitofish (Gambusia affinis). PMID:32852039
Closed mitosis requires local disassembly of the nuclear envelope. PMID:32848252
In-Depth In Silico Search for Cuttlefish (Sepia officinalis) Antimicrobial Peptides Following Bacterial Challenge of Haemocytes. PMID:32847054
Acetylation of Surface Carbohydrates in Bacterial Pathogens Requires Coordinated Action of a Two-Domain Membrane-Bound Acyltransferase. PMID:32843546
In silico Functional Annotation and Characterization of Hypothetical Proteins from Serratia marcescens FGI94. PMID:32834707
Slr4, a newly identified S-layer protein from marine Gammaproteobacteria, is a major biofilm matrix component. PMID:32804439
TGF-β1-Mediated FDNCR1 Regulates Porcine Preadipocyte Differentiation via the TGF-β Signaling Pathway. PMID:32796679
Genomic Characteristics and Potential Metabolic Adaptations of Hadal Trench Roseobacter and Alteromonas Bacteria Based on Single-Cell Genomics Analyses. PMID:32793171
Identification of transcription factors controlling floral morphology in wild Petunia species with contrasting pollination syndromes. PMID:32780443
Terabase Metagenome Sequencing of Grassland Soil Microbiomes. PMID:32763940
Evaluating the effect of TLR4-overexpressing on the transcriptome profile in ovine peripheral blood mononuclear cells. PMID:32760682
Genome-Wide Analysis Reveals Changes in Long Noncoding RNAs in the Differentiation of Canine BMSCs into Insulin-Producing Cells. PMID:32756402
Whole-genome de novo assemblies reveal extensive structural variations and dynamic organelle-to-nucleus DNA transfers in African and Asian rice. PMID:32748498
Rational design and implementation of a chemically inducible heterotrimerization system. PMID:32747768
De novo assembly and Transcriptome characterization of an endemic species of Vietnam, Panax vietnamensis Ha et Grushv., including the development of EST-SSR markers for population genetics. PMID:32727354
Identification and Bioinformatic Analysis of the GmDOG1-Like Family in Soybean and Investigation of Their Expression in Response to Gibberellic Acid and Abscisic Acid. PMID:32722147
Exploration of Long Non-coding RNAs and Circular RNAs in Porcine Milk Exosomes. PMID:32714373
Diazotroph Genomes and Their Seasonal Dynamics in a Stratified Humic Bog Lake. PMID:32714313
PertInInt: An Integrative, Analytical Approach to Rapidly Uncover Cancer Driver Genes with Perturbed Interactions and Functionalities. PMID:32711844
Metagenomic approaches in microbial ecology: an update on whole-genome and marker gene sequencing analyses. PMID:32706331
Identification and distribution of gene clusters required for synthesis of sphingolipid metabolism inhibitors in diverse species of the filamentous fungus Fusarium. PMID:32703172
An Easy Protocol for Evolutionary Analysis of Intrinsically Disordered Proteins. PMID:32696356
Analyzing the Sequences of Intrinsically Disordered Regions with CIDER and localCIDER. PMID:32696354
Diversity and evolution of cytochrome P450s of Jacobaea vulgaris and Jacobaea aquatica. PMID:32689941
Characterization of Novel Broad-Host-Range Bacteriophage DLP3 Specific to Stenotrophomonas maltophilia as a Potential Therapeutic Agent. PMID:32670234
RNA-sequencing based gene expression landscape of guava cv. Allahabad Safeda and comparative analysis to colored cultivars. PMID:32669108
Systematic Characterization of Recurrent Genomic Alterations in Cyclin-Dependent Kinases Reveals Potential Therapeutic Strategies for Cancer Treatment. PMID:32668240
PWAS: proteome-wide association study-linking genes and phenotypes by functional variation in proteins. PMID:32665031
Comparative Genomic Analysis Reveals the Metabolism and Evolution of the Thermophilic Archaeal Genus Metallosphaera. PMID:32655516
Phylogenomic Analysis of R2R3 MYB Transcription Factors in Sorghum and their Role in Conditioning Biofuel Syndrome. PMID:32655308
The regulatory landscape of early maize inflorescence development. PMID:32631399
Computational identification of receptor-like kinases "RLK" and receptor-like proteins "RLP" in legumes. PMID:32620079
Genome-wide identification and expression profiling of the YUCCA gene family in Malus domestica. PMID:32616911
Discovery, identification, and functional characterization of long noncoding RNAs in Arachis hypogaea L. PMID:32615935
Influence of genetic diversity of seventeen Beauveria bassiana isolates from different hosts on virulence by comparative genomics. PMID:32605539
Coding and Non-coding RNAs: Molecular Basis of Forest-Insect Outbreaks. PMID:32596236
Comparative genomics of the genus Roseburia reveals divergent biosynthetic pathways that may influence colonic competition among species. PMID:32589566
Identification and characterization of long non-coding RNA (lncRNA) in the developing seeds of Jatropha curcas. PMID:32587349
Long-Read-Based de novo Genome Assembly and Comparative Genomics of the Wheat Leaf Rust Pathogen Puccinia triticina Identifies Candidates for Three Avirulence Genes. PMID:32582280
Genome-wide characterization and expression analyses of the auxin/indole-3-acetic acid (Aux/IAA) gene family in barley (Hordeum vulgare L.). PMID:32581321
GapMind: Automated Annotation of Amino Acid Biosynthesis. PMID:32576650
Comparative Transcriptome Analysis of Two Contrasting Soybean Varieties in Response to Aluminum Toxicity. PMID:32560405
Analysis of lncRNAs Expression Profiles in Hair Follicle of Hu Sheep Lambskin. PMID:32549352
Plasmid-Encoded blaNDM-5 Gene That Confers High-Level Carbapenem Resistance in Salmonella Typhimurium of Pork Origin. PMID:32547117
Genome-wide identification and expression analysis of jasmonate ZIM domain gene family in tuber mustard (Brassica juncea var. tumida). PMID:32544205
Analysis and comprehensive comparison of PacBio and nanopore-based RNA sequencing of the Arabidopsis transcriptome. PMID:32536962
Characterization of Burkholderia cepacia Complex Core Genome and the Underlying Recombination and Positive Selection. PMID:32528528
Genome sequence of Kobresia littledalei, the first chromosome-level genome in the family Cyperaceae. PMID:32528014
SMRT sequencing of the full-length transcriptome of the Rhynchophorus ferrugineus (Coleoptera: Curculionidae). PMID:32509454
Transcriptome analysis of blood for the discovery of sex-related genes in ricefield eel Monopterus albus. PMID:32472467
Isolation and characterisation of novel phages infecting Lactobacillus plantarum and proposal of a new genus, "Silenusvirus". PMID:32472049
Functional insights from the GC-poor genomes of two aphid parasitoids, Aphidius ervi and Lysiphlebus fabarum. PMID:32471448
Questing functions and structures of hypothetical proteins from Campylobacter jejuni: a computer-aided approach. PMID:32458979
In silico Analyses of Core Proteins and Putative Effector and Immunity Proteins for T6SS in Enterohemorrhagic E. coli. PMID:32432054
Comparative genomic analysis of three intestinal species reveals reductions in secreted pathogenesis determinants in bovine-specific and non-pathogenic Cryptosporidium species. PMID:32416746
High-resolution profile of transcriptomes reveals a role of alternative splicing for modulating response to nitrogen in maize. PMID:32393171
A systematic machine learning and data type comparison yields metagenomic predictors of infant age, sex, breastfeeding, antibiotic usage, country of origin, and delivery type. PMID:32392251
Long-term outcomes and response to treatment in diacylglycerol kinase epsilon nephropathy. PMID:32386968
MetaGeneHunt for protein domain annotation in short-read metagenomes. PMID:32382098
A high-quality reference genome of wild Cannabis sativa. PMID:32377363
The Quest for Orthologs benchmark service and consensus calls in 2020. PMID:32374845
Casparian strip membrane domain proteins in Gossypium arboreum: genome-wide identification and negative regulation of lateral root growth. PMID:32366264
Genetic basis for virulence differences of various Cryptosporidium parvum carcinogenic isolates. PMID:32355272
Genetic Underpinnings of Host Manipulation by Ophiocordyceps as Revealed by Comparative Transcriptomics. PMID:32354705
Integrated Analysis of mRNA and microRNA Elucidates the Regulation of Glycyrrhizic Acid Biosynthesis in Glycyrrhiza uralensis Fisch. PMID:32353999
Identification and in silico structural and functional analysis of a trypsin-like protease from shrimp Macrobrachium carcinus. PMID:32351789
A draft genome assembly of spotted hyena, Crocuta crocuta. PMID:32345970
Repurposing a chemosensory macromolecular machine. PMID:32341341
Comparative Metatranscriptomics of Periodontitis Supports a Common Polymicrobial Shift in Metabolic Function and Identifies Novel Putative Disease-Associated ncRNAs. PMID:32328037
Soil bacterial populations are shaped by recombination and gene-specific selection across a grassland meadow. PMID:32327732
A comparative chemogenic analysis for predicting Drug-Target Pair via Machine Learning Approaches. PMID:32322011
Single-molecule long-read sequencing of the full-length transcriptome of Rhododendron lapponicum L. PMID:32317724
From conservation to structure, studies of magnetosome associated cation diffusion facilitators (CDF) proteins in Proteobacteria. PMID:32310978
Full-length transcriptome sequencing and comparative transcriptomic analysis to uncover genes involved in early gametogenesis in the gonads of Amur sturgeon (Acipenser schrenckii). PMID:32308726
Exploring dynamic protein-protein interactions in cassava through the integrative interactome network. PMID:32300157
Draft Genome Sequence of the Oomycete Globisporangium splendens Strain rgcb-1. PMID:32299889
Characterization of the Gh4CL gene family reveals a role of Gh4CL7 in drought tolerance. PMID:32293290
First de novo whole genome sequencing and assembly of the bar-headed goose. PMID:32292659
The hypertrophic cardiomyopathy mutations R403Q and R663H increase the number of myosin heads available to interact with actin. PMID:32284968
A novel flow cytometry assay based on bacteriophage-derived proteins for Staphylococcus detection in blood. PMID:32277078
Exploring Evolutionary Constraints in the Proteomes of Zika, Dengue, and Other Flaviviruses to Find Fitness-Critical Sites. PMID:32266427
Integrated Analysis of Long Non-coding RNAs (lncRNAs) and mRNAs Reveals the Regulatory Role of lncRNAs Associated With Salt Resistance in Camellia sinensis. PMID:32265948
Chromosome-level genome assembly, annotation and evolutionary analysis of the ornamental plant Asparagus setaceus. PMID:32257234
Chromosome doubling mediates superior drought tolerance in Lycium ruthenicum via abscisic acid signaling. PMID:32257226
Re-annotation of the Theileria parva genome refines 53% of the proteome and uncovers essential components of N-glycosylation, a conserved pathway in many organisms. PMID:32245418
Iron is a ligand of SecA-like metal-binding domains in vivo. PMID:32241912
Draft Genome Sequence of the Yeast Rhodotorula sp. Strain CCFEE 5036, Isolated from McMurdo Dry Valleys, Antarctica. PMID:32241854
Genome wide characterization revealed MnMLO2 and MnMLO6A as candidate genes involved in powdery mildew susceptibility in mulberry. PMID:32239465
Interaction between the scaffold proteins CBP by IQGAP1 provides an interface between gene expression and cytoskeletal activity. PMID:32238831
A systematic pipeline for classifying bacterial operons reveals the evolutionary landscape of biofilm machineries. PMID:32236097
Phylogeny and Functions of LOB Domain Proteins in Plants. PMID:32224847
Comparative Transcriptome Analysis Provides Insights Into Yellow Rind Formation and Preliminary Mapping of the Clyr (Yellow Rind) Gene in Watermelon. PMID:32218790
Sergentomyia schwetzi: Salivary gland transcriptome, proteome and enzymatic activities in two lineages adapted to different blood sources. PMID:32208452
A bacteriophage mimic of the bacterial nucleoid-associated protein Fis. PMID:32207815
Bi-allelic LoF NRROS Variants Impairing Active TGF-β1 Delivery Cause a Severe Infantile-Onset Neurodegenerative Condition with Intracranial Calcification. PMID:32197075
Comparative Genome Analysis of the Lignocellulose Degrading Bacteria Citrobacter freundii so4 and Sphingobacterium multivorum w15. PMID:32194522
Genome-wide investigation of WRKY transcription factors in Tartary buckwheat (Fagopyrum tataricum) and their potential roles in regulating growth and development. PMID:32185114
Whole transcriptome expression profiles in placenta samples from women with gestational diabetes mellitus. PMID:32174045
COST1 regulates autophagy to control plant drought tolerance. PMID:32170020
Digenic inheritance of mutations in EPHA2 and SLC26A4 in Pendred syndrome. PMID:32165640
Comprehensive transcriptome profiling of Taiwanese colorectal cancer implicates an ethnic basis for pathogenesis. PMID:32161294
Comparison of Viromes in Ticks from Different Domestic Animals in China. PMID:32157603
C2H2 Zinc Finger Proteins: Master Regulators of Abiotic Stress Responses in Plants. PMID:32153617
Comparative Genomic Analysis Confirms Five Genetic Populations of the Select Agent, Rathayibacter toxicus. PMID:32150860
Evolution and roles of cytokinin genes in angiosperms 2: Do ancient CKXs play housekeeping roles while non-ancient CKXs play regulatory roles? PMID:32140238
Evolution and roles of cytokinin genes in angiosperms 1: Do ancient IPTs play housekeeping while non-ancient IPTs play regulatory roles? PMID:32140237
Preferential gene retention increases the robustness of cold regulation in Brassicaceae and other plants after polyploidization. PMID:32133148
The ankyrin repeat gene family in Capsicum spp: Genome-wide survey, characterization and gene expression profile. PMID:32132613
Lactosyl-sepharose binding proteins from pancreatic cancer cells show differential expression in primary and metastatic organs. PMID:32131629
Epistatic contributions promote the unification of incompatible models of neutral molecular evolution. PMID:32123092
Association of a Variant in VWA3A with Response to Anti-Vascular Endothelial Growth Factor Treatment in Neovascular AMD. PMID:32106291
The genome evolution and low-phosphorus adaptation in white lupin. PMID:32103018
Comparative Genomics and Evolutionary Analysis of RNA-Binding Proteins of Burkholderia cenocepacia J2315 and Other Members of the B. cepacia Complex. PMID:32098200
Exploring Integrative Analysis Using the BioMedical Evidence Graph. PMID:32097025
Caldicellulosiruptor bescii Adheres to Polysaccharides via a Type IV Pilin-Dependent Mechanism. PMID:32086304
Systematic analysis of the Hippo pathway organization and oncogenic alteration in evolution. PMID:32081887
Genome of Tripterygium wilfordii and identification of cytochrome P450 involved in triptolide biosynthesis. PMID:32080175
Resequencing 93 accessions of coffee unveils independent and parallel selection during Coffea species divergence. PMID:32072392
Genome-Wide Profiling and Phylogenetic Analysis of the SWEET Sugar Transporter Gene Family in Walnut and Their Lack of Responsiveness to Xanthomonas arboricola pv. juglandis Infection. PMID:32070009
Similar genomic patterns of clinical infective endocarditis and oral isolates of Streptococcus sanguinis and Streptococcus gordonii. PMID:32066773
Computational Analysis of Crystallization Additives for the Identification of New Allosteric Sites. PMID:32064372
CEP44 ensures the formation of bona fide centriole wall, a requirement for the centriole-to-centrosome conversion. PMID:32060285
The Shb scaffold binds the Nck adaptor protein, p120 RasGAP, and Chimaerins and thereby facilitates heterotypic cell segregation by the receptor EphB2. PMID:32060095
Clades of huge phages from across Earth's ecosystems. PMID:32051592
Genome-wide inference of the Camponotus floridanus protein-protein interaction network using homologous mapping and interacting domain profile pairs. PMID:32047225
Transcriptomic and Metabolomic Changes Triggered by Fusarium solani in Common Bean (Phaseolus vulgaris L.). PMID:32046085
The evolution of protein domain repertoires: Shedding light on the origins of the Herpesviridae family. PMID:32042448
The hornwort genome and early land plant evolution. PMID:32042158
Transcriptome-Wide Identification, Evolutionary Analysis, and GA Stress Response of the GRAS Gene Family in Panax ginseng C. A. Meyer. PMID:32033157
Complete Genome Sequence of Methylomonas koyamae LM6, a Potential Aerobic Methanotroph. PMID:32029563
Genome-wide identification, structural analysis and expression profiles of GRAS gene family in orchardgrass. PMID:32026320
Bioinformatics for Renal and Urinary Proteomics: Call for Aggrandization. PMID:32024005
Functional Analysis of Long Non-Coding RNAs Reveal Their Novel Roles in Biocontrol of Bacteria-Induced Tomato Resistance to Meloidogyne incognita. PMID:32019153
Tools for Analysis of the Microbiome. PMID:32002757
Global transcriptome analysis of alfalfa reveals six key biological processes of senescent leaves. PMID:32002335
Genomic Characterization of a Novel Gut Symbiont From the Hadal Snailfish. PMID:31998265
Novel Hyperthermophilic Crenarchaeon Thermofilum adornatum sp. nov. Uses GH1, GH3, and Two Novel Glycosidases for Cellulose Hydrolysis. PMID:31998263
Origin Recognition Complex (ORC) Evolution Is Influenced by Global Gene Duplication/Loss Patterns in Eukaryotic Genomes. PMID:31990293
Tentacle Transcriptomes of the Speckled Anemone (Actiniaria: Actiniidae: Oulactis sp.): Venom-Related Components and Their Domain Structure. PMID:31981004
Mechanism underlying autoinducer recognition in the Vibrio cholerae DPO-VqmA quorum-sensing pathway. PMID:31964715
Identification, functional prediction, and key lncRNA verification of cold stress-related lncRNAs in rats liver. PMID:31949263
Systematic Analysis of the Maize OSCA Genes Revealing ZmOSCA Family Members Involved in Osmotic Stress and ZmOSCA2.4 Confers Enhanced Drought Tolerance in Transgenic Arabidopsis. PMID:31948071
Characterization of the Soybean GmIREG Family Genes and the Function of GmIREG3 in Conferring Tolerance to Aluminum Stress. PMID:31941034
Domain-mediated interactions for protein subfamily identification. PMID:31937869
Continuous pre- and post-transplant exposure to a disease-associated gut microbiome promotes hyper-acute graft-versus-host disease in wild-type mice. PMID:31928131
Mesostigma viride Genome and Transcriptome Provide Insights into the Origin and Evolution of Streptophyta. PMID:31921561
Gene Expression Profiling of the Shoot Meristematic Tissues in Woodland Strawberry Fragaria vesca. PMID:31921266
Genome-Wide Identification and Characterization of the Mitochondrial Transcription Termination Factors (mTERFs) in Capsicum annuum L. PMID:31906076
Transcriptional Differences of Coding and Non-Coding Genes Related to the Absence of Melanocyte in Skins of Bama Pig. PMID:31905971
Dissection of Dynamic Transcriptome Landscape of Leaf, Bract, and Lupulin Gland in Hop (Humulus lupulus L.). PMID:31905722
Genome-Wide Analysis of the NAC Domain Transcription Factor Gene Family in Theobroma cacao. PMID:31905649
Genome-wide identification and functional analysis of JmjC domain-containing genes in flower development of Rosa chinensis. PMID:31898146
Deep analysis and optimization of CARD antibiotic resistance gene discovery models. PMID:31888459
Genome-Wide Analysis of Cyclophilin Proteins in 21 Oomycetes. PMID:31888032
PhoH2 proteins couple RNA helicase and RNAse activities. PMID:31886915
Local adaptation of a dominant coastal tree to freshwater availability and solar radiation suggested by genomic and ecophysiological approaches. PMID:31882752
Full-length transcriptome sequences of Agropyron cristatum facilitate the prediction of putative genes for thousand-grain weight in a wheat-A. cristatum translocation line. PMID:31881839
Chromosome-Level Comprehensive Genome of Mangrove Sediment-Derived Fungus Penicillium variabile HXQ-H-1. PMID:31878043
Identification of highly conserved, serotype-specific dengue virus sequences: implications for vaccine design. PMID:31874646
JCDB: a comprehensive knowledge base for Jatropha curcas, an emerging model for woody energy plants. PMID:31874631
Comparative transcriptomic analysis of the flower induction and development of the Lei bamboo (Phyllostachys violascens). PMID:31874613
Integrative transcriptome analysis discloses the molecular basis of a heterogeneous fungal phytopathogen complex, Rhizoctonia solani AG-1 subgroups. PMID:31873088
Human cytomegalovirus interactome analysis identifies degradation hubs, domain associations and viral protein functions. PMID:31873071
Genome-wide identification and expression profile of the MADS-box gene family in Erigeron breviscapus. PMID:31860684
Transcriptome landscape of Rafflesia cantleyi floral buds reveals insights into the roles of transcription factors and phytohormones in flower development. PMID:31851702
A Phylogenomic Analysis of the Floral Transcriptomes of Sexually Deceptive and Rewarding European Orchids, Ophrys and Gymnadenia. PMID:31850034
Current challenges and best-practice protocols for microbiome analysis. PMID:31848574
Combined De Novo Transcriptome and Metabolome Analysis of Common Bean Response to Fusarium oxysporum f. sp. phaseoli Infection. PMID:31842411
Comprehensive analysis of chromosomal mobile genetic elements in the gut microbiome reveals phylum-level niche-adaptive gene pools. PMID:31830054
Sensitive Biomarker Analysis of Xue-Fu-Zhu-Yu Capsule for Patients with Qi Stagnation and Blood Stasis Pattern: A Nested Case-Control Study. PMID:31827557
Logomaker: beautiful sequence logos in Python. PMID:31821414
Mitochondrial genomes of the early land plant lineage liverworts (Marchantiophyta): conserved genome structure, and ongoing low frequency recombination. PMID:31818248
Results of multigene panel testing in familial cancer cases without genetic cause demonstrated by single gene testing. PMID:31811167
Conjoint Analysis of SMRT- and Illumina-Based RNA-Sequencing Data of Fenneropenaeus chinensis Provides Insight Into Sex-Biased Expression Genes Involved in Sexual Dimorphism. PMID:31803244
Full-Length Transcriptome Survey and Expression Analysis of Parasitoid Wasp Chouioia cunea upon Exposure to 1-Dodecene. PMID:31796851
Characterization and Functional Divergence of a Novel DUF668 Gene Family in Rice Based on Comprehensive Expression Patterns. PMID:31795257
Large multiple sequence alignments with a root-to-leaf regressive method. PMID:31792410
Transcriptomic and microstructural analyses in Liriodendron tulipifera Linn. reveal candidate genes involved in nectary development and nectar secretion. PMID:31791230
Analysis of glycoside hydrolases from oat (Avena sativa) seedling extract. PMID:31787817
RegSNPs-intron: a computational framework for predicting pathogenic impact of intronic single nucleotide variants. PMID:31779641
Transcriptome profiling analysis reveals key genes of different coat color in sheep skin. PMID:31772839
Evolution of BACON Domain Tandem Repeats in crAssphage and Novel Gut Bacteriophage Lineages. PMID:31766550
Comparative analysis of differential proteome-wide protein-protein interaction network of Methanobrevibacter ruminantium M1. PMID:31763465
Identification, Evolution, and Expression Profiling of Histone Lysine Methylation Moderators in Brassica rapa. PMID:31756989
Screening and characterization of long noncoding RNAs involved in the albinism of Ananas comosus var. bracteatus leaves. PMID:31756232
Function-driven single-cell genomics uncovers cellulose-degrading bacteria from the rare biosphere. PMID:31754206
The Driver of Extreme Human-Specific Olduvai Repeat Expansion Remains Highly Active in the Human Genome. PMID:31754017
Comparative genomics reveals a novel genetic organization of the sad cluster in the sulfonamide-degrader 'Candidatus Leucobacter sulfamidivorax' strain GP. PMID:31752666
Genome-wide identification and characterization of long non-coding RNAs during differentiation of visceral preadipocytes in rabbit. PMID:31745672
Intra-species recombination among strains of the ampelovirus Grapevine leafroll-associated virus 4. PMID:31744534
The evolution and genomic basis of beetle diversity. PMID:31740605
Integrated transcriptome and miRNA analysis uncovers molecular regulators of aerial stem-to-rhizome transition in the medical herb Gynostemma pentaphyllum. PMID:31730459
Genome-Wide Analysis of the DYW Subgroup PPR Gene Family and Identification of GmPPR4 Responses to Drought Stress. PMID:31726763
Annotation of a hypothetical protein coding gene PAS_chr2-2_0152 containing Lysine Methyl transferase SMYD domain from Komagataella phaffii GS115. PMID:31719763
A New Lineage of Cryptococcus gattii (VGV) Discovered in the Central Zambezian Miombo Woodlands. PMID:31719178
Exploring the Molecular Mechanism underlying the Stable Purple-Red Leaf Phenotype in Lagerstroemia indica cv. Ebony Embers. PMID:31718025
Improved Draft Genome Sequence of Microbacterium sp. Strain LKL04, a Bacterial Endophyte Associated with Switchgrass Plants. PMID:31699756
Transcriptome Analysis Implicates Involvement of Long Noncoding RNAs in Cytoplasmic Male Sterility and Fertility Restoration in Cotton. PMID:31698756
Transcriptome sequencing of Salvia miltiorrhiza after infection by its endophytic fungi and identification of genes related to tanshinone biosynthesis. PMID:31694427
Nanopore sequencing improves the draft genome of the human pathogenic amoeba Naegleria fowleri. PMID:31690847
Genome-wide identification and characterization, phylogenetic comparison and expression profiles of SPL transcription factor family in B. juncea (Cruciferae). PMID:31689304
Mabellini: a genome-wide database for understanding the structural proteome and evaluating prospective antimicrobial targets of the emerging pathogen Mycobacterium abscessus. PMID:31681953
New insights into the mycobacterial PE and PPE proteins provide a framework for future research. PMID:31661176
Domainoid: domain-oriented orthology inference. PMID:31660857
The spinal cord-gut-immune axis as a master regulator of health and neurological function after spinal cord injury. PMID:31654639
Comparative Genomics of Rumen Butyrivibrio spp. Uncovers a Continuum of Polysaccharide-Degrading Capabilities. PMID:31653790
Uncovering and characterizing splice variants associated with survival in lung cancer patients. PMID:31652257
Identification and Analysis of Long Repeats of Proteins at the Domain Level. PMID:31649924
Draft genome sequence of cauliflower (Brassica oleracea L. var. botrytis) provides new insights into the C genome in Brassica species. PMID:31645943
The draft genome of Actinia tenebrosa reveals insights into toxin evolution. PMID:31641475
Phage-centric ecological interactions in aquatic ecosystems revealed through ultra-deep metagenomics. PMID:31630686
Search for Nutritional Fitness Traits in a Biological Pest Control Agent Harmonia axyridis Using Comparative Transcriptomics. PMID:31620008
Zinc uptake in the Basidiomycota: Characterization of zinc transporters in Ustilago maydis. PMID:31617434
Identification of keratinases from Fervidobacterium islandicum AW-1 using dynamic gene expression profiling. PMID:31613061
Aminoacyl tRNA synthetases as potential drug targets of the Panthera pathogen Babesia. PMID:31610802
TCRpMHCmodels: Structural modelling of TCR-pMHC class I complexes. PMID:31601838
Alternative Splicing in Heat Shock Protein Transcripts as a Mechanism of Cell Adaptation in Trichophyton rubrum. PMID:31590387
Targeted metagenomic recovery of four divergent viruses reveals shared and distinctive characteristics of giant viruses of marine eukaryotes. PMID:31587639
De novo identification of essential protein domains from CRISPR-Cas9 tiling-sgRNA knockout screens. PMID:31586052
Protective Role of Leaf Variegation in Pittosporum tobira under Low Temperature: Insights into the Physio-Biochemical and Molecular Mechanisms. PMID:31574927
Targeted isolation and cultivation of uncultivated bacteria by reverse genomics. PMID:31570900
Global phosphoproteomic analysis of Ebola virions reveals a novel role for VP35 phosphorylation-dependent regulation of genome transcription. PMID:31562565
Reference gene and small RNA data from multiple tissues of Davidia involucrata Baill. PMID:31551451
Draft Genome and Complete Hox-Cluster Characterization of the Sterlet (Acipenser ruthenus). PMID:31543900
Evolutionary and functional patterns of shared gene neighbourhood in fungi. PMID:31527797
Zinc Finger-Homeodomain Genes: Evolution, Functional Differentiation, and Expression Profiling Under Flowering-Related Treatments and Abiotic Stresses in Plants. PMID:31523124
Large-Scale Molecular Evolutionary Analysis Uncovers a Variety of Polynucleotide Kinase Clp1 Family Proteins in the Three Domains of Life. PMID:31513263
Differential Regulation of Anthocyanins in Green and Purple Turnips Revealed by Combined De Novo Transcriptome and Metabolome Analysis. PMID:31500111
GhVTC1, the Key Gene for Ascorbate Biosynthesis in Gossypium hirsutum, Involves in Cell Elongation Under Control of Ethylene. PMID:31492030
Genome-Wide Identification and Characterization of the UBP Gene Family in Moso Bamboo (Phyllostachys edulis). PMID:31484390
The Fish Pathogen Vibrio ordalii Under Iron Deprivation Produces the Siderophore Piscibactin. PMID:31484388
Transcriptome Analysis Reveals Key Seed-Development Genes in Common Buckwheat (Fagopyrum esculentum). PMID:31484314
A Comparative Genome-Wide Analysis of the R2R3-MYB Gene Family Among Four Gossypium Species and Their Sequence Variation and Association With Fiber Quality Traits in an Interspecific G. hirsutum × G. barbadense Population. PMID:31475040
An in vitro characterisation of the Trichomonas vaginalis TATA box-binding proteins (TBPs). PMID:31473857
Whole Genome Sequencing of Chinese White Dolphin (Sousa chinensis) for High-Throughput Screening of Antihypertensive Peptides. PMID:31466310
Structural and biochemical studies of an NB-ARC domain from a plant NLR immune receptor. PMID:31461469
The RabGAP Gene Family in Tomato (Solanum lycopersicum) and Wild Relatives: Identification, Interaction Networks, and Transcriptional Analysis during Plant Development and in Response to Salt Stress. PMID:31450820
Collection of antimicrobial peptides database and its derivatives: Applications and beyond. PMID:31441165
Computational classification of MocR transcriptional regulators into subgroups as a support for experimental and functional characterization. PMID:31435161
Utilization of Tissue Ploidy Level Variation in de Novo Transcriptome Assembly of Pinus sylvestris. PMID:31427456
Genome-wide analysis of sulfotransferase genes and their responses to abiotic stresses in Chinese cabbage (Brassica rapa L.). PMID:31425555
Atypical cyclins: the extended family portrait. PMID:31420702
Size and structure of the sequence space of repeat proteins. PMID:31415557
Comparative Genomics Reveals Ecological and Evolutionary Insights into Sponge-Associated Thaumarchaeota. PMID:31409660
Transcriptomic analysis of Pacific white shrimp (Litopenaeus vannamei, Boone 1931) in response to acute hepatopancreatic necrosis disease caused by Vibrio parahaemolyticus. PMID:31408485
An improved genome assembly of the fluke Schistosoma japonicum. PMID:31390359
The Oxymonad Genome Displays Canonical Eukaryotic Complexity in the Absence of a Mitochondrion. PMID:31387118
Compendium of 4,941 rumen metagenome-assembled genomes for rumen microbiome biology and enzyme discovery. PMID:31375809
Unraveling the structural landscape of intra-chain domain interfaces: Implication in the evolution of domain-domain interactions. PMID:31374091
Genome-wide exploration and characterization of miR172/euAP2 genes in Brassica napus L. for likely role in flower organ development. PMID:31370790
Genomic detection and molecular characterization of two distinct isolates of cycas necrotic stunt virus from Paeonia suffruticosa and Daphne odora. PMID:31352619
Rad5 dysregulation drives hyperactive recombination at replication forks resulting in cisplatin sensitivity and genome instability. PMID:31350889
Melatonin enhances cotton immunity to Verticillium wilt via manipulating lignin and gossypol biosynthesis. PMID:31349367
Analysis of Long Non-Coding RNA and mRNA Expression Profiling in Immature and Mature Bovine (Bos taurus) Testes. PMID:31333723
Aberrant DNA methylation defines isoform usage in cancer, with functional implications. PMID:31329578
In marine Bacteroidetes the bulk of glycan degradation during algae blooms is mediated by few clades using a restricted set of genes. PMID:31316134
Predictive metabolomic profiling of microbial communities using amplicon or metagenomic sequences. PMID:31316056
GeneHunt for rapid domain-specific annotation of glycoside hydrolases. PMID:31300677
Genomic features and evolution of the conditionally dispensable chromosome in the tangerine pathotype of Alternaria alternata. PMID:31297970
A transcriptional and functional analysis of heat hardening in two invasive fruit fly species, Bactrocera dorsalis and Bactrocera correcta. PMID:31293628
Core transcriptional signatures of phase change in the migratory locust. PMID:31292921
Expanding the Diversity of Myoviridae Phages Infecting Lactobacillus plantarum-A Novel Lineage of Lactobacillus Phages Comprising Five New Members. PMID:31277436
Genome assembly provides insights into the genome evolution and flowering regulation of orchardgrass. PMID:31276273
Characterization and analysis of the transcriptome in Gymnocypris selincuoensis on the Qinghai-Tibetan Plateau using single-molecule long-read sequencing and RNA-seq. PMID:31274170
Characterization of a thaumarchaeal symbiont that drives incomplete nitrification in the tropical sponge Ianthella basta. PMID:31271506
Combining genome-wide and transcriptome-wide analyses reveal the evolutionary conservation and functional diversity of aquaporins in cotton. PMID:31262248
Population Genome Sequencing of the Scab Fungal Species Venturia inaequalis, Venturia pirina, Venturia aucupariae and Venturia asperata. PMID:31253647
Ancient Hybridization and Adaptive Introgression of an Invadolysin Gene in Schistosome Parasites. PMID:31251352
De novo assembly of the goldfish (Carassius auratus) genome and the evolution of genes after whole-genome duplication. PMID:31249862
Terpene Synthase Genes Originated from Bacteria through Horizontal Gene Transfer Contribute to Terpenoid Diversity in Fungi. PMID:31239482
A Novel PL9 Pectate Lyase from Paenibacillus polymyxa KF-1: Cloning, Expression, and Its Application in Pectin Degradation. PMID:31234557
Genome-wide analyses of the bHLH gene family reveals structural and functional characteristics in the aquatic plant Nelumbo nucifera. PMID:31231599
Comparative physiology and transcriptome analysis allows for identification of lncRNAs imparting tolerance to drought stress in autotetraploid cassava. PMID:31226927
Deep learning enables high-quality and high-throughput prediction of enzyme commission numbers. PMID:31221760
CAPRI enables comparison of evolutionarily conserved RNA interacting regions. PMID:31213602
Unprecedented reorganization of holocentric chromosomes provides insights into the enigma of lepidopteran chromosome evolution. PMID:31206013
Genomic signatures of heterokaryosis in the oomycete pathogen Bremia lactucae. PMID:31201315
Comprehensive analysis of Ogura cytoplasmic male sterility-related genes in turnip (Brassica rapa ssp. rapifera) using RNA sequencing analysis and bioinformatics. PMID:31199816
DeepConv-DTI: Prediction of drug-target interactions via deep learning with convolution on protein sequences. PMID:31199797
Genome-Wide Analysis of TCP Family Genes in Zea mays L. Identified a Role for ZmTCP42 in Drought Tolerance. PMID:31195663
Arsenite Oxidation by a Newly Isolated Betaproteobacterium Possessing arx Genes and Diversity of the arx Gene Cluster in Bacterial Genomes. PMID:31191509
Genome-wide identification and characterization of R2R3-MYB genes in Medicago truncatula. PMID:31188936
Genome-Wide Analysis of Coding and Long Non-Coding RNAs Involved in Cuticular Wax Biosynthesis in Cabbage (Brassica oleracea L. var. capitata). PMID:31185589
Comparative analysis of B-BOX genes and their expression pattern analysis under various treatments in Dendrobium officinale. PMID:31182022
Dicyemida and Orthonectida: Two Stories of Body Plan Simplification. PMID:31178892
Comparative transcriptomic and proteomic analysis of yellow shell and black shell pearl oysters, Pinctada fucata martensii. PMID:31176356
MTR-Viewer: identifying regions within genes under purifying selection. PMID:31170280
Evolutionary Analyses Reveal Diverged Patterns of SQUAMOSA Promoter Binding Protein-Like (SPL) Gene Family in Oryza Genus. PMID:31139200
Back to the Salt Mines: Genome and Transcriptome Comparisons of the Halophilic Fungus Aspergillus salisburgensis and Its Halotolerant Relative Aspergillus sclerotialis. PMID:31137536
Dynamic Transcriptome Analysis Reveals Potential Long Non-coding RNAs Governing Postnatal Pineal Development in Pig. PMID:31130986
Mosaic origin of the eukaryotic kinetochore. PMID:31127038
Sequencing of a Wild Apple (Malus baccata) Genome Unravels the Differences Between Cultivated and Wild Apple Species Regarding Disease Resistance and Cold Tolerance. PMID:31126974
Horizontal Gene Transfer as an Indispensable Driver for Evolution of Neocallimastigomycota into a Distinct Gut-Dwelling Fungal Lineage. PMID:31126947
Comparative analysis reveals conservation in genome organization among intestinal Cryptosporidium species and sequence divergence in potential secreted pathogenesis determinants among major human-infecting species. PMID:31117941
EcRBPome: a comprehensive database of all known E. coli RNA-binding proteins. PMID:31117939
Modeling Structural Constraints on Protein Evolution via Side-Chain Conformational States. PMID:31114882
Methanogenesis marker protein 10 (Mmp10) from Methanosarcina acetivorans is a radical S-adenosylmethionine methylase that unexpectedly requires cobalamin. PMID:31113866
Mutplot: An easy-to-use online tool for plotting complex mutation data with flexibility. PMID:31091262
Comparative Genomics of Cyanobacterial Symbionts Reveals Distinct, Specialized Metabolism in Tropical Dysideidae Sponges. PMID:31088928
A Novel Cadherin-like Protein Mediates Adherence to and Killing of Host Cells by the Parasite Trichomonas vaginalis. PMID:31088924
Diversification of cytokinin phosphotransfer signaling genes in Medicago truncatula and other legume genomes. PMID:31088345
Divergently expressed RNA identification and interaction prediction of long non-coding RNA and mRNA involved in Hu sheep hair follicle. PMID:31086232
Transcriptome Analysis of Apple Leaves in Response to Powdery Mildew (Podosphaera leucotricha) Infection. PMID:31083412
Engineering proteins for allosteric control by light or ligands. PMID:31076662
Draft Genome Sequence of an Antarctic Isolate of the Black Yeast Fungus Exophiala mesophila. PMID:31072892
Ocean acidification at a coastal CO2 vent induces expression of stress-related transcripts and transposable elements in the sea anemone Anemonia viridis. PMID:31067218
Correlation in Expression between LTR Retrotransposons and Potential Host Cis-Targets during Infection of Antherea pernyi with ApNPV Baculovirus. PMID:31064084
Investigation of evolutionary and expressional relationships in the function of the leucine-rich repeat receptor-like protein kinase gene family (LRR-RLK) in the radish (Raphanus sativus L.). PMID:31061443
Evolutionary Conservation and Divergence of Genes Encoding 3-Hydroxy-3-methylglutaryl Coenzyme A Synthase in the Allotetraploid Cotton Species Gossypium hirsutum. PMID:31058869
A Novel lncRNA Regulates the Toll-Like Receptor Signaling Pathway and Related Immune Function by Stabilizing FOS mRNA as a Competitive Endogenous RNA. PMID:31057556
The genomes of pecan and Chinese hickory provide insights into Carya evolution and nut nutrition. PMID:31049561
Genome-wide identification and gene expression pattern of ABC transporter gene family in Capsicum spp. PMID:31039176
Identification and functional prediction of cold-related long non-coding RNA (lncRNA) in grapevine. PMID:31036931
Computational Characterization of the mtORF of Pocilloporid Corals: Insights into Protein Structure and Function in Stylophora Lineages from Contrasting Environments. PMID:31035578
Deciphering the three-domain architecture in schlafens and the structures and roles of human schlafen12 and serpinB12 in transcriptional regulation. PMID:31026779
Whole genomes and transcriptomes reveal adaptation and domestication of pistachio. PMID:30999938
Genome-wide analysis of maize OSCA family members and their involvement in drought stress. PMID:30997296
De Novo Transcriptome Assembly and Functional Annotation in Five Species of Bats. PMID:30996290
Investigating the Role of BATF3 in Grass Carp (Ctenopharyngodon idella) Immune Modulation: A Fundamental Functional Analysis. PMID:30987332
Population Genetics of Paramecium Mitochondrial Genomes: Recombination, Mutation Spectrum, and Efficacy of Selection. PMID:30980669
HSP superfamily of genes in the malaria vector Anopheles sinensis: diversity, phylogenetics and association with pyrethroid resistance. PMID:30975215
Genome-wide identification and expression profiling of trihelix gene family under abiotic stresses in wheat. PMID:30975075
Molecular and bioinformatics analyses reveal two differentially expressed intracellular GH1 β-glucosidases from the rare alkalophilic fungus Stachybotrys microspora. PMID:30974199
croFGD: Catharanthus roseus Functional Genomics Database. PMID:30967897
Purification and biochemical characterization of FrsA protein from Vibrio vulnificus as an esterase. PMID:30951551
Cotrimoxazole reduces systemic inflammation in HIV infection by altering the gut microbiome and immune activation. PMID:30944164
Chromosome-scale genome assembly of kiwifruit Actinidia eriantha with single-molecule sequencing and chromatin interaction mapping. PMID:30942870
Structural and Computational Characterization of Disease-Related Mutations Involved in Protein-Protein Interfaces. PMID:30934865
Roles of the GA-mediated SPL Gene Family and miR156 in the Floral Development of Chinese Chestnut (Castanea mollissima). PMID:30934840
Molecular evolution of Pr1 proteases depicts ongoing diversification in Metarhizium spp. PMID:30923942
Genomic Analysis of Pseudomonas sp. Strain SCT, an Iodate-Reducing Bacterium Isolated from Marine Sediment, Reveals a Possible Use for Bioremediation. PMID:30910818
Multi-metal Restriction by Calprotectin Impacts De Novo Flavin Biosynthesis in Acinetobacter baumannii. PMID:30905682
Genome-Wide Analysis of Multiple Organellar RNA Editing Factor Family in Poplar Reveals Evolution and Roles in Drought Stress. PMID:30901839
Contrasting patterns of divergence at the regulatory and sequence level in European Daphnia galeata natural populations. PMID:30891195
Mining, analyzing, and integrating viral signals from metagenomic data. PMID:30890181
A novel transcriptome-derived SNPs array for tench (Tinca tinca L.). PMID:30889192
Identification of evolutionarily conserved virulence factor by selective pressure analysis of Streptococcus pneumoniae. PMID:30886906
Functional characterization of the rice root Germin-like protein gene-1 (OsRGLP1) promoter in Nicotiana tabacum. PMID:30863709
Genome-Wide Identification and Expression Profiling of Wnt Family Genes in the Silkworm, Bombyx mori. PMID:30862048
Learning protein constitutive motifs from sequence data. PMID:30857591
Temporal Splicing Switches in Elements of the TNF-Pathway Identified by Computational Analysis of Transcriptome Data for Human Cell Lines. PMID:30857150
Genome sequence of Xanthomonas fuscans subsp. fuscans strain Xff49: a new isolate obtained from common beans in Southern Brazil. PMID:30850979
Similarities, variations, and evolution of cytochrome P450s in Streptomyces versus Mycobacterium. PMID:30850694
Genome-Wide Identification, Sequence Variation, and Expression of the Glycerol-3-Phosphate Acyltransferase (GPAT) Gene Family in Gossypium. PMID:30842789
Comprehensive Analysis of Differentially Expressed mRNA, lncRNA and circRNA and Their ceRNA Networks in the Longissimus Dorsi Muscle of Two Different Pig Breeds. PMID:30836719
Characterisation of novel-cell-wall LysM-domain proteins LdpA and LdpB from the human pathogenic fungus Aspergillus fumigatus. PMID:30833675
MetaCHIP: community-level horizontal gene transfer identification through the combination of best-match and phylogenetic approaches. PMID:30832740
In silico analysis of fungal small RNA accumulation reveals putative plant mRNA targets in the symbiosis between an arbuscular mycorrhizal fungus and its host plant. PMID:30832582
A Needle in A Haystack: Tracing Bivalve-Associated Viruses in High-Throughput Transcriptomic Data. PMID:30832203
Comprehensive Analysis of the Chitinase Family Genes in Tomato (Solanum lycopersicum). PMID:30823433
CAFU: a Galaxy framework for exploring unmapped RNA-Seq data. PMID:30815667
Evidence for Highly Variable, Region-Specific Patterns of T-Cell Epitope Mutations Accumulating in Mycobacterium tuberculosis Strains. PMID:30814998
Investigating the Biological Relevance of In Vitro-Identified Putative Packaging Signals at the 5' Terminus of Satellite Tobacco Necrosis Virus 1 Genomic RNA. PMID:30814279
Genome-Wide Analysis of the Zn(II)₂Cys₆ Zinc Cluster-Encoding Gene Family in Tolypocladium guangdongense and Its Light-Induced Expression. PMID:30813610
Genome analysis of Rubritalea profundi SAORIC-165T, the first deep-sea verrucomicrobial isolate, from the northwestern Pacific Ocean. PMID:30806980
Survival Mechanisms of Campylobacter hepaticus Identified by Genomic Analysis and Comparative Transcriptomic Analysis of in vivo and in vitro Derived Bacteria. PMID:30804905
Adaptive Strategies in a Poly-Extreme Environment: Differentiation of Vegetative Cells in Serratia ureilytica and Resistance to Extreme Conditions. PMID:30804904
Genome analysis of the rice coral Montipora capitata. PMID:30796282
Reticulate evolution in eukaryotes: Origin and evolution of the nitrate assimilation pathway. PMID:30789903
Comparative genomics sheds light on the predatory lifestyle of accipitrids and owls. PMID:30783131
Pituitary Transcriptomic Study Reveals the Differential Regulation of lncRNAs and mRNAs Related to Prolificacy in Different FecB Genotyping Sheep. PMID:30781725
A draft genome assembly of the solar-powered sea slug Elysia chlorotica. PMID:30778257
Comparative analysis of seven types of superoxide dismutases for their ability to respond to oxidative stress in Bombyx mori. PMID:30778096
MapB, the Brucella suis TamB homologue, is involved in cell envelope biogenesis, cell division and virulence. PMID:30770847
Genome-Wide Identification and Characterization of SQUAMOSA-Promoter-Binding Protein (SBP) Genes Involved in the Flowering Development of Citrus Clementina. PMID:30769909
Molecular Evolution of the Vacuolar Iron Transporter (VIT) Family Genes in 14 Plant Species. PMID:30769903
DeepAffinity: interpretable deep learning of compound-protein affinity through unified recurrent and convolutional neural networks. PMID:30768156
Enrichment of bacteria and alginate lyase genes potentially involved in brown alga degradation in the gut of marine gastropods. PMID:30765748
Circadian Regulation of Alternative Splicing of Drought-Associated CIPK Genes in Dendrobium catenatum (Orchidaceae). PMID:30764546
Evolutionary Origins of Pseudogenes and Their Association with Regulatory Sequences in Plants. PMID:30760562
The Importance of Conserved Serine for C-Terminally Encoded Peptides Function Exertion in Apple. PMID:30759748
A combined computational strategy of sequence and structural analysis predicts the existence of a functional eicosanoid pathway in Drosophila melanogaster. PMID:30753230
Unique Patterns and Biogeochemical Relevance of Two-Component Sensing in Marine Bacteria. PMID:30746496
Oxidative Pathways of Deoxyribose and Deoxyribonate Catabolism. PMID:30746495
SqueezeMeta, A Highly Portable, Fully Automatic Metagenomic Analysis Pipeline. PMID:30733714
An integrated meta-omics approach reveals substrates involved in synergistic interactions in a bisphenol A (BPA)-degrading microbial community. PMID:30728080
Genome expansion of an obligate parthenogenesis-associated Wolbachia poses an exception to the symbiont reduction model. PMID:30727958
RepetDB: a unified resource for transposable element references. PMID:30719103
RNA-seq of HaHV-1-infected abalones reveals a common transcriptional signature of Malacoherpesviruses. PMID:30700734
In silico Identification of Novel Toxin Homologs and Associated Mobile Genetic Elements in Clostridium perfringens. PMID:30699957
Development of novel EST-SSR markers for Ephedra sinica (Ephedraceae) by transcriptome database mining. PMID:30693158
iVikodak-A Platform and Standard Workflow for Inferring, Analyzing, Comparing, and Visualizing the Functional Potential of Microbial Communities. PMID:30692979
A GntR Family Transcription Factor in Streptococcus mutans Regulates Biofilm Formation and Expression of Multiple Sugar Transporter Genes. PMID:30692967
Expansion and Diversification of MFS Transporters in Kluyveromyces marxianus. PMID:30687296
Identification of differentially expressed non-coding RNAs and mRNAs involved in Qi stagnation and blood stasis syndrome. PMID:30679994
Identification of genes associated with ricinoleic acid accumulation in Hiptage benghalensis via transcriptome analysis. PMID:30679955
Virulence Characteristics and an Action Mode of Antibiotic Resistance in Multidrug-Resistant Pseudomonas aeruginosa. PMID:30679735
Identification and Characterization of Mitogen-Activated Protein Kinase (MAPK) Genes in Sunflower (Helianthus annuus L.). PMID:30678298
Metagenome sequencing-based strain-level and functional characterization of supragingival microbiome associated with dental caries in children. PMID:30671194
Target of Rapamycin (TOR) Regulates the Expression of lncRNAs in Response to Abiotic Stresses in Cotton. PMID:30671083
Domain cross-talk within a bifunctional enzyme provides catalytic and allosteric functionality in the biosynthesis of aromatic amino acids. PMID:30670586
A High-quality Draft Genome Assembly of Sinella curviseta: A Soil Model Organism (Collembola). PMID:30668671
Comparative transcriptomic analysis unveils interactions between the regulatory CarS protein and light response in Fusarium. PMID:30665350
Functional characterization and proteomic analysis of lolA in Xanthomonas campestris pv. campestris. PMID:30665348
Cysteine-Rich Receptor-Like Kinase Gene Family Identification in the Phaseolus Genome and Comparative Analysis of Their Expression Profiles Specific to Mycorrhizal and Rhizobial Symbiosis. PMID:30658517
A major isoform of mitochondrial trans-2-enoyl-CoA reductase is dispensable for wax ester production in Euglena gracilis under anaerobic conditions. PMID:30650145
The Evolutionary Traceability of a Protein. PMID:30649284
The crystal structure of the N-acetylglucosamine 2-epimerase from Nostoc sp. KVJ10 reveals the true dimer. PMID:30644848
Differential NOVA2-Mediated Splicing in Excitatory and Inhibitory Neurons Regulates Cortical Development and Cerebellar Function. PMID:30638744
Differential co-expression networks of long non-coding RNAs and mRNAs in Cleistogenes songorica under water stress and during recovery. PMID:30634906
Characterization of B-BOX gene family and their expression profiles under hormonal, abiotic and metal stresses in Poaceae plants. PMID:30626335
Powdery Mildews Are Characterized by Contracted Carbohydrate Metabolism and Diverse Effectors to Adapt to Obligate Biotrophic Lifestyle. PMID:30619222
MMseqs2 desktop and local web server app for fast, interactive sequence searches. PMID:30615063
Genome-wide identification and comparative analysis of alternative splicing across four legume species. PMID:30603789
UbiHub: a data hub for the explorers of ubiquitination pathways. PMID:30601939
Analysis of transcripts and splice isoforms in Medicago sativa L. by single-molecule long-read sequencing. PMID:30600412
Microbial metal-sulfide oxidation in inactive hydrothermal vent chimneys suggested by metagenomic and metaproteomic analyses. PMID:30585382
Identification, Molecular Characterization, and Biology of a Novel Quadrivirus Infecting the Phytopathogenic Fungus Leptosphaeria biglobosa. PMID:30585188
Comparative analysis of deep sequenced methanogenic communities: identification of microorganisms responsible for methane production. PMID:30572955
Gut colonization by a novel Clostridium species is associated with the onset of epizootic rabbit enteropathy. PMID:30572930
Genome Assembly for a Yunnan-Guizhou Plateau "3E" Fish, Anabarilius grahami (Regan), and Its Evolutionary and Genetic Applications. PMID:30564274
SCAPER-associated nonsyndromic autosomal recessive retinitis pigmentosa. PMID:30561111
Genome survey sequencing for the characterization of genetic background of Dracaena cambodiana and its defense response during dragon's blood formation. PMID:30550595
A novel lncRNA-mediated trans-regulatory mechanism in the development of cleft palate in mouse. PMID:30548829
Daphnia galeata responds to the exposure to an ichthyosporean gut parasite by down-regulation of immunity and lipid metabolism. PMID:30547741
A Pipeline for Classifying Deleterious Coding Mutations in Agricultural Plants. PMID:30546376
RNA sequencing and anthocyanin synthesis-related genes expression analyses in white-fruited Vaccinium uliginosum. PMID:30545307
Systematic domain-based aggregation of protein structures highlights DNA-, RNA- and other ligand-binding positions. PMID:30535108
Sensitive detection of pre-integration intermediates of long terminal repeat retrotransposons in crop plants. PMID:30531940
Insights Into Limnothrix sp. Metabolism Based on Comparative Genomics. PMID:30515147
Genomic identification and functional analysis of essential genes in Caenorhabditis elegans. PMID:30514206
High-quality-draft genome sequence of the heavy metal resistant and exopolysaccharides producing bacterium Mucilaginibacter pedocola TBZ30T. PMID:30505390
Microbial Organic Matter Degradation Potential in Baltic Sea Sediments Is Influenced by Depositional Conditions and In Situ Geochemistry. PMID:30504213
Molecular genotyping, diversity studies and high-resolution molecular markers unveiled by microsatellites in Giardia duodenalis. PMID:30500829
A scalable peptide-GPCR language for engineering multicellular communication. PMID:30498215
Genome and Transcriptome Sequencing of the Astaxanthin-Producing Green Microalga, Haematococcus pluvialis. PMID:30496415
A robust method for the estimation and visualization of IgE cross-reactivity likelihood between allergens belonging to the same protein family. PMID:30496313
Genome-wide identification and characterization of long non-coding RNAs during postnatal development of rabbit adipose tissue. PMID:30486837
Comparative genomics of downy mildews reveals potential adaptations to biotrophy. PMID:30486780
An Improved Genome-Scale Metabolic Model of Arthrospira platensis C1 (iAK888) and Its Application in Glycogen Overproduction. PMID:30486288
Butyrivibrio hungatei MB2003 Competes Effectively for Soluble Sugars Released by Butyrivibrio proteoclasticus B316T during Growth on Xylan or Pectin. PMID:30478228
Phylogenomics and the evolution of hemipteroid insects. PMID:30478043
Genome-wide analysis of RNAs associated with Populus euphratica Oliv. heterophyll morphogenesis. PMID:30467318
Computational discovery of direct associations between GO terms and protein domains. PMID:30453875
CAARS: comparative assembly and annotation of RNA-Seq data. PMID:30452539
Comparative genome-wide analysis of WRKY transcription factors in two Asian legume crops: Adzuki bean and Mung bean. PMID:30451872
Involvement of sweet pepper CaLOX2 in jasmonate-dependent induced defence against Western flower thrips. PMID:30450727
Genomes of trombidid mites reveal novel predicted allergens and laterally transferred genes associated with secondary metabolism. PMID:30445460
15 years of PhosphoSitePlus®: integrating post-translationally modified sites, disease variants and isoforms. PMID:30445427
Large-Scale Analyses of Site-Specific Evolutionary Rates across Eukaryote Proteomes Reveal Confounding Interactions between Intrinsic Disorder, Secondary Structure, and Functional Domains. PMID:30441862
Transcriptome and Resistance-Related Genes Analysis of Botrytis cinerea B05.10 Strain to Different Selective Pressures of Cyprodinil and Fenhexamid. PMID:30425701
The MemProtMD database: a resource for membrane-embedded protein structures and their lipid interactions. PMID:30418645
MAGpy: a reproducible pipeline for the downstream analysis of metagenome-assembled genomes (MAGs). PMID:30418481
Organic Particles: Heterogeneous Hubs for Microbial Interactions in Aquatic Ecosystems. PMID:30416497
Species-Specific Functional Regions of the Green Alga Gamete Fusion Protein HAP2 Revealed by Structural Studies. PMID:30416037
Changes in long non-coding RNA expression profiles related to the antagonistic effects of Escherichia coli F17 on lamb spleens. PMID:30410073
New insights into the evolution and functional divergence of the SWEET family in Saccharum based on comparative genomics. PMID:30404601
Genome-wide identification and analysis of WD40 proteins in wheat (Triticum aestivum L.). PMID:30400808
Reviving Phage Therapy for the Treatment of Cholera. PMID:30395214
Comparative transcriptome analysis to elucidate the enhanced thermotolerance of tea plants (Camellia sinensis) treated with exogenous calcium. PMID:30392143
FOXRED1 silencing in mice: a possible animal model for Leigh syndrome. PMID:30392038
Genome-wide Identification, Classification, and Expression Pattern of Homeobox Gene Family in Brassica rapa under Various Stresses. PMID:30389998
Mining Late Embryogenesis Abundant (LEA) Family Genes in Cleistogenes songorica, a Xerophyte Perennial Desert Plant. PMID:30388835
A planarian nidovirus expands the limits of RNA genome size. PMID:30383829
Long-term investigation of microbial community composition and transcription patterns in a biogas plant undergoing ammonia crisis. PMID:30381904
RNA-Seq analysis of Polyrhachis vicina Roger and insights into the heat shock protein 90 and 70 families. PMID:30377954
Genome sequence of the cauliflower mushroom Sparassis crispa (Hanabiratake) and its association with beneficial usage. PMID:30375506
Microbial activity response to hydrogen injection in thermophilic anaerobic digesters revealed by genome-centric metatranscriptomics. PMID:30368244
Genomic and Transcriptomic Basis of Hanseniaspora vineae's Impact on Flavor Diversity and Wine Quality. PMID:30366992
Isolation and Genome Sequence Characterization of Bacteriophage vB_SalM_PM10, a Cba120virus, Concurrently Infecting Salmonella enterica Serovars Typhimurium, Typhi, and Enteritidis. PMID:30361843
The cellular economy of the Saccharomyces cerevisiae zinc proteome. PMID:30358795
Zinc Finger-Homeodomain Transcriptional Factors (ZHDs) in Upland Cotton (Gossypium hirsutum): Genome-Wide Identification and Expression Analysis in Fiber Development. PMID:30356782
The yeast GRASP Grh1 displays a high polypeptide backbone mobility along with an amyloidogenic behavior. PMID:30356074
Highly Continuous Genome Assembly of Eurasian Perch (Perca fluviatilis) Using Linked-Read Sequencing. PMID:30355765
Translational genomics and multi-omics integrated approaches as a useful strategy for crop breeding. PMID:30353370
Identification of the Acinetobacter baumannii Ribonuclease P Catalytic Subunit: Cleavage of a Target mRNA in the Presence of an External Guide Sequence. PMID:30349524
The chemodiversity of paddy soil dissolved organic matter correlates with microbial community at continental scales. PMID:30340631
In silico characterization of a novel putative aerotaxis chemosensory system in the myxobacterium, Corallococcus coralloides. PMID:30340510
A most wanted list of conserved microbial protein families with no known domains. PMID:30332487
Detection of virulence factors of South African Lactococcus garvieae isolated from rainbow trout, Oncorhynchus mykiss (Walbaum). PMID:30326716
Genome-Wide Identification and Transcriptional Regulation of Aquaporin Genes in Bread Wheat (Triticum aestivum L.) under Water Stress. PMID:30326657
Genome-wide identification of the fatty acid desaturases gene family in four Aspergillus species and their expression profile in Aspergillus oryzae. PMID:30324529
Landscape of alternative splicing in Capra_hircus. PMID:30310084
Domain architecture of BAF250a reveals the ARID and ARM-repeat domains with implication in function and assembly of the BAF remodeling complex. PMID:30307988
Genome-wide transcriptome profiling of transgenic hop (Humulus lupulus L.) constitutively overexpressing HlWRKY1 and HlWDR1 transcription factors. PMID:30305019
Transcriptomic analyses identify albino-associated genes of a novel albino tea germplasm 'Huabai 1'. PMID:30302258
The genome of the oyster Saccostrea offers insight into the environmental resilience of bivalves. PMID:30295708
Fire ant social chromosomes: Differences in number, sequence and expression of odorant binding proteins. PMID:30283649
A New Freshwater Cyanosiphovirus Harboring Integrase. PMID:30283423
FLIM-MAP: Gene Context Based Identification of Functional Modules in Bacterial Metabolic Pathways. PMID:30283416
A complete bioconversion cascade for dehalogenation and denitration by bacterial flavin-dependent enzymes. PMID:30282807
Computational design of chemogenetic and optogenetic split proteins. PMID:30279442
An Introduced Crop Plant Is Driving Diversification of the Virulent Bacterial Pathogen Erwinia tracheiphila. PMID:30279283
The Digestive System of the Two-Spotted Spider Mite, Tetranychus urticae Koch, in the Context of the Mite-Plant Interaction. PMID:30271412
The genome of common long-arm octopus Octopus minor. PMID:30256935
Genome-Wide Identification and Functional Analyses of the CRK Gene Family in Cotton Reveals GbCRK18 Confers Verticillium Wilt Resistance in Gossypium barbadense. PMID:30254650
Comparative Transcriptome Profiling of mRNA and lncRNA Related to Tail Adipose Tissues of Sheep. PMID:30250481
Genome-wide identification and characterization of CONSTANS-like gene family in radish (Raphanus sativus). PMID:30248137
Metabolic marker gene mining provides insight in global mcrA diversity and, coupled with targeted genome reconstruction, sheds further light on metabolic potential of the Methanomassiliicoccales. PMID:30245936
Tick galactosyltransferases are involved in α-Gal synthesis and play a role during Anaplasma phagocytophilum infection and Ixodes scapularis tick vector development. PMID:30242261
Structural and functional characterisation of the entry point to pyocyanin biosynthesis in Pseudomonas aeruginosa defines a new 3-deoxy-d-arabino-heptulosonate 7-phosphate synthase subclass. PMID:30242059
Factors Influencing Gene Family Size Variation Among Related Species in a Plant Family, Solanaceae. PMID:30239695
Transcriptome Sequencing and Metabolism Analysis Reveals the role of Cyanidin Metabolism in Dark-red Onion (Allium cepa L.) Bulbs. PMID:30237461
Loss of the Spinocerebellar Ataxia type 3 disease protein ATXN3 alters transcription of multiple signal transduction pathways. PMID:30231063
Discovery of microRNA-like RNAs during early fruiting body development in the model mushroom Coprinopsis cinerea. PMID:30231028
Genome-wide identification of tissue-specific long non-coding RNA in three farm animal species. PMID:30227846
Identification of Missing Carbon Fixation Enzymes as Potential Drug Targets in Mycobacterium Tuberculosis. PMID:30218604
A comprehensive manually-curated compendium of bovine transcription factors. PMID:30213987
Successive Domain Rearrangements Underlie the Evolution of a Regulatory Module Controlled by a Small Interfering Peptide. PMID:30203071
Deciphering evolutionary dynamics of SWEET genes in diverse plant lineages. PMID:30194417
Global Long Noncoding RNA and mRNA Expression Changes between Prenatal and Neonatal Lung Tissue in Pigs. PMID:30189656
Distinct Genomic Features Characterize Two Clades of Corynebacterium diphtheriae: Proposal of Corynebacterium diphtheriae Subsp. diphtheriae Subsp. nov. and Corynebacterium diphtheriae Subsp. lausannense Subsp. nov. PMID:30174653
An F-type lectin domain directs the activity of Streptosporangium roseum alpha-l-fucosidase. PMID:30169639
Shared Transcriptional Control and Disparate Gain and Loss of Aphid Parasitism Genes. PMID:30165560
A gene-rich fraction analysis of the Passiflora edulis genome reveals highly conserved microsyntenic regions with two related Malpighiales species. PMID:30158558
A multi-source domain annotation pipeline for quantitative metagenomic and metatranscriptomic functional profiling. PMID:30153857
A standardized bacterial taxonomy based on genome phylogeny substantially revises the tree of life. PMID:30148503
Assessing the partners of the RBP9-mRNP complex in Trypanosoma cruzi using shotgun proteomics and RNA-seq. PMID:30146924
Evolutionary, structural and expression analysis of core genes involved in starch synthesis. PMID:30143668
Transcriptomic Analysis of Aedes aegypti in Response to Mosquitocidal Bacillus thuringiensis LLP29 Toxin. PMID:30140020
Designing bacterial signaling interactions with coevolutionary landscapes. PMID:30125296
Holistic Assessment of Rumen Microbiome Dynamics through Quantitative Metatranscriptomics Reveals Multifunctional Redundancy during Key Steps of Anaerobic Feed Degradation. PMID:30116788
In Vivo Analysis of miR-34a Regulated Glucose Metabolism Related Genes in Megalobrama amblycephala. PMID:30115855
Polysaccharide utilization loci of North Sea Flavobacteriia as basis for using SusC/D-protein expression for predicting major phytoplankton glycans. PMID:30111868
Biology and genome of a newly discovered sibling species of Caenorhabditis elegans. PMID:30097582
Cyclic Enterobacterial Common Antigen Maintains the Outer Membrane Permeability Barrier of Escherichia coli in a Manner Controlled by YhdP. PMID:30087168
Conducting metagenomic studies in microbiology and clinical research. PMID:30078138
Diversity and Evolution of Myxobacterial Type IV Pilus Systems. PMID:30072980
Related Endogenous Retrovirus-K Elements Harbor Distinct Protease Active Site Motifs. PMID:30072963
Tangled history of a multigene family: The evolution of ISOPENTENYLTRANSFERASE genes. PMID:30070990
Lipase maturation factor 1 affects redox homeostasis in the endoplasmic reticulum. PMID:30068531
Gonadal transcriptome sequencing of the critically endangered Acipenser dabryanus to discover candidate sex-related genes. PMID:30065900
Pan-Cancer Analysis Reveals the Functional Importance of Protein Lysine Modification in Cancer Development. PMID:30065750
Comparative genomics and the nature of placozoan species. PMID:30063702
Genome-Wide Identification of NBS-Encoding Resistance Genes in Sunflower (Helianthus annuus L.). PMID:30061549
High resolution annotation of zebrafish transcriptome using long-read sequencing. PMID:30061115
Genome-wide analysis of ATP binding cassette (ABC) transporters in tomato. PMID:30048467
Evolutionary cell biology traces the rise of the exomer complex in Fungi from an ancient eukaryotic component. PMID:30042439
Full-length transcriptome sequences and the identification of putative genes for flavonoid biosynthesis in safflower. PMID:30041604
Anomalies in the valve morphogenesis of the centric diatom alga Aulacoseira islandica caused by microtubule inhibitors. PMID:30037970
Antennal transcriptome analysis of the chemosensory gene families in Carposina sasakii (Lepidoptera: Carposinidae). PMID:30029592
Genome-wide analysis of genes encoding core components of the ubiquitin system in soybean (Glycine max) reveals a potential role for ubiquitination in host immunity against soybean cyst nematode. PMID:30021519
Bacterial sensing: A putative amphipathic helix in RsiV is the switch for activating σV in response to lysozyme. PMID:30020925
Analysis of codon usage patterns in Hirudinaria manillensis reveals a preference for GC-ending codons caused by dominant selection constraints. PMID:30016953
Transcriptional profiling and genes involved in acquired thermotolerance in Banana: a non-model crop. PMID:30013168
Genome-Guided Characterization of Ochrobactrum sp. POC9 Enhancing Sewage Sludge Utilization-Biotechnological Potential and Biosafety Considerations. PMID:30013002
Spatial Distribution and Diverse Metabolic Functions of Lignocellulose-Degrading Uncultured Bacteria as Revealed by Genome-Centric Metagenomics. PMID:30006398
A Pathogen-Responsive Leucine Rich Receptor Like Kinase Contributes to Fusarium Resistance in Cereals. PMID:29997638
Independent losses of a xenobiotic receptor across teleost evolution. PMID:29991818
Analysis of the Coding and Non-Coding RNA Transcriptomes in Response to Bell Pepper Chilling. PMID:29987249
Genome Sequencing and analyses of Two Marine Fungi from the North Sea Unraveled a Plethora of Novel Biosynthetic Gene Clusters. PMID:29976990
Expansion and evolutionary patterns of GDSL-type esterases/lipases in Rosaceae genomes. PMID:29948460
Whole body transcriptomes and new insights into the biology of the tick Ixodes ricinus. PMID:29941016
Proteome-wide analysis of human motif-domain interactions mapped on influenza a virus. PMID:29940841
Functional annotation of hypothetical proteins from the Exiguobacterium antarcticum strain B7 reveals proteins involved in adaptation to extreme environments, including high arsenic resistance. PMID:29940001
A subregion-based burden test for simultaneous identification of susceptibility loci and subregions within. PMID:29931698
MinOmics, an Integrative and Immersive Tool for Multi-Omics Analysis. PMID:29927748
Novel Fungal Pathogenicity and Leaf Defense Strategies Are Revealed by Simultaneous Transcriptome Analysis of Colletotrichum fructicola and Strawberry Infected by This Fungus. PMID:29922301
Identification and Characterization of Genes Involved in Benzylisoquinoline Alkaloid Biosynthesis in Coptis Species. PMID:29915609
Mycobacterium terramassiliense, Mycobacterium rhizamassiliense and Mycobacterium numidiamassiliense sp. nov., three new Mycobacterium simiae complex species cultured from plant roots. PMID:29915369
Oak genome reveals facets of long lifespan. PMID:29915331
Genome-wide identification, expansion, and evolution analysis of homeobox genes and their expression profiles during root development in carrot. PMID:29909521
The Evolutionary Consequences of Transposon-Related Pericentromer Expansion in Melon. PMID:29901717
Whole-Transcriptome Sequence Analysis of Verbena bonariensis in Response to Drought Stress. PMID:29899256
BioSankey: Visualization of Microbial Communities Over Time. PMID:29897884
The Human Virome Protein Cluster Database (HVPC): A Human Viral Metagenomic Database for Diversity and Function Annotation. PMID:29896176
Comprehensive analysis of Verticillium nonalfalfae in silico secretome uncovers putative effector proteins expressed during hop invasion. PMID:29894496
SEVENS: a database for comprehensive GPCR genes obtained from genomes: -Update to 68 eukaryotes. PMID:29892516
Characterization of C-ring component assembly in flagellar motors from amino acid coevolution. PMID:29892378
Investigating the Molecular Genetic Basis of Cytoplasmic Sex Determination Caused by Wolbachia Endosymbionts in Terrestrial Isopods. PMID:29890648
Structural and Dynamic Properties of Allergen and Non-Allergen Forms of Tropomyosin. PMID:29887498
Wireless control of cellular function by activation of a novel protein responsive to electromagnetic fields. PMID:29884813
Reconstruction of the Bifidobacterial Pan-Secretome Reveals the Network of Extracellular Interactions between Bifidobacteria and the Infant Gut. PMID:29884754
Structural mechanism of AadA, a dual-specificity aminoglycoside adenylyltransferase from Salmonella enterica. PMID:29871922
Disbiome database: linking the microbiome to disease. PMID:29866037
Genome-Wide Investigation and Expression Profiling of HD-Zip Transcription Factors in Foxtail Millet (Setaria italica L.). PMID:29862293
Genome-Wide Identification and Expression Analysis of the UGlcAE Gene Family in Tomato. PMID:29861481
Biochemical Characterization of Isoniazid-resistant Mycobacterium tuberculosis: Can the Analysis of Clonal Strains Reveal Novel Targetable Pathways? PMID:29844232
The effects of repeated whole genome duplication events on the evolution of cytokinin signaling pathway. PMID:29843594
The Auxiliary Role of the Amidase Domain in Cell Wall Binding and Exolytic Activity of Staphylococcal Phage Endolysins. PMID:29799482
Dietary aquaculture by-product hydrolysates: impact on the transcriptomic response of the intestinal mucosa of European seabass (Dicentrarchus labrax) fed low fish meal diets. PMID:29793421
Genomic and ecological study of two distinctive freshwater bacteriophages infecting a Comamonadaceae bacterium. PMID:29789681
Loci under selection and markers associated with host plant and host-related strains shape the genetic structure of Brazilian populations of Spodoptera frugiperda (Lepidoptera, Noctuidae). PMID:29787608
Phylogenomic analysis of Apoidea sheds new light on the sister group of bees. PMID:29776336
The Late Embryogenesis Abundant Protein Family in Cassava (Manihot esculenta Crantz): Genome-Wide Characterization and Expression during Abiotic Stress. PMID:29772750
Mutant phenotypes for thousands of bacterial genes of unknown function. PMID:29769716
Genomic and functional characterisation of IncX3 plasmids encoding blaSHV-12 in Escherichia coli from human and animal origin. PMID:29769695
Using WormBase: A Genome Biology Resource for Caenorhabditis elegans and Related Nematodes. PMID:29761466
Benzoxaborole treatment perturbs S-adenosyl-L-methionine metabolism in Trypanosoma brucei. PMID:29758036
Comparative in Silico Analysis of Ferric Reduction Oxidase (FRO) Genes Expression Patterns in Response to Abiotic Stresses, Metal and Hormone Applications. PMID:29757203
The Sucrose Synthase Gene Family in Chinese Pear (Pyrus bretschneideri Rehd.): Structure, Expression, and Evolution. PMID:29751599
Whole genome and transcriptome analysis reveal adaptive strategies and pathogenesis of Calonectria pseudoreteaudii to Eucalyptus. PMID:29747580
Lessons from my undergraduate research students. PMID:29743235
Comprehensive analyses of the BES1 gene family in Brassica napus and examination of their evolutionary pattern in representative species. PMID:29743014
A bipartite periplasmic receptor-diguanylate cyclase pair (XAC2383-XAC2382) in the bacterium Xanthomonas citri. PMID:29728456
A Fungal P450 Enzyme from Thanatephorus cucumeris with Steroid Hydroxylation Capabilities. PMID:29728383
Genome-wide expert annotation of the epigenetic machinery of the plant-parasitic nematodes Meloidogyne spp., with a focus on the asexually reproducing species. PMID:29724186
Dissecting Structure-Encoded Determinants of Allosteric Cross-Talk between Post-Translational Modification Sites in the Hsp90 Chaperones. PMID:29720613
Overexpressed HDAC8 in cervical cancer cells shows functional redundancy of tubulin deacetylation with HDAC6. PMID:29716651
Adaptations in energy metabolism and gene family expansions revealed by comparative transcriptomics of three Chagas disease triatomine vectors. PMID:29699489
Signatures of DNA Methylation across Insects Suggest Reduced DNA Methylation Levels in Holometabola. PMID:29697817
Metaproteogenomic Profiling of Microbial Communities Colonizing Actively Venting Hydrothermal Chimneys. PMID:29696004
The Phytophthora cactorum genome provides insights into the adaptation to host defense compounds and fungicides. PMID:29695739
Ectopic Expression of the ydaS and ydaT Genes of the Cryptic Prophage Rac of Escherichia coli K-12 May Be Toxic but Do They Really Encode Toxins?: a Case for Using Genetic Context To Understand Function. PMID:29695625
Elucidation of the anti-hyperammonemic mechanism of Lactobacillus amylovorus JBD401 by comparative genomic analysis. PMID:29695242
De Novo Sequencing of a Sparassis latifolia Genome and Its Associated Comparative Analyses. PMID:29682127
Hypoxia enhances lignification and affects the anatomical structure in hydroponic cultivation of carrot taproot. PMID:29680943
The architecture of an empirical genotype-phenotype map. PMID:29676774
NIPS, a 3D network-integrated predictor of deleterious protein SAPs, and its application in cancer prognosis. PMID:29662108
Draft genome of the protandrous Chinese black porgy, Acanthopagrus schlegelii. PMID:29659813
Systematic reconstruction of autism biology from massive genetic mutation profiles. PMID:29651456
Genome wide analysis of the transition to pathogenic lifestyles in Magnaporthales fungi. PMID:29651164
Cameroonian fruit bats harbor divergent viruses, including rotavirus H, bastroviruses, and picobirnaviruses using an alternative genetic code. PMID:29644096
Characterization of a New Staphylococcus aureus Kayvirus Harboring a Lysin Active against Biofilms. PMID:29642449
Characterization of lncRNAs involved in cold acclimation of zebrafish ZF4 cells. PMID:29634734
Oligotrophic wetland sediments susceptible to shifts in microbiomes and mercury cycling with dissolved organic matter addition. PMID:29632744
The Novel Secreted Meloidogyne incognita Effector MiISE6 Targets the Host Nucleus and Facilitates Parasitism in Arabidopsis. PMID:29628931
A novel method for improved accuracy of transcription factor binding site prediction. PMID:29617876
Phylogenomic and comparative analysis of the distribution and regulatory patterns of TPP riboswitches in fungi. PMID:29615754
Genome-Wide Identification of the Alba Gene Family in Plants and Stress-Responsive Expression of the Rice Alba Genes. PMID:29597290
Genomic epidemiology of the UK outbreak of the emerging human fungal pathogen Candida auris. PMID:29593275
HMMER Cut-off Threshold Tool (HMMERCTTER): Supervised classification of superfamily protein sequences with a reliable cut-off threshold. PMID:29579071
A Reference Viral Database (RVDB) To Enhance Bioinformatics Analysis of High-Throughput Sequencing for Novel Virus Detection. PMID:29564396
Screening of Genes Related to Early and Late Flowering in Tree Peony Based on Bulked Segregant RNA Sequencing and Verification by Quantitative Real-Time PCR. PMID:29562683
Transcriptome Analysis of Epithelioma Papulosum Cyprini Cells Infected by Reovirus Isolated from Allogynogenetic Silver Crucian Carp. PMID:29562634
Genome-Wide Identification and Characterization of Long Non-Coding RNA in Wheat Roots in Response to Ca2+ Channel Blocker. PMID:29559983
Genome-Wide Analysis Characterization and Evolution of SBP Genes in Fragaria vesca, Pyrus bretschneideri, Prunus persica and Prunus mume. PMID:29552026
Cas13d Is a Compact RNA-Targeting Type VI CRISPR Effector Positively Modulated by a WYL-Domain-Containing Accessory Protein. PMID:29551514
Transcriptomic analysis of transgressive segregants revealed the central role of photosynthetic capacity and efficiency in biomass accumulation in sugarcane. PMID:29535363
Genome-Wide Analysis of the PYL Gene Family and Identification of PYL Genes That Respond to Abiotic Stress in Brassica napus. PMID:29534558
TryTransDB: A web-based resource for transport proteins in Trypanosomatidae. PMID:29531295
Genome-wide identification and characterization of Dof transcription factors in eggplant (Solanum melongena L.). PMID:29527420
Heterologous expression of kiwifruit (Actinidia chinensis) GOLDEN2-LIKE homolog elevates chloroplast level and nutritional quality in tomato (Solanum lycopersicum). PMID:29520458
Dynamin-Like Proteins Are Potentially Involved in Membrane Dynamics within Chloroplasts and Cyanobacteria. PMID:29520287
Identification of proteins interacting with the mitochondrial small heat shock protein Hsp22 of Drosophila melanogaster: Implication in mitochondrial homeostasis. PMID:29509794
Complete avian malaria parasite genomes reveal features associated with lineage-specific evolution in birds and mammals. PMID:29500236
The genome sequence of 'Kurodagosun', a major carrot variety in Japan and China, reveals insights into biological research and carrot breeding. PMID:29497811
Improving eukaryotic genome annotation using single molecule mRNA sequencing. PMID:29495964
Assembly of 913 microbial genomes from metagenomic sequencing of the cow rumen. PMID:29491419
Different Modes of Gene Duplication Show Divergent Evolutionary Patterns and Contribute Differently to the Expansion of Gene Families Involved in Important Fruit Traits in Pear (Pyrus bretschneideri). PMID:29487610
c-di-GMP Regulates Various Phenotypes and Insecticidal Activity of Gram-Positive Bacillus thuringiensis. PMID:29487570
Microbial effects of part-stream low-frequency ultrasonic pretreatment on sludge anaerobic digestion as revealed by high-throughput sequencing-based metagenomics and metatranscriptomics. PMID:29483940
A family of unconventional deubiquitinases with modular chain specificity determinants. PMID:29476094
Evolution, functional differentiation, and co-expression of the RLK gene family revealed in Jilin ginseng, Panax ginseng C.A. Meyer. PMID:29468273
Expanded diversity of microbial groups that shape the dissimilatory sulfur cycle. PMID:29467397
Whole-Genome Analysis Illustrates Global Clonal Population Structure of the Ubiquitous Dermatophyte Pathogen Trichophyton rubrum. PMID:29467168
Genes sharing the protein family domain decrease the performance of classification with RNA-seq genomic signatures. PMID:29467011
Involvement of an ABI-like protein and a Ca2+-ATPase in drought tolerance as revealed by transcript profiling of a sweetpotato somatic hybrid and its parents Ipomoea batatas (L.) Lam. and I. triloba L. PMID:29466419
De Novo Assembly and Phasing of Dikaryotic Genomes from Two Isolates of Puccinia coronata f. sp. avenae, the Causal Agent of Oat Crown Rust. PMID:29463655
Characterization of viral RNA splicing using whole-transcriptome datasets from host species. PMID:29459752
Identification of genetic variants for clinical management of familial colorectal tumors. PMID:29458332
pMEX01, a 70kb plasmid isolated from Escherichia coli that confers resistance to multiple β-lactam antibiotics. PMID:29449172
Genome-wide differential expression profiling of mRNAs and lncRNAs associated with prolificacy in Hu sheep. PMID:29439142
A putative RNA binding protein from Plasmodium vivax apicoplast. PMID:29435408
Candidatus Nitrosocaldus cavascurensis, an Ammonia Oxidizing, Extremely Thermophilic Archaeon with a Highly Mobile Genome. PMID:29434576
Giant fish-killing water bug reveals ancient and dynamic venom evolution in Heteroptera. PMID:29427076
Genome-Wide Identification and Characterization of WD40 Protein Genes in the Silkworm, Bombyx mori. PMID:29425159
Cladogenesis and Genomic Streamlining in Extracellular Endosymbionts of Tropical Stink Bugs. PMID:29420776
The Novel Phages phiCD5763 and phiCD2955 Represent Two Groups of Big Plasmidial Siphoviridae Phages of Clostridium difficile. PMID:29403466
SMRT sequencing of full-length transcriptome of flea beetle Agasicles hygrophila (Selman and Vogt). PMID:29396453
Comparative transcriptome analysis reveals molecular response to salinity stress of salt-tolerant and sensitive genotypes of indica rice at seedling stage. PMID:29391416
A model species for agricultural pest genomics: the genome of the Colorado potato beetle, Leptinotarsa decemlineata (Coleoptera: Chrysomelidae). PMID:29386578
Transcriptome profiling of lentil (Lens culinaris) through the first 24 hours of Ascochyta lentis infection reveals key defence response genes. PMID:29385986
A presumed homologue of the regulatory subunits of eIF2B functions as ribose-1,5-bisphosphate isomerase in Pyrococcus horikoshii OT3. PMID:29382938
A statistical model for improved membrane protein expression using sequence-derived features. PMID:29378850
Transcriptomic characterization and potential marker development of contrasting sugarcane cultivars. PMID:29374206
mRNA export in the apicomplexan parasite Toxoplasma gondii: emerging divergent components of a crucial pathway. PMID:29370868
Functional metagenomics identifies novel genes ABCTPP, TMSRP1 and TLSRP1 among human gut enterotypes. PMID:29362424
Function, distribution, and annotation of characterized cellulases, xylanases, and chitinases from CAZy. PMID:29359269
Altered chemomechanical coupling causes impaired motility of the kinesin-4 motors KIF27 and KIF7. PMID:29351996
Expansion of cytochrome P450 and cathepsin genes in the generalist herbivore brown marmorated stink bug. PMID:29347977
Genomic Identification and Functional Characterization of Essential Genes in Caenorhabditis elegans. PMID:29339407
Genome-wide identification and characterization of SPL transcription factor family and their evolution and expression profiling analysis in cotton. PMID:29335584
A multi-omics study of the grapevine-downy mildew (Plasmopara viticola) pathosystem unveils a complex protein coding- and noncoding-based arms race during infection. PMID:29335535
Structure, function and evolution of the hemerythrin-like domain superfamily. PMID:29330894
A-GAME: improving the assembly of pooled functional metagenomics sequence data. PMID:29329522
Genomic insights into the Acidobacteria reveal strategies for their success in terrestrial environments. PMID:29327410
Relationship between histone modifications and transcription factor binding is protein family specific. PMID:29326300
Listeria monocytogenes Induces a Virulence-Dependent microRNA Signature That Regulates the Immune Response in Galleria mellonella. PMID:29312175
Discovering viral genomes in human metagenomic data by predicting unknown protein families. PMID:29311716
Identification of regenerative roadblocks via repeat deployment of limb regeneration in axolotls. PMID:29302364
dBBQs: dataBase of Bacterial Quality scores. PMID:29297289
Genomics of Clostridium taeniosporum, an organism which forms endospores with ribbon-like appendages. PMID:29293521
Transcriptional Response to Lactic Acid Stress in the Hybrid Yeast Zygosaccharomyces parabailii. PMID:29269498
Roles of Staphylococcus aureus Mnh1 and Mnh2 Antiporters in Salt Tolerance, Alkali Tolerance, and Pathogenesis. PMID:29263099
Identification of long non-coding RNAs in the immature and mature rat anterior pituitary. PMID:29259254
Progressive loss of hybrid histidine kinase genes during the evolution of budding yeasts (Saccharomycotina). PMID:29249052
Prediction of cassava protein interactome based on interolog method. PMID:29222529
Tracking the Taxonomy of the Genus Bifidobacterium Based on a Phylogenomic Approach. PMID:29222102
A Molecular Portrait of De Novo Genes in Yeasts. PMID:29220506
AllerBase: a comprehensive allergen knowledgebase. PMID:29220458
A multi-network clustering method for detecting protein complexes from multiple heterogeneous networks. PMID:29219066
Genome-wide analysis of the Brachypodium distachyon (L.) P. Beauv. Hsp90 gene family reveals molecular evolution and expression profiling under drought and salt stresses. PMID:29216330
Characterization of a membrane-bound C-glucosyltransferase responsible for carminic acid biosynthesis in Dactylopius coccus Costa. PMID:29215010
Mountain hare transcriptome and diagnostic markers as resources to monitor hybridization with European hares. PMID:29206218
In Vitro Biosynthetic Studies of Bottromycin Expand the Enzymatic Capabilities of the YcaO Superfamily. PMID:29200283
Intrinsic Disorder in Proteins with Pathogenic Repeat Expansions. PMID:29186753
Integrating sequence and gene expression information predicts genome-wide DNA-binding proteins and suggests a cooperative mechanism. PMID:29186632
Diversity-generating retroelements: natural variation, classification and evolution inferred from a large-scale genomic survey. PMID:29186518
Improving amphibian genomic resources: a multitissue reference transcriptome of an iconic invader. PMID:29186423
Clec16a, Nrdp1, and USP8 Form a Ubiquitin-Dependent Tripartite Complex That Regulates β-Cell Mitophagy. PMID:29180353
Whole transcriptome RNA-Seq analysis reveals extensive cell type-specific compartmentalization in Volvox carteri. PMID:29179763
A Two-State Model of Tree Evolution and Its Applications to Alu Retrotransposition. PMID:29165679
Identification of MsHsp20 Gene Family in Malus sieversii and Functional Characterization of MsHsp16.9 in Heat Tolerance. PMID:29163556
In Silico Analysis of Putrefaction Pathways in Bacteria and Its Implication in Colorectal Cancer. PMID:29163445
Sugar Metabolism of the First Thermophilic Planctomycete Thermogutta terrifontis: Comparative Genomic and Transcriptomic Approaches. PMID:29163426
Cloning and Molecular Characterization of an Alpha-Glucosidase (MalH) from the Halophilic Archaeon Haloquadratum walsbyi. PMID:29160840
Comparative Genomics of Myxobacterial Chemosensory Systems. PMID:29158239
Genomic, Transcriptomic, and Phenotypic Analyses of Neisseria meningitidis Isolates from Disease Patients and Their Household Contacts. PMID:29152586
Interplay of neuronal and non-neuronal genes regulates intestinal DAF-16-mediated immune response during Fusarium infection of Caenorhabditis elegans. PMID:29152379
Differential regulation of mRNAs and lncRNAs related to lipid metabolism in two pig breeds. PMID:29152100
The Membrane Attack Complex/Perforin Superfamily. PMID:29145176
A high-resolution mRNA expression time course of embryonic development in zebrafish. PMID:29144233
Transcriptome profiling of claw muscle of the mud crab (Scylla paramamosain) at different fattening stages. PMID:29141033
Visualizing the GPCR Network: Classification and Evolution. PMID:29138525
Genome-wide analysis and functional prediction of long non-coding RNAs in mouse uterus during the implantation window. PMID:29137430
Assigning chemoreceptors to chemosensory pathways in Pseudomonas aeruginosa. PMID:29133402
Comprehensive genomic analysis of the CNGC gene family in Brassica oleracea: novel insights into synteny, structures, and transcript profiles. PMID:29132315
Automated visualization of rule-based models. PMID:29131816
Evolutionary Epigenomics of Retrotransposon-Mediated Methylation Spreading in Rice. PMID:29126199
Sequencing and De Novo Assembly of the Toxicodendron radicans (Poison Ivy) Transcriptome. PMID:29125533
Targeted Gene Sequencing of Gallbladder Carcinoma Identifies High-impact Somatic and Rare Germline Mutations. PMID:29109099
Vitamin and Amino Acid Auxotrophy in Anaerobic Consortia Operating under Methanogenic Conditions. PMID:29104938
Identification of Trans-4-Hydroxy-L-Proline as a Compatible Solute and Its Biosynthesis and Molecular Characterization in Halobacillus halophilus. PMID:29104571
KIXBASE: A comprehensive web resource for identification and exploration of KIX domains. PMID:29097748
The MAPKKK gene family in cassava: Genome-wide identification and expression analysis against drought stress. PMID:29097722
Ensemble-based modeling and rigidity decomposition of allosteric interaction networks and communication pathways in cyclin-dependent kinases: Differentiating kinase clients of the Hsp90-Cdc37 chaperone. PMID:29095844
Insertion sequence polymorphism and genomic rearrangements uncover hidden Wolbachia diversity in Drosophila suzukii and D. subpulchrella. PMID:29093474
Intrinsically disordered linkers determine the interplay between phase separation and gelation in multivalent proteins. PMID:29091028
Proton-solute coupling mechanism of the maltose transporter from Saccharomyces cerevisiae. PMID:29084970
Extensive gene tree discordance and hemiplasy shaped the genomes of North American columnar cacti. PMID:29078296
The Role of Cytoplasmic mRNA Cap-Binding Protein Complexes in Trypanosoma brucei and Other Trypanosomatids. PMID:29077018
Mutator genomes decay, despite sustained fitness gains, in a long-term experiment with bacteria. PMID:29073099
A sensitive short read homology search tool for paired-end read sequencing data. PMID:29072140
Fusing multiple protein-protein similarity networks to effectively predict lncRNA-protein interactions. PMID:29072138
Functional classification of protein toxins as a basis for bioinformatic screening. PMID:29066768
In silico methods for linking genes and secondary metabolites: The way forward. PMID:29062931
How to normalize metatranscriptomic count data for differential expression analysis. PMID:29062598
A genome-wide analysis of the small auxin-up RNA (SAUR) gene family in cotton. PMID:29061116
Metagenomic Analysis of Microbial Diversity in Landfill Lysimeter Soil of Ghazipur Landfill Site, New Delhi, India. PMID:29051248
An integrative in-silico approach for therapeutic target identification in the human pathogen Corynebacterium diphtheriae. PMID:29049350
High-quality-draft genomic sequence of Paenibacillus ferrarius CY1T with the potential to bioremediate Cd, Cr and Se contamination. PMID:29046739
Wax Ester Synthase/Diacylglycerol Acyltransferase Isoenzymes Play a Pivotal Role in Wax Ester Biosynthesis in Euglena gracilis. PMID:29044218
Global Identification, Classification, and Expression Analysis of MAPKKK genes: Functional Characterization of MdRaf5 Reveals Evolution and Drought-Responsive Profile in Apple. PMID:29044159
Analysis of the genome of the New Zealand giant collembolan (Holacanthella duospinosa) sheds light on hexapod evolution. PMID:29041914
Transcriptomic Analysis of Long Non-Coding RNAs and Coding Genes Uncovers a Complex Regulatory Network That Is Involved in Maize Seed Development. PMID:29039813
Transcript expression plasticity as a response to alternative larval host plants in the speciation process of corn and rice strains of Spodoptera frugiperda. PMID:29037161
PixelDB: Protein-peptide complexes annotated with structural conservation of the peptide binding mode. PMID:29024246
Genome-wide characterization, evolution, and expression analysis of the leucine-rich repeat receptor-like protein kinase (LRR-RLK) gene family in Rosaceae genomes. PMID:29017442
Genetic variants affecting equivalent protein family positions reflect human diversity. PMID:28986545
Multiple hybrid de novo genome assembly of finger millet, an orphan allotetraploid crop. PMID:28985356
Genome sequencing and comparative genomics reveal the potential pathogenic mechanism of Cercospora sojina Hara on soybean. PMID:28985305
RNA-Seq Analysis Provides the First Insights into the Phylogenetic Relationship and Interspecific Variation between Agropyron cristatum and Wheat. PMID:28983310
Metagenomic Sequencing of Microbial Communities from Brackish Water of Pangong Lake of the Northwest Indian Himalayas. PMID:28982995
An archaeal RNA binding protein, FAU-1, is a novel ribonuclease related to rRNA stability in Pyrococcus and Thermococcus. PMID:28978920
Alignment-free sequence comparison: benefits, applications, and tools. PMID:28974235
Comparative Genomics of Non-TNL Disease Resistance Genes from Six Plant Species. PMID:28973974
Association Between Gut Microbiota and Bone Health: Potential Mechanisms and Prospective. PMID:28973392
Ant-infecting Ophiocordyceps genomes reveal a high diversity of potential behavioral manipulation genes and a possible major role for enterotoxins. PMID:28970504
HUMA: A platform for the analysis of genetic variation in humans. PMID:28967693
Genome-wide analysis of potential cross-reactive endogenous allergens in rice (Oryza sativa L.). PMID:28962466
Identification and expression of GRAS family genes in maize (Zea mays L.). PMID:28957440
Global Survey and Genome Exploration of Bacteriophages Infecting the Lactic Acid Bacterium Streptococcus thermophilus. PMID:28955321
Strains, functions and dynamics in the expanded Human Microbiome Project. PMID:28953883
Insights on Osmotic Tolerance Mechanisms in Escherichia coli Gained from an rpoC Mutation. PMID:28952540
Thiamine Acquisition Strategies Impact Metabolism and Competition in the Gut Microbe Bacteroides thetaiotaomicron. PMID:28951891
A single point mutation in a TssB/VipA homolog disrupts sheath formation in the type VI secretion system of Proteus mirabilis. PMID:28949977
Contribution of single amino acid and codon substitutions to the production and secretion of a lipase by Bacillus subtilis. PMID:28946879
Mycoviruses in Aspergilli: A Comprehensive Review. PMID:28932216
Genome sequence of the ectophytic fungus Ramichloridium luteum reveals unique evolutionary adaptations to plant surface niche. PMID:28915794
Tremblaya phenacola PPER: an evolutionary beta-gammaproteobacterium collage. PMID:28914880
Comparative Genomic Analysis of the Human Gut Microbiome Reveals a Broad Distribution of Metabolic Pathways for the Degradation of Host-Synthetized Mucin Glycans and Utilization of Mucin-Derived Monosaccharides. PMID:28912798
Genomic and transcriptomic analysis of the toluene degrading black yeast Cladophialophora immunda. PMID:28900256
Long noncoding RNAs in the model species Brachypodium distachyon. PMID:28900227
De Novo Assembly and Analysis of Polygonatum sibiricum Transcriptome and Identification of Genes Involved in Polysaccharide Biosynthesis. PMID:28895881
A Preliminary List of Horizontally Transferred Genes in Prokaryotes Determined by Tree Reconstruction and Reconciliation. PMID:28894459
The dynamic landscape of gene regulation during Bombyx mori oogenesis. PMID:28893182
Oxidative cyclization of prodigiosin by an alkylglycerol monooxygenase-like enzyme. PMID:28892091
Structural analyses of the Haemophilus influenzae peptidoglycan synthase activator LpoA suggest multiple conformations in solution. PMID:28887305
Evidence-based gene models for structural and functional annotations of the oil palm genome. PMID:28886750
Clustal Omega for making accurate alignments of many protein sequences. PMID:28884485
Prokaryotic and Highly-Repetitive WD40 Proteins: A Systematic Study. PMID:28878378
FunctionAnnotator, a versatile and efficient web tool for non-model organism annotation. PMID:28874813
Comparative secretome analysis of Rhizoctonia solani isolates with different host ranges reveals unique secretomes and cell death inducing effectors. PMID:28874693
Myosin repertoire expansion coincides with eukaryotic diversification in the Mesoproterozoic era. PMID:28870165
Potential Roles of Intrinsic Disorder in Maternal-Effect Proteins Involved in the Maintenance of DNA Methylation. PMID:28869544
Regulation of Noncoding Transcriptome in Developing Photoreceptors by Rod Differentiation Factor NRL. PMID:28863214
Ixodes scapularis Tick Cells Control Anaplasma phagocytophilum Infection by Increasing the Synthesis of Phosphoenolpyruvate from Tyrosine. PMID:28861402
Protein-Protein Interactions in Virus-Host Systems. PMID:28861068
Structural and Functional View of Polypharmacology. PMID:28860623
Phylogeny and expression pattern analysis of TCP transcription factors in cassava seedlings exposed to cold and/or drought stress. PMID:28855620
Functional Analogy in Human Metabolism: Enzymes with Different Biological Roles or Functional Redundancy? PMID:28854631
Using ALoFT to determine the impact of putative loss-of-function variants in protein-coding genes. PMID:28851873
Alternaria Toxins: Potential Virulence Factors and Genes Related to Pathogenesis. PMID:28848500
Modelling of microbial polyhydroxyalkanoate surface binding protein PhaP for rational mutagenesis. PMID:28840964
An integrated bioinformatics platform for investigating the human E3 ubiquitin ligase-substrate interaction network. PMID:28839186
Draft genome sequence of the halophilic Halobacillus mangrovi KTB 131 isolated from Topan salt of the Jeon-nam in Korea. PMID:28831380
Identification of candidate genes involved in isoquinoline alkaloids biosynthesis in Dactylicapnos scandens by transcriptome analysis. PMID:28831066
Monte Carlo simulation of a statistical mechanical model of multiple protein sequence alignment. PMID:28828285
Host-derived viral transporter protein for nitrogen uptake in infected marine phytoplankton. PMID:28827361
Cancerouspdomains: comprehensive analysis of cancer type-specific recurrent somatic mutations in proteins and domains. PMID:28814324
Screening drug-target interactions with positive-unlabeled learning. PMID:28808275
ePlant: Visualizing and Exploring Multiple Levels of Data for Hypothesis Generation in Plant Biology. PMID:28808136
High resolution measurement of DUF1220 domain copy number from whole genome sequence data. PMID:28807002
Neurodevelopmental Disorders Caused by De Novo Variants in KCNB1 Genotypes and Phenotypes. PMID:28806457
Chemical dispersants enhance the activity of oil- and gas condensate-degrading marine bacteria. PMID:28800137
Polymorphism and structure of style-specific arabinogalactan proteins as determinants of pollen tube growth in Nicotiana. PMID:28797243
The genetic architecture of amylose biosynthesis in maize kernel. PMID:28796926
A clinician's guide to microbiome analysis. PMID:28790452
Co-evolution techniques are reshaping the way we do structural bioinformatics. PMID:28781768
Virome comparisons in wild-diseased and healthy captive giant pandas. PMID:28780905
First report of cherry virus A infecting Prunus mume in South Korea. PMID:28770251
Neisseria lactamica Y92-1009 complete genome sequence. PMID:28770026
Global Gene Expression Analysis Reveals Crosstalk between Response Mechanisms to Cold and Drought Stresses in Cassava Seedlings. PMID:28769962
Comparative genomic and phylogenomic analyses of the Bifidobacteriaceae family. PMID:28764658
PhosphoPredict: A bioinformatics tool for prediction of human kinase-specific phosphorylation substrates and sites by integrating heterogeneous feature selection. PMID:28761071
The first phlebo-like virus infecting plants: a case study on the adaptation of negative-stranded RNA viruses to new hosts. PMID:28752569
BrEPS 2.0: Optimization of sequence pattern prediction for enzyme annotation. PMID:28750104
Suppressing a Putative Sterol Carrier Gene Reduces Plasmodesmal Permeability and Activates Sucrose Transporter Genes during Cotton Fiber Elongation. PMID:28747422
Investigating Protein Sequence-structure-dynamics Relationships with Bio3D-web. PMID:28745621
Transcriptomes and expression profiling of deep-sea corals from the Red Sea provide insight into the biology of azooxanthellate corals. PMID:28743941
Genome-wide comparative analysis of putative Pth11-related G protein-coupled receptors in fungi belonging to Pezizomycotina. PMID:28743231
Acylation of Superoxide Dismutase 1 (SOD1) at K122 Governs SOD1-Mediated Inhibition of Mitochondrial Respiration. PMID:28739857
Community detection in sequence similarity networks based on attribute clustering. PMID:28738060
Complete Genome Sequence of Campylobacter concisus ATCC 33237T and Draft Genome Sequences for an Additional Eight Well-Characterized C. concisus Strains. PMID:28729281
Major Novel QTL for Resistance to Cassava Bacterial Blight Identified through a Multi-Environmental Analysis. PMID:28725234
Assessment of genome annotation using gene function similarity within the gene neighborhood. PMID:28724412
Genome analysis of E. coli isolated from Crohn's disease patients. PMID:28724357
Draft Transcriptome of Globodera ellingtonae. PMID:28706310
Draft whole genome sequence of groundnut stem rot fungus Athelia rolfsii revealing genetic architect of its pathogenicity and virulence. PMID:28706242
Identification of long non-coding RNAs in two anthozoan species and their possible implications for coral bleaching. PMID:28706206
Identification, classification and transcriptional profiles of dirigent domain-containing proteins in sugarcane. PMID:28699001
DprA from Neisseria meningitidis: properties and role in natural competence for transformation. PMID:28696187
Draft Genome Sequences of the Antarctic Endolithic Fungi Rachicladosporium antarcticum CCFEE 5527 and Rachicladosporium sp. CCFEE 5018. PMID:28684563
Genome-Wide Identification and Comparative Analysis of Albumin Family in Vertebrates. PMID:28680266
Disruption of key NADH-binding pocket residues of the Mycobacterium tuberculosis InhA affects DD-CoA binding ability. PMID:28680153
Comparative analysis of lincRNA in insect species. PMID:28673235
Characterization of Sinorhizobium sp. LM21 Prophages and Virus-Encoded DNA Methyltransferases in the Light of Comparative Genomic Analyses of the Sinorhizobial Virome. PMID:28672885
Characterization of the emerging zoonotic pathogen Arcobacter thereius by whole genome sequencing and comparative genomics. PMID:28671965
Spatiotemporal profile of postsynaptic interactomes integrates components of complex brain disorders. PMID:28671696
Type VI Secretion Effectors: Methodologies and Biology. PMID:28664151
Transcription Factor Repertoire of Necrotrophic Fungal Phytopathogen Ascochyta rabiei: Predominance of MYB Transcription Factors As Potential Regulators of Secretome. PMID:28659964
Coping with living in the soil: the genome of the parthenogenetic springtail Folsomia candida. PMID:28659179
Exploring Components of the CO2-Concentrating Mechanism in Alkaliphilic Cyanobacteria Through Genome-Based Analysis. PMID:28652895
Genome-Wide Analysis of the PvHsp20 Family in Switchgrass: Motif, Genomic Organization, and Identification of Stress or Developmental-Related Hsp20s. PMID:28649264
Survey of High Throughput RNA-Seq Data Reveals Potential Roles for lncRNAs during Development and Stress Response in Bread Wheat. PMID:28649263
Genome analysis of Diploscapter coronatus: insights into molecular peculiarities of a nematode with parthenogenetic reproduction. PMID:28646875
A Computational Methodology to Overcome the Challenges Associated With the Search for Specific Enzyme Targets to Develop Drugs Against Leishmania major. PMID:28638238
Evolution of miRNA Tailing by 3' Terminal Uridylyl Transferases in Metazoa. PMID:28633361
Putative archaeal viruses from the mesopelagic ocean. PMID:28630803
The genome and phenome of the green alga Chloroidium sp. UTEX 3007 reveal adaptive traits for desert acclimatization. PMID:28623667
Alkene hydrogenation activity of enoate reductases for an environmentally benign biosynthesis of adipic acid. PMID:28616142
Pseudogymnoascus destructans transcriptome changes during white-nose syndrome infections. PMID:28614673
To be disordered or not to be disordered: is that still a question for proteins in the cell? PMID:28612216
Potentially pathogenic germline CHEK2 c.319+2T>A among multiple early-onset cancer families. PMID:28608266
Family-specific scaling laws in bacterial genomes. PMID:28605556
Plant cell wall glycosyltransferases: High-throughput recombinant expression screening and general requirements for these challenging enzymes. PMID:28598995
An Alcaligenes strain emulates Bacillus thuringiensis producing a binary protein that kills corn rootworm through a mechanism similar to Cry34Ab1/Cry35Ab1. PMID:28596570
Genome-wide survey of switchgrass NACs family provides new insights into motif and structure arrangements and reveals stress-related and tissue-specific NACs. PMID:28596552
Hybridization and polyploidy enable genomic plasticity without sex in the most devastating plant-parasitic nematodes. PMID:28594822
Duplication and Loss of Function of Genes Encoding RNA Polymerase III Subunit C4 Causes Hybrid Incompatibility in Rice. PMID:28592558
A Primer on Infectious Disease Bacterial Genomics. PMID:28590251
Lateral Gene Transfer Dynamics in the Ancient Bacterial Genus Streptomyces. PMID:28588130
Analysis of the lipid body proteome of the oleaginous alga Lobosphaera incisa. PMID:28587627
Proteases of Dermatophagoides pteronyssinus. PMID:28587273
Prediction of bioluminescent proteins by using sequence-derived features and lineage-specific scheme. PMID:28583090
Changes in the neuropeptide content of Biomphalaria ganglia nervous system following Schistosoma infection. PMID:28578678
Understanding the mechanisms of dormancy in an invasive alien Sycamore lace bug, Corythucha ciliata through transcript and metabolite profiling. PMID:28572631
De novo characterization of the pine aphid Cinara pinitabulaeformis Zhang et Zhang transcriptome and analysis of genes relevant to pesticides. PMID:28570707
A dual-strategy expression screen for candidate connectivity labels in the developing thalamus. PMID:28558017
Evolution of the Apicomplexan Sugar Transporter Gene Family Repertoire. PMID:28555190
Systems-wide Studies Uncover Commander, a Multiprotein Complex Essential to Human Development. PMID:28544880
SesameFG: an integrated database for the functional genomics of sesame. PMID:28539606
RNA-dependent chromatin association of transcription elongation factors and Pol II CTD kinases. PMID:28537551
Characterization of TRPA channels in the starfish Patiria pectinifera: involvement of thermally activated TRPA1 in thermotaxis in marine planktonic larvae. PMID:28526851
Genome Analysis of Conserved Dehydrin Motifs in Vascular Plants. PMID:28523013
GeMSTONE: orchestrated prioritization of human germline mutations in the cloud. PMID:28521008
Characterization of a secretory hydrolase from Mycobacterium tuberculosis sheds critical insight into host lipid utilization by M. tuberculosis. PMID:28515317
Architecture of the human interactome defines protein communities and disease networks. PMID:28514442
Genome-Wide Identification and Expression Analysis of the Biotin Carboxyl Carrier Subunits of Heteromeric Acetyl-CoA Carboxylase in Gossypium. PMID:28507552
Genome-wide identification of lncRNAs associated with chlorantraniliprole resistance in diamondback moth Plutella xylostella (L.). PMID:28506253
Analysis of CFB, a cytokinin-responsive gene of Arabidopsis thaliana encoding a novel F-box protein regulating sterol biosynthesis. PMID:28505379
Dissecting physical structure of calreticulin, an intrinsically disordered Ca2+-buffering chaperone from endoplasmic reticulum. PMID:28504081
Genome-wide characterization and expression analyses of superoxide dismutase (SOD) genes in Gossypium hirsutum. PMID:28499417
Transcriptome-wide analysis of alternative RNA splicing events in Epstein-Barr virus-associated gastric carcinomas. PMID:28493890
Comparative genomic study of ALDH gene superfamily in Gossypium: A focus on Gossypium hirsutum under salt stress. PMID:28489898
Using Tn-seq To Identify Pigmentation-Related Genes of Porphyromonas gingivalis: Characterization of the Role of a Putative Glycosyltransferase. PMID:28484050
Activity-based protein profiling as a robust method for enzyme identification and screening in extremophilic Archaea. PMID:28480883
Genome-wide analysis identifies chickpea (Cicer arietinum) heat stress transcription factors (Hsfs) responsive to heat stress at the pod development stage. PMID:28474118
InlL from Listeria monocytogenes Is Involved in Biofilm Formation and Adhesion to Mucin. PMID:28473809
Organ-specific transcriptome profiling of metabolic and pigment biosynthesis pathways in the floral ornamental progenitor species Anthurium amnicola Dressler. PMID:28473720
Draft Genome Sequence of Brevundimonas sp. Strain SH203, Producing Cellouronate (β-1,4-Linked Polyglucuronate) Lyase. PMID:28473379
Unique Phylogenetic Distributions of the Ska and Dam1 Complexes Support Functional Analogy and Suggest Multiple Parallel Displacements of Ska by Dam1. PMID:28472331
Transcriptome analysis of muskrat scented glands degeneration mechanism. PMID:28472080
Computational Analysis of Host-Pathogen Protein Interactions between Humans and Different Strains of Enterohemorrhagic Escherichia coli. PMID:28469995
PAIRS: Prediction of Activation/Inhibition Regulation Signaling Pathway. PMID:28469669
Comparative Transcriptomic Analysis of Race 1 and Race 4 of Fusarium oxysporum f. sp. cubense Induced with Different Carbon Sources. PMID:28468818
Novel transcription-induced fusion RNAs in prostate cancer. PMID:28467780
Molecular detection and characterization of a divergent isolate of Plantago asiatica mosaic virus in Plantago asiatica. PMID:28466044
Comparative analysis of the predicted secretomes of Rosaceae scab pathogens Venturia inaequalis and V. pirina reveals expanded effector families and putative determinants of host range. PMID:28464870
Exploring the binding properties and structural stability of an opsin in the chytrid Spizellomyces punctatus using comparative and molecular modeling. PMID:28462022
Fast Genome-Wide Functional Annotation through Orthology Assignment by eggNOG-Mapper. PMID:28460117
plantiSMASH: automated identification, annotation and expression analysis of plant biosynthetic gene clusters. PMID:28453650
Draft genome of the lined seahorse, Hippocampus erectus. PMID:28444302
Evolution of the 3R-MYB Gene Family in Plants. PMID:28444194
Deletion of Lipoteichoic Acid Synthase Impacts Expression of Genes Encoding Cell Surface Proteins in Lactobacillus acidophilus. PMID:28443071
Progranulin, lysosomal regulation and neurodegenerative disease. PMID:28435163
Genome characteristics of the proteorhodopsin-containing marine flavobacterium Polaribacter dokdonensis DSW-5. PMID:28432541
Identification and Characterization of Differentially-Regulated Type IVb Pilin Genes Necessary for Predation in Obligate Bacterial Predators. PMID:28432347
Genome-wide identification, characterization of the MADS-box gene family in Chinese jujube and their involvement in flower development. PMID:28432294
HirBin: high-resolution identification of differentially abundant functions in metagenomes. PMID:28431529
Somatic transposition and meiotically driven elimination of an active helitron family in Pleurotus ostreatus. PMID:28431016
Genome sequencing and analysis of Ralstonia solanacearum phylotype I strains FJAT-91, FJAT-452 and FJAT-462 isolated from tomato, eggplant, and chili pepper in China. PMID:28428834
Identification of Candidate Genes and Biosynthesis Pathways Related to Fertility Conversion by Wheat KTM3315A Transcriptome Profiling. PMID:28428792
Pan genome and CRISPR analyses of the bacterial fish pathogen Moritella viscosa. PMID:28427330
Exhaustive search of linear information encoding protein-peptide recognition. PMID:28426660
Genetic basis for soma is present in undifferentiated volvocine green algae. PMID:28425150
Inbreeding and selection shape genomic diversity in captive populations: Implications for the conservation of endangered species. PMID:28423000
Genome-Wide Analyses of the Soybean F-Box Gene Family in Response to Salt Stress. PMID:28417911
Distinct Domains of CheA Confer Unique Functions in Chemotaxis and Cell Length in Azospirillum brasilense Sp7. PMID:28416707
An in silico pan-genomic probe for the molecular traits behind Lactobacillus ruminis gut autochthony. PMID:28414739
Genomics and Comparative Genomic Analyses Provide Insight into the Taxonomy and Pathogenic Potential of Novel Emmonsia Pathogens. PMID:28409126
Genome assembly with in vitro proximity ligation data and whole-genome triplication in lettuce. PMID:28401891
Improving the 'tool box' for robust industrial enzymes. PMID:28401315
Comparative transcriptome profiling and morphology provide insights into endocarp cleaving of apricot cultivar (Prunus armeniaca L.). PMID:28399812
Prospecting Biotechnologically-Relevant Monooxygenases from Cold Sediment Metagenomes: An In Silico Approach. PMID:28397770
Inclusion of biological knowledge in a Bayesian shrinkage model for joint estimation of SNP effects. PMID:28393391
regSNPs-splicing: a tool for prioritizing synonymous single-nucleotide substitution. PMID:28391525
De novo RNA sequence assembly during in vivo inflammatory stress reveals hundreds of unannotated lincRNAs in human blood CD14+ monocytes and in adipose tissue. PMID:28389524
Sex-specific differences in transcriptome profiles of brain and muscle tissue of the tropical gar. PMID:28388875
High number of kinome-mutations in non-small cell lung cancer is associated with reduced immune response and poor relapse-free survival. PMID:28387924
Genome-wide identification and functional prediction of cold and/or drought-responsive lncRNAs in cassava. PMID:28387315
Transcriptome Analyses of Two Citrus Cultivars (Shiranuhi and Huangguogan) in Seedling Etiolation. PMID:28387303
Genome Sequence of Mannheimia haemolytica Serotype 1 Strain 16041065 BH. PMID:28385859
Genome Sequence of a Spontaneous Nonhemolytic Mutant of Mannheimia haemolytica 16041065 GH. PMID:28385858
SIRT4 Is a Lysine Deacylase that Controls Leucine Metabolism and Insulin Secretion. PMID:28380376
Unravelling the Complete Genome of Archangium gephyra DSM 2261T and Evolutionary Insights into Myxobacterial Chitinases. PMID:28379546
Niche partitioning of diverse sulfur-oxidizing bacteria at hydrothermal vents. PMID:28375213
Genome-wide identification of membrane-bound fatty acid desaturase genes in Gossypium hirsutum and their expressions during abiotic stress. PMID:28374822
Genome-Wide Identification, Evolution, and Expression Analysis of the ATP-Binding Cassette Transporter Gene Family in Brassica rapa. PMID:28367152
Engineering Pak1 Allosteric Switches. PMID:28365983
Biocuration in the structure-function linkage database: the anatomy of a superfamily. PMID:28365730
PCPPI: a comprehensive database for the prediction of Penicillium-crop protein-protein interactions. PMID:28365721
Selecting high-quality negative samples for effectively predicting protein-RNA interactions. PMID:28361676
Transcriptional response to hepatitis C virus infection and interferon-alpha treatment in the human liver. PMID:28360091
The druggable genome and support for target identification and validation in drug development. PMID:28356508
Evolutionary origin and function of NOX4-art, an arthropod specific NADPH oxidase. PMID:28356077
Potential for microbial H2 and metal transformations associated with novel bacteria and archaea in deep terrestrial subsurface sediments. PMID:28350393
Epipodial Tentacle Gene Expression and Predetermined Resilience to Summer Mortality in the Commercially Important Greenlip Abalone, Haliotis laevigata. PMID:28349286
Comparative genomics and evolution of transcriptional regulons in Proteobacteria. PMID:28348857
Comparative genomics of pyridoxal 5'-phosphate-dependent transcription factor regulons in Bacteria. PMID:28348826
Exploring structural variation and gene family architecture with De Novo assemblies of 15 Medicago genomes. PMID:28347275
Gene Expression, Protein Function and Pathways of Arabidopsis thaliana Responding to Silver Nanoparticles in Comparison to Silver Ions, Cold, Salt, Drought, and Heat. PMID:28347022
Systematic identification of phosphorylation-mediated protein interaction switches. PMID:28346509
Genomic characterization of Nontuberculous Mycobacteria. PMID:28345639
In silico functional elucidation of uncharacterized proteins of Chlamydia abortus strain LLG. PMID:28344832
F-Box Protein FBX92 Affects Leaf Size in Arabidopsis thaliana. PMID:28340173
The evolutionary fate of the chloroplast and nuclear rps16 genes as revealed through the sequencing and comparative analyses of four novel legume chloroplast genomes from Lupinus. PMID:28338826
Populus trichocarpa encodes small, effector-like secreted proteins that are highly induced during mutualistic symbiosis. PMID:28336910
Highly diverse population of Picornaviridae and other members of the Picornavirales, in Cameroonian fruit bats. PMID:28335731
Transcription factors of Schizophyllum commune involved in mushroom formation and modulation of vegetative growth. PMID:28331193
Whole genome sequencing of Chinese clearhead icefish, Protosalanx hyalocranius. PMID:28327943
Structure-based functional annotation of hypothetical proteins from Candida dubliniensis: a quest for potential drug targets. PMID:28324558
Genomic innovations linked to infection strategies across emerging pathogenic chytrid fungi. PMID:28322291
Genome-wide analysis of brain and gonad transcripts reveals changes of key sex reversal-related genes expression and signaling pathways in three stages of Monopterus albus. PMID:28319194
A Vibrio cholerae autoinducer-receptor pair that controls biofilm formation. PMID:28319101
Distribution and diversity of enzymes for polysaccharide degradation in fungi. PMID:28302998
Complete genome sequence of Pseudomonas citronellolis P3B5, a candidate for microbial phyllo-remediation of hydrocarbon-contaminated sites. PMID:28300228
The isolation and characterization of Stenotrophomonas maltophilia T4-like bacteriophage DLP6. PMID:28291834
Transcriptomic analysis reveals metabolic switches and surface remodeling as key processes for stage transition in Trypanosoma cruzi. PMID:28286708
Development of Gene-Based SSR Markers in Winged Bean (Psophocarpus tetragonolobus (L.) DC.) for Diversity Assessment. PMID:28282950
Draft Genome Sequence of Idiomarina sp. Strain 5.13, a Highly Stress-Resistant Bacterium Isolated from the Southwest Indian Ridge. PMID:28280030
Draft Genome Assembly of Colletotrichum chlorophyti, a Pathogen of Herbaceous Plants. PMID:28280027
Functional metagenomics reveals novel β-galactosidases not predictable from gene sequences. PMID:28273103
Activity screening of environmental metagenomic libraries reveals novel carboxylesterase families. PMID:28272521
RXLR Effector AVR2 Up-Regulates a Brassinosteroid-Responsive bHLH Transcription Factor to Suppress Immunity. PMID:28270626
High quality draft genome sequence of an extremely halophilic archaeon Natrinema altunense strain AJ2T. PMID:28265340
A genome-wide analysis of the lysophosphatidate acyltransferase (LPAAT) gene family in cotton: organization, expression, sequence variation, and association with seed oil content and fiber quality. PMID:28249560
A Gradient of Sitewise Diversity Promotes Evolutionary Fitness for Binder Discovery in a Three-Helix Bundle Protein Scaffold. PMID:28248518
A new genome-mining tool redefines the lasso peptide biosynthetic landscape. PMID:28244986
Leaf transcriptome analysis of a subtropical evergreen broadleaf plant, wild oil-tea camellia (Camellia oleifera), revealing candidate genes for cold acclimation. PMID:28241790
A Novel Subfamily Esterase with a Homoserine Transacetylase-like Fold but No Transferase Activity. PMID:28235874
A New Reference Genome Assembly for the Microcrustacean Daphnia pulex. PMID:28235826
Genome-wide screening and characterization of long non-coding RNAs involved in flowering development of trifoliate orange (Poncirus trifoliata L. Raf.). PMID:28233798
In silico serine β-lactamases analysis reveals a huge potential resistome in environmental and pathogenic species. PMID:28233789
Understanding the roles of intrinsic disorder in subunits of hemoglobin and the disease process of sickle cell anemia. PMID:28232898
Quarterly intrinsic disorder digest (January-February-March, 2014). PMID:28232896
Anaplasma phagocytophilum Infection Subverts Carbohydrate Metabolic Pathways in the Tick Vector, Ixodes scapularis. PMID:28229048
The effects of shared information on semantic calculations in the gene ontology. PMID:28217262
HAPPI-2: a Comprehensive and High-quality Map of Human Annotated and Predicted Protein Interactions. PMID:28212602
Plasmodium falciparum CRK4 directs continuous rounds of DNA replication during schizogony. PMID:28211852
Syntrophic linkage between predatory Carpediemonas and specific prokaryotic populations. PMID:28211847
RNA-Seq of Guar (Cyamopsis tetragonoloba, L. Taub.) Leaves: De novo Transcriptome Assembly, Functional Annotation and Development of Genomic Resources. PMID:28210265
Structure, kinetic characterization and subcellular localization of the two ribulose 5-phosphate epimerase isoenzymes from Trypanosoma cruzi. PMID:28207833
Genome-wide analysis of transposable elements in the coffee berry borer Hypothenemus hampei (Coleoptera: Curculionidae): description of novel families. PMID:28204924
Error-prone DnaE2 Balances the Genome Mutation Rates in Myxococcus xanthus DK1622. PMID:28203231
Systematic analyses of drugs and disease indications in RepurposeDB reveal pharmacological, biological and epidemiological factors influencing drug repositioning. PMID:28200013
Comparative genomics reveals high biological diversity and specific adaptations in the industrially and medically important fungal genus Aspergillus. PMID:28196534
ECDomainMiner: discovering hidden associations between enzyme commission numbers and Pfam domains. PMID:28193156
HIPPI: highly accurate protein family classification with ensembles of HMMs. PMID:28185571
Conserved Fever Pathways across Vertebrates: A Herpesvirus Expressed Decoy TNF-α Receptor Delays Behavioral Fever in Fish. PMID:28182952
Sinorhizobium meliloti YbeY is an endoribonuclease with unprecedented catalytic features, acting as silencing enzyme in riboregulation. PMID:28180335
Variability among Cucurbitaceae species (melon, cucumber and watermelon) in a genomic region containing a cluster of NBS-LRR genes. PMID:28178932
Guidelines for the successful generation of protein-ligand complex crystals. PMID:28177304
Functional characterization of AGAMOUS-subfamily members from cotton during reproductive development and in response to plant hormones. PMID:28176007
Multiscale mutation clustering algorithm identifies pan-cancer mutational clusters associated with pathway-level changes in gene expression. PMID:28170390
A New Essential Cell Division Protein in Caulobacter crescentus. PMID:28167520
Improving protein-protein interaction prediction using evolutionary information from low-quality MSAs. PMID:28166227
Phylogenetic Diversity of NTT Nucleotide Transport Proteins in Free-Living and Parasitic Bacteria and Eukaryotes. PMID:28164241
Plasmodium vivax Cell Traversal Protein for Ookinetes and Sporozoites (PvCelTOS) gene sequence and potential epitopes are highly conserved among isolates from different regions of Brazilian Amazon. PMID:28158176
Protein Bioinformatics Databases and Resources. PMID:28150231
Phosphatidylserine synthase 2 and phosphatidylserine decarboxylase are essential for aminophospholipid synthesis in Trypanosoma brucei. PMID:28142188
2b or Not 2b: Experimental Evolution of Functional Exogenous Sequences in a Plant RNA Virus. PMID:28137747
Identification of a Novel Epoxyqueuosine Reductase Family by Comparative Genomics. PMID:28128549
A comparative in-silico analysis of autophagy proteins in ciliates. PMID:28123910
Tensor Factorization for Precision Medicine in Heart Failure with Preserved Ejection Fraction. PMID:28116551
Studies on the Virome of the Entomopathogenic Fungus Beauveria bassiana Reveal Novel dsRNA Elements and Mild Hypervirulence. PMID:28114361
SecretEPDB: a comprehensive web-based resource for secreted effector proteins of the bacterial types III, IV and VI secretion systems. PMID:28112271
Programmed Ribosomal Frameshifting Generates a Copper Transporter and a Copper Chaperone from the Same Gene. PMID:28107647
ProClaT, a new bioinformatics tool for in silico protein reclassification: case study of DraB, a protein coded from the draTGB operon in Azospirillum brasilense. PMID:28105917
GPCRs from fusarium graminearum detection, modeling and virtual screening - the search for new routes to control head blight disease. PMID:28105916
Origin and Evolution of the Sponge Aggregation Factor Gene Family. PMID:28104746
A Tissue-Mapped Axolotl De Novo Transcriptome Enables Identification of Limb Regeneration Factors. PMID:28099853
IsomiR expression patterns in canonical and Dicer‑independent microRNAs. PMID:28098889
Nematophagous fungus Arthrobotrys oligospora mimics olfactory cues of sex and food to lure its nematode prey. PMID:28098555
Rpn (YhgA-Like) Proteins of Escherichia coli K-12 and Their Contribution to RecA-Independent Horizontal Transfer. PMID:28096446
Ancient bacteria of the Ötzi's microbiome: a genomic tale from the Copper Age. PMID:28095919
ARA-PEPs: a repository of putative sORF-encoded peptides in Arabidopsis thaliana. PMID:28095775
Computational Analysis of Residue Interaction Networks and Coevolutionary Relationships in the Hsp70 Chaperones: A Community-Hopping Model of Allosteric Regulation and Communication. PMID:28095400
Protein multiple sequence alignment benchmarking through secondary structure prediction. PMID:28093407
Genome Analysis of a Zygomycete Fungus Choanephora cucurbitarum Elucidates Necrotrophic Features Including Bacterial Genes Related to Plant Colonization. PMID:28091548
Identification of functional enolase genes of the silkworm Bombyx mori from public databases with a combination of dry and wet bench processes. PMID:28086791
Genetic mechanisms of bone digestion and nutrient absorption in the bone-eating worm Osedax japonicus inferred from transcriptome and gene expression analyses. PMID:28086748
Genome Sequence of Christensenella minuta DSM 22607T. PMID:28082495
Draft Genome Sequence of Micromonospora sp. Strain WMMB235, a Marine Ascidian-Associated Bacterium. PMID:28082484
Comparative Genome Sequencing Reveals Within-Host Genetic Changes in Neisseria meningitidis during Invasive Disease. PMID:28081260
Comparative Genomics of H. pylori and Non-Pylori Helicobacter Species to Identify New Regions Associated with Its Pathogenicity and Adaptability. PMID:28078297
Identification of new members of the Escherichia coli K-12 MG1655 SlyA regulon. PMID:28073397
A comparative genomic analysis of putative pathogenicity genes in the host-specific sibling species Colletotrichum graminicola and Colletotrichum sublineola. PMID:28073340
Embryonic origin of adult stem cells required for tissue homeostasis and regeneration. PMID:28072387
Burkholderia contaminans Biofilm Regulating Operon and Its Distribution in Bacterial Genomes. PMID:28070515
From Genomes to Phenotypes: Traitar, the Microbial Trait Analyzer. PMID:28066816
Comparative Temporal Transcriptome Profiling of Wheat near Isogenic Line Carrying Lr57 under Compatible and Incompatible Interactions. PMID:28066494
Widespread Inter- and Intra-Domain Horizontal Gene Transfer of d-Amino Acid Metabolism Enzymes in Eukaryotes. PMID:28066338
Insertion Polymorphisms of Mobile Genetic Elements in Sexual and Asexual Populations of Daphnia pulex. PMID:28057730
Comparative genomics of host adaptive traits in Xanthomonas translucens pv. graminis. PMID:28056815
Deciphering the Translation Initiation Factor 5A Modification Pathway in Halophilic Archaea. PMID:28053595
A meiosis-specific Spt5 homolog involved in non-coding transcription. PMID:28053118
Co-Option and De Novo Gene Evolution Underlie Molluscan Shell Diversity. PMID:28053006
Global Analysis of Protein Expression of Inner Ear Hair Cells. PMID:28039372
Evolution of Chemosensory Gene Families in Arthropods: Insight from the First Inclusive Comparative Transcriptome Analysis across Spider Appendages. PMID:28028122
CaspNeuroD: a knowledgebase of predicted caspase cleavage sites in human proteins related to neurodegenerative diseases. PMID:28025335
Alternative splicing in tomato pollen in response to heat stress. PMID:28025318
Identification and Analysis of NaHCO3 Stress Responsive Genes in Wild Soybean (Glycine soja) Roots by RNA-seq. PMID:28018382
Genome analysis of Hibiscus syriacus provides insights of polyploidization and indeterminate flowering in woody plants. PMID:28011721
Biochemical and structural characterization of a novel halotolerant cellulase from soil metagenome. PMID:28008971
An expressed, endogenous Nodavirus-like element captured by a retrotransposon in the genome of the plant parasitic nematode Bursaphelenchus xylophilus. PMID:28004836
Complete genome sequence of new bacteriophage phiE142, which causes simultaneously lysis of multidrug-resistant Escherichia coli O157:H7 and Salmonella enterica. PMID:27999624
Comparative In silico Analysis of Butyrate Production Pathways in Gut Commensals and Pathogens. PMID:27994578
Glycoside Hydrolases across Environmental Microbial Communities. PMID:27992426
Non-canonical Helitrons in Fusarium oxysporum. PMID:27990178
AhDGR2, an amaranth abiotic stress-induced DUF642 protein gene, modifies cell wall structure and composition and causes salt and ABA hyper-sensibility in transgenic Arabidopsis. PMID:27988887
The regulation of antimicrobial peptide resistance in the transition to insect symbiosis. PMID:27987256
Complete Genome Sequence of Rhodococcus sp. Strain WMMA185, a Marine Sponge-Associated Bacterium. PMID:27979952
COUSCOus: improved protein contact prediction using an empirical Bayes covariance estimator. PMID:27978812
Thrombotic Microangiopathy in Inverted Formin 2-Mediated Renal Disease. PMID:27974406
Structure and Mechanism of Staphylococcus aureus TarS, the Wall Teichoic Acid β-glycosyltransferase Involved in Methicillin Resistance. PMID:27973583
Identification of Development-Related Genes in the Ovaries of Adult Harmonia axyridis (Pallas) Lady Beetles Using a Time- Series Analysis by RNA-seq. PMID:27966611
Characterization of a DUF820 family protein Alr3200 of the cyanobacterium Anabaena sp. strain PCC7120. PMID:27966482
Ca2+/Cation Antiporters (CaCA): Identification, Characterization and Expression Profiling in Bread Wheat (Triticum aestivum L.). PMID:27965686
Evaluation of Machine Learning and Rules-Based Approaches for Predicting Antimicrobial Resistance Profiles in Gram-negative Bacilli from Whole Genome Sequence Data. PMID:27965630
Conservation of coevolving protein interfaces bridges prokaryote-eukaryote homologies in the twilight zone. PMID:27965389
Thermoregulation of Biofilm Formation in Burkholderia pseudomallei Is Disrupted by Mutation of a Putative Diguanylate Cyclase. PMID:27956524
Subunit NDUFV3 is present in two distinct isoforms in mammalian complex I. PMID:27940020
The evolution of function within the Nudix homology clan. PMID:27936487
Functional and structural characterization of a novel putative cysteine protease cell wall-modifying multi-domain enzyme selected from a microbial metagenome. PMID:27934875
Evolution of mitosome metabolism and invasion-related proteins in Cryptosporidium. PMID:27931183
Analysis of Domain Architecture and Phylogenetics of Family 2 Glycoside Hydrolases (GH2). PMID:27930742
Electric-field-stimulated protein mechanics. PMID:27926732
A unified statistical model of protein multiple sequence alignment integrating direct coupling and insertions. PMID:27924257
Query-seeded iterative sequence similarity searching improves selectivity 5-20-fold. PMID:27923999
Evidence for Ecological Flexibility in the Cosmopolitan Genus Curtobacterium. PMID:27920771
EvalMSA: A Program to Evaluate Multiple Sequence Alignments and Detect Outliers. PMID:27920488
A Novel Transcriptional Regulator Related to Thiamine Phosphate Synthase Controls Thiamine Metabolism Genes in Archaea. PMID:27920295
The Streptococcus gordonii Adhesin CshA Protein Binds Host Fibronectin via a Catch-Clamp Mechanism. PMID:27920201
The crystal structure of dihydrodipicolinate reductase from the human-pathogenic bacterium Bartonella henselae strain Houston-1 at 2.3 Å resolution. PMID:27917836
Ion Channel Activity of Vpu Proteins Is Conserved throughout Evolution of HIV-1 and SIV. PMID:27916968
Identification of enzymes responsible for extracellular alginate depolymerization and alginate metabolism in Vibrio algivorus. PMID:27915375
The phenylalanine ammonia-lyase gene family in Isatis indigotica Fort.: molecular cloning, characterization, and expression analysis. PMID:27914524
Differential variation patterns between hubs and bottlenecks in human protein-protein interaction networks. PMID:27903259
A chitin deacetylase from the endophytic fungus Pestalotiopsis sp. efficiently inactivates the elicitor activity of chitin oligomers in rice cells. PMID:27901067
Mining the Cicer arietinum genome for the mildew locus O (Mlo) gene family and comparative evolutionary analysis of the Mlo genes from Medicago truncatula and some other plant species. PMID:27900493
Diversity and Evolutionary Analysis of Iron-Containing (Type-III) Alcohol Dehydrogenases in Eukaryotes. PMID:27893862
Single Amino Acid Repeats in the Proteome World: Structural, Functional, and Evolutionary Insights. PMID:27893794
Improving landscape inference by integrating heterogeneous data in the inverse Ising problem. PMID:27886273
Genome-wide analyses of chitin synthases identify horizontal gene transfers towards bacteria and allow a robust and unifying classification into fungi. PMID:27881071
Comparative genomics to explore phylogenetic relationship, cryptic sexual potential and host specificity of Rhynchosporium species on grasses. PMID:27875982
Accelerating Information Retrieval from Profile Hidden Markov Model Databases. PMID:27875548
Whole-genome de novo sequencing, combined with RNA-Seq analysis, reveals unique genome and physiological features of the amylolytic yeast Saccharomycopsis fibuligera and its interspecies hybrid. PMID:27872659
The ERF transcription factor family in cassava: genome-wide characterization and expression analyses against drought stress. PMID:27869212
On the importance of composite protein multiple ligand interactions in protein pockets. PMID:27864975
Numerous small hammerhead ribozyme variants associated with Penelope-like retrotransposons cleave RNA as dimers. PMID:27858507
Characterization of the Sucrose Phosphate Phosphatase (SPP) Isoforms from Arabidopsis thaliana and Role of the S6PPc Domain in Dimerization. PMID:27855180
Adaptive phenotypic response to climate enabled by epigenetics in a K-strategy species, the fish Leucoraja ocellata (Rajidae). PMID:27853546
Diversity, evolution and expression profiles of histone acetyltransferases and deacetylases in oomycetes. PMID:27852223
Feature-based classification of human transcription factors into hypothetical sub-classes related to regulatory function. PMID:27842491
Intrinsic disorder in proteins involved in amyotrophic lateral sclerosis. PMID:27838743
Tailor-made transcriptional biosensors for optimizing microbial cell factories. PMID:27837353
DASP3: identification of protein sequences belonging to functionally relevant groups. PMID:27835946
Comparative genomics provides new insights into the diversity, physiology, and sexuality of the only industrially exploited tremellomycete: Phaffia rhodozyma. PMID:27829365
Genome-Wide Identification, Characterization, and Stress-Responsive Expression Profiling of Genes Encoding LEA (Late Embryogenesis Abundant) Proteins in Moso Bamboo (Phyllostachys edulis). PMID:27829056
The Transcriptome of Exophiala dermatitidis during Ex-vivo Skin Model Infection. PMID:27822460
Novel RpoS-Dependent Mechanisms Strengthen the Envelope Permeability Barrier during Stationary Phase. PMID:27821607
Comparative Analysis of DNA Methyltransferase Gene Family in Fungi: A Focus on Basidiomycota. PMID:27818666
Evaluating Functional Annotations of Enzymes Using the Gene Ontology. PMID:27812939
Genome Sequence of Pandoraea sp. ISTKB, a Lignin-Degrading Betaproteobacterium, Isolated from Rhizospheric Soil. PMID:27811115
Transcriptomic data from panarthropods shed new light on the evolution of insulator binding proteins in insects : Insect insulator proteins. PMID:27809783
Characterization of the starch-acting MaAmyB enzyme from Microbacterium aurum B8.A representing the novel subfamily GH13_42 with an unusual, multi-domain organization. PMID:27808246
Gene silencing pathways found in the green alga Volvox carteri reveal insights into evolution and origins of small RNA systems in plants. PMID:27806710
Insights into the innate immunome of actiniarians using a comparative genomic approach. PMID:27806695
Draft Assembly of Elite Inbred Line PH207 Provides Insights into Genomic and Transcriptome Diversity in Maize. PMID:27803309
Aquerium: A web application for comparative exploration of domain-based protein occurrences on the taxonomically clustered genome tree. PMID:27802571
A computationally simplistic poly-phasic approach to explore microbial communities from the Yucatan aquifer as a potential sources of novel natural products. PMID:27796931
Shedding light on cell compartmentation in the candidate phylum Poribacteria by high resolution visualisation and transcriptional profiling. PMID:27796326
Genome Sequence of Carbon Dioxide-Sequestering Serratia sp. Strain ISTD04 Isolated from Marble Mining Rocks. PMID:27795274
In-silico prediction and deep-DNA sequencing validation indicate phase variation in 115 Neisseria meningitidis genes. PMID:27793092
Transcriptome Analysis and Ultrastructure Observation Reveal that Hawthorn Fruit Softening Is due to Cellulose/Hemicellulose Degradation. PMID:27790234
Genome-Wide Investigation of Hsf Genes in Sesame Reveals Their Segmental Duplication Expansion and Their Active Role in Drought Stress Response. PMID:27790233
Protein Data Bank Japan (PDBj): updated user interfaces, resource description framework, analysis tools for large structures. PMID:27789697
The C-terminal domain of TPX2 is made of alpha-helical tandem repeats. PMID:27782824
Thousands of microbial genomes shed light on interconnected biogeochemical processes in an aquifer system. PMID:27774985
A Novel Astrovirus-Like RNA Virus Detected in Human Stool. PMID:27774298
De Novo Transcriptomes of Forsythia koreana Using a Novel Assembly Method: Insight into Tissue- and Species-Specific Expression of Lignan Biosynthesis-Related Gene. PMID:27768772
Screening for clusters of charge in human virus proteomes. PMID:27766959
Identification of internalin-A-like virulent proteins in Leishmania donovani. PMID:27765050
RAP2.4a Is Transported through the Phloem to Regulate Cold and Heat Tolerance in Papaya Tree (Carica papaya cv. Maradol): Implications for Protection Against Abiotic Stress. PMID:27764197
Gold Nanoparticle Reprograms Pancreatic Tumor Microenvironment and Inhibits Tumor Growth. PMID:27758098
The mechanism of force transmission at bacterial focal adhesion complexes. PMID:27749817
Sex Change in Clownfish: Molecular Insights from Transcriptome Analysis. PMID:27748421
Phylotype Dynamics of Bacterial P Utilization Genes in Microbialites and Bacterioplankton of a Monomictic Endorheic Lake. PMID:27726035
RStrucFam: a web server to associate structure and cognate RNA for RNA-binding proteins from sequence information. PMID:27717309
Genomic Dissection and Expression Profiling Revealed Functional Divergence in Triticum aestivum Leucine Rich Repeat Receptor Like Kinases (TaLRRKs). PMID:27713749
Classification and substrate head-group specificity of membrane fatty acid desaturases. PMID:27708750
Transcriptome and Metabolite analysis reveal candidate genes of the cardiac glycoside biosynthetic pathway from Calotropis procera. PMID:27703261
Genomic Survey of a Hyperparasitic Microsporidian Amphiamblys sp. (Metchnikovellidae). PMID:27694476
ASAP: a machine learning framework for local protein properties. PMID:27694209
Adhesion of the genome-sequenced Lactococcus lactis subsp. cremoris IBB477 strain is mediated by specific molecular determinants. PMID:27687992
SPATA5 mutations cause a distinct autosomal recessive phenotype of intellectual disability, hypotonia and hearing loss. PMID:27683084
A Bat-Derived Putative Cross-Family Recombinant Coronavirus with a Reovirus Gene. PMID:27676249
Data set for phylogenetic tree and RAMPAGE Ramachandran plot analysis of SODs in Gossypium raimondii and G. arboreum. PMID:27672674
Draft genome sequence of the extremely halophilic Halorubrum sp. SAH-A6 isolated from rock salts of the Danakil depression, Ethiopia. PMID:27668183
In silico structural characterization of protein targets for drug development against Trypanosoma cruzi. PMID:27665464
Phosphate uptake kinetics and tissue-specific transporter expression profiles in poplar (Populus × canescens) at different phosphorus availabilities. PMID:27663513
Genomewide analysis of the lateral organ boundaries domain gene family in Vitis vinifera. PMID:27659322
Crystal Structure of the Escherichia coli Fic Toxin-Like Protein in Complex with Its Cognate Antitoxin. PMID:27657533
Characterization of CIPK Family in Asian Pear (Pyrus bretschneideri Rehd) and Co-expression Analysis Related to Salt and Osmotic Stress Responses. PMID:27656193
The tubulin repertoire of C. elegans sensory neurons and its context-dependent role in process outgrowth. PMID:27654945
Ecogenomics and potential biogeochemical impacts of globally abundant ocean viruses. PMID:27654921
Head regeneration in hemichordates is not a strict recapitulation of development. PMID:27649280
Genetic Characterization of Plasmodium Putative Pantothenate Kinase Genes Reveals Their Essential Role in Malaria Parasite Transmission to the Mosquito. PMID:27644319
Selection of Amine-Oxidizing Dairy Lactic Acid Bacteria and Identification of the Enzyme and Gene Involved in the Decrease of Biogenic Amines. PMID:27637883
Genome-wide identification and characterization of GRAS transcription factors in sacred lotus (Nelumbo nucifera). PMID:27635351
Novel Methyltransferase Recognition Motif Identified in Chania multitudinisentens RB-25(T) gen. nov., sp. nov. PMID:27630623
Genome-wide analysis of long intergenic non-coding RNAs in chickpea and their potential role in flower development. PMID:27628568
BmncRNAdb: a comprehensive database of non-coding RNAs in the silkworm, Bombyx mori. PMID:27623959
Origin of a folded repeat protein from an intrinsically disordered ancestor. PMID:27623012
First Draft Assembly and Annotation of the Genome of a California Endemic Oak Quercus lobata Née (Fagaceae). PMID:27621377
Xanthomonas campestris attenuates virulence by sensing light through a bacteriophytochrome photoreceptor. PMID:27621284
The long noncoding RNA Chaer defines an epigenetic checkpoint in cardiac hypertrophy. PMID:27618650
The small unicellular diazotrophic symbiont, UCYN-A, is a key player in the marine nitrogen cycle. PMID:27617976
Nitrogen Fixation and Molecular Oxygen: Comparative Genomic Reconstruction of Transcription Regulation in Alphaproteobacteria. PMID:27617010
Molecular evolutionary dynamics of cytochrome P450 monooxygenases across kingdoms: Special focus on mycobacterial P450s. PMID:27616185
Mutation screening of GRIN2B in schizophrenia and autism spectrum disorder in a Japanese population. PMID:27616045
Reference Transcriptomes and Detection of Duplicated Copies in Hexaploid and Allododecaploid Spartina Species (Poaceae). PMID:27614235
Substitutions in the Glycogenin-1 Gene Are Associated with the Evolution of Endothermy in Sharks and Tunas. PMID:27614233
COME: a robust coding potential calculation tool for lncRNA identification and characterization based on multiple features. PMID:27608726
Genome-wide Identification of TCP Family Transcription Factors from Populus euphratica and Their Involvement in Leaf Shape Regulation. PMID:27605130
De Novo Transcriptome Assembly and Sex-Biased Gene Expression in the Cyclical Parthenogenetic Daphnia galeata. PMID:27604882
Comparative Genomics of Campylobacter iguaniorum to Unravel Genetic Regions Associated with Reptilian Hosts. PMID:27604878
Connecting the Sequence-Space of Bacterial Signaling Proteins to Phenotypes Using Coevolutionary Landscapes. PMID:27604223
Near complete genome sequence of the animal feed probiotic, Bacillus amyloliquefaciens H57. PMID:27602182
Ectomycorrhizal ecology is imprinted in the genome of the dominant symbiotic fungus Cenococcum geophilum. PMID:27601008
Global Profiling of the Cellular Alternative RNA Splicing Landscape during Virus-Host Interactions. PMID:27598998
Revisiting Myosin Families Through Large-scale Sequence Searches Leads to the Discovery of New Myosins. PMID:27597808
Genome-based insights into the resistome and mobilome of multidrug-resistant Aeromonas sp. ARM81 isolated from wastewater. PMID:27590015
Complete Genome Sequence of Cryobacterium arcticum Strain PAMC 27867, Isolated from a Sedimentary Rock Sample in Northern Victoria Land, Antarctica. PMID:27587812
Substrate prediction of Ixodes ricinus salivary lipocalins differentially expressed during Borrelia afzelii infection. PMID:27584086
A biologically informed method for detecting rare variant associations. PMID:27582876
Genomic and transcriptomic analyses of the tangerine pathotype of Alternaria alternata in response to oxidative stress. PMID:27582273
Fine mapping of the stem rust resistance gene SrTA10187. PMID:27581540
Genome-wide analysis of lectin receptor-like kinases in Populus. PMID:27580945
Tma108, a putative M1 aminopeptidase, is a specific nascent chain-associated protein in Saccharomyces cerevisiae. PMID:27580715
De novo Sequencing and Transcriptome Analysis of Pinellia ternata Identify the Candidate Genes Involved in the Biosynthesis of Benzoic Acid and Ephedrine. PMID:27579029
Evidence for the sexual origin of heterokaryosis in arbuscular mycorrhizal fungi. PMID:27572831
Genomic inference of the metabolism of cosmopolitan subsurface Archaea, Hadesarchaea. PMID:27572167
Origination, Expansion, Evolutionary Trajectory, and Expression Bias of AP2/ERF Superfamily in Brassica napus. PMID:27570529
Biosynthesis of Salmonella enterica [NiFe]-hydrogenase-5: probing the roles of system-specific accessory proteins. PMID:27566174
Global profiling of alternative RNA splicing events provides insights into molecular differences between various types of hepatocellular carcinoma. PMID:27565572
Cell-Type-Specific Alternative Splicing Governs Cell Fate in the Developing Cerebral Cortex. PMID:27565344
Classification of the treble clef zinc finger: noteworthy lessons for structure and function evolution. PMID:27562564
A genome-wide loss-of-function screening method for minimizing false-negatives caused by functional redundancy. PMID:27561817
A robust ambient temperature collection and stabilization strategy: Enabling worldwide functional studies of the human microbiome. PMID:27558918
Genomic data mining reveals a rich repertoire of transport proteins in Streptomyces. PMID:27557108
Virome characterisation from Guthrie cards in children who later developed acute lymphoblastic leukaemia. PMID:27552439
Genome-Wide Identification, Expression Diversication of Dehydrin Gene Family and Characterization of CaDHN3 in Pepper (Capsicum annuum L.). PMID:27551973
Soil and leaf litter metaproteomics-a brief guideline from sampling to understanding. PMID:27549116
Genomes of Candidatus Wolbachia bourtzisii wDacA and Candidatus Wolbachia pipientis wDacB from the Cochineal Insect Dactylopius coccus (Hemiptera: Dactylopiidae). PMID:27543297
UAP56 is a conserved crucial component of a divergent mRNA export pathway in Toxoplasma gondii. PMID:27542978
Identification of Complete Repertoire of Apis florea Odorant Receptors Reveals Complex Orthologous Relationships with Apis mellifera. PMID:27540087
A calcium sensor - protein kinase signaling module diversified in plants and is retained in all lineages of Bikonta species. PMID:27538881
Draft genome sequences of three Xanthomonas translucens pathovar reference strains (pv. arrhenatheri, pv. poae and pv. phlei) with different specificities for forage grasses. PMID:27536340
SVM-Prot 2016: A Web-Server for Machine Learning Prediction of Protein Functional Families from Sequence Irrespective of Similarity. PMID:27525735
Exome sequencing in a consanguineous family clinically diagnosed with early-onset Alzheimer's disease identifies a homozygous CTSF mutation. PMID:27524508
Paralog-Specific Patterns of Structural Disorder and Phosphorylation in the Vertebrate SH3-SH2-Tyrosine Kinase Protein Family. PMID:27519537
FliW antagonizes CsrA RNA binding by a noncompetitive allosteric mechanism. PMID:27516547
Comparative Genomics of the Sigatoka Disease Complex on Banana Suggests a Link between Parallel Evolutionary Changes in Pseudocercospora fijiensis and Pseudocercospora eumusae and Increased Virulence on the Banana Host. PMID:27513322
Molecular Characterization of the 14-3-3 Gene Family in Brachypodium distachyon L. Reveals High Evolutionary Conservation and Diverse Responses to Abiotic Stresses. PMID:27507982
Flavoprotein-Mediated Tellurite Reduction: Structural Basis and Applications to the Synthesis of Tellurium-Containing Nanostructures. PMID:27507969
Characterization of Outer Membrane Proteome of Akkermansia muciniphila Reveals Sets of Novel Proteins Exposed to the Human Intestine. PMID:27507967
Conserved functional antagonism of CELF and MBNL proteins controls stem cell-specific alternative splicing in planarians. PMID:27502555
Draft genomic sequence of a chromate- and sulfate-reducing Alishewanella strain with the ability to bioremediate Cr and Cd contamination. PMID:27499827
N-Terminal Peptide Detection with Optimized Peptide-Spectrum Matching and Streamlined Sequence Libraries. PMID:27498768
Draft Genome Sequence of Planomonospora sphaerica JCM9374, a Rare Actinomycete. PMID:27492001
Lollipops in the Clinic: Information Dense Mutation Plots for Precision Medicine. PMID:27490490
Prediction of scaffold proteins based on protein interaction and domain architectures. PMID:27490120
Structural Basis of the Disorder in the Tandem Zinc Finger Domain of the RNA-Binding Protein Tristetraprolin. PMID:27487322
SAR11 bacteria linked to ocean anoxia and nitrogen loss. PMID:27487207
Microbial Community Responses to Increased Water and Organic Matter in the Arid Soils of the McMurdo Dry Valleys, Antarctica. PMID:27486436
On the reversibility of parasitism: adaptation to a free-living lifestyle via gene acquisitions in the diplomonad Trepomonas sp. PC1. PMID:27480115
Putative extremely high rate of proteome innovation in lancelets might be explained by high rate of gene prediction errors. PMID:27476717
Insight into the AP2/ERF transcription factor superfamily in sesame and expression profiling of DREB subfamily under drought stress. PMID:27475988
FocalScan: Scanning for altered genes in cancer based on coordinated DNA and RNA change. PMID:27474725
Genome-wide identification and expression analysis of sulfate transporter (SULTR) genes in potato (Solanum tuberosum L.). PMID:27473680
CicerTransDB 1.0: a resource for expression and functional study of chickpea transcription factors. PMID:27472917
Rapid construction of metabolite biosensors using domain-insertion profiling. PMID:27470466
Validation of a multi-omics strategy for prioritizing personalized candidate driver genes. PMID:27469031
The Ditylenchus destructor genome provides new insights into the evolution of plant parasitic nematodes. PMID:27466450
Discovery of midgut genes for the RNA interference control of corn rootworm. PMID:27464714
Diversity and Expression of Bacterial Metacaspases in an Aquatic Ecosystem. PMID:27458440
Computational studies of human class V alcohol dehydrogenase - the odd sibling. PMID:27455956
Type II Toxin-Antitoxin Systems in the Unicellular Cyanobacterium Synechocystis sp. PCC 6803. PMID:27455323
Construction of Global Acyl Lipid Metabolic Map by Comparative Genomics and Subcellular Localization Analysis in the Red Alga Cyanidioschyzon merolae. PMID:27446184
MATH-Domain Family Shows Response toward Abiotic Stress in Arabidopsis and Rice. PMID:27446153
Development of a Phage Cocktail to Control Proteus mirabilis Catheter-associated Urinary Tract Infections. PMID:27446059
The Crystal Structure of the C-Terminal Domain of the Salmonella enterica PduO Protein: An Old Fold with a New Heme-Binding Mode. PMID:27446048
Complete Genome Sequence of Psychrobacter alimentarius PAMC 27889, a Psychrophile Isolated from an Antarctic Rock Sample. PMID:27445386
Novel mutation in the CHST6 gene causes macular corneal dystrophy in a black South African family. PMID:27439461
Origin and Functional Prediction of Pollen Allergens in Plants. PMID:27436829
Biophysical characterization of the honeybee DSC1 orthologue reveals a novel voltage-dependent Ca2+ channel subfamily: CaV4. PMID:27432995
Global Transcriptomic Analysis Reveals the Mechanism of Phelipanche aegyptiaca Seed Germination. PMID:27428962
Multiple Domain Associations within the Arabidopsis Immune Receptor RPP1 Regulate the Activation of Programmed Cell Death. PMID:27427964
Genetic Codes with No Dedicated Stop Codon: Context-Dependent Translation Termination. PMID:27426948
Online interactive analysis of protein structure ensembles with Bio3D-web. PMID:27423893
AcmB Is an S-Layer-Associated β-N-Acetylglucosaminidase and Functional Autolysin in Lactobacillus acidophilus NCFM. PMID:27422832
A conserved OmpA-like protein in Legionella pneumophila required for efficient intracellular replication. PMID:27421957
The protein domains of the Dictyostelium microprocessor that are required for correct subcellular localization and for microRNA maturation. PMID:27416267
Permanent draft genome sequence of sulfoquinovose-degrading Pseudomonas putida strain SQ1. PMID:27408681
A systems-oriented analysis of the grapevine R2R3-MYB transcription factor family uncovers new insights into the regulation of stilbene accumulation. PMID:27407139
Assignment of function to a domain of unknown function: DUF1537 is a new kinase family in catabolic pathways for acid sugars. PMID:27402745
Glycoside Hydrolase (GH) 45 and 5 Candidate Cellulases in Aphelenchoides besseyi Isolated from Bird's-Nest Fern. PMID:27391812
Genomic characterization of the uncultured Bacteroidales family S24-7 inhabiting the guts of homeothermic animals. PMID:27388460
Superoxide dismutase 2 knockdown leads to defects in locomotor activity, sensitivity to paraquat, and increased cuticle pigmentation in Tribolium castaneum. PMID:27387523
Elucidating and mining the Tulipa and Lilium transcriptomes. PMID:27387304
Reannotation of Yersinia pestis Strain 91001 Based on Omics Data. PMID:27382076
Experimental Analysis of Functional Variation within Protein Families: Receiver Domain Autodephosphorylation Kinetics. PMID:27381915
The mRNA-bound proteome of the human malaria parasite Plasmodium falciparum. PMID:27381095
Misannotation Awareness: A Tale of Two Gene-Groups. PMID:27379147
Natural diversity of cellulases, xylanases, and chitinases in bacteria. PMID:27366206
A De-Novo Genome Analysis Pipeline (DeNoGAP) for large-scale comparative prokaryotic genomics studies. PMID:27363390
Discovery of a Natural Microsporidian Pathogen with a Broad Tissue Tropism in Caenorhabditis elegans. PMID:27362540
Phosphoryl Group Flow within the Pseudomonas aeruginosa Pil-Chp Chemosensory System: DIFFERENTIAL FUNCTION OF THE EIGHT PHOSPHOTRANSFERASE AND THREE RECEIVER DOMAINS. PMID:27354279
Discovery and identification of candidate genes from the chitinase gene family for Verticillium dahliae resistance in cotton. PMID:27354165
SorghumFDB: sorghum functional genomics database with multidimensional network analysis. PMID:27352859
Isofunctional Protein Subfamily Detection Using Data Integration and Spectral Clustering. PMID:27348631
Hypermethylation reduces the expression of PNPLA7 in hepatocellular carcinoma. PMID:27347198
Cyanobacterial ultrastructure in light of genomic sequence data. PMID:27344651
Uncovering Notch pathway in the parasitic flatworm Schistosoma mansoni. PMID:27344453
Complete Genome Sequence of Dyella thiooxydans ATSB10, a Thiosulfate-Oxidizing Bacterium Isolated from Sunflower Fields in South Korea. PMID:27340060
AraPPISite: a database of fine-grained protein-protein interaction site annotations for Arabidopsis thaliana. PMID:27338257
The Ensembl gene annotation system. PMID:27337980
Crystal Structures of the Global Regulator DasR from Streptomyces coelicolor: Implications for the Allosteric Regulation of GntR/HutC Repressors. PMID:27337024
Molecular Evolution of the Oxygen-Binding Hemerythrin Domain. PMID:27336621
Crystal Structure of Human Leukocyte Cell-derived Chemotaxin 2 (LECT2) Reveals a Mechanistic Basis of Functional Evolution in a Mammalian Protein with an M23 Metalloendopeptidase Fold. PMID:27334921
Whole genome sequencing as a tool for phylogenetic analysis of clinical strains of Mitis group streptococci. PMID:27325438
Isolation and Characterization of NDM-Positive Escherichia coli from Municipal Wastewater in Jeddah, Saudi Arabia. PMID:27324770
Studying RNA Homology and Conservation with Infernal: From Single Sequences to RNA Families. PMID:27322404
Genome-Wide Identification and Expression Analysis of WRKY Transcription Factors under Multiple Stresses in Brassica napus. PMID:27322342
Computational genomic identification and functional reconstitution of plant natural product biosynthetic pathways. PMID:27321668
A Numbering System for MFS Transporter Proteins. PMID:27314000
High-quality draft genome sequence of Flavobacterium suncheonense GH29-5(T) (DSM 17707(T)) isolated from greenhouse soil in South Korea, and emended description of Flavobacterium suncheonense GH29-5(T). PMID:27313837
Whole-Genome Sequencing of a Haarlem Extensively Drug-Resistant Mycobacterium tuberculosis Clinical Isolate from Medellín, Colombia. PMID:27313305
Evolution of an intron-poor cluster of the CIPK gene family and expression in response to drought stress in soybean. PMID:27311690
Whole Genome Re-Sequencing and Characterization of Powdery Mildew Disease-Associated Allelic Variation in Melon. PMID:27311063
Defining the consequences of genetic variation on a proteome-wide scale. PMID:27309819
DFLpred: High-throughput prediction of disordered flexible linker regions in protein sequences. PMID:27307636
Dbl2 Regulates Rad51 and DNA Joint Molecule Metabolism to Ensure Proper Meiotic Chromosome Segregation. PMID:27304859
Plant-specific DUF1110 protein from Oryza sativa: expression, purification and crystallization. PMID:27303902
Identification of Plasmodium falciparum Translation Initiation eIF2β Subunit: Direct Interaction with Protein Phosphatase Type 1. PMID:27303372
Gene Family Evolution Reflects Adaptation to Soil Environmental Stressors in the Genome of the Collembolan Orchesella cincta. PMID:27289101
OcculterCut: A Comprehensive Survey of AT-Rich Regions in Fungal Genomes. PMID:27289099
Regulation of Pyrroloquinoline Quinone-Dependent Glucose Dehydrogenase Activity in the Model Rhizosphere-Dwelling Bacterium Pseudomonas putida KT2440. PMID:27287323
Multiple-Localization and Hub Proteins. PMID:27285823
The complete genome of a baculovirus isolated from an insect of medical interest: Lonomia obliqua (Lepidoptera: Saturniidae). PMID:27282807
The ESX-5 System of Pathogenic Mycobacteria Is Involved In Capsule Integrity and Virulence through Its Substrate PPE10. PMID:27280885
Integrated Analysis of the Roles of Long Noncoding RNA and Coding RNA Expression in Sheep (Ovis aries) Skin during Initiation of Secondary Hair Follicle. PMID:27276011
Complete genome sequence of the haloalkaliphilic, obligately chemolithoautotrophic thiosulfate and sulfide-oxidizing γ-proteobacterium Thioalkalimicrobium cyclicum type strain ALM 1 (DSM 14477(T)). PMID:27274784
Global transcriptome analysis for identification of interactions between coding and noncoding RNAs during human erythroid differentiation. PMID:27272188
GenFamClust: an accurate, synteny-aware and reliable homology inference algorithm. PMID:27260514
Transcriptome sequences spanning key developmental states as a resource for the study of the cestode Schistocephalus solidus, a threespine stickleback parasite. PMID:27259971
Benchmarking the next generation of homology inference tools. PMID:27256311
A GCN2-Like eIF2α Kinase (LdeK1) of Leishmania donovani and Its Possible Role in Stress Response. PMID:27248816
Computational recognition and analysis of hitherto uncharacterized nucleotide cyclase-like proteins in bacteria. PMID:27246835
Candidate Genes Involved in the Biosynthesis of Triterpenoid Saponins in Platycodon grandiflorum Identified by Transcriptome Analysis. PMID:27242873
gEVE: a genome-based endogenous viral element database provides comprehensive viral protein-coding sequences in mammalian genomes. PMID:27242033
Comprehensive analyses of the annexin gene family in wheat. PMID:27236332
Coronary artery disease susceptibility gene ADTRP regulates cell cycle progression, proliferation, and apoptosis by global gene expression regulation. PMID:27235449
Structural, Functional, and Immunological Characterization of Profilin Panallergens Amb a 8, Art v 4, and Bet v 2. PMID:27231348
Expanding the spectrum of PEX10-related peroxisomal biogenesis disorders: slowly progressive recessive ataxia. PMID:27230853
Stage-specific Proteomes from Onchocerca ochengi, Sister Species of the Human River Blindness Parasite, Uncover Adaptations to a Nodular Lifestyle. PMID:27226403
Deciphering the Molecular Variations of Pine Wood Nematode Bursaphelenchus xylophilus with Different Virulence. PMID:27224277
Prediction and Quantification of Splice Events from RNA-Seq Data. PMID:27218464
Cobalamin's (Vitamin B12) Surprising Function as a Photoreceptor. PMID:27217104
Defining the SUMO System in Maize: SUMOylation Is Up-Regulated during Endosperm Development and Rapidly Induced by Stress. PMID:27208252
Genome Structure of the Symbiont Bifidobacterium pseudocatenulatum CECT 7765 and Gene Expression Profiling in Response to Lactulose-Derived Oligosaccharides. PMID:27199952
A High-resolution Typing Assay for Uropathogenic Escherichia coli Based on Fimbrial Diversity. PMID:27199951
Single-Cell (Meta-)Genomics of a Dimorphic Candidatus Thiomargarita nelsonii Reveals Genomic Plasticity. PMID:27199933
BindUP: a web server for non-homology-based prediction of DNA and RNA binding proteins. PMID:27198220
The genome and transcriptome of Phalaenopsis yield insights into floral organ development and flowering regulation. PMID:27190718
"Every Gene Is Everywhere but the Environment Selects": Global Geolocalization of Gene Sharing in Environmental Samples through Network Analysis. PMID:27190206
Conserved Features in the Structure, Mechanism, and Biogenesis of the Inverse Autotransporter Protein Family. PMID:27190006
Searching the Evolutionary Origin of Epithelial Mucus Protein Components-Mucins and FCGBP. PMID:27189557
Systems-level analysis of human aging genes shed new light on mechanisms of aging. PMID:27179790
An RNA-dependent RNA polymerase gene in bat genomes derived from an ancient negative-strand RNA virus. PMID:27174689
Patterns of Genome-Wide Variation in Glossina fuscipes fuscipes Tsetse Flies from Uganda. PMID:27172181
Inferring Contacting Residues within and between Proteins: What Do the Probabilities Mean? PMID:27171220
The repetitive DNA element BncDNA, enriched in the B chromosome of the cichlid fish Astatotilapia latifasciata, transcribes a potentially noncoding RNA. PMID:27169573
De novo genome assembly of Geosmithia morbida, the causal agent of thousand cankers disease. PMID:27168971
Diversity and Evolution of Disease Resistance Genes in Barley (Hordeum vulgare L.). PMID:27168720
Structural and biochemical characterisation of Archaeoglobus fulgidus esterase reveals a bound CoA molecule in the vicinity of the active site. PMID:27160974
Transcriptomic profile of tobacco in response to Alternaria longipes and Alternaria alternata infections. PMID:27157477
UniProt-DAAC: domain architecture alignment and classification, a new method for automatic functional annotation in UniProtKB. PMID:27153729
PinSnps: structural and functional analysis of SNPs in the context of protein interaction networks. PMID:27153707
TnT: a set of libraries for visualizing trees and track-based annotations for the web. PMID:27153646
MOCAT2: a metagenomic assembly, annotation and profiling framework. PMID:27153620
Genome-scale prediction of moonlighting proteins using diverse protein association information. PMID:27153604
Characterizing gene sets using discriminative random walks with restart on heterogeneous biological networks. PMID:27153592
Minimal Functional Sites in Metalloproteins and Their Usage in Structural Bioinformatics. PMID:27153067
Systematic analysis of somatic mutations driving cancer: uncovering functional protein regions in disease development. PMID:27150584
SpinachDB: A Well-Characterized Genomic Database for Gene Family Classification and SNP Information of Spinach. PMID:27148975
K-shell Analysis Reveals Distinct Functional Parts in an Electron Transfer Network and Its Implications for Extracellular Electron Transfer. PMID:27148219
Characterization of DNA Binding Sites of RokB, a ROK-Family Regulator from Streptomyces coelicolor Reveals the RokB Regulon. PMID:27145180
Characterization of novel Bovine Leukemia Virus (BLV) antisense transcripts by deep sequencing reveals constitutive expression in tumors and transcriptional interaction with viral microRNAs. PMID:27141823
The genetic basis for ecological adaptation of the Atlantic herring revealed by genome sequencing. PMID:27138043
ATXN7L3 and ENY2 Coordinate Activity of Multiple H2B Deubiquitinases Important for Cellular Proliferation and Tumor Growth. PMID:27132940
Comparative genomics reveals Cyclospora cayetanensis possesses coccidia-like metabolism and invasion components but unique surface antigens. PMID:27129308
Identification of syntrophic acetate-oxidizing bacteria in anaerobic digesters by combined protein-based stable isotope probing and metagenomics. PMID:27128991
KvLEA, a New Isolated Late Embryogenesis Abundant Protein Gene from Kosteletzkya virginica Responding to Multiabiotic Stresses. PMID:27123459
The AS-RBM15 lncRNA enhances RBM15 protein translation during megakaryocyte differentiation. PMID:27118388
Supporting community annotation and user collaboration in the integrated microbial genomes (IMG) system. PMID:27118214
Independent Regulation of Type VI Secretion in Vibrio cholerae by TfoX and TfoY. PMID:27117415
Endogenous growth factor stimulation of hemocyte proliferation induces resistance to Schistosoma mansoni challenge in the snail host. PMID:27114544
Tick receptor for outer surface protein A from Ixodes ricinus - the first intrinsically disordered protein involved in vector-microbe recognition. PMID:27112540
Rapid cloning of disease-resistance genes in plants using mutagenesis and sequence capture. PMID:27111722
Molecular Characterization and Global Expression Analysis of Lectin Receptor Kinases in Bread Wheat (Triticum aestivum). PMID:27111449
Companion: a web server for annotation and analysis of parasite genomes. PMID:27105845
Evidence of a Mild Mutator Phenotype in Cambodian Plasmodium falciparum Malaria Parasites. PMID:27100094
iGEMS: an integrated model for identification of alternative exon usage events. PMID:27095197
A putative nitroreductase from the DosR regulon of Mycobacterium tuberculosis induces pro-inflammatory cytokine expression via TLR2 signaling pathway. PMID:27094446
Two Groups of Thellungiella salsuginea RAVs Exhibit Distinct Responses and Sensitivity to Salt and ABA in Transgenic Arabidopsis. PMID:27093611
Patterns of database citation in articles and patents indicate long-term scientific and industry value of biological data resources. PMID:27092246
Draft genome sequencing and secretome analysis of fungal phytopathogen Ascochyta rabiei provides insight into the necrotrophic effector repertoire. PMID:27091329
Evolutionary relationships between heme-binding ferredoxin α + β barrels. PMID:27089923
ProViz-a web-based visualization tool to investigate the functional and evolutionary features of protein sequences. PMID:27085803
Ribosome reinitiation at leader peptides increases translation of bacterial proteins. PMID:27084079
Single-cell analysis of long non-coding RNAs in the developing human neocortex. PMID:27081004
Overcoming Enterotoxigenic Escherichia coli Pathogen Diversity: Translational Molecular Approaches to Inform Vaccine Design. PMID:27076141
Maximum-Entropy Models of Sequenced Immune Repertoires Predict Antigen-Antibody Affinity. PMID:27074145
Transcriptomic analysis of the stationary phase response regulator SpdR in Caulobacter crescentus. PMID:27072651
Identification of Targets and Interaction Partners of Arginyl-tRNA Protein Transferase in the Moss Physcomitrella patens. PMID:27067052
Comparative Genomic Analysis Reveals a Diverse Repertoire of Genes Involved in Prokaryote-Eukaryote Interactions within the Pseudovibrio Genus. PMID:27065959
Chimeric Sex-Determining Chromosomal Regions and Dysregulation of Cell-Type Identity in a Sterile Zygosaccharomyces Allodiploid Yeast. PMID:27065237
Properties and Phylogeny of 76 Families of Bacterial and Eukaryotic Organellar Outer Membrane Pore-Forming Proteins. PMID:27064789
A Novel Typing Method for Streptococcus pneumoniae Using Selected Surface Proteins. PMID:27064593
ATtRACT-a database of RNA-binding proteins and associated motifs. PMID:27055826
Recurring patterns in bacterioplankton dynamics during coastal spring algae blooms. PMID:27054497
Cache Domains That are Homologous to, but Different from PAS Domains Comprise the Largest Superfamily of Extracellular Sensors in Prokaryotes. PMID:27049771
Campylobacter fetus Subspecies Contain Conserved Type IV Secretion Systems on Multiple Genomic Islands and Plasmids. PMID:27049518
The Genome and Methylome of a Subsocial Small Carpenter Bee, Ceratina calcarata. PMID:27048475
Conservation and divergence of the histone code in nucleomorphs. PMID:27048461
Identification and Partial Characterization of a Novel UDP-N-Acetylenolpyruvoylglucosamine Reductase/UDP-N-Acetylmuramate:l-Alanine Ligase Fusion Enzyme from Verrucomicrobium spinosum DSM 4136(T). PMID:27047475
Phylogenetic analysis of β-xylanase SRXL1 of Sporisorium reilianum and its relationship with families (GH10 and GH11) of Ascomycetes and Basidiomycetes. PMID:27040368
Molecular characterization of a family 5 glycoside hydrolase suggests an induced-fit enzymatic mechanism. PMID:27032335
Topology based identification and comprehensive classification of four-transmembrane helix containing proteins (4TMs) in the human genome. PMID:27030248
The tangled bank of amino acids. PMID:27028523
Utilizing yeast chemogenomic profiles for the prediction of pharmacogenomic associations in humans. PMID:27025271
Molecular Characterization of MaCCS, a Novel Copper Chaperone Gene Involved in Abiotic and Hormonal Stress Responses in Musa acuminata cv. Tianbaojiao. PMID:27023517
Anaplasma phagocytophilum increases the levels of histone modifying enzymes to inhibit cell apoptosis and facilitate pathogen infection in the tick vector Ixodes scapularis. PMID:27019326
Transcriptome analyses of insect cells to facilitate baculovirus-insect expression. PMID:27017378
Completion of the mitochondrial genome sequence of onion (Allium cepa L.) containing the CMS-S male-sterile cytoplasm and identification of an independent event of the ccmF N gene split. PMID:27016941
CCProf: exploring conformational change profile of proteins. PMID:27016699
tRNAmodpred: A computational method for predicting posttranscriptional modifications in tRNAs. PMID:27016142
The Pokeweed Leaf mRNA Transcriptome and Its Regulation by Jasmonic Acid. PMID:27014307
Genomic Insight into the Host-Endosymbiont Relationship of Endozoicomonas montiporae CL-33(T) with its Coral Host. PMID:27014194
Draft Genome Sequence of an Endophytic Actinoplanes Species, Encoding Uncommon trans-Acyltransferase Polyketide Synthases. PMID:27013046
UmuDAb: An Error-Prone Polymerase Accessory Homolog Whose N-Terminal Domain Is Required for Repression of DNA Damage Inducible Gene Expression in Acinetobacter baylyi. PMID:27010837
Finding Protein and Nucleotide Similarities with FASTA. PMID:27010337
Genome-Wide Identification of R2R3-MYB Genes and Expression Analyses During Abiotic Stress in Gossypium raimondii. PMID:27009386
Differences in environmental stress response among yeasts is consistent with species-specific lifestyles. PMID:27009200
Long noncoding RNAs expressed in human hepatic stellate cells form networks with extracellular matrix proteins. PMID:27007663
Inside the Pan-genome - Methods and Software Overview. PMID:27006628
Functional Diversification after Gene Duplication: Paralog Specific Regions of Structural Disorder and Phosphorylation in p53, p63, and p73. PMID:27003913
GO annotation in InterPro: why stability does not indicate accuracy in a sea of changing annotations. PMID:26994912
A Chemotaxis Receptor Modulates Nodulation during the Azorhizobium caulinodans-Sesbania rostrata Symbiosis. PMID:26994081
Horizontal Gene Acquisitions, Mobile Element Proliferation, and Genome Decay in the Host-Restricted Plant Pathogen Erwinia Tracheiphila. PMID:26992913
KinetochoreDB: a comprehensive online resource for the kinetochore and its related proteins. PMID:26989151
Pipeline for the identification and classification of ion channels in parasitic flatworms. PMID:26983991
Active site specificity profiling datasets of matrix metalloproteinases (MMPs) 1, 2, 3, 7, 8, 9, 12, 13 and 14. PMID:26981551
RNA-seq analysis for plant carnivory gene discovery in Nepenthes × ventrata. PMID:26981352
RNA-seq analysis for secondary metabolite pathway gene discovery in Polygonum minus. PMID:26981350
PolyQ 2.0: an improved version of PolyQ, a database of human polyglutamine proteins. PMID:26980520
PhyloPro2.0: a database for the dynamic exploration of phylogenetically conserved proteins and their domain architectures across the Eukarya. PMID:26980519
Proteome distribution between nucleoplasm and nucleolus and its relation to ribosome biogenesis in Arabidopsis thaliana. PMID:26980300
Linalool isomerase, a membrane-anchored enzyme in the anaerobic monoterpene degradation in Thauera linaloolentis 47Lol. PMID:26979141
The Escherichia coli Cryptic Prophage Protein YfdR Binds to DnaA and Initiation of Chromosomal Replication Is Inhibited by Overexpression of the Gene Cluster yfdQ-yfdR-yfdS-yfdT. PMID:26973617
Systems biology of the structural proteome. PMID:26969117
The proteome and phosphoproteome of maize pollen uncovers fertility candidate proteins. PMID:26969016
Genome-wide analysis of MATE transporters and expression patterns of a subgroup of MATE genes in response to aluminum toxicity in soybean. PMID:26968518
Transcriptome analysis reveals differentially expressed genes associated with germ cell and gonad development in the Southern bluefin tuna (Thunnus maccoyii). PMID:26965070
Genome-wide analysis identifies gain and loss/change of function within the small multigenic insecticidal Albumin 1 family of Medicago truncatula. PMID:26964738
The Structural Basis of Coenzyme A Recycling in a Bacterial Organelle. PMID:26959993
Human symbionts inject and neutralize antibacterial toxins to persist in the gut. PMID:26957597
CoeViz: a web-based tool for coevolution analysis of protein residues. PMID:26956673
Transcriptome Profiling of Two Asparagus Bean (Vigna unguiculata subsp. sesquipedalis) Cultivars Differing in Chilling Tolerance under Cold Stress. PMID:26954786
In depth analysis of the mechanism of action of metal-dependent sigma factors: characterization of CorE2 from Myxococcus xanthus. PMID:26951374
Whole-Genome Sequence of Corynebacterium pseudotuberculosis Strain 226, Isolated from the Abscess of a Goat in California. PMID:26950327
In silico dissection of Type VII Secretion System components across bacteria: New directions towards functional characterization. PMID:26949095
Genome-wide characterization and analysis of bZIP transcription factor gene family related to abiotic stress in cassava. PMID:26947924
Comparative genomics and prediction of conditionally dispensable sequences in legume-infecting Fusarium oxysporum formae speciales facilitates identification of candidate effectors. PMID:26945779
Three reasons protein disorder analysis makes more sense in the light of collagen. PMID:26941008
Genome-wide identification and evolutionary analysis of leucine-rich repeat receptor-like protein kinase genes in soybean. PMID:26935840
Structural model of FeoB, the iron transporter from Pseudomonas aeruginosa, predicts a cysteine lined, GTP-gated pore. PMID:26934982
Expression Atlas of the Deubiquitinating Enzymes in the Adult Mouse Retina, Their Evolutionary Diversification and Phenotypic Roles. PMID:26934049
Balance between Coiled-Coil Stability and Dynamics Regulates Activity of BvgS Sensor Kinase in Bordetella. PMID:26933056
Functional and topological diversity of LOV domain photoreceptors. PMID:26929367
Towards the bridging of molecular genetics data across Xenopus species. PMID:26925848
Structures of EccB1 and EccD1 from the core complex of the mycobacterial ESX-1 type VII secretion system. PMID:26922638
A LEA 4 protein up-regulated by ABA is involved in drought response in maize roots. PMID:26922182
Mutations in Novel Lipopolysaccharide Biogenesis Genes Confer Resistance to Amoebal Grazing in Synechococcus elongatus. PMID:26921432
Methuselah/Methuselah-like G protein-coupled receptors constitute an ancient metazoan gene family. PMID:26915348
Unique Loss of the PYHIN Gene Family in Bats Amongst Mammals: Implications for Inflammasome Sensing. PMID:26906452
Glutathione S-Transferase Gene Family in Gossypium raimondii and G. arboreum: Comparative Genomic Study and their Expression under Salt Stress. PMID:26904090
Genomic Analysis of the Human Gut Microbiome Suggests Novel Enzymes Involved in Quinone Biosynthesis. PMID:26904004
Transcriptional Regulation of Carbohydrate Utilization Pathways in the Bifidobacterium Genus. PMID:26903998
Pooled screening for antiproliferative inhibitors of protein-protein interactions. PMID:26900867
Complete Genome Sequence and Comparative Genomics of a Novel Myxobacterium Myxococcus hansupus. PMID:26900859
Transcriptional profiling of epigenetic regulators in somatic embryos during temperature induced formation of an epigenetic memory in Norway spruce. PMID:26895338
The Type III Secretion System-Related CPn0809 from Chlamydia pneumoniae. PMID:26895250
An effective approach for annotation of protein families with low sequence similarity and conserved motifs: identifying GDSL hydrolases across the plant kingdom. PMID:26892257
Comparative analysis of plant immune receptor architectures uncovers host proteins likely targeted by pathogens. PMID:26891798
An Insight into the Triabin Protein Family of American Hematophagous Reduviids: Functional, Structural and Phylogenetic Analysis. PMID:26891325
Establishing the precise evolutionary history of a gene improves prediction of disease-causing missense mutations. PMID:26890452
Functional and Structural Analysis of a β-Glucosidase Involved in β-1,2-Glucan Metabolism in Listeria innocua. PMID:26886583
Inter-Protein Sequence Co-Evolution Predicts Known Physical Interactions in Bacterial Ribosomes and the Trp Operon. PMID:26882169
Whole genome resequencing of the human parasite Schistosoma mansoni reveals population history and effects of selection. PMID:26879532
Evolutionary Changes on the Way to Clathrin-Mediated Endocytosis in Animals. PMID:26872775
A Comparative Analysis of Mitochondrial Genomes in Eustigmatophyte Algae. PMID:26872774
Widespread Expansion of Protein Interaction Capabilities by Alternative Splicing. PMID:26871637
Evolution and Functional Insights of Different Ancestral Orthologous Clades of Chitin Synthase Genes in the Fungal Tree of Life. PMID:26870058
Gene Expression Variation Resolves Species and Individual Strains among Coral-Associated Dinoflagellates within the Genus Symbiodinium. PMID:26868597
ApoCanD: Database of human apoptotic proteins in the context of cancer. PMID:26861916
Metagenomic Analysis Indicates Epsilonproteobacteria as a Potential Cause of Microbial Corrosion in Pipelines Injected with Bisulfite. PMID:26858705
Multi-tissue transcriptomics for construction of a comprehensive gene resource for the terrestrial snail Theba pisana. PMID:26852673
Design Principles Involving Protein Disorder Facilitate Specific Substrate Selection and Degradation by the Ubiquitin-Proteasome System. PMID:26851277
Proteomics reveals major components of oogenesis in the reproductive tract of sugar-fed Anopheles aquasalis. PMID:26850722
Missense Mutations Allow a Sequence-Blind Mutant of SpoIIIE to Successfully Translocate Chromosomes during Sporulation. PMID:26849443
Dramatic Number Variation of R Genes in Solanaceae Species Accounted for by a Few R Gene Subfamilies. PMID:26849045
A betabaculovirus encoding a gp64 homolog. PMID:26847652
A review of the new HGNC gene family resource. PMID:26842383
De Novo Assembled Wheat Transcriptomes Delineate Differentially Expressed Host Genes in Response to Leaf Rust Infection. PMID:26840746
Regulation of Expression and Evolution of Genes in Plastids of Rhodophytic Branch. PMID:26840333
Comprehensive Annotation of the Parastagonospora nodorum Reference Genome Using Next-Generation Genomics, Transcriptomics and Proteogenomics. PMID:26840125
Novel origin of lamin-derived cytoplasmic intermediate filaments in tardigrades. PMID:26840051
Metagenomic analysis and functional characterization of the biogas microbiome using high throughput shotgun sequencing and a novel binning strategy. PMID:26839589
Genome-Wide Analysis of the AP2/ERF Superfamily Genes and their Responses to Abiotic Stress in Medicago truncatula. PMID:26834762
Classification of proteins with shared motifs and internal repeats in the ECOD database. PMID:26833690
Streptomyces thermoautotrophicus does not fix nitrogen. PMID:26833023
The diversification of the basic leucine zipper family in eukaryotes correlates with the evolution of multicellularity. PMID:26831906
The Chlamydia trachomatis Protease CPAF Contains a Cryptic PDZ-Like Domain with Similarity to Human Cell Polarity and Tight Junction PDZ-Containing Proteins. PMID:26829550
Draft genome sequence for virulent and avirulent strains of Xanthomonas arboricola isolated from Prunus spp. in Spain. PMID:26823958
Draft Genome Sequences of Five Pseudomonas aeruginosa Clinical Strains Isolated from Sputum Samples from Cystic Fibrosis Patients. PMID:26823574
ALVIS: interactive non-aggregative visualization and explorative analysis of multiple sequence alignments. PMID:26819408
Inference of domain-disease associations from domain-protein, protein-disease and disease-disease relationships. PMID:26818594
Identification of Genes Relevant to Pesticides and Biology from Global Transcriptome Data of Monochamus alternatus Hope (Coleoptera: Cerambycidae) Larvae. PMID:26815657
A survey of best practices for RNA-seq data analysis. PMID:26813401
A structured interdomain linker directs self-polymerization of human uromodulin. PMID:26811476
The Chemical Biology of Human Metallo-β-Lactamase Fold Proteins. PMID:26805042
Global analysis of human duplicated genes reveals the relative importance of whole-genome duplicates originated in the early vertebrate evolution. PMID:26801093
EchinoDB, an application for comparative transcriptomics of deeply-sampled clades of echinoderms. PMID:26800861
The Role of the Exo-Xis Region in Oxidative Stress-Mediated Induction of Shiga Toxin-Converting Prophages. PMID:26798427
The identification of immune genes in the milk transcriptome of the Tasmanian devil (Sarcophilus harrisii). PMID:26793426
Assembly, Assessment, and Availability of De novo Generated Eukaryotic Transcriptomes. PMID:26793234
Proteomics analysis of global regulatory cascades involved in clavulanic acid production and morphological development in Streptomyces clavuligerus. PMID:26790415
Insight into the Salivary Gland Transcriptome of Lygus lineolaris (Palisot de Beauvois). PMID:26789269
In silico Identification and Validation of a Linear and Naturally Immunogenic B-Cell Epitope of the Plasmodium vivax Malaria Vaccine Candidate Merozoite Surface Protein-9. PMID:26788998
The genome sequence of the outbreeding globe artichoke constructed de novo incorporating a phase-aware low-pass sequencing strategy of F1 progeny. PMID:26786968
Selective integrin endocytosis is driven by interactions between the integrin α-chain and AP2. PMID:26779610
dbEM: A database of epigenetic modifiers curated from cancerous and normal genomes. PMID:26777304
3DIANA: 3D Domain Interaction Analysis: A Toolbox for Quaternary Structure Modeling. PMID:26772592
Systematic Identification and Characterization of Long Non-Coding RNAs in the Silkworm, Bombyx mori. PMID:26771876
A Factor Graph Approach to Automated GO Annotation. PMID:26771463
Divergence of the bZIP Gene Family in Strawberry, Peach, and Apple Suggests Multiple Modes of Gene Evolution after Duplication. PMID:26770968
Transcriptome profiling of Kentucky bluegrass (Poa pratensis L.) accessions in response to salt stress. PMID:26758626
CASP 11 target classification. PMID:26756794
Pangenome-wide and molecular evolution analyses of the Pseudomonas aeruginosa species. PMID:26754847
Cell wall proteome of sugarcane stems: comparison of a destructive and a non-destructive extraction method showed differences in glycoside hydrolases and peroxidases. PMID:26754199
Determination of specificity influencing residues for key transcription factor families. PMID:26753103
Use of a Probabilistic Motif Search to Identify Histidine Phosphotransfer Domain-Containing Proteins. PMID:26751210
Characterization of Rv0888, a Novel Extracellular Nuclease from Mycobacterium tuberculosis. PMID:26742696
Comparing Residue Clusters from Thermophilic and Mesophilic Enzymes Reveals Adaptive Mechanisms. PMID:26741367
Homology-Based Prediction of Potential Protein-Protein Interactions between Human Erythrocytes and Plasmodium falciparum. PMID:26740742
Why do Sequence Signatures Predict Enzyme Mechanism? Homology versus Chemistry. PMID:26740739
Comparative transcriptome analysis reveals insights into the streamlined genomes of haplosclerid demosponges. PMID:26738846
Identification and classification of small molecule kinases: insights into substrate recognition and specificity. PMID:26738562
A Multilayer Network Approach for Guiding Drug Repositioning in Neglected Diseases. PMID:26735851
Similar Microbial Communities Found on Two Distant Seafloor Basalts. PMID:26733957
A Porphyromonas gingivalis Periplasmic Novel Exopeptidase, Acylpeptidyl Oligopeptidase, Releases N-Acylated Di- and Tripeptides from Oligopeptides. PMID:26733202
Tripartite degrons confer diversity and specificity on regulated protein degradation in the ubiquitin-proteasome system. PMID:26732515
dEMBF: A Comprehensive Database of Enzymes of Microalgal Biofuel Feedstock. PMID:26727469
Synthetic and natural consensus design for engineering charge within an affibody targeting epidermal growth factor receptor. PMID:26724421
Schistosoma mansoni Egg, Adult Male and Female Comparative Gene Expression Analysis and Identification of Novel Genes by RNA-Seq. PMID:26719891
Bioinformatic landscapes for plant transcription factor system research. PMID:26719053
KIAA0556 is a novel ciliary basal body component mutated in Joubert syndrome. PMID:26714646
Identification of Thyroid Hormones and Functional Characterization of Thyroid Hormone Receptor in the Pacific Oyster Crassostrea gigas Provide Insight into Evolution of the Thyroid Hormone System. PMID:26710071
Human Gut-Commensalic Lactobacillus ruminis ATCC 25644 Displays Sortase-Assembled Surface Piliation: Phenotypic Characterization of Its Fimbrial Operon through In Silico Predictive Analysis and Recombinant Expression in Lactococcus lactis. PMID:26709916
HitPredict version 4: comprehensive reliability scoring of physical protein-protein interactions from more than 100 species. PMID:26708988
Diverse roles of the nucleic acid-binding protein KHSRP in cell differentiation and disease. PMID:26708421
Whole genome sequence and manual annotation of Clostridium autoethanogenum, an industrially relevant bacterium. PMID:26692227
Genome-wide transcriptomic analyses provide insights into the lifestyle transition and effector repertoire of Leptosphaeria maculans during the colonization of Brassica napus seedlings. PMID:26679637
Draft Genome of the Arthrobacter sp. Strain Edens01. PMID:26679586
The Pfam protein families database: towards a more sustainable future. PMID:26673716
The European Bioinformatics Institute in 2016: Data growth and integration. PMID:26673705
Metagenome-assembled genomes uncover a global brackish microbiome. PMID:26667648
Complete genome sequence of the molybdenum-resistant bacterium Bacillus subtilis strain LM 4-2. PMID:26664656
Genome sequences of two closely related strains of Escherichia coli K-12 GM4792. PMID:26664654
Functional prediction of hypothetical proteins in human adenoviruses. PMID:26664031
The Draft Genome Sequence of Xanthomonas sp. Strain Mitacek01 Expands the Pangenome of a Genus of Plant Pathogens. PMID:26659686
Toxoplasma gondii Chitinase Induces Macrophage Activation. PMID:26659253
Kiwifruit Information Resource (KIR): a comparative platform for kiwifruit genomics. PMID:26656885
Combined de novo and genome guided assembly and annotation of the Pinus patula juvenile shoot transcriptome. PMID:26652261
Genome sequence of the clover symbiont Rhizobium leguminosarum bv. trifolii strain CC275e. PMID:26649149
In planta Identification of Putative Pathogenicity Factors from the Chickpea Pathogen Ascochyta rabiei by De novo Transcriptome Sequencing Using RNA-Seq and Massive Analysis of cDNA Ends. PMID:26648917
A simple feature construction method for predicting upstream/downstream signal flow in human protein-protein interaction networks. PMID:26648121
Diversity and Divergence of Dinoflagellate Histone Proteins. PMID:26646152
The complete genome sequencing of Prevotella intermedia strain OMA14 and a subsequent fine-scale, intra-species genomic comparison reveal an unusual amplification of conjugative and mobile transposons and identify a novel Prevotella-lineage-specific repeat. PMID:26645327
ALCOdb: Gene Coexpression Database for Microalgae. PMID:26644461
'Deadman' and 'Passcode' microbial kill switches for bacterial containment. PMID:26641934
Repairing oxidized proteins in the bacterial envelope using respiratory chain electrons. PMID:26641313
Ultrahigh-throughput discovery of promiscuous enzymes by picodroplet functional metagenomics. PMID:26639611
AnGeLi: A Tool for the Analysis of Gene Lists from Fission Yeast. PMID:26635866
The Structure of a Novel Thermophilic Esterase from the Planctomycetes Species, Thermogutta terrifontis Reveals an Open Active Site Due to a Minimal 'Cap' Domain. PMID:26635762
COMBREX-DB: an experiment centered database of protein function: knowledge, predictions and knowledge gaps. PMID:26635392
An extracellular biochemical screen reveals that FLRTs and Unc5s mediate neuronal subtype recognition in the retina. PMID:26633812
Genome-Wide Identification and Analysis of the VQ Motif-Containing Protein Family in Chinese Cabbage (Brassica rapa L. ssp. Pekinensis). PMID:26633387
A network medicine approach to quantify distance between hereditary disease modules on the interactome. PMID:26631976
Designer and natural peptide toxin blockers of the KcsA potassium channel identified by phage display. PMID:26627718
orthoFind Facilitates the Discovery of Homologous and Orthologous Proteins. PMID:26624019
Metagenome and Metatranscriptome Revealed a Highly Active and Intensive Sulfur Cycle in an Oil-Immersed Hydrothermal Chimney in Guaymas Basin. PMID:26617579
Phenotypic differentiation of gastrointestinal microbes is reflected in their encoded metabolic repertoires. PMID:26617277
Comparative Genomics of Candidate Phylum TM6 Suggests That Parasitism Is Widespread and Ancestral in This Lineage. PMID:26615204
Whole genome sequencing provides possible explanations for the difference in phage susceptibility among two Salmonella Typhimurium phage types (DT8 and DT30) associated with a single foodborne outbreak. PMID:26613761
Functional testing of a PF02458 homologue of putative rice arabinoxylan feruloyl transferase genes in Brachypodium distachyon. PMID:26612070
Complete nitrification by Nitrospira bacteria. PMID:26610024
Genome Analysis of Staphylococcus agnetis, an Agent of Lameness in Broiler Chickens. PMID:26606420
Complete genome sequence of bacteriophage P26218 infecting Rhodoferax sp. strain IMCC26218. PMID:26605005
Identification of Pathogenicity-Related Genes in Biofilm-Defective Acidovorax citrulli by Transposon Tn5 Mutagenesis. PMID:26602922
Regulation of a Protein Acetyltransferase in Myxococcus xanthus by the Coenzyme NADP. PMID:26598367
Integrative genomic mining for enzyme function to enable engineering of a non-natural biosynthetic pathway. PMID:26598135
Type II toxin: antitoxin systems. More than small selfish entities? PMID:26597447
Comparative genomics and metabolic profiling of the genus Lysobacter. PMID:26597042
Annotation inconsistencies beyond sequence similarity-based function prediction - phylogeny and genome structure. PMID:26594309
Comparative genomic analyses reveal a vast, novel network of nucleotide-centric systems in biological conflicts, immunity and signaling. PMID:26590262
The UCSC Genome Browser database: 2016 update. PMID:26590259
deepBase v2.0: identification, expression, evolution and function of small RNAs, LncRNAs and circular RNAs from deep-sequencing data. PMID:26590255
The Utility of Genome Skimming for Phylogenomic Analyses as Demonstrated for Glycerid Relationships (Annelida, Glyceridae). PMID:26590213
Arabidopsis Rab Geranylgeranyltransferases Demonstrate Redundancy and Broad Substrate Specificity in Vitro. PMID:26589801
Draft genome sequence of Cellulomonas carbonis T26(T) and comparative analysis of six Cellulomonas genomes. PMID:26587181
Discovery of Novel Plant Interaction Determinants from the Genomes of 163 Root Nodule Bacteria. PMID:26584898
eggNOG 4.5: a hierarchical orthology framework with improved functional annotations for eukaryotic, prokaryotic and viral sequences. PMID:26582926
Genome-wide identification and evolutionary analyses of bZIP transcription factors in wheat and its relatives and expression profiles of anther development related TabZIP genes. PMID:26581444
Experimental detection of short regulatory motifs in eukaryotic proteins: tips for good practice as well as for bad. PMID:26581338
Transcriptator: An Automated Computational Pipeline to Annotate Assembled Reads and Identify Non Coding RNA. PMID:26581084
High Innate Immune Specificity through Diversified C-Type Lectin-Like Domain Proteins in Invertebrates. PMID:26580547
BioGPS: building your own mash-up of gene annotations and expression profiles. PMID:26578587
PCOSKB: A KnowledgeBase on genes, diseases, ontology terms and biochemical pathways associated with PolyCystic Ovary Syndrome. PMID:26578565
SugarBindDB, a resource of glycan-mediated host-pathogen interactions. PMID:26578555
DiffLogo: a comparative visualization of sequence motifs. PMID:26577052
Co-occurrence of resistance genes to antibiotics, biocides and metals reveals novel insights into their co-selection potential. PMID:26576951
Identification of the Elusive Pyruvate Reductase of Chlamydomonas reinhardtii Chloroplasts. PMID:26574578
Automated protein motif generation in the structure-based protein function prediction tool ProMOL. PMID:26573864
A new network representation of the metabolism to detect chemical transformation modules. PMID:26573681
Comparative Genomics of NAC Transcriptional Factors in Angiosperms: Implications for the Adaptation and Diversification of Flowering Plants. PMID:26569117
Using de novo protein structure predictions to measure the quality of very large multiple sequence alignments. PMID:26568625
MAPanalyzer: a novel online tool for analyzing microtubule-associated proteins. PMID:26568329
Investigating the Roles of the C-Terminal Domain of Plasmodium falciparum GyrA. PMID:26566222
High quality draft genomic sequence of Flavobacterium enshiense DK69(T) and comparison among Flavobacterium genomes. PMID:26561515
Getting ready for host invasion: elevated expression and action of xyloglucan endotransglucosylases/hydrolases in developing haustoria of the holoparasitic angiosperm Cuscuta. PMID:26561437
RNA Sequencing Revealed Numerous Polyketide Synthase Genes in the Harmful Dinoflagellate Karenia mikimotoi. PMID:26561394
Mitochondrial targeting sequence variants of the CHCHD2 gene are a risk for Lewy body disorders. PMID:26561290
Dead enzymes in the aldehyde dehydrogenase gene family: role in drug metabolism and toxicology. PMID:26558415
A phylogenetic approach to study the origin and evolution of the CRINKLY4 family. PMID:26557128
Evolutionary Rate Heterogeneity of Primary and Secondary Metabolic Pathway Genes in Arabidopsis thaliana. PMID:26556590
σ54-dependent regulome in Desulfovibrio vulgaris Hildenborough. PMID:26555820
Continuous Distributed Representation of Biological Sequences for Deep Proteomics and Genomics. PMID:26555596
Distribution of Plasmids in Distinct Leptospira Pathogenic Species. PMID:26555137
The WRKY transcription factor family and senescence in switchgrass. PMID:26552372
Three Residues Make an Evolutionary Switch for Folding and RNA-Destabilizing Activity in the TTP Family of Proteins. PMID:26551835
Revisiting the reference genomes of human pathogenic Cryptosporidium species: reannotation of C. parvum Iowa and a new C. hominis reference. PMID:26549794
The Transporter Classification Database (TCDB): recent advances. PMID:26546518
Draft Genome Sequence of Caedibacter varicaedens, a Kappa Killer Endosymbiont Bacterium of the Ciliate Paramecium biaurelia. PMID:26543129
MetAnnotate: function-specific taxonomic profiling and comparison of metagenomes. PMID:26541816
Systematic discovery of linear binding motifs targeting an ancient protein interaction surface on MAP kinases. PMID:26538579
AIP1 is a novel Agenet/Tudor domain protein from Arabidopsis that interacts with regulators of DNA replication, transcription and chromatin remodeling. PMID:26538092
The Distant Siblings-A Phylogenomic Roadmap Illuminates the Origins of Extant Diversity in Fungal Aromatic Polyketide Biosynthesis. PMID:26537223
The Skeleton Forming Proteome of an Early Branching Metazoan: A Molecular Survey of the Biomineralization Components Employed by the Coralline Sponge Vaceletia Sp. PMID:26536128
Genome-Wide Annotation and Comparative Analysis of Cytochrome P450 Monooxygenases in Basidiomycete Biotrophic Plant Pathogens. PMID:26536121
Computational analysis of candidate prion-like proteins in bacteria and their role. PMID:26528269
A combined bioinformatics and functional metagenomics approach to discovering lipolytic biocatalysts. PMID:26528261
RegulonDB version 9.0: high-level integration of gene regulation, coexpression, motif clustering and beyond. PMID:26527724
Twenty years of the MEROPS database of proteolytic enzymes, their substrates and inhibitors. PMID:26527717
Ectomycorrhizal fungi decompose soil organic matter using oxidative mechanisms adapted from saprotrophic ancestors. PMID:26527297
Structural and Enzymatic Characterization of a Nucleoside Diphosphate Sugar Hydrolase from Bdellovibrio bacteriovorus. PMID:26524597
Evidence for a Nonendosomal Function of the Saccharomyces cerevisiae ESCRT-III-Like Protein Chm7. PMID:26510789
Identification of MltG as a potential terminase for peptidoglycan polymerization in bacteria. PMID:26507882
Systematic Identification of Cyclic-di-GMP Binding Proteins in Vibrio cholerae Reveals a Novel Class of Cyclic-di-GMP-Binding ATPases Associated with Type II Secretion Systems. PMID:26506097
De Novo Assembly and Genome Analyses of the Marine-Derived Scopulariopsis brevicaulis Strain LF580 Unravels Life-Style Traits and Anticancerous Scopularide Biosynthetic Gene Cluster. PMID:26505484
Genomic variants of genes associated with three horticultural traits in apple revealed by genome re-sequencing. PMID:26504548
Dynamics of Wolbachia pipientis Gene Expression Across the Drosophila melanogaster Life Cycle. PMID:26497146
A catalogue of novel bovine long noncoding RNA across 18 tissues. PMID:26496443
Characterizing novel endogenous retroviruses from genetic variation inferred from short sequence reads. PMID:26493184
Modulation of Ambient Temperature-Dependent Flowering in Arabidopsis thaliana by Natural Variation of FLOWERING LOCUS M. PMID:26492483
Structural basis for suppression of hypernegative DNA supercoiling by E. coli topoisomerase I. PMID:26490962
From residue coevolution to protein conformational ensembles and functional dynamics. PMID:26487681
Integrative Genomics-Based Discovery of Novel Regulators of the Innate Antiviral Response. PMID:26485378
Recovering full-length viral genomes from metagenomes. PMID:26483782
Evolutionary history of phosphatidylinositol- 3-kinases: ancestral origin in eukaryotes and complex duplication patterns. PMID:26482564
Global identification and analysis of long non-coding RNAs in diploid strawberry Fragaria vesca during flower and fruit development. PMID:26481460
DIDA: A curated and annotated digenic diseases database. PMID:26481352
A comprehensive mapping of the structure and gene organisation in the sheep MHC class I region. PMID:26480943
PDBe: improved accessibility of macromolecular structure data from PDB and EMDB. PMID:26476444
Conserved S-Layer-Associated Proteins Revealed by Exoproteomic Survey of S-Layer-Forming Lactobacilli. PMID:26475115
Characterization of Cercospora nicotianae Hypothetical Proteins in Cercosporin Resistance. PMID:26474162
Genome-wide analysis on Chlamydomonas reinhardtii reveals the impact of hydrogen peroxide on protein stress responses and overlap with other stress transcriptomes. PMID:26473430
Gene expression profiling during adventitious root formation in carnation stem cuttings. PMID:26467528
CAMPR3: a database on sequences, structures and signatures of antimicrobial peptides. PMID:26467475
A JAZ Protein in Astragalus sinicus Interacts with a Leghemoglobin through the TIFY Domain and Is Involved in Nodule Development and Nitrogen Fixation. PMID:26460857
Hepatic Long Intergenic Noncoding RNAs: High Promoter Conservation and Dynamic, Sex-Dependent Transcriptional Regulation by Growth Hormone. PMID:26459762
Discovering neutralizing antibodies targeting the stem epitope of H1N1 influenza hemagglutinin with synthetic phage-displayed antibody libraries. PMID:26456860
Crystal structure of a conserved domain in the intermembrane space region of the plastid division protein ARC6. PMID:26452626
WaspAtlas: a Nasonia vitripennis gene database and analysis platform. PMID:26452372
Diversity in protein domain superfamilies. PMID:26451979
Connectivity Homology Enables Inter-Species Network Models of Synthetic Lethality. PMID:26451775
De novo transcriptome profiling of highly purified human lymphocytes primary cells. PMID:26451251
MitoCarta2.0: an updated inventory of mammalian mitochondrial proteins. PMID:26450961
Identification and characterization of a minisatellite contained within a novel miniature inverted-repeat transposable element (MITE) of Porphyromonas gingivalis. PMID:26448788
Coevolutionary Landscape Inference and the Context-Dependence of Mutations in Beta-Lactamase TEM-1. PMID:26446903
DECIPHER: harnessing local sequence context to improve protein multiple sequence alignment. PMID:26445311
General Stress Signaling in the Alphaproteobacteria. PMID:26442844
Genomes to natural products PRediction Informatics for Secondary Metabolomes (PRISM). PMID:26442528
Genome-wide analysis and expression profiling under heat and drought treatments of HSP70 gene family in soybean (Glycine max L.). PMID:26442082
A novel workflow correlating RNA-seq data to Phythophthora infestans resistance levels in wild Solanum species and potato clones. PMID:26442032
Physiological and genomic characterization of Arcobacter anaerophilus IR-1 reveals new metabolic features in Epsilonproteobacteria. PMID:26441916
Diversity of laccase-coding genes in Fusarium oxysporum genomes. PMID:26441870
A Naturally Occurring Repeat Protein with High Internal Sequence Identity Defines a New Class of TPR-like Proteins. PMID:26439765
Clocks do not tick in unison: isolation of Clock and vrille shed new light on the clockwork model of the sand fly Lutzomyia longipalpis. PMID:26438221
Limb body wall complex, amniotic band sequence, or new syndrome caused by mutation in IQ Motif containing K (IQCK)? PMID:26436108
Cheminformatics Research at the Unilever Centre for Molecular Science Informatics Cambridge. PMID:26435758
An assessment of the amount of untapped fold level novelty in under-sampled areas of the tree of life. PMID:26434770
Following the Footsteps of Chlamydial Gene Regulation. PMID:26424812
The Recognition of Identical Ligands by Unrelated Proteins. PMID:26421501
Development of 23 novel polymorphic EST-SSR markers for the endangered relict conifer Metasequoia glyptostroboides. PMID:26421250
Genome sequence of a native-feather degrading extremely thermophilic Eubacterium, Fervidobacterium islandicum AW-1. PMID:26421103
Escherichia coli O157:H7 strains harbor at least three distinct sequence types of Shiga toxin 2a-converting phages. PMID:26416807
Comprehensive analysis of the flowering genes in Chinese cabbage and examination of evolutionary pattern of CO-like genes in plant kingdom. PMID:26416765
Evidence-Based Structural Model of the Staphylococcal Repressor Protein: Separation of Functions into Different Domains. PMID:26414067
Genome sequence of Anoxybacillus ayderensis AB04(T) isolated from the Ayder hot spring in Turkey. PMID:26413199
An automated Genomes-to-Natural Products platform (GNP) for the discovery of modular natural products. PMID:26412281
The long noncoding RNA landscape in hypoxic and inflammatory renal epithelial injury. PMID:26400545
High-Throughput Identification of Cis-Regulatory Rewiring Events in Yeast. PMID:26399482
Coupling Protein Side-Chain and Backbone Flexibility Improves the Re-design of Protein-Ligand Specificity. PMID:26397464
De novo sequencing and assembly analysis of transcriptome in the Sodom apple (Calotropis gigantea). PMID:26395839
Identification of 4CL Genes in Desert Poplars and Their Changes in Expression in Response to Salt Stress. PMID:26393655
Systematic Prediction of Scaffold Proteins Reveals New Design Principles in Scaffold-Mediated Signal Transduction. PMID:26393507
Simulating the function of sodium/proton antiporters. PMID:26392528
Detoxification of Indole by an Indole-Induced Flavoprotein Oxygenase from Acinetobacter baumannii. PMID:26390211
FARE-CAFE: a database of functional and regulatory elements of cancer-associated fusion events. PMID:26384373
Draft Genome Sequence of the Environmental Isolate Chryseobacterium sp. Hurlbut01. PMID:26383650
High-Throughput Ligand Discovery Reveals a Sitewise Gradient of Diversity in Broadly Evolved Hydrophilic Fibronectin Domains. PMID:26383268
Genome sequence of the haloarchaeon Haloterrigena jeotgali type strain A29(T) isolated from salt-fermented food. PMID:26380637
High quality draft genome sequence of Flavobacterium rivuli type strain WB 3.3-2(T) (DSM 21788(T)), a valuable source of polysaccharide decomposing enzymes. PMID:26380634
Draft-genome sequence of Shewanella algae strain C6G3. PMID:26380631
The PFP and ESG protein function prediction methods in 2014: effect of database updates and ensemble approaches. PMID:26380077
Draft genome sequence of the extremely halophilic archaeon Haladaptatus cibarius type strain D43(T) isolated from fermented seafood. PMID:26380039
Acinetobacter baumannii Virulence Is Mediated by the Concerted Action of Three Phospholipases D. PMID:26379240
Evolution of Chemical Diversity in a Group of Non-Reduced Polyketide Gene Clusters: Using Phylogenetics to Inform the Search for Novel Fungal Natural Products. PMID:26378577
Biochemical Characterization of Putative Adenylate Dimethylallyltransferase and Cytokinin Dehydrogenase from Nostoc sp. PCC 7120. PMID:26376297
Structural Bridges through Fold Space. PMID:26372166
Codon-level information improves predictions of inter-residue contacts in proteins by correlated mutation analysis. PMID:26371555
Dissecting Leishmania infantum Energy Metabolism - A Systems Perspective. PMID:26367006
Assessing the Metabolic Diversity of Streptococcus from a Protein Domain Point of View. PMID:26366735
Evolution of a Novel Antiviral Immune-Signaling Interaction by Partial-Gene Duplication. PMID:26356745
A Fluorescent, Reagentless Biosensor for ATP, Based on Malonyl-Coenzyme A Synthetase. PMID:26355992
Insights into the Evolutionary Relationships of LytA Autolysin and Ply Pneumolysin-Like Genes in Streptococcus pneumoniae and Related Streptococci. PMID:26349755
The identification of an integral membrane, cytochrome c urate oxidase completes the catalytic repertoire of a therapeutic enzyme. PMID:26349049
Molecular insights into cold active polygalacturonase enzyme for its potential application in food processing. PMID:26344963
Evolution of the Selenoproteome in Helicobacter pylori and Epsilonproteobacteria. PMID:26342139
Mercury Reduction and Methyl Mercury Degradation by the Soil Bacterium Xanthobacter autotrophicus Py2. PMID:26341208
Common Amino Acid Subsequences in a Universal Proteome--Relevance for Food Science. PMID:26340620
A survey of HK, HPt, and RR domains and their organization in two-component systems and phosphorelay proteins of organisms with fully sequenced genomes. PMID:26339559
Modeling and structural analysis of human Guanine nucleotide-binding protein-like 3,nucleostemin. PMID:26339152
Triterpenoid profiling and functional characterization of the initial genes involved in isoprenoid biosynthesis in neem (Azadirachta indica). PMID:26335498
A Web Resource for Standardized Benchmark Datasets, Metrics, and Rosetta Protocols for Macromolecular Modeling and Design. PMID:26335248
Experimental Evidence for a Revision in the Annotation of Putative Pyridoxamine 5'-Phosphate Oxidases P(N/M)P from Fungi. PMID:26327315
Refining the phylum Chlorobi by resolving the phylogeny and metabolic potential of the representative of a deeply branching, uncultivated lineage. PMID:26325358
Arabidopsis ALIX is required for the endosomal localization of the deubiquitinating enzyme AMSH3. PMID:26324913
The Fur homologue BosR requires Arg39 to activate rpoS transcription in Borrelia burgdorferi and thereby direct spirochaete infection in mice. PMID:26318670
Genomic detection and characterization of a Korean isolate of Little cherry virus 1 sampled from a peach tree. PMID:26315329
Comparative Analysis and Distribution of Omega-3 lcPUFA Biosynthesis Genes in Marine Molluscs. PMID:26308548
Genome-Wide Identification and Expression Analyses of Aquaporin Gene Family during Development and Abiotic Stress in Banana. PMID:26307965
Expanded metabolic versatility of ubiquitous nitrite-oxidizing bacteria from the genus Nitrospira. PMID:26305944
DNA-binding protein prediction using plant specific support vector machines: validation and application of a new genome annotation tool. PMID:26304539
Discovery of an essential nucleotidylating activity associated with a newly delineated conserved domain in the RNA polymerase-containing protein of all nidoviruses. PMID:26304538
OD-seq: outlier detection in multiple sequence alignments. PMID:26303676
Phylogenetic characterization and promoter expression analysis of a novel hybrid protein disulfide isomerase/cargo receptor subfamily unique to plants and chromalveolates. PMID:26300531
Complete Genome Sequence of the Type Strain Corynebacterium epidermidicanis DSM 45586, Isolated from the Skin of a Dog Suffering from Pruritus. PMID:26294641
Trypanosomes Modify the Behavior of Their Insect Hosts: Effects on Locomotion and on the Expression of a Related Gene. PMID:26291723
Cold shock induction of recombinant Arctic environmental genes. PMID:26286037
Gene expression during zombie ant biting behavior reflects the complexity underlying fungal parasitic behavioral manipulation. PMID:26285697
Identification and expression profiling analysis of calmodulin-binding transcription activator genes in maize (Zea mays L.) under abiotic and biotic stresses. PMID:26284092
A PAS domain-containing regulator controls flagella-flagella interactions in Campylobacter jejuni. PMID:26284050
Hypoxia-Inducible Factor α and Hif-prolyl Hydroxylase Characterization and Gene Expression in Short-Time Air-Exposed Mytilus galloprovincialis. PMID:26277612
Protein contact prediction by integrating joint evolutionary coupling analysis and supervised learning. PMID:26275894
Identifying and characterising key alternative splicing events in Drosophila development. PMID:26275604
Intraspecies Genomic Diversity and Long-Term Persistence of Bifidobacterium longum. PMID:26275230
Estimating the success of enzyme bioprospecting through metagenomics: current status and future trends. PMID:26275154
Demonstration of the Coexistence of Duplicated LH Receptors in Teleosts, and Their Origin in Ancestral Actinopterygians. PMID:26271038
Comparison of predicted and actual consequences of missense mutations. PMID:26269570
Translational genomics for plant breeding with the genome sequence explosion. PMID:26269219
Deep sequencing of the Mexican avocado transcriptome, an ancient angiosperm with a high content of fatty acids. PMID:26268848
The octopus genome and the evolution of cephalopod neural and morphological novelties. PMID:26268193
Independent Co-Option of a Tailed Bacteriophage into a Killing Complex in Pseudomonas. PMID:26265717
The pre-vertebrate origins of neurogenic placodes. PMID:26258298
Remote homology and the functions of metagenomic dark matter. PMID:26257768
The reduced genomes of Parcubacteria (OD1) contain signatures of a symbiotic lifestyle. PMID:26257709
The history of the CATH structural classification of protein domains. PMID:26253692
Prophage lysin Ply30 protects mice from Streptococcus suis and Streptococcus equi subsp. zooepidemicus infections. PMID:26253669
Draft De Novo Transcriptome of the Rat Kangaroo Potorous tridactylus as a Tool for Cell Biology. PMID:26252667
Identification of MicroRNAs in Meloidogyne incognita Using Deep Sequencing. PMID:26241472
The tuberculosis necrotizing toxin kills macrophages by hydrolyzing NAD. PMID:26237511
Commentary: The absence of protein Y4yS affects negatively the abundance of T3SS Mesorhizobium loti secretin, RhcC2, in bacterial membranes. PMID:26236295
Energy coupling mechanisms of MFS transporters. PMID:26234418
Genome wide comprehensive analysis and web resource development on cell wall degrading enzymes from phyto-parasitic nematodes. PMID:26232118
Exploring Vertical Transmission of Bifidobacteria from Mother to Child. PMID:26231653
Phylogeny of the Vitamin K 2,3-Epoxide Reductase (VKOR) Family and Evolutionary Relationship to the Disulfide Bond Formation Protein B (DsbB) Family. PMID:26230708
De-DUFing the DUFs: Deciphering distant evolutionary relationships of Domains of Unknown Function using sensitive homology detection methods. PMID:26228684
Draft genome of the most devastating insect pest of coffee worldwide: the coffee berry borer, Hypothenemus hampei. PMID:26228545
How Do Genomes Create Novel Phenotypes? Insights from the Loss of the Worker Caste in Ant Social Parasites. PMID:26226984
Transcription factors, chromatin proteins and the diversification of Hemiptera. PMID:26226651
Inferring Pairwise Interactions from Biological Data Using Maximum-Entropy Probability Models. PMID:26225866
Constructing sequence-dependent protein models using coevolutionary information. PMID:26223372
Draft genomic sequence of a selenite-reducing bacterium, Paenirhodobacter enshiensis DW2-9(T). PMID:26221419
Functional Networks of Highest-Connected Splice Isoforms: From The Chromosome 17 Human Proteome Project. PMID:26216192
Identification of candidate genes associated with fertility restoration of cytoplasmic male-sterility in onion (Allium cepa L.) using a combination of bulked segregant analysis and RNA-seq. PMID:26215184
Evolutionary insights from de novo transcriptome assembly and SNP discovery in California white oaks. PMID:26215102
Database of RNA binding protein expression and disease dynamics (READ DB). PMID:26210853
Roles of Thermophiles and Fungi in Bitumen Degradation in Mostly Cold Oil Sands Outcrops. PMID:26209669
Ubiquitous distribution of helmchrome in phototactic swarmers of the stramenopiles. PMID:26202473
Genome Wide Re-Annotation of Caldicellulosiruptor saccharolyticus with New Insights into Genes Involved in Biomass Degradation and Hydrogen Production. PMID:26196387
RNA helicase HEL-1 promotes longevity by specifically activating DAF-16/FOXO transcription factor signaling in Caenorhabditis elegans. PMID:26195740
Binding of Cyclic Di-AMP to the Staphylococcus aureus Sensor Kinase KdpD Occurs via the Universal Stress Protein Domain and Downregulates the Expression of the Kdp Potassium Transporter. PMID:26195599
The BioPlex Network: A Systematic Exploration of the Human Interactome. PMID:26186194
The Borrelia afzelii outer membrane protein BAPKO_0422 binds human factor-H and is predicted to form a membrane-spanning β-barrel. PMID:26181365
The SARP Family Regulator Txn9 and Two-Component Response Regulator Txn11 are Key Activators for Trioxacarcin Biosynthesis in Streptomyces bottropensis. PMID:26178900
Cofactor-induced reversible folding of Flavodoxin-4 from Lactobacillus acidophilus. PMID:26177955
Genome-Wide Reprogramming of Transcript Architecture by Temperature Specifies the Developmental States of the Human Pathogen Histoplasma. PMID:26177267
A large-scale crop protection bioassay data set. PMID:26175909
Chromerid genomes reveal the evolutionary path from photosynthetic algae to obligate intracellular parasites. PMID:26175406
De novo assembly and characterization of central nervous system transcriptome reveals neurotransmitter signaling systems in the rice striped stem borer, Chilo suppressalis. PMID:26173787
IMG-ABC: A Knowledge Base To Fuel Discovery of Biosynthetic Gene Clusters and Novel Secondary Metabolites. PMID:26173699
Expression of pre-selected TMEMs with predicted ER localization as potential classifiers of ccRCC tumors. PMID:26169495
The First Paenibacillus larvae Bacteriophage Endolysin (PlyPl23) with High Potential to Control American Foulbrood. PMID:26167894
THOC2 Mutations Implicate mRNA-Export Pathway in X-Linked Intellectual Disability. PMID:26166480
The RAS-Binding Domain of Human BRAF Protein Serine/Threonine Kinase Exhibits Allosteric Conformational Changes upon Binding HRAS. PMID:26165597
Calcium-induced conformational changes in the regulatory domain of the human mitochondrial ATP-Mg/Pi carrier. PMID:26164100
Novel recA-Independent Horizontal Gene Transfer in Escherichia coli K-12. PMID:26162088
A widespread role of the motif environment in transcription factor binding across diverse protein families. PMID:26160164
Metagenomic insights into strategies of aerobic and anaerobic carbon and nitrogen transformation in boreal lakes. PMID:26159227
Electron transport phosphorylation in rumen butyrivibrios: unprecedented ATP yield for glucose fermentation to butyrate. PMID:26157432
The distribution, diversity, and importance of 16S rRNA gene introns in the order Thermoproteales. PMID:26156036
Discovery of intramolecular trans-sialidases in human gut microbiota suggests novel mechanisms of mucosal adaptation. PMID:26154892
Identification of divergent type VI secretion effectors using a conserved chaperone domain. PMID:26150500
Systematic Nomenclature for GGDEF and EAL Domain-Containing Cyclic Di-GMP Turnover Proteins of Escherichia coli. PMID:26148715
The Mitochondrial Genomes of a Myxozoan Genus Kudoa Are Extremely Divergent in Metazoa. PMID:26148004
100 Years later: Celebrating the contributions of x-ray crystallography to allergy and clinical immunology. PMID:26145985
Functional classification of CATH superfamilies: a domain-based approach for protein function annotation. PMID:26139634
SmedGD 2.0: The Schmidtea mediterranea genome database. PMID:26138588
Combining metagenomics, metatranscriptomics and viromics to explore novel microbial interactions: towards a systems-level understanding of human microbiome. PMID:26137199
Capturing coevolutionary signals inrepeat proteins. PMID:26134293
Visualization and dissemination of multidimensional proteomics data comparing protein abundance during Caenorhabditis elegans development. PMID:26133526
Diversity and evolution of cytochrome P450 monooxygenases in Oomycetes. PMID:26129850
Defining the RNA-binding glycine-rich (RBG) gene superfamily: new insights into nomenclature, phylogeny, and evolutionary trends obtained by genome-wide comparative analysis of Arabidopsis, Chinese cabbage, rice and maize genomes. PMID:26123085
The Streptomyces leeuwenhoekii genome: de novo sequencing and assembly in single contigs of the chromosome, circular plasmid pSLE1 and linear plasmid pSLE2. PMID:26122045
BEAN 2.0: an integrated web resource for the identification and functional analysis of type III secreted effectors. PMID:26120140
Comparative Transcriptome Analysis of the Cosmopolitan Marine Fungus Corollospora maritima Under Two Physiological Conditions. PMID:26116293
Degradation of Bunker C Fuel Oil by White-Rot Fungi in Sawdust Cultures Suggests Potential Applications in Bioremediation. PMID:26111162
Computational methods and resources for the interpretation of genomic variants in cancer. PMID:26111056
NET-GE: a novel NETwork-based Gene Enrichment for detecting biological processes associated to Mendelian diseases. PMID:26110971
Competition-cooperation relationship networks characterize the competition and cooperation between proteins. PMID:26108281
Early origin and adaptive evolution of the GW182 protein family, the key component of RNA silencing in animals. PMID:26106978
Dividing and Conquering the Family of RNA Recognition Motifs: A Representative Case Based on hnRNP L. PMID:26101840
Discovery of new protein families and functions: new challenges in functional metagenomics for biotechnologies and microbial ecology. PMID:26097471
Expression study of the hunchback ortholog in embryos of the onychophoran Euperipatoides rowelli. PMID:26093940
Identification and Heterologous Expression of the Chaxamycin Biosynthesis Gene Cluster from Streptomyces leeuwenhoekii. PMID:26092459
Uncovering major genomic features of essential genes in Bacteria and a methanogenic Archaea. PMID:26084810
Distinctive expansion of gene families associated with plant cell wall degradation, secondary metabolism, and nutrient uptake in the genomes of grapevine trunk pathogens. PMID:26084502
Unusual biology across a group comprising more than 15% of domain Bacteria. PMID:26083755
Bacterial cellulose biosynthesis: diversity of operons, subunits, products, and functions. PMID:26077867
Molecular Determinants Underlying Binding Specificities of the ABL Kinase Inhibitors: Combining Alanine Scanning of Binding Hot Spots with Network Analysis of Residue Interactions and Coevolution. PMID:26075886
Structural Organization of Enzymes of the Phenylacetate Catabolic Hybrid Pathway. PMID:26075354
Analysis of cytochrome b(5) reductase-mediated metabolism in the phytopathogenic fungus Zymoseptoria tritici reveals novel functionalities implicated in virulence. PMID:26074495
Molecular and functional characterization of the durum wheat TdRL1, a member of the conserved Poaceae RSS1-like family that exhibits features of intrinsically disordered proteins and confers stress tolerance in yeast. PMID:26071212
Tomato Sl3-MMP, a member of the Matrix metalloproteinase family, is required for disease resistance against Botrytis cinerea and Pseudomonas syringae pv. tomato DC3000. PMID:26070456
Discovery of Chemosensory Genes in the Oriental Fruit Fly, Bactrocera dorsalis. PMID:26070069
Complete Genome Sequence of Sporisorium scitamineum and Biotrophic Interaction Transcriptome with Sugarcane. PMID:26065709
Computational Prediction of acyl-coA Binding Proteins Structure in Brassica napus. PMID:26065422
Comparative genomic and phenomic analysis of Clostridium difficile and Clostridium sordellii, two related pathogens with differing host tissue preference. PMID:26059449
Expansion and Functional Divergence of Jumonji C-Containing Histone Demethylases: Significance of Duplications in Ancestral Angiosperms and Vertebrates. PMID:26059336
Microbial DNA records historical delivery of anthropogenic mercury. PMID:26057844
Stem cells and fluid flow drive cyst formation in an invertebrate excretory organ. PMID:26057828
Optimization of sequence alignments according to the number of sequences vs. number of sites trade-off. PMID:26055961
Diversity of Cyclic Di-GMP-Binding Proteins and Mechanisms. PMID:26055114
A Plasmid-Borne System To Assess the Excision and Integration of Staphylococcal Cassette Chromosome mec Mediated by CcrA and CcrB. PMID:26055110
An Ebola virus-centered knowledge base. PMID:26055098
Synergistic function of four novel thermostable glycoside hydrolases from a long-term enriched thermophilic methanogenic digester. PMID:26052323
Structural Studies of the HIV-1 Integrase Protein: Compound Screening and Characterization of a DNA-Binding Inhibitor. PMID:26046987
Xenorhabdus bovienii Strain Diversity Impacts Coevolution and Symbiotic Maintenance with Steinernema spp. Nematode Hosts. PMID:26045536
Horizontal gene transfer and genome evolution in Methanosarcina. PMID:26044078
Identification of genomic features in the classification of loss- and gain-of-function mutation. PMID:26043747
Arterivirus nsp12 versus the coronavirus nsp16 2'-O-methyltransferase: comparison of the C-terminal cleavage products of two nidovirus pp1ab polyproteins. PMID:26041874
Sequence-independent characterization of viruses based on the pattern of viral small RNAs produced by the host. PMID:26040701
In silico identification of AMPylating enzymes and study of their divergent evolution. PMID:26039278
Back from the dead; the curious tale of the predatory cyanobacterium Vampirovibrio chlorellavorus. PMID:26038723
Surface hydrolysis of sphingomyelin by the outer membrane protein Rv0888 supports replication of Mycobacterium tuberculosis in macrophages. PMID:26036301
Homologues of Genetic Transformation DNA Import Genes Are Required for Rhodobacter capsulatus Gene Transfer Agent Recipient Capability Regulated by the Response Regulator CtrA. PMID:26031909
Origin and evolution of lysyl oxidases. PMID:26024311
Calcium affinity of human α-actinin 1. PMID:26020004
The CASC15 Long Intergenic Noncoding RNA Locus Is Involved in Melanoma Progression and Phenotype Switching. PMID:26016895
De novo transcriptome characterization and gene expression profiling of the desiccation tolerant moss Bryum argenteum following rehydration. PMID:26016800
Databases for Microbiologists. PMID:26013493
Depsipeptide Intermediates Interrogate Proposed Biosynthesis of Cereulide, the Emetic Toxin of Bacillus cereus. PMID:26013201
Evolutionary divergence of the plant elicitor peptides (Peps) and their receptors: interfamily incompatibility of perception but compatibility of downstream signalling. PMID:26002971
Garlic (A. sativum L.) alliinase gene family polymorphism reflects bolting types and cysteine sulphoxides content. PMID:25997498
Genome-Wide Analysis in Three Fusarium Pathogens Identifies Rapidly Evolving Chromosomes and Genes Associated with Pathogenicity. PMID:25994930
APPRIS WebServer and WebServices. PMID:25990727
First Staphylococcal Cassette Chromosome mec Containing a mecB-Carrying Gene Complex Independent of Transposon Tn6045 in a Macrococcus canis Isolate from a Canine Infection. PMID:25987634
Partial protein domains: evolutionary insights and bioinformatics challenges. PMID:25986583
Metagenomics: tools and insights for analyzing next-generation sequencing data derived from biodiversity studies. PMID:25983555
SIFTER search: a web server for accurate phylogeny-based protein function prediction. PMID:25979264
Promotion of bone morphogenetic protein signaling by tetraspanins and glycosphingolipids. PMID:25978409
CheckM: assessing the quality of microbial genomes recovered from isolates, single cells, and metagenomes. PMID:25977477
Draft Genome Sequence of Anaeromyxobacter sp. Strain PSR-1, an Arsenate-Respiring Bacterium Isolated from Arsenic-Contaminated Soil. PMID:25977440
The eukaryotic translation initiation regulator CDC123 defines a divergent clade of ATP-grasp enzymes with a predicted role in novel protein modifications. PMID:25976611
A de novo floral transcriptome reveals clues into Phalaenopsis orchid flower development. PMID:25970572
The TOPCONS web server for consensus prediction of membrane protein topology and signal peptides. PMID:25969446
Contrasting host-pathogen interactions and genome evolution in two generalist and specialist microsporidian pathogens of mosquitoes. PMID:25968466
Polyglycine hydrolases: Fungal β-lactamase-like endoproteases that cleave polyglycine regions within plant class IV chitinases. PMID:25966977
CATH FunFHMMer web server: protein functional annotations using functional family assignments. PMID:25964299
Comparative transcriptome profiling approach to glean virulence and immunomodulation-related genes of Fasciola hepatica. PMID:25956885
ProtPhylo: identification of protein-phenotype and protein-protein functional associations via phylogenetic profiling. PMID:25956654
An ace up their sleeve: a transcriptomic approach exposes the AceI efflux protein of Acinetobacter baumannii and reveals the drug efflux potential hidden in many microbial pathogens. PMID:25954261
Functionally Structured Genomes in Lactobacillus kunkeei Colonizing the Honey Crop and Food Products of Honeybees and Stingless Bees. PMID:25953738
MIsoMine: a genome-scale high-resolution data portal of expression, function and networks at the splice isoform level in the mouse. PMID:25953081
Egfl6 is involved in zebrafish notochord development. PMID:25952972
Digital gene expression approach over multiple RNA-Seq data sets to detect neoblast transcriptional changes in Schmidtea mediterranea. PMID:25952370
SELPHI: correlation-based identification of kinase-associated networks from global phospho-proteomics data sets. PMID:25948583
antiSMASH 3.0-a comprehensive resource for the genome mining of biosynthetic gene clusters. PMID:25948579
Identification and distribution of the NBS-LRR gene family in the Cassava genome. PMID:25948536
HMMER web server: 2015 update. PMID:25943547
RNA-Seq Based De Novo Transcriptome Assembly and Gene Discovery of Cistanche deserticola Fleshy Stem. PMID:25938435
Target activation by regulatory RNAs in bacteria. PMID:25934124
Chemical and Biological Reduction of the Radical SAM Enzyme 7-Carboxy-7-deazaguanine [corrected] Synthase. PMID:25933252
novPTMenzy: a database for enzymes involved in novel post-translational modifications. PMID:25931459
The effect of imipenem and diffusible signaling factors on the secretion of outer membrane vesicles and associated Ax21 proteins in Stenotrophomonas maltophilia. PMID:25926824
Structure of the K12 capsule containing 5,7-di-N-acetylacinetaminic acid from Acinetobacter baumannii isolate D36. PMID:25926563
Domain atrophy creates rare cases of functional partial protein domains. PMID:25924720
Metazoans evolved by taking domains from soluble proteins to expand intercellular communication network. PMID:25923201
An assemblage of divergent variants of a novel putative closterovirus from American persimmon. PMID:25921465
Manual classification strategies in the ECOD database. PMID:25917548
The Xist lncRNA interacts directly with SHARP to silence transcription through HDAC3. PMID:25915022
Long non-coding RNA discovery across the genus anopheles reveals conserved secondary structures within and beyond the Gambiae complex. PMID:25903279
Enzyme Function Initiative-Enzyme Similarity Tool (EFI-EST): A web tool for generating protein sequence similarity networks. PMID:25900361
Genome-wide identification and evolution of HECT genes in soybean. PMID:25894222
Characterization of 19 Genes Encoding Membrane-Bound Fatty Acid Desaturases and their Expression Profiles in Gossypium raimondii Under Low Temperature. PMID:25894196
Genome-wide identification and characterization of Fox genes in the silkworm, Bombyx mori. PMID:25893708
A property-based analysis of human transcription factors. PMID:25890365
Transcriptome characterization of three wild Chinese Vitis uncovers a large number of distinct disease related genes. PMID:25888081
CodingQuarry: highly accurate hidden Markov model gene prediction in fungal genomes using RNA-seq transcripts. PMID:25887563
The Alternaria genomes database: a comprehensive resource for a fungal genus comprised of saprophytes, plant pathogens, and allergenic species. PMID:25887485
Distribution in microbial genomes of genes similar to lodA and goxA which encode a novel family of quinoproteins with amino acid oxidase activity. PMID:25886995
Comparative transcriptome analysis within the Lolium/Festuca species complex reveals high sequence conservation. PMID:25886302
Streptophyte phytochromes exhibit an N-terminus of cyanobacterial origin and a C-terminus of proteobacterial origin. PMID:25886068
A RNA-seq approach to identify putative toxins from acrorhagi in aggressive and non-aggressive Anthopleura elegantissima polyps. PMID:25886045
High-throughput identification of proteins with AMPylation using self-assembled human protein (NAPPA) microarrays. PMID:25881200
Heterologous surface display on lactic acid bacteria: non-GMO alternative? PMID:25880164
A comprehensive genomic, transcriptomic and proteomic analysis of a hyperosmotic stress sensitive α-proteobacterium. PMID:25879753
Solution structure of a soluble fragment derived from a membrane protein by shotgun proteolysis. PMID:25877662
Comprehensive evaluation of Toxoplasma gondii VEG and Neospora caninum LIV genomes with tachyzoite stage transcriptome and proteome defines novel transcript features. PMID:25875305
Prediction of cancer proteins by integrating protein interaction, domain frequency, and domain interaction data using machine learning algorithms. PMID:25866773
A structure-based classification and analysis of protein domain family binding sites and their interactions. PMID:25860777
All-atom 3D structure prediction of transmembrane β-barrel proteins from sequences. PMID:25858953
The two-component system CpxAR is essential for virulence in the phytopathogen bacteria Dickeya dadantii EC3937. PMID:25856505
Investigation of genes encoding calcineurin B-like protein family in legumes and their expression analyses in chickpea (Cicer arietinum L.). PMID:25853855
The composition of the global and feature specific cyanobacterial core-genomes. PMID:25852675
Cofactor specificity motifs and the induced fit mechanism in class I ketol-acid reductoisomerases. PMID:25849365
The EMBL-EBI bioinformatics web and programmatic tools framework. PMID:25845596
Crystal structure of a two-subunit TrkA octameric gating ring assembly. PMID:25826626
Regulation of coronafacoyl phytotoxin production by the PAS-LuxR family regulator CfaR in the common scab pathogen Streptomyces scabies. PMID:25826255
Key challenges for the creation and maintenance of specialist protein resources. PMID:25820941
Hidden relationships between metalloproteins unveiled by structural comparison of their metal sites. PMID:25820752
Genome-wide identification, evolutionary, and expression analyses of histone H3 variants in plants. PMID:25815311
A statistical physics perspective on alignment-independent protein sequence comparison. PMID:25810434
Complete genome sequence of Borrelia afzelii K78 and comparative genome analysis. PMID:25798594
Predicting protein interface residues using easily accessible on-line resources. PMID:25797794
BRAF V600E mutation in early-stage multiple myeloma: good response to broad acting drugs and no relation to prognosis. PMID:25794135
Homozygous MED25 mutation implicated in eye-intellectual disability syndrome. PMID:25792360
Highly Iterated Palindromic Sequences (HIPs) and Their Relationship to DNA Methyltransferases. PMID:25789551
Ribosomal frameshifting and dual-target antiactivation restrict quorum-sensing-activated transfer of a mobile genetic element. PMID:25787256
RNA-binding proteins involved in post-transcriptional regulation in bacteria. PMID:25784899
Quality scores for 32,000 genomes. PMID:25780509
The carbon starvation response of the ectomycorrhizal fungus Paxillus involutus. PMID:25778509
Topological analysis of the Escherichia coli WcaJ protein reveals a new conserved configuration for the polyisoprenyl-phosphate hexose-1-phosphate transferase family. PMID:25776537
Identification of AGO3-associated miRNAs and computational prediction of their targets in the green alga Chlamydomonas reinhardtii. PMID:25769981
Improving the consistency of domain annotation within the Conserved Domain Database. PMID:25767294
Transcriptome analysis of Panax vietnamensis var. fuscidicus discovers putative ocotillol-type ginsenosides biosynthesis genes and genetic markers. PMID:25765814
Comprehensive analysis of CCCH-type zinc finger family genes facilitates functional gene discovery and reflects recent allopolyploidization event in tetraploid switchgrass. PMID:25765300
Archaeal Clusters of Orthologous Genes (arCOGs): An Update and Application for Analysis of Shared Features between Thermococcales, Methanococcales, and Methanobacteriales. PMID:25764277
A unique, highly conserved secretory invertase is differentially expressed by promastigote developmental forms of all species of the human pathogen, Leishmania. PMID:25763714
Scoring Large-Scale Affinity Purification Mass Spectrometry Datasets with MiST. PMID:25754993
Quantitative gene profiling of long noncoding RNAs with targeted RNA sequencing. PMID:25751143
Multiple mechanisms of MYCN dysregulation in Wilms tumour. PMID:25749049
Sequencing and characterizing the genome of Estrella lausannensis as an undergraduate project: training students and biological insights. PMID:25745418
Genome Sequences of the Lignin-Degrading Pseudomonas sp. Strain YS-1p and Rhizobium sp. Strain YS-1r Isolated from Decaying Wood. PMID:25744986
The genome of Shigella dysenteriae strain Sd1617 comparison to representative strains in evaluating pathogenesis. PMID:25743074
A conserved glutamate residue in the C-terminal deaminase domain of pentatricopeptide repeat proteins is required for RNA editing activity. PMID:25739442
Alternative splicing and co-option of transposable elements: the case of TMPO/LAP2α and ZNF451 in mammals. PMID:25735770
FR database 1.0: a resource focused on fruit development and ripening. PMID:25725058
Mutations in MAB21L2 result in ocular Coloboma, microcornea and cataracts. PMID:25719200
Defining the gene repertoire and spatiotemporal expression profiles of adhesion G protein-coupled receptors in zebrafish. PMID:25715737
The ferrous iron-responsive BqsRS two-component system activates genes that promote cationic stress tolerance. PMID:25714721
Structural and enzymatic analysis of TarM glycosyltransferase from Staphylococcus aureus reveals an oligomeric protein specific for the glycosylation of wall teichoic acid. PMID:25697358
Ancient dynamin segments capture early stages of host-mitochondrial integration. PMID:25691734
Eukaryotic LYR Proteins Interact with Mitochondrial Protein Complexes. PMID:25686363
The UCSC Ebola Genome Portal. PMID:25685613
Genome-wide identification, sequence characterization, and protein-protein interaction properties of DDB1 (damaged DNA binding protein-1)-binding WD40-repeat family members in Solanum lycopersicum. PMID:25680350
STBase: one million species trees for comparative biology. PMID:25679219
A metaproteomics approach to elucidate host and pathogen protein expression during catheter-associated urinary tract infections (CAUTIs). PMID:25673765
Homologs of the Acinetobacter baumannii AceI transporter represent a new family of bacterial multidrug efflux systems. PMID:25670776
Two-tiered histidine kinase pathway involved in heat shock and salt sensing in the general stress response of Sphingomonas melonis Fr1. PMID:25666137
Cloning, refolding, purification and preliminary crystallographic analysis of the sensory domain of the Campylobacter chemoreceptor for multiple ligands (CcmL). PMID:25664798
Transport domain unlocking sets the uptake rate of an aspartate transporter. PMID:25652997
PON-P2: prediction method for fast and reliable identification of harmful variants. PMID:25647319
Visualization of LC-MS/MS proteomics data in MaxQuant. PMID:25644178
Two distinct domains of the UVR8 photoreceptor interact with COP1 to initiate UV-B signaling in Arabidopsis. PMID:25627067
Draft genome sequence of adzuki bean, Vigna angularis. PMID:25626881
Structure and mechanism of Staphylococcus aureus TarM, the wall teichoic acid α-glycosyltransferase. PMID:25624472
Using comparative genomics to drive new discoveries in microbiology. PMID:25617609
Identification of divergent WH2 motifs by HMM-HMM alignments. PMID:25616999
The complexity, challenges and benefits of comparing two transporter classification systems in TCDB and Pfam. PMID:25614388
RNAi screening of developmental toolkit genes: a search for novel wing genes in the red flour beetle, Tribolium castaneum. PMID:25613748
RPI-Pred: predicting ncRNA-protein interaction using sequence and structural information. PMID:25609700
Genome-wide identification and expression pattern of drought-responsive members of the NAC family in maize. PMID:25606426
Vaccinia virus protein A49 is an unexpected member of the B-cell Lymphoma (Bcl)-2 protein family. PMID:25605733
Metabolic fate of unsaturated glucuronic/iduronic acids from glycosaminoglycans: molecular identification and structure determination of streptococcal isomerase and dehydrogenase. PMID:25605731
Evidence that TP_0144 of Treponema pallidum is a thiamine-binding protein. PMID:25605310
Reconstructing genome-wide protein-protein interaction networks using multiple strategies with homologous mapping. PMID:25602759
The landscape of long noncoding RNAs in the human transcriptome. PMID:25599403
Identification and characterization of LFD-2, a predicted fringe protein required for membrane integrity during cell fusion in neurospora crassa. PMID:25595444
The 2015 Nucleic Acids Research Database Issue and molecular biology database collection. PMID:25593347
The Ordospora colligata genome: Evolution of extreme reduction in microsporidia and host-to-parasite horizontal gene transfer. PMID:25587016
Comparative genomic analysis of evolutionarily conserved but functionally uncharacterized membrane proteins in archaea: Prediction of novel components of secretion, membrane remodeling and glycosylation systems. PMID:25583072
The Lectin Frontier Database (LfDB), and data generation based on frontal affinity chromatography. PMID:25580689
Complete Genome Sequence of VpKK5, a Novel Vibrio parahaemolyticus Lytic Siphophage. PMID:25573936
Draft Genome Sequence of Acinetobacter sp. HR7, Isolated from Hanwoo, Korean Native Cattle. PMID:25573931
Draft Genome Sequence of Bordetella trematum Strain HR18. PMID:25573930
Robustness of birth-death and gain models for inferring evolutionary events. PMID:25572914
Genomewide analysis of TCP transcription factor gene family in Malus domestica. PMID:25572232
A new family of secreted toxins in pathogenic Neisseria species. PMID:25569427
Insights into the origin and evolution of the plant hormone signaling machinery. PMID:25560880
Genome-wide association study for endothelial growth factors. PMID:25552591
β-Helical architecture of cytoskeletal bactofilin filaments revealed by solid-state NMR. PMID:25550503
CopM is a novel copper-binding protein involved in copper resistance in Synechocystis sp. PCC 6803. PMID:25545960
The use of genome wide association methods to investigate pathogenicity, population structure and serovar in Haemophilus parasuis. PMID:25539682
Systematic genomic analysis reveals the complementary aerobic and anaerobic respiration capacities of the human gut microbiota. PMID:25538694
Evolutionary dynamics of hAT DNA transposon families in Saccharomycetaceae. PMID:25532815
Use of mCherry Red fluorescent protein for studies of protein localization and gene expression in Clostridium difficile. PMID:25527559
Genomic potential for polysaccharide deconstruction in bacteria. PMID:25527556
TXNDC5, a newly discovered disulfide isomerase with a key role in cell physiology and pathology. PMID:25526565
TINAGL1 and B3GALNT1 are potential therapy target genes to suppress metastasis in non-small cell lung cancer. PMID:25521548
Shotgun metagenomics reveals a wide array of antibiotic resistance genes and mobile elements in a polluted lake in India. PMID:25520706
Characterization of three active transposable elements recently inserted in three independent DFR-A alleles and one high-copy DNA transposon isolated from the Pink allele of the ANS gene in onion (Allium cepa L.). PMID:25515665
Genome-wide and single-base resolution DNA methylomes of the Pacific oyster Crassostrea gigas provide insight into the evolution of invertebrate CpG methylation. PMID:25514978
Cellulolytic potential under environmental changes in microbial communities from grassland litter. PMID:25505459
Contribution of anion-π interactions to the stability of Sm/LSm proteins. PMID:25502146
Genome-scale identification and characterization of moonlighting proteins. PMID:25497125
Genome-wide identification of mitogen-activated protein kinase gene family in Gossypium raimondii and the function of their corresponding orthologs in tetraploid cultivated cotton. PMID:25492847
chromoWIZ: a web tool to query and visualize chromosome-anchored genes from cereal and model genomes. PMID:25491094
Achievements and challenges in structural bioinformatics and computational biophysics. PMID:25488929
Role of Dickeya dadantii 3937 chemoreceptors in the entry to Arabidopsis leaves through wounds. PMID:25487519
Niches of two polysaccharide-degrading Polaribacter isolates from the North Sea during a spring diatom bloom. PMID:25478683
Integrative workflows for metagenomic analysis. PMID:25478562
Genome update of the dimorphic human pathogenic fungi causing paracoccidioidomycosis. PMID:25474325
An ancient autoproteolytic domain found in GAIN, ZU5 and Nucleoporin98. PMID:25451782
Determining microbial products and identifying molecular targets in the human microbiome. PMID:25440055
Plant-PrAS: a database of physicochemical and structural properties and novel functional regions in plant proteomes. PMID:25435546
Computational prediction of protein interactions related to the invasion of erythrocytes by malarial parasites. PMID:25433733
Nemertean toxin genes revealed through transcriptome sequencing. PMID:25432940
InParanoid 8: orthology analysis between 273 proteomes, mostly eukaryotic. PMID:25429972
Internal sense of direction: sensing and signaling from cytoplasmic chemoreceptors. PMID:25428939
The RCSB Protein Data Bank: views of structural biology for basic and applied research and education. PMID:25428375
The InterPro protein families database: the classification resource after 15 years. PMID:25428371
Expanded microbial genome coverage and improved protein family annotation in the COG database. PMID:25428365
The BioGRID interaction database: 2015 update. PMID:25428363
Plasmids of psychrophilic and psychrotolerant bacteria and their role in adaptation to cold environments. PMID:25426110
Genome-wide analysis of the WW domain-containing protein genes in silkworm and their expansion in eukaryotes. PMID:25424044
X-ray structure of the mature ectodomain of phogrin. PMID:25421040
CDD: NCBI's conserved domain database. PMID:25414356
GRASP: guided reference-based assembly of short peptides. PMID:25414351
CFam: a chemical families database based on iterative selection of functional seeds and seed-directed compound clustering. PMID:25414339
ProteomeScout: a repository and analysis resource for post-translational modifications and proteins. PMID:25414335
Comparative genomics of transcriptional regulation of methionine metabolism in Proteobacteria. PMID:25411846
Comparative genomics of DtxR family regulons for metal homeostasis in Archaea. PMID:25404694
Global discovery of colonization determinants in the squid symbiont Vibrio fischeri. PMID:25404340
Complex two-component signaling regulates the general stress response in Alphaproteobacteria. PMID:25404331
Diversity and variability of NOD-like receptors in fungi. PMID:25398782
Pdsg1 and Pdsg2, novel proteins involved in developmental genome remodelling in Paramecium. PMID:25397898
In the multi-domain protein adenylate kinase, domain insertion facilitates cooperative folding while accommodating function at domain interfaces. PMID:25393408
Mechismo: predicting the mechanistic impact of mutations and modifications on molecular interactions. PMID:25392414
Automated update, revision, and quality control of the maize genome annotations using MAKER-P improves the B73 RefGen_v3 gene models and identifies new genes. PMID:25384563
MatrixDB, the extracellular matrix interaction database: updated content, a new navigator and expanded functionalities. PMID:25378329
The tmRNA website. PMID:25378311
BRENDA in 2015: exciting developments in its 25th year of existence. PMID:25378310
Whole genome sequence of the Treponema pallidum subsp. endemicum strain Bosnia A: the genome is related to yaws treponemes but contains few loci similar to syphilis treponemes. PMID:25375929
Characteristics of protein residue-residue contacts and their application in contact prediction. PMID:25374390
Analysis of COQ2 gene in multiple system atrophy. PMID:25373618
Expression, regulation and activity of a B2-type cyclin in mitotic and endoreduplicating maize endosperm. PMID:25368625
Protectome analysis: a new selective bioinformatics tool for bacterial vaccine candidate discovery. PMID:25368410
Structure and mechanism of the tRNA-dependent lantibiotic dehydratase NisB. PMID:25363770
MobiDB 2.0: an improved database of intrinsically disordered and mobile proteins. PMID:25361972
The multi-protein family of sulfotransferases in plants: composition, occurrence, substrate specificity, and functions. PMID:25360143
Quantitative trait locus mapping of melanization in the plant pathogenic fungus Zymoseptoria tritici. PMID:25360032
Robust identification of noncoding RNA from transcriptomes requires phylogenetically-informed sampling. PMID:25357249
A series of PDB-related databanks for everyday needs. PMID:25352545
Genome3D: exploiting structure to help users understand their sequences. PMID:25348407
WDSPdb: a database for WD40-repeat proteins. PMID:25348404
Genomic Investigations unmask Mycoplasma amphoriforme, a new respiratory pathogen. PMID:25344534
Dissection of hexosyl- and sialyltransferase domains in the bifunctional capsule polymerases from Neisseria meningitidis W and Y defines a new sialyltransferase family. PMID:25342753
Protein profiles reveal diverse responsive signaling pathways in kernels of two maize inbred lines with contrasting drought sensitivity. PMID:25334062
The human DEPhOsphorylation database DEPOD: a 2015 update. PMID:25332398
Cog5-Cog7 crystal structure reveals interactions essential for the function of a multisubunit tethering complex. PMID:25331899
Caspase cleavage sites in the human proteome: CaspDB, a database of predicted substrates. PMID:25330111
P2CS: updates of the prokaryotic two-component systems database. PMID:25324303
Speeding up all-against-all protein comparisons while maintaining sensitivity by considering subsequence-level homology. PMID:25320677
SkateBase, an elasmobranch genome project and collection of molecular resources for chondrichthyan fishes. PMID:25309735
SMART: recent updates, new developments and status in 2015. PMID:25300481
Linear motif-mediated interactions have contributed to the evolution of modularity in complex protein interaction networks. PMID:25299147
Cytosine chemoreceptor McpC in Pseudomonas putida F1 also detects nicotinic acid. PMID:25294107
CLAP: a web-server for automatic classification of proteins with special reference to multi-domain proteins. PMID:25282152
Identification and molecular characterization of MYB Transcription Factor Superfamily in C4 model plant foxtail millet (Setaria italica L.). PMID:25279462
A Ras-like domain in the light intermediate chain bridges the dynein motor to a cargo-binding region. PMID:25272277
Genome-wide characterization and expression profiling of the AUXIN RESPONSE FACTOR (ARF) gene family in Eucalyptus grandis. PMID:25269088
A genetic screen in Myxococcus xanthus identifies mutants that uncouple outer membrane exchange from a downstream cellular response. PMID:25266387
Comparative genome analysis of entomopathogenic fungi reveals a complex set of secreted proteins. PMID:25263348
NrichD database: sequence databases enriched with computationally designed protein-like sequences aid in remote homology detection. PMID:25262355
Maize and millet transcription factors annotated using comparative genomic and transcriptomic data. PMID:25261191
Systematic phenotypic screen of Arabidopsis peroxisomal mutants identifies proteins involved in β-oxidation. PMID:25253886
Plant protein peptidase inhibitors: an evolutionary overview based on comparative genomics. PMID:25253557
Variation in the OC locus of Acinetobacter baumannii genomes predicts extensive structural diversity in the lipooligosaccharide. PMID:25247305
Characterizing the pocketome of Mycobacterium tuberculosis and application in rationalizing polypharmacological target selection. PMID:25220818
Exposing the secrets of two well-known Lactobacillus casei phages, J-1 and PL-1, by genomic and structural analysis. PMID:25217012
Neighbor preferences of amino acids and context-dependent effects of amino acid substitutions in human, mouse, and dog. PMID:25210846
Proteome-wide subcellular topologies of E. coli polypeptides database (STEPdb). PMID:25210196
Insilico analysis of hypothetical proteins unveils putative metabolic pathways and essential genes in Leishmania donovani. PMID:25206363
Molecular characterization of a novel temperate sinorhizobium bacteriophage, ФLM21, encoding DNA methyltransferase with CcrM-like specificity. PMID:25187538
Metagenomics reveals that detoxification systems are underrepresented in marine bacterial communities. PMID:25179155
Rapid transcriptome sequencing of an invasive pest, the brown marmorated stink bug Halyomorpha halys. PMID:25168586
Comprehensive analysis of alternative splicing in Digitalis purpurea by strand-specific RNA-Seq. PMID:25167195
Ku-mediated coupling of DNA cleavage and repair during programmed genome rearrangements in the ciliate Paramecium tetraurelia. PMID:25166013
Genetic analysis of vegetative branching in sorghum. PMID:25163936
Entropy-driven partitioning of the hierarchical protein space. PMID:25161256
Function and evolution of two forms of SecDF homologs in Streptomyces coelicolor. PMID:25140821
Expression pattern of glycoside hydrolase genes in Lutzomyia longipalpis reveals key enzymes involved in larval digestion. PMID:25140153
PlantCAZyme: a database for plant carbohydrate-active enzymes. PMID:25125445
Structural basis for the recruitment and activation of the Legionella phospholipase VipD by the host GTPase Rab5. PMID:25114243
Functional analysis of the Na+,K+/H+ antiporter PeNHX3 from the tree halophyte Populus euphratica in yeast by model-guided mutagenesis. PMID:25093858
The mitochondrion-located protein OsB12D1 enhances flooding tolerance during seed germination and early seedling growth in rice. PMID:25089878
Small RNA functions in carbon metabolism and virulence of enteric pathogens. PMID:25077072
Evolutionary analysis of the cystatin family in three Schistosoma species. PMID:25071834
Massive expansion of Ubiquitination-related gene families within the Chlamydiae. PMID:25069652
Screening of a Leptospira biflexa mutant library to identify genes involved in ethidium bromide tolerance. PMID:25063661
Discovery of the β-barrel-type RNA methyltransferase responsible for N6-methylation of N6-threonylcarbamoyladenosine in tRNAs. PMID:25063302
Genome-wide search for eliminylating domains reveals novel function for BLES03-like proteins. PMID:25062915
Evidence for loss of a partial flagellar glycolytic pathway during trypanosomatid evolution. PMID:25050549
Expansion of the APC superfamily of secondary carriers. PMID:25043943
Whole-genome sequencing reveals clonal expansion of multiresistant Staphylococcus haemolyticus in European hospitals. PMID:25038069
A virus capsid-like nanocompartment that stores iron and protects bacteria from oxidative stress. PMID:25024436
Identification of TNF-α-responsive promoters and enhancers in the intestinal epithelial cell model Caco-2. PMID:24990076
The intraflagellar transport dynein complex of trypanosomes is made of a heterodimer of dynein heavy chains and of light and intermediate chains of distinct functions. PMID:24989795
An introduction to the analysis of shotgun metagenomic data. PMID:24982662
Comparative genomics and evolution of regulons of the LacI-family transcription factors. PMID:24966856
PubServer: literature searches by homology. PMID:24957597
Settling down: the genome of Serratia symbiotica from the aphid Cinara tujafilina zooms in on the process of accommodation to a cooperative intracellular life. PMID:24951564
AraC/XylS family stress response regulators Rob, SoxS, PliA, and OpiA in the fire blight pathogen Erwinia amylovora. PMID:24936054
Conserved evolutionary units in the heme-copper oxidase superfamily revealed by novel homologous protein families. PMID:24931479
Coverage of protein domain families with structural protein-protein interactions: current progress and future trends. PMID:24931138
Latex clearing protein-an oxygenase cleaving poly(cis-1,4-isoprene) rubber at the cis double bonds. PMID:24928880
Functional and Evolutionary Analysis of the CASPARIAN STRIP MEMBRANE DOMAIN PROTEIN Family. PMID:24920445
Identification and characterization of a halotolerant, cold-active marine endo-β-1,4-glucanase by using functional metagenomics of seaweed-associated microbiota. PMID:24907332
Apolipoprotein L2 contains a BH3-like domain but it does not behave as a BH3-only protein. PMID:24901046
From sequence to enzyme mechanism using multi-label machine learning. PMID:24885296
fPoxDB: fungal peroxidase database for comparative genomics. PMID:24885079
Complete genome sequences of nine mycobacteriophages. PMID:24874666
AIDA: ab initio domain assembly server. PMID:24831546
CARF and WYL domains: ligand-binding regulators of prokaryotic defense systems. PMID:24817877
Alignment-Annotator web server: rendering and annotating sequence alignments. PMID:24813445
Simultaneous alignment and folding of protein sequences. PMID:24766258
What's that gene (or protein)? Online resources for exploring functions of genes, transcripts, and proteins. PMID:24723265
Structure and computational analysis of a novel protein with metallopeptidase-like and circularly permuted winged-helix-turn-helix domains reveals a possible role in modified polysaccharide biosynthesis. PMID:24646163
Paleo-evolutionary plasticity of plant disease resistance genes. PMID:24617999
Molecular cloning and yeast expression of cinnamate 4-hydroxylase from Ornithogalum saundersiae baker. PMID:24476601
Evolutionary dynamics and tissue specificity of human long noncoding RNAs in six mammals. PMID:24429298
Comparative analysis of the full genome of Helicobacter pylori isolate Sahul64 identifies genes of high divergence. PMID:24375107
A novel protein kinase-like domain in a selenoprotein, widespread in the tree of life. PMID:22359664
An alignment-free approach for eukaryotic ITS2 annotation and phylogenetic inference. PMID:22046320
Analysis of gene order conservation in eukaryotes identifies transcriptionally and functionally linked genes. PMID:20498846 -
The Pfam protein families database: towards a more sustainable future
PubMed citations: 2308.
2308 articles citing: The Pfam protein families database: towards a more sustainable future
Systematic in silico discovery of novel solute carrier-like proteins from proteomes. PMID:35901096
Genome-wide identification and characterization of GATA family genes in wheat. PMID:35896980
FastANI, Mash and Dashing equally differentiate between Klebsiella species. PMID:35891643
Integrated Analysis of Single-Molecule Real-Time Sequencing and Next-Generation Sequencing Eveals Insights into Drought Tolerance Mechanism of Lolium multiflorum. PMID:35887272
ContactPFP: Protein function prediction using predicted contact information. PMID:35875419
Computational analysis of potential candidate genes involved in the cold stress response of ten Rosaceae members. PMID:35842574
Transcriptomics of the Rooibos (Aspalathus linearis) Species Complex. PMID:35822822
Genome-wide signatures of synergistic epistasis during parallel adaptation in a Baltic Sea copepod. PMID:35821220
Using a Hybrid Mapping Population to Identify Genomic Regions of Pyrenophora teres Associated With Virulence. PMID:35812984
Identification and Characterization of the Core Region of ZmDi19-5 Promoter Activity and Its Upstream Regulatory Proteins. PMID:35806396
Evolution of Epidermal Growth Factor (EGF)-like and Zona Pellucida Domains Containing Shell Matrix Proteins in Mollusks. PMID:35796746
Systematic Analysis of bHLH Transcription Factors in Cassava Uncovers Their Roles in Postharvest Physiological Deterioration and Cyanogenic Glycosides Biosynthesis. PMID:35789698
Comparative Genomic Analyses Provide Insight Into the Pathogenicity of Metschnikowia bicuspidata LNES0119. PMID:35770163
Transcriptional Basis for Haustorium Formation and Host Establishment in Hemiparasitic Psittacanthus schiedeanus Mistletoes. PMID:35769994
The zinc proteome of SARS-CoV-2. PMID:35767875
Orrella daihaiensis sp. nov., a bacterium isolated from Daihai Lake in Inner Mongolia. PMID:35751751
Whole-Transcriptome Analysis of Non-Coding RNA Alteration in Porcine Alveolar Macrophage Exposed to Aflatoxin B1. PMID:35737034
Identification of Pathogenicity-Related Effector Proteins and the Role of Piwsc1 in the Virulence of Penicillium italicum on Citrus Fruits. PMID:35736129
In vitro and in silico Studies Reveal Bacillus cereus AA-18 as a Potential Candidate for Bioremediation of Mercury-Contaminated Wastewater. PMID:35733958
The evolution of BDNF is defined by strict purifying selection and prodomain spatial coevolution, but what does it mean for human brain disease? PMID:35732627
Genome Sequences of Two New Pandoravirus Strains Isolated from Brazil and France. PMID:35731201
Draft Genome Sequences of Erysipelothrix sp. Strains Isolated from Stranded Septic Bottlenose Dolphins in Alabama, USA. PMID:35730954
Phototransduction in a marine sponge provides insights into the origin of animal vision. PMID:35707725
Highly Specialized Carbohydrate Metabolism Capability in Bifidobacterium Strains Associated with Intestinal Barrier Maturation in Early Preterm Infants. PMID:35695455
Potential Roles of 1-Aminocyclopropane-1-carboxylic Acid Synthase Genes in the Response of Gossypium Species to Abiotic Stress by Genome-Wide Identification and Expression Analysis. PMID:35684296
Subtilisin of Leishmania amazonensis as Potential Druggable Target: Subcellular Localization, In Vitro Leishmanicidal Activity and Molecular Docking of PF-429242, a Subtilisin Inhibitor. PMID:35678670
Bioinformatic Identification of ABC Transporters in Candida auris. PMID:35674958
Genome-wide analysis of PTR transporters in Candida species and their functional characterization in Candida auris. PMID:35648145
miR-29a-5p Inhibits Prenatal Hair Placode Formation Through Targeting EDAR by ceRNA Regulatory Network. PMID:35646897
Spontaneous Suppressors against Debilitating Transmembrane Mutants of CaMdr1 Disclose Novel Interdomain Communication via Signature Motifs of the Major Facilitator Superfamily. PMID:35628792
Molecular Characterization and Expression Analysis of Putative Class C (Glutamate Family) G Protein-Coupled Receptors in Ascidian Styela clava. PMID:35625509
Hybrid Sequencing Resolved Inverted Terminal Repeats in the Genome of Megavirus Baoshan. PMID:35620092
Identification of a Novel Metabolic Target for Bioactive Triterpenoids Biosynthesis in Ganoderma lucidum. PMID:35615508
Single-molecule long-read sequencing analysis improves genome annotation and sheds new light on the transcripts and splice isoforms of Zoysia japonica. PMID:35614434
Integrative Analysis of lncRNA-miRNA-mRNA Regulatory Network Reveals the Key lncRNAs Implicated Potentially in the Differentiation of Adipocyte in Goats. PMID:35600305
Biotechnological Combination for Co-contaminated Soil Remediation: Focus on Tripartite "Meta-Enzymatic" Activity. PMID:35599908
The assembled and annotated genome of the masked palm civet (Paguma larvata). PMID:35583674
Machine Learning and Its Applications for Protozoal Pathogens and Protozoal Infectious Diseases. PMID:35573796
Differential Long Non-Coding RNA Expression Analysis in Chronic Non-Atrophic Gastritis, Gastric Mucosal Intraepithelial Neoplasia, and Gastric Cancer Tissues. PMID:35571069
The Genome-Wide Identification of Long Non-Coding RNAs Involved in Floral Thermogenesis in Nelumbo nucifera Gaertn. PMID:35563291
Deep learning of a bacterial and archaeal universal language of life enables transfer learning and illuminates microbial dark matter. PMID:35545619
In silico functional and tumor suppressor role of hypothetical protein PCNXL2 with regulation of the Notch signaling pathway. PMID:35539910
Metagenomic ene-reductases for the bioreduction of sterically challenging enones. PMID:35539044
Full-Length Transcriptome Sequencing Reveals Tissue-Specific Gene Expression Profile of Mangrove Clam Geloina erosa. PMID:35514334
Dual RNA-Seq of H5N1 Avian Influenza Virus and Host Cell Transcriptomes Reveals Novel Insights Into Host-Pathogen Cross Talk. PMID:35495687
Structure and DNA binding analysis of AT-rich interaction domain present in human BAF-B specific subunit BAF250b. PMID:35481652
Deletion and tandem duplications of biosynthetic genes drive the diversity of triterpenoids in Aralia elata. PMID:35468919
Plant Cell Wall Proteomes: The Core of Conserved Protein Families and the Case of Non-Canonical Proteins. PMID:35457091
IntegronFinder 2.0: Identification and Analysis of Integrons across Bacteria, with a Focus on Antibiotic Resistance in Klebsiella. PMID:35456751
Genome-wide identification, classification and expression analysis of the JmjC domain-containing histone demethylase gene family in Jatropha curcas L. PMID:35449230
Transcriptome Analysis of Otodectes cynotis in Different Developmental Stages. PMID:35444625
Metabolic Profiling of Interspecies Interactions During Sessile Bacterial Cultivation Reveals Growth and Sporulation Induction in Paenibacillus amylolyticus in Response to Xanthomonas retroflexus. PMID:35425721
Label-Free LC-MS/MS Analysis Reveals Different Proteomic Profiles between Egg Yolks of Silky Fowl and Ordinary Chickens. PMID:35407122
Genome-Wide Identification, Expression Pattern and Sequence Variation Analysis of SnRK Family Genes in Barley. PMID:35406955
Evaluation of Host Depletion and Extraction Methods for Shotgun Metagenomic Analysis of Bovine Vaginal Samples. PMID:35404108
Full-Length Transcriptome Sequences Provide Insight Into Hermaphroditism of Freshwater Pearl Mussel Hyriopsis schlegelii. PMID:35401664
Deciphering Genomes: Genetic Signatures of Plant-Associated Micromonospora. PMID:35401599
A Large-Scale Genome-Based Survey of Acidophilic Bacteria Suggests That Genome Streamlining Is an Adaption for Life at Low pH. PMID:35387071
Characterization of the Neospora caninum peroxiredoxin: a novel peroxidase and antioxidant enzyme. PMID:35362740
Unifying the known and unknown microbial coding sequence space. PMID:35356891
Insights Into the MYB-Related Transcription Factors Involved in Regulating Floral Aroma Synthesis in Sweet Osmanthus. PMID:35356120
Innovation and Emerging Roles of Populus trichocarpa TEOSINTE BRANCHED1/CYCLOIDEA/PROLIFERATING CELL FACTOR Transcription Factors in Abiotic Stresses by Whole-Genome Duplication. PMID:35356113
Genome-wide identification and characterization of PdbHLH transcription factors related to anthocyanin biosynthesis in colored-leaf poplar (Populus deltoids). PMID:35350981
Positive Selection during Niche Adaptation Results in Large-Scale and Irreversible Rearrangement of Chromosomal Gene Order in Bacteria. PMID:35348727
Systematic identification and expression profiles of the BAHD superfamily acyltransferases in barley (Hordeum vulgare). PMID:35332203
Comprehensive identification and expression analysis of CRY gene family in Gossypium. PMID:35331129
Tissue-Specific Expression of the Terpene Synthase Family Genes in Rosa chinensis and Effect of Abiotic Stress Conditions. PMID:35328100
Genome-Wide Identification of the Long Noncoding RNAs of Tribolium castaneum in Response to Terpinen-4-ol Fumigation. PMID:35323581
Genome-wide characterization and expression analysis of Erf gene family in cotton. PMID:35317739
Phylogeny-Aware Chemoinformatic Analysis of Chemical Diversity in Lamiaceae Enables Iridoid Pathway Assembly and Discovery of Aucubin Synthase. PMID:35298643
Developmental transcriptomics throughout the embryonic developmental process of Rhipicephalus turanicus reveals stage-specific gene expression profiles. PMID:35292089
Isolation and transcriptome analysis of a biotechnologically promising Black Sea protist, Thraustochytrium aureum ssp. strugatskii. PMID:35287351
Full-length transcriptome analysis of Adiantum flabellulatum gametophyte. PMID:35287343
Identification and Functional Analysis of lncRNA by CRISPR/Cas9 During the Cotton Response to Sap-Sucking Insect Infestation. PMID:35283887
Ribosome collisions induce mRNA cleavage and ribosome rescue in bacteria. PMID:35264790
Long-Term Cellulose Enrichment Selects for Highly Cellulolytic Consortia and Competition for Public Goods. PMID:35258341
The fiber diameter traits of Tibetan cashmere goats are governed by the inherent differences in stress, hypoxic, and metabolic adaptations: an integrative study of proteome and transcriptome. PMID:35255833
Comprehensive Analysis of Long Non-coding RNA Modulates Axillary Bud Development in Tobacco (Nicotiana tabacum L.). PMID:35237286
Next-generation sequencing identified novel truncating mutations in BBS9 causing Bardet Biedl syndrome in two Iranian consanguineous families. PMID:35222663
SMRT sequencing of the full-length transcriptome of Gekko gecko. PMID:35213661
Whole Genome Sequence of an Edible Mushroom Stropharia rugosoannulata (Daqiugaigu). PMID:35205854
A Highly Specific Holin-Mediated Mechanism Facilitates the Secretion of Lethal Toxin TcsL in Paeniclostridiumsordellii. PMID:35202151
First Multi-Organ Full-Length Transcriptome of Tree Fern Alsophila spinulosa Highlights the Stress-Resistant and Light-Adapted Genes. PMID:35186007
Structural and functional insights into ABHD5, a ligand-regulated lipase co-activator. PMID:35173175
Haloterrigena gelatinilytica sp. nov., a new extremely halophilic archaeon isolated from salt-lake. PMID:35166931
Microbial Functional Diversity Correlates with Species Diversity along a Temperature Gradient. PMID:35166562
CRP-Like Transcriptional Regulator MrpC Curbs c-di-GMP and 3',3'-cGAMP Nucleotide Levels during Development in Myxococcus xanthus. PMID:35164555
Comparative Phosphoproteomic Analysis of Sporulated Oocysts and Tachyzoites of Toxoplasma gondii Reveals Stage-Specific Patterns. PMID:35164288
De Novo Assembly and Annotation of the Vaginal Metatranscriptome Associated with Bacterial Vaginosis. PMID:35163545
Genome-Wide Identification and Expression Analysis of the 14-3-3 Gene Family in Mango (Mangifera indica L.). PMID:35163516
Transcription Factor RrANT1 of Rosa rugosa Positively Regulates Flower Organ Size in Petunia hybrida. PMID:35163160
Differential gene expression associated with a floral scent polymorphism in the evening primrose Oenothera harringtonii (Onagraceae). PMID:35151274
Genome-wide identification of StU-box gene family and assessment of their expression in developmental stages of Solanum tuberosum. PMID:35147812
Insights Into the Molecular Mechanisms of Late Flowering in Prunus sibirica by Whole-Genome and Transcriptome Analyses. PMID:35145534
PSL-LCCL: a resource for subcellular protein localization in liver cancer cell line SK_HEP1. PMID:35134877
Genome-Wide Identification and Analysis of the Ascorbate Peroxidase (APX) Gene Family of Winter Rapeseed (Brassica rapa L.) Under Abiotic Stress. PMID:35126448
Directed mutational scanning reveals a balance between acidic and hydrophobic residues in strong human activation domains. PMID:35120642
RNA-Seq with a novel glabrous-ZM24fl reveals some key lncRNAs and the associated targets in fiber initiation of cotton. PMID:35114937
Genome-Wide Identification of JRL Genes in Moso Bamboo and Their Expression Profiles in Response to Multiple Hormones and Abiotic Stresses. PMID:35095981
DNA Methylation in Ensifer Species during Free-Living Growth and during Nitrogen-Fixing Symbiosis with Medicago spp. PMID:35089065
Access to highly specialized growth substrates and production of epithelial immunomodulatory metabolites determine survival of Haemophilus influenzae in human airway epithelial cells. PMID:35085362
The genome of medicinal leech (Whitmania pigra) and comparative genomic study for exploration of bioactive ingredients. PMID:35073842
Diverse DNA modification in marine prokaryotic and viral communities. PMID:35051998
New Deoxyenhygrolides from Plesiocystis pacifica Provide Insights into Butenolide Core Biosynthesis. PMID:35049927
Genome-Wide Identification and Expression Profile Analysis of the SnRK2 Gene Family in Nicotiana tabacum. PMID:35048221
Characterization and regulation mechanism analysis of ubiquitin-conjugating family genes in strawberry reveals a potential role in fruit ripening. PMID:35045827
Organochlorine contamination enriches virus-encoded metabolism and pesticide degradation associated auxiliary genes in soil microbiomes. PMID:35039616
Lnc-HZ05 regulates BPDE-inhibited human trophoblast cell proliferation and affects the occurrence of miscarriage by directly binding with miR-hz05. PMID:35038060
Genome-wide identification and characterization of the CLASP_N gene family in upland cotton (Gossypium hirsutum L.). PMID:35036102
Comparative genomic analysis of expansin superfamily gene members in zucchini and cucumber and their expression profiles under different abiotic stresses. PMID:35035133
De novo transcriptome sequencing of the northern fowl mite, Ornithonyssus sylviarum, shed light on parasitiform poultry mites evolution and its chemoreceptor repertoires. PMID:35032220
TcTI, a Kunitz-type trypsin inhibitor from cocoa associated with defense against pathogens. PMID:35027639
Genome wide analysis of DWARF27 genes in soybean and functional characterization of GmD27c reveals eminent role of strigolactones in rhizobia interaction and nodulation in Glycine max. PMID:35025033
Mitochondrial RNA processing defect caused by a SUPV3L1 mutation in two siblings with a novel neurodegenerative syndrome. PMID:35023579
RAD gene family analysis in cotton provides some key genes for flowering and stress tolerance in upland cotton G. hirsutum. PMID:35012446
Pax-5 Protein Expression Is Regulated by Transcriptional 3'UTR Editing. PMID:35011638
Complete de novo assembly of Wolbachia endosymbiont of Diaphorina citri Kuwayama (Hemiptera: Liviidae) using long-read genome sequencing. PMID:34996906
Early transcriptomic response of the mycoparasite Sphaerodes mycoparasitica to the mycotoxigenic Fusarium graminearum 3-ADON, the cause of Fusarium head blight. PMID:34993050
Optimized splitting of mixed-species RNA sequencing data. PMID:34991436
Horizontally Acquired Cellulases Assist the Expansion of Dietary Range in Pristionchus Nematodes. PMID:34978575
Metabolite and Transcriptome Profiling Analysis Revealed That Melatonin Positively Regulates Floral Scent Production in Hedychium coronarium. PMID:34975998
Genome-Guided Discovery of the First Myxobacterial Biarylitide Myxarylin Reveals Distinct C-N Biaryl Crosslinking in RiPP Biosynthesis. PMID:34946566
Full-Length Transcriptome Sequencing of the Scleractinian Coral Montipora foliosa Reveals the Gene Expression Profile of Coral-Zooxanthellae Holobiont. PMID:34943189
BrCNGC gene family in field mustard: genome-wide identification, characterization, comparative synteny, evolution and expression profiling. PMID:34921218
Lack of transcriptional coordination between mitochondrial and nuclear oxidative phosphorylation genes in the presence of two divergent mitochondrial genomes. PMID:34904419
Genome-Wide Analysis of the Fatty Acid Desaturase Gene Family Reveals the Key Role of PfFAD3 in α-Linolenic Acid Biosynthesis in Perilla Seeds. PMID:34899834
NLR diversity and candidate fusiform rust resistance genes in loblolly pine. PMID:34897455
Tapetal 3-Ketoacyl-Coenzyme A Synthases Are Involved in Pollen Coat Lipid Accumulation for Pollen-Stigma Interaction in Arabidopsis. PMID:34887893
Contrasting Community Assembly Forces Drive Microbial Structural and Potential Functional Responses to Precipitation in an Incipient Soil System. PMID:34887842
PAAR Proteins Are Versatile Clips That Enrich the Antimicrobial Weapon Arsenals of Prokaryotes. PMID:34874775
A Regulatory Network of Heat Shock Modules-Photosynthesis-Redox Systems in Response to Cold Stress Across a Latitudinal Gradient in Bermudagrass. PMID:34868138
Identification of WRKY transcription factors responding to abiotic stresses in Brassica napus L. PMID:34837557
Chloranthus genome provides insights into the early diversification of angiosperms. PMID:34836973
Biochemical Characterization of Recombinant Isocitrate Dehydrogenase and Its Putative Role in the Physiology of an Acidophilic Micrarchaeon. PMID:34835444
In Leishmania major, the Homolog of the Oncogene PES1 May Play a Critical Role in Parasite Infectivity. PMID:34830469
Multi-Omics Analysis of Gene and Protein Candidates Possibly Related to Tetrodotoxin Accumulation in the Skin of Takifugu flavidus. PMID:34822510
Synthetic Biology Advanced Natural Product Discovery. PMID:34822443
Rapidly evolving genetic features for desert adaptations in Stipagrostis pennata. PMID:34814836
Evolutionary history and divergence times of Odonata (dragonflies and damselflies) revealed through transcriptomics. PMID:34805787
Genome-Wide Identification of Wheat ZIP Gene Family and Functional Characterization of the TaZIP13-B in Plants. PMID:34804090
Genome-wide identification and expression analysis of sucrose nonfermenting-1-related protein kinase (SnRK) genes in Triticum aestivum in response to abiotic stress. PMID:34795369
Technical note: overcoming host contamination in bovine vaginal metagenomic samples with nanopore adaptive sequencing. PMID:34791313
Isolation, phenotypic characterization and comparative genomic analysis of 2019SD1, a polyvalent enterobacteria phage. PMID:34772986
Leaf Apoplast of Field-Grown Potato Analyzed by Quantitative Proteomics and Activity-Based Protein Profiling. PMID:34769464
The SR Splicing Factors: Providing Perspectives on Their Evolution, Expression, Alternative Splicing, and Function in Populus trichocarpa. PMID:34768799
Dissection of full-length transcriptome and metabolome of Dichocarpum (Ranunculaceae): implications in evolution of specialized metabolism of Ranunculales medicinal plants. PMID:34760397
Alternative Splicing Landscape of Small Brown Planthopper and Different Response of JNK2 Isoforms to Rice Stripe Virus Infection. PMID:34757837
An Ebola, Neisseria and Trypanosoma human protein interaction census reveals a conserved human protein cluster targeted by various human pathogens. PMID:34745452
The role of JrLACs in the lignification of walnut endocarp. PMID:34732134
Proteogenomic discovery of sORF-encoded peptides associated with bacterial virulence in Yersinia pestis. PMID:34728737
Plant ecological genomics at the limits of life in the Atacama Desert. PMID:34725254
Genetic and Molecular Analysis of Root Hair Development in Arabis alpina. PMID:34721494
Isolation and Identification of Dengue Virus Interactome with Human Plasma Proteins by Affinity Purification-Mass Spectrometry. PMID:34709640
Structural and Evolutionary Insights Into the Binding of Host Receptors by the Rabies Virus Glycoprotein. PMID:34708003
Genome-Wide Identification of LRR-RLK Family in Saccharum and Expression Analysis in Response to Biotic and Abiotic Stress. PMID:34698114
Convergent adaptation of the genomes of woody plants at the land-sea interface. PMID:34692119
The fungal root endophyte Serendipita vermifera displays inter-kingdom synergistic beneficial effects with the microbiota in Arabidopsis thaliana and barley. PMID:34686763
DAKS1, a Kunitz Scaffold Peptide from the Venom Gland of Deinagkistrodon acutus Prevents Carotid-Artery and Middle-Cerebral-Artery Thrombosis via Targeting Factor XIa. PMID:34681191
Genome-Wide Identification of LATERAL ORGAN BOUNDARIES DOMAIN (LBD) Transcription Factors and Screening of Salt Stress Candidates of Rosa rugosa Thunb. PMID:34681091
FA-nf: A Functional Annotation Pipeline for Proteins from Non-Model Organisms Implemented in Nextflow. PMID:34681040
Convergent Loss of Chemoreceptors across Independent Origins of Slave-Making in Ants. PMID:34668533
High-Quality Genome of the Medicinal Plant Strobilanthes cusia Provides Insights Into the Biosynthesis of Indole Alkaloids. PMID:34659312
Full-Length Transcriptome: A Reliable Alternative for Single-Cell RNA-Seq Analysis in the Spleen of Teleost Without Reference Genome. PMID:34646272
Lipid biomarkers: molecular tools for illuminating the history of microbial life. PMID:34635851
Identification and expression analysis of PUB genes in tea plant exposed to anthracnose pathogen and drought stresses. PMID:34633911
Genome-wide identification of the BURP domain-containing genes in Phaseolus vulgaris. PMID:34629769
Archaeal community dynamics in biogas fermentation at various temperatures assessed by mcrA amplicon sequencing using different primer pairs. PMID:34611812
Genome-Wide Transcriptional Changes of Rhodosporidium kratochvilovae at Low Temperature. PMID:34603256
A chromosome-level genome assembly for the eastern fence lizard (Sceloporus undulatus), a reptile model for physiological and evolutionary ecology. PMID:34599334
A systematic bioinformatics approach for large-scale identification and characterization of host-pathogen shared sequences. PMID:34583643
Full-length transcriptome analysis and identification of transcript structures in Eimeria necatrix from different developmental stages by single-molecule real-time sequencing. PMID:34579769
Genome-Wide Identification and Characterization of the Abiotic-Stress-Responsive GRF Gene Family in Diploid Woodland Strawberry (Fragaria vesca). PMID:34579449
Genome-Wide Analysis of Four Pathotypes of Wheat Rust Pathogen (Puccinia graminis) Reveals Structural Variations and Diversifying Selection. PMID:34575739
Identification of Long Non-Coding RNAs Involved in Porcine Fat Deposition Using Two High-Throughput Sequencing Methods. PMID:34573356
Analyses of open-access multi-omics data sets reveal genetic and expression characteristics of maize ZmCCT family genes. PMID:34567492
Cotton CC-NBS-LRR Gene GbCNL130 Confers Resistance to Verticillium Wilt Across Different Species. PMID:34567025
The Role of Mfsd2a in Nervous System Diseases. PMID:34566571
New Cytoplasmic Virus-Like Elements (VLEs) in the Yeast Debaryomyces hansenii. PMID:34564619
Genome-wide analysis and expression profiles of PdeMYB transcription factors in colored-leaf poplar (Populus deltoids). PMID:34556053
Effect of food source availability in the salivary gland transcriptome of the unique burying beetle Nicrophorus pustulatus (Coleoptera: Silphidae). PMID:34555059
Transcriptome analysis and genetic diversity of Allium victorialis germplasms from the Changbai Mountains. PMID:34553046
Transcriptional profiling reveals changes in gene regulation and signaling transduction pathways during temperature stress in wucai (Brassica campestris L.). PMID:34551703
The biogeographic differentiation of algal microbiomes in the upper ocean from pole to pole. PMID:34531387
PacBio Single-Molecule Long-Read Sequencing Provides New Light on the Complexity of Full-Length Transcripts in Cattle. PMID:34527015
Genome-wide analysis of BpDof genes and the tolerance to drought stress in birch (Betula platyphylla). PMID:34513325
More Than Meets the Eye Regarding Cancer Metabolism. PMID:34502416
Genome-Wide Identification and Characterization of Short-Chain Dehydrogenase/Reductase (SDR) Gene Family in Medicago truncatula. PMID:34502406
Up-regulation of apoptotic- and cell survival-related gene pathways following exposures of western corn rootworm to B. thuringiensis crystalline pesticidal proteins in transgenic maize roots. PMID:34479486
A Comparison of Two Monoterpenoid Synthases Reveals Molecular Mechanisms Associated With the Difference of Bioactive Monoterpenoids Between Amomum villosum and Amomum longiligulare. PMID:34475877
Nesterenkonia ebinurensis sp. nov., a Novel Actinobacterium Isolated From Populus euphratica. PMID:34468853
The whole-genome and expression profile analysis of WRKY and RGAs in Dactylis glomerata showed that DG6C02319.1 and DgWRKYs may cooperate in the immunity against rust. PMID:34466285
The parasite Schistocephalus solidus secretes proteins with putative host manipulation functions. PMID:34454597
Isolation and Characterisation of the Bundooravirus Genus and Phylogenetic Investigation of the Salasmaviridae Bacteriophages. PMID:34452423
Insights into the Host Specificity of a New Oomycete Root Pathogen, Pythium brassicum P1: Whole Genome Sequencing and Comparative Analysis Reveals Contracted Regulation of Metabolism, Protein Families, and Distinct Pathogenicity Repertoire. PMID:34445718
Hepatic Proteomic Analysis of Selenoprotein T Knockout Mice by TMT: Implications for the Role of Selenoprotein T in Glucose and Lipid Metabolism. PMID:34445217
Identification and Characterization of the ERF Subfamily B3 Group Revealed GhERF13.12 Improves Salt Tolerance in Upland Cotton. PMID:34434208
Structural and mechanistic basis for protein glutamylation by the kinase fold. PMID:34407442
Proteorhodopsin Phototrophy in Antarctic Coastal Waters. PMID:34406852
Genome-wide analysis of R2R3-MYB transcription factors family in the autopolyploid Saccharum spontaneum: an exploration of dominance expression and stress response. PMID:34404342
Transcriptomic analysis to elucidate the effects of high stocking density on grass carp (Ctenopharyngodon idella). PMID:34399686
Evolution of the Insect PPK Gene Family. PMID:34390578
Genome-wide identification of serine acetyltransferase (SAT) gene family in rice (Oryza sativa) and their expressions under salt stress. PMID:34389920
Genome-wide identification and analysis of the heat shock transcription factor family in moso bamboo (Phyllostachys edulis). PMID:34389742
Global Survey of Alternative Splicing in Rice by Direct RNA Sequencing During Reproductive Development: Landscape and Genetic Regulation. PMID:34383135
PHROG: families of prokaryotic virus proteins clustered using remote homology. PMID:34377978
Characterization and comparative analysis of transcriptional profiles of porcine colostrum and mature milk at different parities. PMID:34376140
High-quality genome assembly and resequencing of modern cotton cultivars provide resources for crop improvement. PMID:34373642
A Tissue-Specific Landscape of Alternative Polyadenylation, lncRNAs, TFs, and Gene Co-expression Networks in Liriodendron chinense. PMID:34367224
JA signal-mediated immunity of Dendrobium catenatum to necrotrophic Southern Blight pathogen. PMID:34362300
FLAME: A Web Tool for Functional and Literature Enrichment Analysis of Multiple Gene Lists. PMID:34356520
Genome Mining and Comparative Genome Analysis Revealed Niche-Specific Genome Expansion in Antibacterial Bacillus pumilus Strain SF-4. PMID:34356076
Diploid genomic architecture of Nitzschia inconspicua, an elite biomass production diatom. PMID:34341414
Genome-Wide Identification of the Early Flowering 4 (ELF4) Gene Family in Cotton and Silent GhELF4-1 and GhEFL3-6 Decreased Cotton Stress Resistance. PMID:34326861
Comparative transcriptome analysis reveals regulatory network and regulators associated with proanthocyanidin accumulation in persimmon. PMID:34325657
RNA polymerases in strict endosymbiont bacteria with extreme genome reduction show distinct erosions that might result in limited and differential promoter recognition. PMID:34324516
Genome Size Estimation and Full-Length Transcriptome of Sphingonotus tsinlingensis: Genetic Background of a Drought-Adapted Grasshopper. PMID:34322153
Genome-Wide Patterns of Bracovirus Chromosomal Integration into Multiple Host Tissues during Parasitism. PMID:34319152
Deciphering Symbiotic Interactions of "Candidatus Aenigmarchaeota" with Inferred Horizontal Gene Transfers and Co-occurrence Networks. PMID:34313464
Comprehensive analysis of formin gene family highlights candidate genes related to pollen cytoskeleton and male fertility in wheat (Triticum aestivum L.). PMID:34303338
Genome-wide survey and expression analysis of NIN-like Protein (NLP) genes reveals its potential roles in the response to nitrate signaling in tomato. PMID:34301191
Mutational Analysis of Redβ Single Strand Annealing Protein: Roles of the 14 Lysine Residues in DNA Binding and Recombination In Vivo. PMID:34299376
Genome-Wide Identification and Expression Analysis of Tomato ADK Gene Family during Development and Stress. PMID:34299327
Machine learning for enzyme engineering, selection and design. PMID:34296736
Movements of transposable elements contribute to the genomic plasticity and species diversification in an asexually reproducing nematode pest. PMID:34295368
Comparative Genomics Reveals Thermal Adaptation and a High Metabolic Diversity in "Candidatus Bathyarchaeia". PMID:34282939
Full-length transcriptome assembly of andrias davidianus (amphibia: caudata) skin via hybrid sequencing. PMID:34282833
High-Quality Genome Assembly and Comprehensive Transcriptome of the Painted Lady Butterfly Vanessa cardui. PMID:34282459
Statistical approaches for differential expression analysis in metatranscriptomics. PMID:34252963
DeepGraphGO: graph neural network for large-scale, multispecies protein function prediction. PMID:34252926
Whole Transcriptome Analysis Reveals a Potential Regulatory Mechanism of LncRNA-FNIP2/miR-24-3p/FNIP2 Axis in Chicken Adipogenesis. PMID:34249911
A Eukaryote-Wide Perspective on the Diversity and Evolution of the ARF GTPase Protein Family. PMID:34247240
DiSCo: a sequence-based type-specific predictor of Dsr-dependent dissimilatory sulphur metabolism in microbial data. PMID:34241589
Analysis of lncRNA, miRNA, and mRNA Expression Profiling in Type I IFN and Type II IFN Overexpressed in Porcine Alveolar Macrophages. PMID:34222462
Genome-wide profiling of long noncoding RNAs involved in wheat spike development. PMID:34210256
Evolution of Terpene Synthases in Orchidaceae. PMID:34203299
EvoProDom: evolutionary modeling of protein families by assessing translocations of protein domains. PMID:34196123
Genome-wide identification and expression analysis of LBD transcription factor genes in Moso bamboo (Phyllostachys edulis). PMID:34182934
The Genomic Impact of Mycoheterotrophy in Orchids. PMID:34177974
Putative Causal Variant on Vlgr1 for the Epileptic Phenotype in the Model Wistar Audiogenic Rat. PMID:34177758
Genome-wide identification of auxin response factor (ARF) family in kiwifruit (Actinidia chinensis) and analysis of their inducible involvements in abiotic stresses. PMID:34177147
Morphological changes and functional circRNAs screening of rabbit skeletal muscle development. PMID:34167469
Identification of Isoflavonoid Biosynthesis-Related R2R3-MYB Transcription Factors in Callerya speciosa (Champ. ex Benth.) Schot Using Transcriptome-Based Gene Coexpression Analysis. PMID:34136563
Schistosomiasis Drug Discovery in the Era of Automation and Artificial Intelligence. PMID:34135888
Biosynthesis of a sulfated exopolysaccharide, synechan, and bloom formation in the model cyanobacterium Synechocystis sp. strain PCC 6803. PMID:34127188
Genome-Wide Identification and Bioinformatics Characterization of Superoxide Dismutases in the Desiccation-Tolerant Cyanobacterium Chroococcidiopsis sp. CCMEE 029. PMID:34122375
Genome-wide characterization, evolution, and expression profiling of FBA gene family in response to light treatments and abiotic stress in Nicotiana tabacum. PMID:34120568
Comprehensive identification and expression analysis of B-Box genes in cotton. PMID:34118883
Structural and functional characterization of a plant alpha-actinin. PMID:34110107
Genomic insights into body size evolution in Carnivora support Peto's paradox. PMID:34107880
Identification of long noncoding natural antisense transcripts (lncNATs) correlated with drought stress response in wild rice (Oryza nivara). PMID:34103003
G protein-coupled receptors as candidates for modulation and activation of the chemical senses in decapod crustaceans. PMID:34086685
Genome-Wide Identification of Tannase Genes and Their Function of Wound Response and Astringent Substances Accumulation in Juglandaceae. PMID:34079571
A proximity-dependent biotinylation map of a human cell. PMID:34079125
Genome-Wide Identification of PRP Genes in Apple Genome and the Role of MdPRP6 in Response to Heat Stress. PMID:34073055
A Novel DUF569 Gene Is a Positive Regulator of the Drought Stress Response in Arabidopsis. PMID:34070080
Comprehensive Transcriptome Analysis of Rare Carpinus putoensis Plants under NO2 stress. PMID:34067657
Integrated Signals of Jasmonates, Sugars, Cytokinins and Auxin Influence the Initial Growth of the Second Buds of Chrysanthemum after Decapitation. PMID:34065759
Bacterial death and TRADD-N domains help define novel apoptosis and immunity mechanisms shared by prokaryotes and metazoans. PMID:34061031
Transcriptional Regulation of Plant Biomass Degradation and Carbohydrate Utilization Genes in the Extreme Thermophile Caldicellulosiruptor bescii. PMID:34060910
Distinct microbial community along the chronic oil pollution continuum of the Persian Gulf converge with oil spill accidents. PMID:34059729
Distribution and Classification of Dehydrins in Selected Plant Species Using Bioinformatics Approach. PMID:34056027
A phylogenetic approach for weighting genetic sequences. PMID:34049487
Assessing the functional relevance of splice isoforms. PMID:34046593
FGF signalling plays similar roles in development and regeneration of the skeleton in the brittle star Amphiura filiformis. PMID:34042967
A human respiratory tract-associated bacterium with an extremely small genome. PMID:34040152
Genome-wide identification of the tea plant bHLH transcription factor family and discovery of candidate regulators of trichome formation. PMID:34031482
Sequence analysis of tyrosine recombinases allows annotation of mobile genetic elements in prokaryotic genomes. PMID:34018328
Analysis of diverse eukaryotes suggests the existence of an ancestral mitochondrial apparatus derived from the bacterial type II secretion system. PMID:34011950
Sesbanimide R, a Novel Cytotoxic Polyketide Produced by Magnetotactic Bacteria. PMID:34006654
DOE JGI Metagenome Workflow. PMID:34006627
Structure and biosynthesis of sorangipyranone - a new γ-dihydropyrone from the myxobacterial strain MSr12020. PMID:34003283
Identification of a PadR-type regulator essential for intracellular pathogenesis of Burkholderia pseudomallei. PMID:34001967
Whole genome sequencing of a snailfish from the Yap Trench (~7,000 m) clarifies the molecular mechanisms underlying adaptation to the deep sea. PMID:33983934
Comparative genomics and analysis of the mechanism of PQQ overproduction in Methylobacterium. PMID:33983497
The tepary bean genome provides insight into evolution and domestication under heat stress. PMID:33976152
Disentangling the aging gene expression network of termite queens. PMID:33975542
Myeloid lncRNA LOUP mediates opposing regulatory effects of RUNX1 and RUNX1-ETO in t(8;21) AML. PMID:33971010
Comparison and Functional Analysis of Chemosensory Protein Genes From Eucryptorrhynchus scrobiculatus Motschulsky and Eucryptorrhynchus brandti Harold. PMID:33959040
Sporulation is dispensable for the vegetable-associated life cycle of the human pathogen Bacillus cereus. PMID:33955675
Everything Is Everywhere: Physiological Responses of the Mediterranean Sea and Eastern Pacific Ocean Epiphyte Cobetia Sp. to Varying Nutrient Concentration. PMID:33954842
Molecular evidence of the avocado defense response to Fusarium kuroshium infection: a deep transcriptome analysis using RNA-Seq. PMID:33954045
Evolutionary history of the mediterranean Pinus halepensis-brutia species complex using gene-resequencing and transcriptomic approaches. PMID:33934278
Correlation of Key Physiological Properties of Methanosarcina Isolates with Environment of Origin. PMID:33931421
In Silico Analysis of the Molecular-Level Impact of SMPD1 Variants on Niemann-Pick Disease Severity. PMID:33925997
Isolation and Characterization of Strain Exiguobacterium sp. KRL4, a Producer of Bioactive Secondary Metabolites from a Tibetan Glacier. PMID:33919419
Genome-Wide Identification, Comparison, and Expression Analysis of Transcription Factors in Ascidian Styela clava. PMID:33919240
Regulatory role of non-coding RNA in ginseng rusty root symptom tissue. PMID:33911151
Pathogenic missense protein variants affect different functional pathways and proteomic features than healthy population variants. PMID:33909605
Anaerobic gut fungi are an untapped reservoir of natural products. PMID:33906945
Characterization of the ERP gene family in Arabidopsis thaliana. PMID:33906568
Genome sequence analysis of the beneficial Bacillus subtilis PTA-271 isolated from a Vitis vinifera (cv. Chardonnay) rhizospheric soil: assets for sustainable biocontrol. PMID:33902737
Tax4Fun2: prediction of habitat-specific functional profiles and functional redundancy based on 16S rRNA gene sequences. PMID:33902725
A long-term field experiment demonstrates the influence of tillage on the bacterial potential to produce soil structure-stabilizing agents such as exopolysaccharides and lipopolysaccharides. PMID:33902712
Biodiversity-based development and evolution: the emerging research systems in model and non-model organisms. PMID:33893979
PacBio Single-Molecule Long-Read Sequencing Reveals Genes Tolerating Manganese Stress in Schima superba Saplings. PMID:33889177
Isolation and genomic characterization of five novel strains of Erysipelotrichaceae from commercial pigs. PMID:33888068
Comprehensive analysis and identification of drought-responsive candidate NAC genes in three semi-arid tropics (SAT) legume crops. PMID:33882825
Use of RNA Sequencing to Perform Comprehensive Analysis of Long Noncoding RNA Expression Profiles in Macrophages Infected with Trichosporon asahii. PMID:33877524
Spatially interacting phosphorylation sites and mutations in cancer. PMID:33875650
Three PilZ Domain Proteins, PlpA, PixA, and PixB, Have Distinct Functions in Regulation of Motility and Development in Myxococcus xanthus. PMID:33875546
Identification of the specific long-noncoding RNAs involved in night-break mediated flowering retardation in Chenopodium quinoa. PMID:33874907
Predictive Models of Genetic Redundancy in Arabidopsis thaliana. PMID:33871641
Multi-omics analysis provides insights into lignocellulosic biomass degradation by Laetiporus sulphureus ATCC 52600. PMID:33865436
Lnc-HZ08 regulates BPDE-induced trophoblast cell dysfunctions by promoting PI3K ubiquitin degradation and is associated with miscarriage. PMID:33864160
Genome-wide identification and expression pattern of SnRK gene family under several hormone treatments and its role in floral scent emission in Hedychium coronarium. PMID:33854831
Comparison of 15 dinoflagellate genomes reveals extensive sequence and structural divergence in family Symbiodiniaceae and genus Symbiodinium. PMID:33849527
Origin and evolution of nonulosonic acid synthases and their relationship with bacterial pathogenicity revealed by a large-scale phylogenetic analysis. PMID:33848237
A multilayered cross-species analysis of GRAS transcription factors uncovered their functional networks in plant adaptation to the environment. PMID:33842016
A review on compound-protein interaction prediction methods: Data, format, representation and model. PMID:33841755
Balancing selection maintains hyper-divergent haplotypes in Caenorhabditis elegans. PMID:33820969
Functional divergence and adaptive selection of KNOX gene family in plants. PMID:33817223
Characterization of Haemophilus Parasuis Serovar 2 CL120103, a Moderately Virulent Strain in China. PMID:33817086
A Comparison of Differential Gene Expression in Response to the Onset of Water Stress Between Three Hybrid Brachiaria Genotypes. PMID:33815444
Phylogenomics of Plant-Associated Botryosphaeriaceae Species. PMID:33815343
Single-Molecule Long-Read Sequencing of Purslane (Portulaca oleracea) and Differential Gene Expression Related with Biosynthesis of Unsaturated Fatty Acids. PMID:33808162
Population-Predicted MHC Class II Epitope Presentation of SARS-CoV-2 Structural Proteins Correlates to the Case Fatality Rates of COVID-19 in Different Countries. PMID:33807854
Functional Annotation of a Full-Length Transcriptome and Identification of Genes Associated with Flower Development in Rhododendronsimsii (Ericaceae). PMID:33805478
Genome Analysis of Endotrypanum and Porcisia spp., Closest Phylogenetic Relatives of Leishmania, Highlights the Role of Amastins in Shaping Pathogenicity. PMID:33804709
Genome-Wide Identification and Characterization of Long Noncoding RNAs Involved in Chinese Wheat Mosaic Virus Infection of Nicotiana benthamiana. PMID:33802832
Full-Length Transcriptome Sequencing Provides Insights into Flavonoid Biosynthesis in Fritillaria hupehensis. PMID:33800612
Soil Biogeochemical Cycle Couplings Inferred from a Function-Taxon Network. PMID:33796862
LmjF.36.3850, a novel hypothetical Leishmania major protein, contributes to the infection. PMID:33764520
Genome-wide identification of HSF family in peach and functional analysis of PpHSF5 involvement in root and aerial organ development. PMID:33763299
Genome-wide identification of GMP genes in Rosaceae and functional characterization of FaGMP4 in strawberry (Fragaria × ananassa). PMID:33755919
Characterization of cotton ARF factors and the role of GhARF2b in fiber development. PMID:33752589
The Transcriptomic and Bioinformatic Characterizations of Iron Acquisition and Heme Utilization in Avibacterium paragallinarum in Response to Iron-Starvation. PMID:33746913
Comparative transcriptomic analysis of the different developmental stages of ovary in red swamp crayfish Procambarus clarkii. PMID:33745451
In-silico structural analysis of Pseudomonas syringae effector HopZ3 reveals ligand binding activity and virulence function. PMID:33730245
Comparative transcriptome analysis of the newly discovered insect vector of the pine wood nematode in China, revealing putative genes related to host plant adaptation. PMID:33726671
The Major Intrinsic Protein Family and Their Function Under Salt-Stress in Peanut. PMID:33719349
Genome-wide identification and expression profiling of basic leucine zipper transcription factors following abiotic stresses in potato (Solanum tuberosum L.). PMID:33711039
Full-Length Transcriptome Analysis of Plasmodium falciparum by Single-Molecule Long-Read Sequencing. PMID:33708645
Divergent CPEB prion-like domains reveal different assembly mechanisms for a generic amyloid-like fold. PMID:33706787
Characterization of a pericentric inversion in plateau fence lizards (Sceloporus tristichus): evidence from chromosome-scale genomes. PMID:33693605
Adaptation and convergence in circadian-related genes in Iberian freshwater fish. PMID:33685402
The Mitragyna speciosa (Kratom) Genome: a resource for data-mining potent pharmaceuticals that impact human health. PMID:33677570
Comparative Analysis, Characterization and Evolutionary Study of Dirigent Gene Family in Cucurbitaceae and Expression of Novel Dirigent Peptide against Powdery Mildew Stress. PMID:33668231
Characterization of the GRAS gene family reveals their contribution to the high adaptability of wheat. PMID:33665016
Integrated genomic analysis reveals regulatory pathways and dynamic landscapes of the tRNA transcriptome. PMID:33664286
Defining a novel domain that provides an essential contribution to site-specific interaction of Rep protein with DNA. PMID:33660784
Disruption of exon-bridging interactions between the minor and major spliceosomes results in alternative splicing around minor introns. PMID:33660780
Mining oomycete proteomes for metalloproteases leads to identification of candidate virulence factors in Phytophthora infestans. PMID:33657266
Structural and Functional Characterization of the ABA-Water Deficit Stress Domain from Wheat and Barley: An Intrinsically Disordered Domain behind the Versatile Functions of the Plant Abscissic Acid, Stress and Ripening Protein Family. PMID:33652546
RhoGAP19D inhibits Cdc42 laterally to control epithelial cell shape and prevent invasion. PMID:33646271
DbStRiPs: Database of structural repeats in proteins. PMID:33641184
Mitonuclear Coevolution, but not Nuclear Compensation, Drives Evolution of OXPHOS Complexes in Bivalves. PMID:33616640
Genome-Wide Integrated Analysis Revealed Functions of lncRNA-miRNA-mRNA Interaction in Growth of Intermuscular Bones in Megalobrama amblycephala. PMID:33614620
IAPs Gene Expansion in the Scallop Patinopecten yessoensis and Their Expression Profiles After Exposure to the Toxic Dinoflagellate. PMID:33613325
Molecular basis of tail-anchored integral membrane protein recognition by the cochaperone Sgt2. PMID:33610544
Two PAAR Proteins with Different C-Terminal Extended Domains Have Distinct Ecological Functions in Myxococcus xanthus. PMID:33608292
DTI-SNNFRA: Drug-target interaction prediction by shared nearest neighbors and fuzzy-rough approximation. PMID:33606741
Taxonomic, functional and expression analysis of viral communities associated with marine sponges. PMID:33604175
PathoFact: a pipeline for the prediction of virulence factors and antimicrobial resistance genes in metagenomic data. PMID:33597026
Rapid molecular evolution of Spiroplasma symbionts of Drosophila. PMID:33591248
Transcriptome and Secretome Analysis of Intra-Mammalian Life-Stages of Calicophoron daubneyi Reveals Adaptation to a Unique Host Environment. PMID:33581320
Family-specific analysis of variant pathogenicity prediction tools. PMID:33575576
Phenotypic Characterization and Whole-Genome Analysis of a Novel Bacteriophage HCF1 Infecting Citrobacter amalonaticus and C. freundii. PMID:33569047
Novel lnc-HZ03 and miR-hz03 promote BPDE-induced human trophoblastic cell apoptosis and induce miscarriage by upregulating p53/SAT1 pathway. PMID:33566220
Pangenome analysis reveals genetic isolation in Campylobacter hyointestinalis subspecies adapted to different mammalian hosts. PMID:33564053
A telomere-to-telomere assembly of Oscheius tipulae and the evolution of rhabditid nematode chromosomes. PMID:33561231
Comparative mRNA and LncRNA Analysis of the Molecular Mechanisms Associated With Low Silk Production in Bombyx mori. PMID:33552120
"The Good, the Bad and the Double-Sword" Effects of Microplastics and Their Organic Additives in Marine Bacteria. PMID:33552008
The in-silico characterization of the Caenorhabditis elegans matrisome and proposal of a novel collagen classification. PMID:33543001
Intrinsic disorder in protein domains contributes to both organism complexity and clade-specific functions. PMID:33542394
Phenotype and multi-omics comparison of Staphylococcus and Streptococcus uncovers pathogenic traits and predicts zoonotic potential. PMID:33541265
Transcriptomic Analysis of the Anthocyanin Biosynthetic Pathway Reveals the Molecular Mechanism Associated with Purple Color Formation in Dendrobium Nestor. PMID:33540822
Genome annotation of disease-causing microorganisms. PMID:33537706
The Genomes of Two Billfishes Provide Insights into the Evolution of Endothermy in Teleosts. PMID:33533895
The Origin and Evolution of Antistasin-like Proteins in Leeches (Hirudinida, Clitellata). PMID:33527140
Surface chemistry-mediated modulation of adsorbed albumin folding state specifies nanocarrier clearance by distinct macrophage subsets. PMID:33510170
Discovery of divided RdRp sequences and a hitherto unknown genomic complexity in fungal viruses. PMID:33505709
SUMO is a pervasive regulator of meiosis. PMID:33502312
Complete mitochondrial genome of the freshwater red alga Lympha mucosa (Rhodophyta). PMID:33490473
Pearl Sac Gene Expression Profiles Associated With Pearl Attributes in the Silver-Lip Pearl Oyster, Pinctada maxima. PMID:33488672
New amino acid substitution matrix brings sequence alignments into agreement with structure matches. PMID:33469973
Comparative Genomics of Marine Bacteria from a Historically Defined Plastic Biodegradation Consortium with the Capacity to Biodegrade Polyhydroxyalkanoates. PMID:33467086
Full-Length Transcriptome Analysis of Four Different Tissues of Cephalotaxus oliveri. PMID:33466772
Jumbo Phages: A Comparative Genomic Overview of Core Functions and Adaptions for Biological Conflicts. PMID:33466489
InsectOR-Webserver for sensitive identification of insect olfactory receptor genes from non-model genomes. PMID:33465132
Characterization of CHARK, an unusual cytokinin receptor of rice. PMID:33462253
A chromosome-level genome assembly of the oriental river prawn, Macrobrachium nipponense. PMID:33459341
PacBio full-length transcriptome of wild apple (Malus sieversii) provides insights into canker disease dynamic response. PMID:33446096
Large-scale survey and database of high affinity ligands for peptide recognition modules. PMID:33438817
Bioinformatic mapping of a more precise Aspergillus niger degradome. PMID:33436802
Integration of full-length transcriptomics and targeted metabolomics to identify benzylisoquinoline alkaloid biosynthetic genes in Corydalis yanhusuo. PMID:33423040
Machine learning based CRISPR gRNA design for therapeutic exon skipping. PMID:33417623
The iPPI-DB initiative: A Community-centered database of Protein-Protein Interaction modulators. PMID:33416858
The role of JrPPOs in the browning of walnut explants. PMID:33407138
Alignment-free method for functional annotation of amino acid substitutions: Application on epigenetic factors involved in hematologic malignancies. PMID:33395407
Origin and evolution of a gibberellin-deactivating enzyme GAMT. PMID:33376939
Genotype and transcriptome effects on somatic embryogenesis in Cryptomeria japonica. PMID:33373415
A New Phage Lysin Isolated from the Oral Microbiome Targeting Streptococcus pneumoniae. PMID:33352708
Sequence diversity analyses of an improved rhesus macaque genome enhance its biomedical utility. PMID:33335035
A dynamic, ring-forming MucB / RseB-like protein influences spore shape in Bacillus subtilis. PMID:33315869
Identification of type VI secretion system toxic effectors using adaptors as markers. PMID:33304467
The PacBio Full-Length Transcriptome of the Tea Aphid as a Reference Resource. PMID:33304379
Alteration in the Culex pipiens transcriptome reveals diverse mechanisms of the mosquito immune system implicated upon Rift Valley fever phlebovirus exposure. PMID:33301456
Symbiotic and Nonsymbiotic Members of the Genus Ensifer (syn. Sinorhizobium) Are Separated into Two Clades Based on Comparative Genomics and High-Throughput Phenotyping. PMID:33283865
Non-adaptive Evolution of Trimeric Autotransporters in Brucellaceae. PMID:33281759
Genome-wide identification, phylogenetic and expression pattern analysis of GATA family genes in Brassica napus. PMID:33276730
Occurrence of Ordered and Disordered Structural Elements in Postsynaptic Proteins Supports Optimization for Interaction Diversity. PMID:33267475
The Phosphoglycerate Kinase (PGK) Gene Family of Maize (Zea mays var. B73). PMID:33255472
Comprehensive prediction of secondary metabolite structure and biological activity from microbial genome sequences. PMID:33247171
Identification of L-asparaginases from Streptomyces strains with competitive activity and immunogenic profiles: a bioinformatic approach. PMID:33240625
Integrated analysis of lncRNA and mRNA reveals novel insights into cashmere fineness in Tibetan cashmere goats. PMID:33240606
Evolution of Biomineralization Genes in the Prismatic Layer of the Pen Shell Atrina pectinata. PMID:33236260
Repositioned Drugs for Chagas Disease Unveiled via Structure-Based Drug Repositioning. PMID:33233837
Identification of Anthocyanins-Related Glutathione S-Transferase (GST) Genes in the Genome of Cultivated Strawberry (Fragaria × ananassa). PMID:33218073
Mycobacterial STAND adenylyl cyclases: The HTH domain binds DNA to form biocrystallized nucleoids. PMID:33217386
GPCR-PEnDB: a database of protein sequences and derived features to facilitate prediction and classification of G protein-coupled receptors. PMID:33216895
RCSB Protein Data Bank: powerful new tools for exploring 3D structures of biological macromolecules for basic and applied research and education in fundamental biology, biomedicine, biotechnology, bioengineering and energy sciences. PMID:33211854
Identification of scavenger receptors and thrombospondin-type-1 repeat proteins potentially relevant for plastid recognition in Sacoglossa. PMID:33209293
Characterization of MSlys, the endolysin of Streptococcus pneumoniae phage MS1. PMID:33204659
The Role of Brachypodium distachyon Wall-Associated Kinases (WAKs) in Cell Expansion and Stress Responses. PMID:33202612
Transcriptome-wide identification of MAPKKK genes in bermudagrass (Cynodon dactylon L.) and their potential roles in low temperature stress responses. PMID:33194398
The Cyclically Seasonal Drosophila subobscura Inversion O7 Originated From Fragile Genomic Sites and Relocated Immunity and Metabolic Genes. PMID:33193649
Inhibition of DNA Methylation in Picochlorum soloecismus Alters Algae Productivity. PMID:33193644
Full Transcriptome Analysis of Callus Suspension Culture System of Bletilla striata. PMID:33193583
Comprehensive Genome-Wide Analysis of Thaumatin-Like Gene Family in Four Cotton Species and Functional Identification of GhTLP19 Involved in Regulating Tolerance to Verticillium dahlia and Drought. PMID:33193513
Whole-Genome Transcriptome Analyses of Native Symbionts Reveal Host Coral Genomic Novelties for Establishing Coral-Algae Symbioses. PMID:33185681
Identification of Growth Inhibitors of the Fish Pathogen Saprolegnia parasitica Using in silico Subtractive Proteomics, Computational Modeling, and Biochemical Validation. PMID:33178154
Genome-wide identification, and phylogenetic and expression profiling analyses, of XTH gene families in Brassica rapa L. and Brassica oleracea L. PMID:33176678
Genome-Wide Analysis of Biosynthetic Gene Cluster Reveals Correlated Gene Loss with Absence of Usnic Acid in Lichen-Forming Fungi. PMID:33151307
Computational strategies to combat COVID-19: useful tools to accelerate SARS-CoV-2 and coronavirus research. PMID:33147627
Global mRNA and microRNA expression dynamics in response to anthracnose infection in sorghum. PMID:33143636
Cycling in degradation of organic polymers and uptake of nutrients by a litter-degrading fungus. PMID:33140552
Warming Climate Is Reducing the Diversity of Dominant Microbes in the Largest High Arctic Lake. PMID:33133035
Evolution of the Brassicaceae-specific MS5-Like family and neofunctionalization of the novel MALE STERILITY 5 gene essential for male fertility in Brassica napus. PMID:33128826
Uncovering the genomic potential of the Amazon River microbiome to degrade rainforest organic matter. PMID:33126925
Pfam: The protein families database in 2021. PMID:33125078
Transcription termination and antitermination of bacterial CRISPR arrays. PMID:33124980
Phylogenetic and ion-response analyses reveal a relationship between gene expansion and functional divergence in the Ca2+/cation antiporter family in Angiosperms. PMID:33123851
Timing the origin of eukaryotic cellular complexity with ancient duplications. PMID:33106602
Genome-Wide Characterization and Expression of Two-Component System Genes in Cytokinin-Regulated Gall Formation in Zizania latifolia. PMID:33105697
Genome- and Transcriptome-Wide Identification of C3Hs in Common Bean (Phaseolus vulgaris L.) and Structural and Expression-Based Analyses of Their Functions During the Sprout Stage Under Salt-Stress Conditions. PMID:33101386
Long non-coding RNAs in plants: emerging modulators of gene activity in development and stress responses. PMID:33099688
Formation and diversification of a paradigm biosynthetic gene cluster in plants. PMID:33097700
Structural bioinformatics predicts that the Retinitis Pigmentosa-28 protein of unknown function FAM161A is a homologue of the microtubule nucleation factor Tpx2. PMID:33093951
Genome-wide analysis of the Firmicutes illuminates the diderm/monoderm transition. PMID:33077930
mMGE: a database for human metagenomic extrachromosomal mobile genetic elements. PMID:33074335
Amino acid synthesis loss in parasitoid wasps and other hymenopterans. PMID:33074103
Alternative Splicing Enhances the Transcriptome Complexity of Liriodendron chinense. PMID:33072153
Funneled energy landscape unifies principles of protein binding and evolution. PMID:33067388
A Need for Improved Cellulase Identification from Metagenomic Sequence Data. PMID:33067195
Comparative Transcriptome Analysis of Two Root-Feeding Grape Phylloxera (D. vitifoliae) Lineages Feeding on a Rootstock and V. vinifera. PMID:33053741
The mechanism of potato resistance to Globodera rostochiensis: comparison of root transcriptomes of resistant and susceptible Solanum phureja genotypes. PMID:33050888
New Environment, New Invaders-Repeated Horizontal Transfer of LINEs to Sea Snakes. PMID:33022046
Genome assembly and annotation of Meloidogyne enterolobii, an emerging parthenogenetic root-knot nematode. PMID:33020495
Overexpression of GmUBC9 Gene Enhances Plant Drought Resistance and Affects Flowering Time via Histone H2B Monoubiquitination. PMID:33013972
Phylogenetic Relationships and Potential Functional Attributes of the Genus Parapedobacter: A Member of Family Sphingobacteriaceae. PMID:33013721
A compendium of DNA-binding specificities of transcription factors in Pseudomonas syringae. PMID:33009392
A Functional K+ Channel from Tetraselmis Virus 1, a Member of the Mimiviridae. PMID:33003637
High-quality nuclear genome for Sarcoptes scabiei-A critical resource for a neglected parasite. PMID:33001992
Glucosylation prevents plant defense activation in phloem-feeding insects. PMID:32989301
Polyphyletic origin, intracellular invasion, and meiotic genes in the putatively asexual agamococcidians (Apicomplexa incertae sedis). PMID:32985520
A chromosome-scale reference genome of trifoliate orange (Poncirus trifoliata) provides insights into disease resistance, cold tolerance and genome evolution in Citrus. PMID:32985030
The Cardiac Syndecan-2 Interactome. PMID:32984315
Characteristics and Expression Analyses of Trehalose-6-Phosphate Synthase Family in Prunus mume Reveal Genes Involved in Trehalose Biosynthesis and Drought Response. PMID:32977584
Genome-Wide Network of lncRNA-mRNA During Ovine Oocyte Development From Germinal Vesicle to Metaphase II in vitro. PMID:32973554
Design principles of gene evolution for niche adaptation through changes in protein-protein interaction networks. PMID:32973219
Single cell transcriptomes reveal expression patterns of chemoreceptor genes in olfactory sensory neurons of the Caribbean spiny lobster, Panulirus argus. PMID:32962631
Genome-Wide Identification of the PHD-Finger Family Genes and Their Responses to Environmental Stresses in Oryza sativa L. PMID:32961651
Protein Databases Related to Liquid-Liquid Phase Separation. PMID:32947964
Systematic analysis of bypass suppression of essential genes. PMID:32939983
Diversity of Conopeptides and Their Precursor Genes of Conus Litteratus. PMID:32937857
New developments in RiPP discovery, enzymology and engineering. PMID:32935693
Complex Evolution of Light-Dependent Protochlorophyllide Oxidoreductases in Aerobic Anoxygenic Phototrophs: Origin, Phylogeny, and Function. PMID:32931580
The wild strawberry kinome: identification, classification and transcript profiling of protein kinases during development and in response to gray mold infection. PMID:32928117
The ranging of amino acids substitution matrices of various types in accordance with the alignment accuracy criterion. PMID:32921315
Single-molecule real-time sequencing of the full-length transcriptome of loquat under low-temperature stress. PMID:32915882
Increased resolution of African swine fever virus genome patterns based on profile HMMs of protein domains. PMID:32913663
Evolution of isoprenyl diphosphate synthase-like terpene synthases in fungi. PMID:32913319
Parallel analysis of miRNAs and mRNAs suggests distinct regulatory networks in Crassostrea gigas infected by Ostreid herpesvirus 1. PMID:32912133
Characterizing Phage-Host Interactions in a Simplified Human Intestinal Barrier Model. PMID:32906839
A Reference Genome from the Symbiotic Hydrozoan, Hydra viridissima. PMID:32900905
Exploring the Remarkable Diversity of Culturable Escherichia coli Phages in the Danish Wastewater Environment. PMID:32899836
Generation of a chromosome-scale genome assembly of the insect-repellent terpenoid-producing Lamiaceae species, Callicarpa americana. PMID:32893861
Telomere-to-telomere assembled and centromere annotated genomes of the two main subspecies of the button mushroom Agaricus bisporus reveal especially polymorphic chromosome ends. PMID:32887908
Genome-Wide Identification and Characterization of Lectin Receptor-Like Kinase Gene Family in Cucumber and Expression Profiling Analysis under Different Treatments. PMID:32887423
An Unexpectedly Complex Mitoribosome in Andalucia godoyi, a Protist with the Most Bacteria-like Mitochondrial Genome. PMID:32886790
A tree frog (Boana pugnax) dataset of skin transcriptome for the identification of biomolecules with potential antimicrobial activities. PMID:32875010
Widespread transfer of mobile antibiotic resistance genes within individual gut microbiomes revealed through bacterial Hi-C. PMID:32873785
RRE-Finder: a Genome-Mining Tool for Class-Independent RiPP Discovery. PMID:32873609
Growth retardation-responsive analysis of mRNAs and long noncoding RNAs in the liver tissue of Leiqiong cattle. PMID:32868811
Wheat Disease Resistance Genes and Their Diversification Through Integrated Domain Fusions. PMID:32849852
Transcriptome Dynamics of the Inflorescence in Reciprocally Formed Allopolyploid Tragopogon miscellus (Asteraceae). PMID:32849847
Differently Expression Analysis and Function Prediction of Long Non-coding RNAs in Duck Embryo Fibroblast Cells Infected by Duck Tembusu Virus. PMID:32849615
Mutant POLQ and POLZ/REV3L DNA polymerases may contribute to the favorable survival of patients with tumors with POLE mutations outside the exonuclease domain. PMID:32838755
Third-generation sequencing found LncRNA associated with heat shock protein response to heat stress in Populus qiongdaoensis seedlings. PMID:32831021
Genome-wide characterization of the GRF family and their roles in response to salt stress in Gossypium. PMID:32831017
Comparison of Poly-A+ Selection and rRNA Depletion in Detection of lncRNA in Two Equine Tissues Using RNA-seq. PMID:32825772
The sugar transporter system of strawberry: genome-wide identification and expression correlation with fruit soluble sugar-related traits in a Fragaria × ananassa germplasm collection. PMID:32793356
Genome-wide identification and characterization of bHLH family genes from Ginkgo biloba. PMID:32792673
JAGN1, tetraspanins, and Erv proteins: is common topology indicative of common function in cargo sorting? PMID:32783652
Characterization of the Exopolysaccharide Biosynthesis Pathway in Myxococcus xanthus. PMID:32778557
Functional Insight of Nitric-Oxide Induced DUF Genes in Arabidopsis thaliana. PMID:32765550
Genome-wide identification and characterization of DCL, AGO and RDR gene families in Saccharum spontaneum. PMID:32764599
FLUTE: Fast and reliable knowledge retrieval from biomedical literature. PMID:32761077
Comprehensive Network Analysis Reveals Alternative Splicing-Related lncRNAs in Hepatocellular Carcinoma. PMID:32760422
Evolution of pogo, a separate superfamily of IS630-Tc1-mariner transposons, revealing recurrent domestication events in vertebrates. PMID:32742312
lncRNA_Mdeep: An Alignment-Free Predictor for Distinguishing Long Non-Coding RNAs from Protein-Coding Transcripts by Multimodal Deep Learning. PMID:32718000
Genome-Wide Characterization and Expression Analysis of NHX Gene Family under Salinity Stress in Gossypium barbadense and Its Comparison with Gossypium hirsutum. PMID:32708576
Kinase Interaction Network Expands Functional and Disease Roles of Human Kinases. PMID:32707033
Amino acid sequence associated with bacteriophage recombination site helps to reveal genes potentially acquired through horizontal gene transfer. PMID:32703190
Discovery and engineering of colchicine alkaloid biosynthesis. PMID:32699417
The genome sequence of the grape phylloxera provides insights into the evolution, adaptation, and invasion routes of an iconic pest. PMID:32698880
An Easy Protocol for Evolutionary Analysis of Intrinsically Disordered Proteins. PMID:32696356
A comprehensive survey of integron-associated genes present in metagenomes. PMID:32689930
Simplification of Ribosomes in Bacteria with Tiny Genomes. PMID:32681797
A Study to Assess the Role of Gluten Encoded Genes and Their Regulatory Elements in Bread Making Quality of Wheat. PMID:32671123
Genome-Wide Identification and Functional Characterization of β-Agarases in Vibrio astriarenae Strain HN897. PMID:32670245
Transcriptomic Analysis of Extracellular RNA Governed by the Endocytic Adaptor Protein Cin1 of Cryptococcus deneoformans. PMID:32656093
Quality Matters: Biocuration Experts on the Impact of Duplication and Other Data Quality Issues in Biological Databases. PMID:32652120
Biological rhythms in the deep-sea hydrothermal mussel Bathymodiolus azoricus. PMID:32651383
Genome assembly of Chiococca alba uncovers key enzymes involved in the biosynthesis of unusual terpenoids. PMID:32642754
Improved reconstruction and comparative analysis of chromosome 12 to rectify Mis-assemblies in Gossypium arboreum. PMID:32640982
Type III Secretion 1 Effector Gene Diversity Among Vibrio Isolates From Coastal Areas in China. PMID:32637366
Architecture and functional dynamics of the pentafunctional AROM complex. PMID:32632294
Exploring neighborhoods in large metagenome assembly graphs using spacegraphcats reveals hidden sequence diversity. PMID:32631445
RNA-Seq of three free-living flatworm species suggests rapid evolution of reproduction-related genes. PMID:32631219
Computational identification of receptor-like kinases "RLK" and receptor-like proteins "RLP" in legumes. PMID:32620079
Interaction mapping of endoplasmic reticulum ubiquitin ligases identifies modulators of innate immune signalling. PMID:32614325
Glutantβase: a database for improving the rational design of glucose-tolerant β-glucosidases. PMID:32611314
Lateral Gene Transfer Drives Metabolic Flexibility in the Anaerobic Methane-Oxidizing Archaeal Family Methanoperedenaceae. PMID:32605988
Comparative analysis of full-length transcriptomes based on hybrid population reveals regulatory mechanisms of anthocyanin biosynthesis in sweet potato (Ipomoea batatas (L.) Lam). PMID:32600332
Genome-wide identification and integrated analysis of lncRNAs in rice backcross introgression lines (BC2F12). PMID:32600330
Evolutionary History of the Globin Gene Family in Annelids. PMID:32597988
Isoform Sequencing Provides Insight Into Freezing Response of Common Wheat (Triticum aestivum L.). PMID:32595694
Only a Single Taxonomically Restricted Gene Family in the Drosophila melanogaster Subgroup Can Be Identified with High Confidence. PMID:32589737
Genome-wide characterization and expression analyses of the auxin/indole-3-acetic acid (Aux/IAA) gene family in barley (Hordeum vulgare L.). PMID:32581321
A genomic view of trophic and metabolic diversity in clade-specific Lamellodysidea sponge microbiomes. PMID:32576248
Isolation and Characterization of Pectobacterium Phage vB_PatM_CB7: New Insights into the Genus Certrevirus. PMID:32575906
Genome-wide identification and characterization of SnRK family genes in Brassica napus. PMID:32571241
Genome-wide identification and expression analysis of the Dof gene family under drought stress in tea (Camellia sinensis). PMID:32566398
Advances in actinomycete research: an ActinoBase review of 2019. PMID:32558638
Survey for positively selected coding regions in the genome of the hematophagous tsetse fly Glossina morsitans identifies candidate genes associated with feeding habits and embryonic development. PMID:32555940
Metabolomics as an Emerging Tool in the Search for Astrobiologically Relevant Biomarkers. PMID:32551936
SMRT sequencing of the full-length transcriptome of the white-backed planthopper Sogatella furcifera. PMID:32551204
Genome-wide sequence identification and expression analysis of ARF family in sugar beet (Beta vulgaris L.) under salinity stresses. PMID:32547857
Genomic Survey of Tyrosine Kinases Repertoire in Electrophorus electricus With an Emphasis on Evolutionary Conservation and Diversification. PMID:32546936
Heterotrophic Thaumarchaea with Small Genomes Are Widespread in the Dark Ocean. PMID:32546674
Toxin-Antitoxin Systems: A Tool for Taxonomic Analysis of Human Intestinal Microbiota. PMID:32545455
Transcriptome sequencing reveals signatures of positive selection in the Spot-Tailed Earless Lizard. PMID:32542006
Genome-wide analysis of proline-rich extension-like receptor protein kinase (PERK) in Brassica rapa and its association with the pollen development. PMID:32539701
Genome-wide analysis of expression quantitative trait loci (eQTLs) reveals the regulatory architecture of gene expression variation in the storage roots of sweet potato. PMID:32528702
Differentially Regulated Transcription Factors and ABC Transporters in a Mitochondrial Dynamics Mutant Can Alter Azole Susceptibility of Aspergillus fumigatus. PMID:32528443
2-Hydroxysorangiadenosine: Structure and Biosynthesis of a Myxobacterial Sesquiterpene-Nucleoside. PMID:32527018
Modulation of bacterial multicellularity via spatio-specific polysaccharide secretion. PMID:32516311
Comparative tRNA sequencing and RNA mass spectrometry for surveying tRNA modifications. PMID:32514182
Multilayered VBC score predicts sgRNAs that efficiently generate loss-of-function alleles. PMID:32514112