TimeTree
A public resource for knowledge on the timescale and evolutionary history of life.A search utility allows exploration of the thousands of divergence times among organisms in the published literature. A tree-based (hierarchical) system is used to identify all published molecular time estimates bearing on the divergence of two chosen taxa, such as species, compute summary statistics, and present the results.
Description
More detailed information about this field from each metasource.
A public resource for knowledge on the timescale and evolutionary history of life.A search utility allows exploration of the thousands of divergence times among organisms in the published literature. A tree-based (hierarchical) system is used to identify all published molecular time estimates bearing on the divergence of two chosen taxa, such as species, compute summary statistics, and present the results.
metasource: bio.toolsversion: extracted_at: 2022-11-04T11:24:12.319930
Webpage:
http://www.timetree.org/Webpage
More detailed information about this field from each metasource.
Publications:
Publications
More detailed information about this field from each metasource.
TimeTree: A Resource for Timelines, Timetrees, and Divergence Times
PMID: 28387841
metasource: bio.tools
version: extracted_at: 2022-11-04T11:24:12.319930
TimeTree2: species divergence times on the iPhone
PMID: 21622662
metasource: bio.tools
version: extracted_at: 2022-11-04T11:24:12.319930
Publications
More detailed information about this field from each metasource.
TimeTree: A Resource for Timelines, Timetrees, and Divergence Times
PMID: 28387841
metasource: bio.tools
version: extracted_at: 2022-11-04T11:24:12.319930
TimeTree2: species divergence times on the iPhone
PMID: 21622662
metasource: bio.tools
version: extracted_at: 2022-11-04T11:24:12.319930
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TimeTree: A Resource for Timelines, Timetrees, and Divergence Times
PubMed citations: 729.
729 articles citing: TimeTree: A Resource for Timelines, Timetrees, and Divergence Times
In silico characterization, molecular phylogeny, and expression profiling of genes encoding legume lectin-like proteins under various abiotic stresses in Arabidopsis thaliana. PMID:35768782
Transposable Element Diversity Remains High in Gigantic Genomes. PMID:35751655
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
Correlative adaptation between Rubisco and CO2-concentrating mechanisms in seagrasses. PMID:35729266
Comparative genomic analysis reveals contraction of gene families with putative roles in pathogenesis in the fungal boxwood pathogens Calonectria henricotiae and C. pseudonaviculata. PMID:35725368
A single-cell transcriptomic atlas tracking the neural basis of division of labour in an ant superorganism. PMID:35711063
A hexa-species transcriptome atlas of mammalian embryogenesis delineates metabolic regulation across three different implantation modes. PMID:35710749
Factors shaping the abundance and diversity of the gut archaeome across the animal kingdom. PMID:35688919
The genome of a mangrove plant, Avicennia marina, provides insights into adaptation to coastal intertidal habitats. PMID:35678934
Seasonal and sex-dependent gene expression in emu (Dromaius novaehollandiae) fat tissues. PMID:35676317
The role of zinc in the adaptive evolution of polar phytoplankton. PMID:35654896
Evolution and functional diversification of catalase genes in the green lineage. PMID:35650553
Myriapod genomes reveal ancestral horizontal gene transfer and hormonal gene loss in millipedes. PMID:35637228
New perspectives on the origins and heterogeneity of mast cells. PMID:35610312
Cross-species discrimination of vocal expression of emotional valence by Equidae and Suidae. PMID:35606806
A Chromosome-Level Genome of the Camphor Tree and the Underlying Genetic and Climatic Factors for Its Top-Geoherbalism. PMID:35592577
Comprehensive Genome-Wide Identification, Characterization, and Expression Analysis of CCHC-Type Zinc Finger Gene Family in Wheat (Triticum aestivum L.). PMID:35574096
Reannotation of Fly Amanita l-DOPA Dioxygenase Gene Enables Its Cloning and Heterologous Expression. PMID:35571802
Pervasive male-biased expression throughout the germline-specific regions of the sea lamprey genome supports key roles in sex differentiation and spermatogenesis. PMID:35538209
Comparative Genomics Reveals Insights into the Divergent Evolution of Astigmatic Mites and Household Pest Adaptations. PMID:35535514
Genomic Analysis Based on Chromosome-Level Genome Assembly Reveals an Expansion of Terpene Biosynthesis of Azadirachta indica. PMID:35528946
The First Genome of the Balearic Shearwater (Puffinus mauretanicus) Provides a Valuable Resource for Conservation Genomics and Sheds Light on Adaptation to a Pelagic lifestyle. PMID:35524941
Comparative 3D genome architecture in vertebrates. PMID:35524220
Reawakening GDNF's regenerative past in mice and humans. PMID:35509264
Gaur genome reveals expansion of sperm odorant receptors in domesticated cattle. PMID:35508966
Comparative Study of Protein Aggregation Propensity and Mutation Tolerance Between Naked Mole-Rat and Mouse. PMID:35482036
Biomonitoring via DNA metabarcoding and light microscopy of bee pollen in rainforest transformation landscapes of Sumatra. PMID:35473550
Multiple nutrient transporters enable cells to mitigate a rate-affinity tradeoff. PMID:35468136
Convergence Analysis of Rust Fungi and Anther Smuts Reveals Their Common Molecular Adaptation to a Phytoparasitic Lifestyle. PMID:35464858
A Chromosome-Level Reference Genome of Chinese Balloon Flower (Platycodon grandiflorus). PMID:35464833
Coexpression reveals conserved gene programs that co-vary with cell type across kingdoms. PMID:35451481
Differences in PLA2 Constitution Distinguish the Venom of Two Endemic Brazilian Mountain Lanceheads, Bothrops cotiara and Bothrops fonsecai. PMID:35448846
Molecular characterization of matrix metalloproteinase gene family across primates. PMID:35444067
Scan of the endogenous retrovirus sequences across the swine genome and survey of their copy number variation and sequence diversity among various Chinese and Western pig breeds. PMID:35437972
Chromosome-Level Genome Assembly of Bupleurum chinense DC Provides Insights Into the Saikosaponin Biosynthesis. PMID:35432473
Self-perceived empathic abilities of people with autism towards living beings mostly differs for humans. PMID:35428857
Somatic mutation rates scale with lifespan across mammals. PMID:35418684
Geography-Dependent Horizontal Gene Transfer from Vertebrate Predators to Their Prey. PMID:35417559
Inferring mammalian tissue-specific regulatory conservation by predicting tissue-specific differences in open chromatin. PMID:35410163
Comparative mitogenomics and phylogenetics of the family Carangidae with special emphasis on the mitogenome of the Indian Scad Decapterus russelli. PMID:35379869
A chromosome-scale genome assembly of the false clownfish, Amphiprion ocellaris. PMID:35353192
Genomic signatures of high-altitude adaptation and chromosomal polymorphism in geladas. PMID:35332281
AutoCoEv-A High-Throughput In Silico Pipeline for Predicting Inter-Protein Coevolution. PMID:35328772
Coevolutionary Analysis Implicates Toll-Like Receptor 9 in Papillomavirus Restriction. PMID:35311536
A High-Quality Reference Genome Sequence and Genetic Transformation System of Aralia elata. PMID:35300010
Robustness of Mammalian Gut Microbiota to Humanization in Captivity. PMID:35291481
VP4 Is a Determinant of Alpha-Defensin Modulation of Rotaviral Infection. PMID:35285683
A Thermodynamic Model for Water Activity and Redox Potential in Evolution and Development. PMID:35279735
The genome of an apodid holothuroid (Chiridota heheva) provides insights into its adaptation to a deep-sea reducing environment. PMID:35273345
Allosteric Inter-Domain Contacts in Bacterial Hsp70 Are Located in Regions That Avoid Insertion and Deletion Events. PMID:35269930
Identification of multiple TAR DNA binding protein retropseudogene lineages during the evolution of primates. PMID:35264686
The evolution of brain neuron numbers in amniotes. PMID:35254911
General statistical model shows that macroevolutionary patterns and processes are consistent with Darwinian gradualism. PMID:35236836
Delineation of the DNA Structural Features of Eukaryotic Core Promoter Classes. PMID:35224327
PRDM9 losses in vertebrates are coupled to those of paralogs ZCWPW1 and ZCWPW2. PMID:35217607
Discovery and Evolutionary Analysis of a Novel Bat-Borne Paramyxovirus. PMID:35215881
Horizontal Transposon Transfer and Its Implications for the Ancestral Ecology of Hydrophiine Snakes. PMID:35205262
Phylogenetic Diversity of Ossification Patterns in the Avian Vertebral Column: A Review and New Data from the Domestic Pigeon and Two Species of Grebes. PMID:35205047
Comparative Genomic Analysis Reveals Preserved Features in Organohalide-Respiring Sulfurospirillum Strains. PMID:35196120
Evolutionary impacts of purine metabolism genes on mammalian oxidative stress adaptation. PMID:35194983
A myxozoan genome reveals mosaic evolution in a parasitic cnidarian. PMID:35177085
Genetic and biological characteristics of species A rotaviruses detected in common shrews suggest a distinct evolutionary trajectory. PMID:35169491
Limitations of Phylogenomic Data Can Drive Inferred Speciation Rate Shifts. PMID:35166841
The KRAB Domain of ZNF10 Guides the Identification of Specific Amino Acids That Transform the Ancestral KRAB-A-Related Domain Present in Human PRDM9 into a Canonical Modern KRAB-A Domain. PMID:35162997
Genome Size of Life Forms of Araceae-A New Piece in the C-Value Puzzle. PMID:35161315
CCR5 as a Coreceptor for Human Immunodeficiency Virus and Simian Immunodeficiency Viruses: A Prototypic Love-Hate Affair. PMID:35154162
High-speed rail model reveals the gene tandem amplification mediated by short repeated sequence in eukaryote. PMID:35145182
A positive correlation between GC content and growth temperature in prokaryotes. PMID:35139824
The effects of phylogeny, habitat and host characteristics on the thermal sensitivity of helminth development. PMID:35135354
Heterochiasmy and the establishment of gsdf as a novel sex determining gene in Atlantic halibut. PMID:35134055
The complete chloroplast genome sequencing analysis revealed an unusual IRs reduction in three species of subfamily Zygophylloideae. PMID:35108324
Chromosome-level genome assembly of the fully mycoheterotrophic orchid Gastrodia elata. PMID:35100375
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
Evolution of DNA Methylation Across Ecdysozoa. PMID:35089376
Convergent evolution of a blood-red nectar pigment in vertebrate-pollinated flowers. PMID:35074876
Comparative genomics reveals evolutionary loss of epiplakin in cetaceans. PMID:35064199
Evolutionary Origin of Insulin-Degrading Enzyme and Its Subcellular Localization and Secretion Mechanism: A Study in Microglial Cells. PMID:35053342
Identification of a novel SARS-CoV-2 P.1 sub-lineage in Brazil provides new insights about the mechanisms of emergence of variants of concern. PMID:35039782
High-Quality Reference Genome for an Arid-Adapted Mammal, the Banner-Tailed Kangaroo Rat (Dipodomys spectabilis). PMID:35026029
Structural basis of Nrd1-Nab3 heterodimerization. PMID:35022249
Factors Influencing the Sponsoring of Animals in Slovak Zoos. PMID:35011128
Demographic history and genetic diversity of wild African harlequin quail (Coturnix delegorguei delegorguei) populations of Kenya. PMID:35003693
The role of junctophilin proteins in cellular function. PMID:35001666
Placental Mammals Acquired Functional Sequences in NRK for Regulating the CK2-PTEN-AKT Pathway and Placental Cell Proliferation. PMID:34999820
Recruitment of an ancient branching program to suppress carpel development in maize flowers. PMID:34996873
Electron cryo-tomography structure of axonemal doublet microtubule from Tetrahymena thermophila. PMID:34969817
Evidence for a mouse origin of the SARS-CoV-2 Omicron variant. PMID:34954396
Captivity Influences the Gut Microbiome of Rhinopithecus roxellana. PMID:34950117
Chromosome-Level Genome Assembly Provides New Insights into Genome Evolution and Tuberous Root Formation of Potentilla anserina. PMID:34946942
Chromosome Genome Assembly of Cromileptes altivelis Reveals Loss of Genome Fragment in Cromileptes Compared with Epinephelus Species. PMID:34946822
Deciphering how naturally occurring sequence features impact the phase behaviours of disordered prion-like domains. PMID:34931046
Building RNA-protein germ granules: insights from the multifaceted functions of DEAD-box helicase Vasa/Ddx4 in germline development. PMID:34921622
Mammalian gut metabolomes mirror microbiome composition and host phylogeny. PMID:34903850
Noninsect-Based Diet Leads to Structural and Functional Changes of Acidic Chitinase in Carnivora. PMID:34897517
Phylogenetic and Molecular Analyses Identify SNORD116 Targets Involved in the Prader-Willi Syndrome. PMID:34893870
Ancient Mitogenomes Reveal the Domestication and Distribution of Cattle During the Longshan Culture Period in North China. PMID:34887902
The good, the bad, and the ugly: Evolutionary and pathological aspects of gene dosage alterations. PMID:34882671
The Power of Universal Contextualized Protein Embeddings in Cross-species Protein Function Prediction. PMID:34880594
Single cell atlas for 11 non-model mammals, reptiles and birds. PMID:34873160
Cell type-specific analysis by single-cell profiling identifies a stable mammalian tRNA-mRNA interface and increased translation efficiency in neurons. PMID:34857654
An ancient antimicrobial protein co-opted by a fungal plant pathogen for in planta mycobiome manipulation. PMID:34853168
Decoding the effects of synonymous variants. PMID:34850938
GC-biased gene conversion in X-chromosome palindromes conserved in human, chimpanzee, and rhesus macaque. PMID:34849781
Representation and participation across 20 years of plant genome sequencing. PMID:34845350
Thermal conditions predict intraspecific variation in senescence rate in frogs and toads. PMID:34845023
Origins and Function of VL30 lncRNA Packaging in Small Extracellular Vesicles: Implications for Cellular Physiology and Pathology. PMID:34829970
Molecular mechanisms and topological consequences of drastic chromosomal rearrangements of muntjac deer. PMID:34824214
Love bites: male frogs (Plectrohyla, Hylidae) use teeth scratching to deliver sodefrin precursor-like factors to females during amplexus. PMID:34823558
De novo assembly and functional annotation of blood transcriptome of loggerhead turtle, and in silico characterization of peroxiredoxins and thioredoxins. PMID:34820176
Interspecies transcriptomics identify genes that underlie disproportionate foot growth in jerboas. PMID:34793695
Concurrent Evolution of Antiaging Gene Duplications and Cellular Phenotypes in Long-Lived Turtles. PMID:34792580
Telomere-to-telomere genome assembly of asparaginase-producing Trichoderma simmonsii. PMID:34789157
Stronger net selection on males across animals. PMID:34787569
LncRNAs in domesticated animals: from dog to livestock species. PMID:34773482
Dispersal patterns of Squamata in the Mediterranean: An evolutionary perspective. PMID:34765137
The evolution of metazoan shelterin. PMID:34764137
The genus Entomophthora: bringing the insect destroyers into the twenty-first century. PMID:34763728
A chickpea genetic variation map based on the sequencing of 3,366 genomes. PMID:34759320
Variation in Release Factor Abundance Is Not Needed to Explain Trends in Bacterial Stop Codon Usage. PMID:34751397
Unraveling differences in fecal microbiota stability in mammals: from high variable carnivores and consistently stable herbivores. PMID:34736528
High-quality reference genome sequences of two coconut cultivars provide insights into evolution of monocot chromosomes and differentiation of fiber content and plant height. PMID:34736486
Species identification of Australian marsupials using collagen fingerprinting. PMID:34729210
Impact of model assumptions on demographic inferences: the case study of two sympatric mouse lemurs in northwestern Madagascar. PMID:34727890
How did a novel X-linked gene become essential for male determination? PMID:34711939
Genomic constitution, allopolyploidy, and evolutionary proposal for Cynodon Rich. based on GISH. PMID:34709474
Vertebrate host phylogeny influences gut archaeal diversity. PMID:34702978
Comparative genomics reveals molecular mechanisms underlying health and reproduction in cryptorchid mammals. PMID:34702182
Life-history traits and habitat availability shape genomic diversity in birds: implications for conservation. PMID:34702080
Discovery and Evolution of a Divergent Coronavirus in the Plateau Pika From China That Extends the Host Range of Alphacoronaviruses. PMID:34691006
The First Whole Genome Sequencing of Sanghuangporus sanghuang Provides Insights into Its Medicinal Application and Evolution. PMID:34682209
Telomeric-Like Repeats Flanked by Sequences Retrotranscribed from the Telomerase RNA Inserted at DNA Double-Strand Break Sites during Vertebrate Genome Evolution. PMID:34681704
The Complete Mitochondrial Genome of One Breeding Strain of Asian Swamp Eel (Monopterus albus, Zuiew 1793) Using PacBio and Illumina Sequencing Technologies and Phylogenetic Analysis in Synbranchiformes. PMID:34680962
Modular Evolution of the Drosophila Metabolome. PMID:34662414
Phenoloxidases in Plants-How Structural Diversity Enables Functional Specificity. PMID:34659324
High-Quality Genome of the Medicinal Plant Strobilanthes cusia Provides Insights Into the Biosynthesis of Indole Alkaloids. PMID:34659312
Three chromosome-scale Papaver genomes reveal punctuated patchwork evolution of the morphinan and noscapine biosynthesis pathway. PMID:34654815
Data integration and evolutionary analysis of long non-coding RNAs in 25 flowering plants. PMID:34649506
A mouse-specific retrotransposon drives a conserved Cdk2ap1 isoform essential for development. PMID:34644528
Evolutionary Implications of the RNA N6-Methyladenosine Methylome in Plants. PMID:34633447
Terminal modification, sequence, length, and PIWI-protein identity determine piRNA stability. PMID:34626567
The functional genetic architecture of egg-laying and live-bearing reproduction in common lizards. PMID:34621056
A chromosome-level genome sequence of Chrysanthemum seticuspe, a model species for hexaploid cultivated chrysanthemum. PMID:34620992
Novel ACE2 protein interactions relevant to COVID-19 predicted by evolutionary rate correlations. PMID:34616619
Chromosome-Scale Genome Assembly and Transcriptome Assembly of Kawakawa Euthynnus affinis; A Tuna-Like Species. PMID:34616435
Centromere size scales with genome size across Eukaryotes. PMID:34615955
Regulated splicing of large exons is linked to phase-separation of vertebrate transcription factors. PMID:34605568
A comparison of microsatellites and genome-wide SNPs for the detection of admixture brings the first molecular evidence for hybridization between Mustela eversmanii and M. putorius (Mustelidae, Carnivora). PMID:34603499
Evolutionary Genomics of Sex-Related Chromosomes at the Base of the Green Lineage. PMID:34599324
A complex of BRCA2 and PP2A-B56 is required for DNA repair by homologous recombination. PMID:34593815
Epigenetic clock and methylation studies in vervet monkeys. PMID:34591235
Chromosome-Level Genome Assembly and Annotation of the Fiber Flax (Linum usitatissimum) Genome. PMID:34589116
Genomic Evidence for Rare Hybridization and Large Demographic Changes in the Evolutionary Histories of Four North American Dove Species. PMID:34573643
Modelling Nonalcoholic Steatohepatitis In Vivo-A Close Transcriptomic Similarity Supports the Guinea Pig Disease Model. PMID:34572384
Odorant-binding proteins in canine anal sac glands indicate an evolutionarily conserved role in mammalian chemical communication. PMID:34565329
Early Response to Dehydration Six-Like Transporter Family: Early Origin in Streptophytes and Evolution in Land Plants. PMID:34552602
Ancient viral integrations in marsupials: a potential antiviral defence. PMID:34548931
Frequent lineage-specific substitution rate changes support an episodic model for protein evolution. PMID:34542594
The limits of convergence: the roles of phylogeny and dietary ecology in shaping non-avian amniote crania. PMID:34540239
Complete chloroplast genome of the medicinal plant Evolvulus alsinoides: comparative analysis, identification of mutational hotspots and evolutionary dynamics with species of Solanales. PMID:34539121
High-quality reannotation of the king scallop genome reveals no 'gene-rich' feature and evolution of toxin resistance. PMID:34527199
Rewinding the Molecular Clock: Looking at Pioneering Molecular Phylogenetics Experiments in the Light of Proteomics. PMID:34523928
Sexual selection and sexual size dimorphism in animals. PMID:34520680
The chromosome-scale genome of Magnolia officinalis provides insight into the evolutionary position of magnoliids. PMID:34505009
An Ancient Adenosine Receptor Gains Olfactory Function in Bony Vertebrates. PMID:34499158
Chromosome-level genome assembly of Gynostemma pentaphyllum provides insights into gypenoside biosynthesis. PMID:34499150
An Evolutionary Perspective of the Lipocalin Protein Family. PMID:34497539
The chloroplast genome of Amygdalus L. (Rosaceae) reveals the phylogenetic relationship and divergence time. PMID:34493218
The antiviral state has shaped the CpG composition of the vertebrate interferome to avoid self-targeting. PMID:34491982
Mycorrhizal status is a poor predictor of the distribution of herbaceous species along the gradient of soil nutrient availability in coastal and grassland habitats. PMID:34490546
Annelid genomes: Enchytraeus crypticus, a soil model for the innate (and primed) immune system. PMID:34489599
Retroviruses of Bats: a Threat Waiting in the Wings? PMID:34488459
Olfactory receptor gene evolution is unusually rapid across Tetrapoda and outpaces chemosensory phenotypic change. PMID:34484311
Comparative Genomic Analysis Reveals Genetic Variation and Adaptive Evolution in the Pathogenicity-Related Genes of Phytophthora capsici. PMID:34484141
Evolution of Methyltransferase-Like (METTL) Proteins in Metazoa: A Complex Gene Family Involved in Epitranscriptomic Regulation and Other Epigenetic Processes. PMID:34480573
Whole-Genome Duplications and the Diversification of the Globin-X Genes of Vertebrates. PMID:34480557
Horizontal transfer and subsequent explosive expansion of a DNA transposon in sea kraits (Laticauda). PMID:34464541
Genome-wide identification, characterization and expression analysis of MATE family genes in apple (Malus × domestica Borkh). PMID:34461821
In silico Characterization of the Heme Oxygenase 1 From Bottlenose Dolphin (Tursiops truncatus): Evidence of Changes in the Active Site and Purifying Selection. PMID:34456750
Transcriptomes of Saussurea (Asteraceae) Provide Insights into High-Altitude Adaptation. PMID:34451759
From Poison to Promise: The Evolution of Tetrodotoxin and Its Potential as a Therapeutic. PMID:34437388
ExOrthist: a tool to infer exon orthologies at any evolutionary distance. PMID:34416914
Concerted genomic and epigenomic changes accompany stabilization of Arabidopsis allopolyploids. PMID:34413505
Genes underlying the evolution of tetrapod testes size. PMID:34407824
Evolutionary history of quadrupedal walking gaits shows mammalian release from locomotor constraint. PMID:34403640
Fungal microbiomes are determined by host phylogeny and exhibit widespread associations with the bacterial microbiome. PMID:34403636
Pre-meiotic 21-nucleotide reproductive phasiRNAs emerged in seed plants and diversified in flowering plants. PMID:34400639
The chromosome-level reference genome assembly for Dendrobium officinale and its utility of functional genomics research and molecular breeding study. PMID:34386340
nf-LO: A Scalable, Containerized Workflow for Genome-to-Genome Lift Over. PMID:34383887
Conserved role of the urotensin II receptor 4 signalling pathway to control body straightness in a tetrapod. PMID:34375549
Impact of Repetitive DNA Elements on Snake Genome Biology and Evolution. PMID:34359877
Genome of the Southern Giant Petrel Assembled Using Third-Generation DNA Sequencing and Linked Reads Reveals Evolutionary Traits of Southern Avian. PMID:34359174
Dominance style is a key predictor of vocal use and evolution across nonhuman primates. PMID:34350023
Regional effect on the molecular clock rate of protein evolution in Eutherian and Metatherian genomes. PMID:34348656
Evolution of a key enzyme of aerobic metabolism reveals Proterozoic functional subunit duplication events and an ancient origin of animals. PMID:34344935
Radiating pain: venom has contributed to the diversification of the largest radiations of vertebrate and invertebrate animals. PMID:34344322
Ancestral Physical Stress and Later Immune Gene Family Expansions Shaped Bivalve Mollusc Evolution. PMID:34343278
Comparative Analysis of 16S rRNA Gene and Metagenome Sequencing in Pediatric Gut Microbiomes. PMID:34335499
The RNA helicase Ddx52 functions as a growth switch in juvenile zebrafish. PMID:34323273
Variation in the Evolution and Sequences of Proglucagon and the Receptors for Proglucagon-Derived Peptides in Mammals. PMID:34322093
Pervasive Positive Selection on Virus Receptors Driven by Host-Virus Conflicts in Mammals. PMID:34319153
Multicellularity and sex helped shape the Tree of Life. PMID:34315265
Draft Genome of the Mirrorwing Flyingfish (Hirundichthys speculiger). PMID:34306036
Comparative Genomics Provide Insights Into Function and Evolution of Odorant Binding Proteins in Cydia pomonella. PMID:34305643
Sex chromosome evolution among amniotes: is the origin of sex chromosomes non-random? PMID:34304592
The clinical importance of tandem exon duplication-derived substitutions. PMID:34302486
G-Quadruplex in Gene Encoding Large Subunit of Plant RNA Polymerase II: A Billion-Year-Old Story. PMID:34299001
De Novo Sequencing and High-Contiguity Genome Assembly of Moniezia expansa Reveals Its Specific Fatty Acid Metabolism and Reproductive Stem Cell Regulatory Network. PMID:34295839
Movements of transposable elements contribute to the genomic plasticity and species diversification in an asexually reproducing nematode pest. PMID:34295368
Dissecting the chromosome-level genome of the Asian Clam (Corbicula fluminea). PMID:34294825
Large palindromes on the primate X Chromosome are preserved by natural selection. PMID:34290043
Two NLR immune receptors acquired high-affinity binding to a fungal effector through convergent evolution of their integrated domain. PMID:34288868
Glomerulopathy. PMID:34285808
Ancestry analysis indicates two different sets of essential genes in eukaryotic model species. PMID:34279742
A novel class III endogenous retrovirus with a class I envelope gene in African frogs with an intact genome and developmentally regulated transcripts in Xenopus tropicalis. PMID:34261506
Comparative Genomics Provides Insights into the Genetic Diversity and Evolution of the DPANN Superphylum. PMID:34254817
Diversity and function of arthropod endosymbiont toxins. PMID:34253453
Molecular fossils illuminate the evolution of retroviruses following a macroevolutionary transition from land to water. PMID:34252162
A Chromosome-Level Genome of the Agile Gracile Mouse Opossum (Gracilinanus agilis). PMID:34247236
The epigenetic origin of life history transitions in plants and algae. PMID:34236522
Cross-Scale Analyses of Animal and Human Gut Microbiome Assemblies from Metacommunity to Global Landscape. PMID:34227828
Meta-analysis defines principles for the design and analysis of co-fractionation mass spectrometry experiments. PMID:34211188
Analysis of High Molecular Mass Compounds from the Spider Pamphobeteus verdolaga Venom Gland. A Transcriptomic and MS ID Approach. PMID:34209760
Cytoplasmic long noncoding RNAs are differentially regulated and translated during human neuronal differentiation. PMID:34193551
Monitoring Insect Transposable Elements in Large Double-Stranded DNA Viruses Reveals Host-to-Virus and Virus-to-Virus Transposition. PMID:34191026
Inferring Long-Term Effective Population Size with Mutation-Selection Models. PMID:34191010
Compensatory epistasis explored by molecular dynamics simulations. PMID:34173867
Vertical clinging and leaping induced evolutionary rate shifts in postcranial evolution of tamarins and marmosets (Primates, Callitrichidae). PMID:34171986
Molecular and structural mechanisms of ZZ domain-mediated cargo selection by Nbr1. PMID:34169534
Evolutionary analysis and functional characterization of SiBRI1 as a Brassinosteroid receptor gene in foxtail millet. PMID:34167462
Nonlethal age estimation of three threatened fish species using DNA methylation: Australian lungfish, Murray cod and Mary River cod. PMID:34161658
Insights into the effect of human civilization on Malus evolution and domestication. PMID:34161653
A Bacterial Inflammation Sensor Regulates c-di-GMP Signaling, Adhesion, and Biofilm Formation. PMID:34154415
Coordination of two enhancers drives expression of olfactory trace amine-associated receptors. PMID:34145235
Diverse Trajectories Drive the Expression of a Giant Virus in the Oomycete Plant Pathogen Phytophthora parasitica. PMID:34140938
Identical sequences found in distant genomes reveal frequent horizontal transfer across the bacterial domain. PMID:34121661
Plasma methionine metabolic profile is associated with longevity in mammals. PMID:34117367
Gene duplications and gene loss in the epidermal differentiation complex during the evolutionary land-to-water transition of cetaceans. PMID:34112911
Genomic insights into body size evolution in Carnivora support Peto's paradox. PMID:34107880
The steroid-hormone ecdysone coordinates parallel pupariation neuromotor and morphogenetic subprograms via epidermis-to-neuron Dilp8-Lgr3 signal induction. PMID:34099654
Evolutionary ecology of the visual opsin gene sequence and its expression in turbot (Scophthalmus maximus). PMID:34098879
Dynamic Molecular Evolution of Mammalian Homeobox Genes: Duplication, Loss, Divergence and Gene Conversion Sculpt PRD Class Repertoires. PMID:34097121
Karyotype Evolution and Genomic Organization of Repetitive DNAs in the Saffron Finch, Sicalis flaveola (Passeriformes, Aves). PMID:34069485
Genomes of Anguillid Herpesvirus 1 Strains Reveal Evolutionary Disparities and Low Genetic Diversity in the Genus Cyprinivirus. PMID:34063135
Are Geckos Special in Sex Determination? Independently Evolved Differentiated ZZ/ZW Sex Chromosomes in Carphodactylid Geckos. PMID:34051083
The ultimate database to (re)set the evolutionary history of primate genital bones. PMID:34045627
CaMKII oxidation is a critical performance/disease trade-off acquired at the dawn of vertebrate evolution. PMID:34039988
The genome of the venomous snail Lautoconus ventricosus sheds light on the origin of conotoxin diversity. PMID:34037232
Comprehensive machine-learning-based analysis of microRNA-target interactions reveals variable transferability of interaction rules across species. PMID:34030625
Drainage-structuring of ancestral variation and a common functional pathway shape limited genomic convergence in natural high- and low-predation guppies. PMID:34029313
Functional-genomic analysis reveals intraspecies diversification of antiviral receptor transporter proteins in Xenopus laevis. PMID:34014925
A comparative genomic approach using mouse and fruit fly data to discover genes involved in testis function in hymenopterans with a focus on Nasonia vitripennis. PMID:34011283
100-My history of bornavirus infections hidden in vertebrate genomes. PMID:33990470
Inter-species functional compatibility of the Theobroma cacao and Arabidopsis FT orthologs: 90 million years of functional conservation of meristem identity genes. PMID:33990176
Polyploidy underlies co-option and diversification of biosynthetic triterpene pathways in the apple tribe. PMID:33986115
The evolution of monogamy is associated with reversals from male to female bias in the survival cost of parasitism. PMID:33977790
Natural family-free genomic distance. PMID:33971908
Molecular Memories of a Cambrian Fossil. PMID:33967280
Brain size and neuron numbers drive differences in yawn duration across mammals and birds. PMID:33958700
Comparative analysis reveals distinctive epigenetic features of the human cerebellum. PMID:33956822
Evolutionary Dynamics of the OR Gene Repertoire in Teleost Fishes: Evidence of an Association with Changes in Olfactory Epithelium Shape. PMID:33950257
Role of epigenetics in unicellular to multicellular transition in Dictyostelium. PMID:33947439
Molecular Evolution of CatSper in Mammals and Function of Sperm Hyperactivation in Gray Short-Tailed Opossum. PMID:33946695
Gene Duplication and Loss of AANAT in Mammals Driven by Rhythmic Adaptations. PMID:33944919
Avoidance of protein unfolding constrains protein stability in long-term evolution. PMID:33932438
Novel metric for hyperbolic phylogenetic tree embeddings. PMID:33928190
Intrahost speciations and host switches played an important role in the evolution of herpesviruses. PMID:33927887
Differing effects of size and lifestyle on bone structure in mammals. PMID:33926429
Towards complete and error-free genome assemblies of all vertebrate species. PMID:33911273
Complete vertebrate mitogenomes reveal widespread repeats and gene duplications. PMID:33910595
Comparative genomic analysis of sifakas (Propithecus) reveals selection for folivory and high heterozygosity despite endangered status. PMID:33893095
Chromosome-level genome assembly of the hard-shelled mussel Mytilus coruscus, a widely distributed species from the temperate areas of East Asia. PMID:33891010
Phylogenetically diverse diets favor more complex venoms in North American pitvipers. PMID:33875585
Evolution after Whole-Genome Duplication: Teleost MicroRNAs. PMID:33871629
Unearthing LTR Retrotransposon gag Genes Co-opted in the Deep Evolution of Eukaryotes. PMID:33871607
The More, the Merrier? Multiple Myoglobin Genes in Fish Species, Especially in Gray Bichir (Polypterus senegalus) and Reedfish (Erpetoichthys calabaricus). PMID:33871590
Rethinking the use of finite element simulations in comparative biomechanics research. PMID:33868821
Lineage-Specific Rewiring of Core Pathways Predating Innovation of Legume Nodules Shapes Symbiotic Efficiency. PMID:33850043
Olfactory function in the trace amine-associated receptor family (TAARs) evolved twice independently. PMID:33833329
Osmoregulatory ability predicts geographical range size in marine amniotes. PMID:33823670
Ranking the risk of animal-to-human spillover for newly discovered viruses. PMID:33822740
Low Diversity of Human Variation Despite Mostly Mild Functional Impact of De Novo Variants. PMID:33816556
Mitochondrial DNA Analysis Clarifies Taxonomic Status of the Northernmost Snow Sheep (Ovis nivicola) Population. PMID:33803851
Using a biologically mimicking climbing robot to explore the performance landscape of climbing in lizards. PMID:33784869
Bitter taste receptors of the common vampire bat are functional and show conserved responses to metal ions in vitro. PMID:33784867
Testing hypotheses of marsupial brain size variation using phylogenetic multiple imputations and a Bayesian comparative framework. PMID:33784860
Demographic History, Adaptation, and NRAP Convergent Evolution at Amino Acid Residue 100 in the World Northernmost Cattle from Siberia. PMID:33784744
Association of TLR2 haplotypes encoding Q650 with reduced susceptibility to ovine Johne's disease in Turkish sheep. PMID:33782507
Analysis of Fungal Genomes Reveals Commonalities of Intron Gain or Loss and Functions in Intron-Poor Species. PMID:33772558
Multimerization variants as potential drivers of neofunctionalization. PMID:33771868
Persistent panmixia despite extreme habitat loss and population decline in the threatened tricolored blackbird (Agelaius tricolor). PMID:33767743
Evolutionary Constraint on Visual and Nonvisual Mammalian Opsins. PMID:33765865
Evolution and Functional Divergence of SUN Genes in Plants. PMID:33763102
Ancestral reconstruction of mammalian FMO1 enables structural determination, revealing unique features that explain its catalytic properties. PMID:33759784
Functional annotations of three domestic animal genomes provide vital resources for comparative and agricultural research. PMID:33758196
Effects of domestication on the gut microbiota parallel those of human industrialization. PMID:33755015
The chromosome-level genome of dragon fruit reveals whole-genome duplication and chromosomal co-localization of betacyanin biosynthetic genes. PMID:33750805
Evolution of the locomotor skeleton in Anolis lizards reflects the interplay between ecological opportunity and phylogenetic inertia. PMID:33750763
Ancient evolution of hepadnaviral paleoviruses and their impact on host genomes. PMID:33747544
Functional and Adaptive Significance of Promoter Mutations That Affect Divergent Myocardial Expressions of TRIM72 in Primates. PMID:33744959
Ancient DNA reveals the lost domestication history of South American camelids in Northern Chile and across the Andes. PMID:33724183
Experimental Resurrection of Ancestral Mammalian CPEB3 Ribozymes Reveals Deep Functional Conservation. PMID:33720319
Comparison of the Microsatellite Distribution Patterns in the Genomes of Euarchontoglires at the Taxonomic Level. PMID:33719337
Discovery of fungal surface NADases predominantly present in pathogenic species. PMID:33712585
Genome sequence and genetic diversity analysis of an under-domesticated orphan crop, white fonio (Digitaria exilis). PMID:33710327
Evolution of Fc Receptor-Like Scavenger in Mammals. PMID:33708190
Transcriptional rewiring of the GcrA/CcrM bacterial epigenetic regulatory system in closely related bacteria. PMID:33705385
A De Novo Transcriptome Assembly of Ceratopteris richardii Provides Insights into the Evolutionary Dynamics of Complex Gene Families in Land Plants. PMID:33681974
Identifying Primate ACE2 Variants That Confer Resistance to SARS-CoV-2. PMID:33674876
A multiplier peroxiporin signal transduction pathway powers piscine spermatozoa. PMID:33674382
Genetic Adaptations in Mudskipper and Tetrapod Give Insights into Their Convergent Water-to-Land Transition. PMID:33672418
A comparative analysis of heart microRNAs in vertebrates brings novel insights into the evolution of genetic regulatory networks. PMID:33663371
The evolution of oxygen-utilizing enzymes suggests early biosphere oxygenation. PMID:33633374
Positive selection and gene duplications in tumour suppressor genes reveal clues about how cetaceans resist cancer. PMID:33622125
The 'Tommy Atkins' mango genome reveals candidate genes for fruit quality. PMID:33618672
Time-resolved comparative molecular evolution of oxygenic photosynthesis. PMID:33617856
Recurrent evolution of vertebrate transcription factors by transposase capture. PMID:33602827
Determinants of genome-wide distribution and evolution of uORFs in eukaryotes. PMID:33597535
Comparative chromosome painting in Chacoan peccary, Catagonus wagneri. PMID:33594629
Transcriptomic analysis of gonadal development in parasitic and non-parasitic lampreys (Ichthyomyzon spp.), with a comparison of genomic resources in these non-model species. PMID:33576778
The genomics of ecological flexibility, large brains, and long lives in capuchin monkeys revealed with fecalFACS. PMID:33574059
Comparative Mapping of the Macrochromosomes of Eight Avian Species Provides Further Insight into Their Phylogenetic Relationships and Avian Karyotype Evolution. PMID:33572408
Rapid evolution and molecular convergence in cryptorchidism-related genes associated with inherently undescended testes in mammals. PMID:33568072
Diverse Eukaryotic CGG-Binding Proteins Produced by Independent Domestications of hAT Transposons. PMID:33561217
Gv1, a Zinc Finger Gene Controlling Endogenous MLV Expression. PMID:33560369
A global phylogeny of turtles reveals a burst of climate-associated diversification on continental margins. PMID:33558231
Evolutionary Conservation of Structural and Functional Coupling between the BRM AT-Hook and Bromodomain. PMID:33539881
Analyses of transcriptomes and the first complete genome of Leucocalocybe mongolica provide new insights into phylogenetic relationships and conservation. PMID:33536487
Differences in Homomorphic Sex Chromosomes Are Associated with Population Divergence in Sex Determination in Carinascincus ocellatus (Scincidae: Lygosominae). PMID:33535518
The Genomes of Two Billfishes Provide Insights into the Evolution of Endothermy in Teleosts. PMID:33533895
Genomic Insights into the Origin and Evolution of Molluscan Red-Bloodedness in the Blood Clam Tegillarca granosa. PMID:33528571
Genome-Scale Profiling Reveals Noncoding Loci Carry Higher Proportions of Concordant Data. PMID:33528497
The conserved transmembrane protein TMEM-39 coordinates with COPII to promote collagen secretion and regulate ER stress response. PMID:33524011
Insights into triterpene synthesis and unsaturated fatty-acid accumulation provided by chromosomal-level genome analysis of Akebia trifoliata subsp. australis. PMID:33518712
Amynthas corticis genome reveals molecular mechanisms behind global distribution. PMID:33514865
Perception of a divergent family of phytocytokines by the Arabidopsis receptor kinase MIK2. PMID:33514716
Noncanonical open reading frames encode functional proteins essential for cancer cell survival. PMID:33510483
The rise and fall of the ancient northern pike master sex-determining gene. PMID:33506762
Evolutionary Trajectory of the Replication Mode of Bacterial Replicons. PMID:33500342
Conserved paradoxical relationships among the evolutionary, structural and expressional features of KRAB zinc-finger proteins reveal their special functional characteristics. PMID:33482715
Dosage-sensitive functions in embryonic development drove the survival of genes on sex-specific chromosomes in snakes, birds, and mammals. PMID:33479023
Poorly differentiated XX/XY sex chromosomes are widely shared across skink radiation. PMID:33468012
A chromosome-level genome assembly of the oriental river prawn, Macrobrachium nipponense. PMID:33459341
Chromosome-level genome assembly of Ophiorrhiza pumila reveals the evolution of camptothecin biosynthesis. PMID:33452249
Alternative splicing landscapes in Arabidopsis thaliana across tissues and stress conditions highlight major functional differences with animals. PMID:33446251
Genomic signatures of the evolution of defence against its natural enemies in the poisonous and medicinal plant Datura stramonium (Solanaceae). PMID:33441607
A Reference Genome Assembly of Simmental Cattle, Bos taurus taurus. PMID:33438035
The mitochondrial genome of the black-tailed dusky antechinus (Antechinus arktos). PMID:33426294
Chromosome-scale genome assembly provides insights into the evolution and flavor synthesis of passion fruit (Passiflora edulis Sims). PMID:33419990
Essential Genes of the Parasitic Apicomplexa. PMID:33419671
Analysis across diverse fish species highlights no conserved transcriptome signature for proactive behaviour. PMID:33413108
Disome-seq reveals widespread ribosome collisions that promote cotranslational protein folding. PMID:33402206
Whole-genome sequencing reveals sex determination and liver high-fat storage mechanisms of yellowstripe goby (Mugilogobius chulae). PMID:33398077
Diversification of mammalian deltaviruses by host shifting. PMID:33397804
No sex differences in adult telomere length across vertebrates: a meta-analysis. PMID:33391781
Developing a theoretical evolutionary framework to solve the mystery of parturition initiation. PMID:33380346
Structural analysis of RIG-I-like receptors reveals ancient rules of engagement between diverse RNA helicases and TRIM ubiquitin ligases. PMID:33373584
Global Analysis of Gene Expression Profiles Provides Novel Insights into the Development and Evolution of the Large Crustacean Eriocheir sinensis. PMID:33346084
Phospho-islands and the evolution of phosphorylated amino acids in mammals. PMID:33344082
Analysis of Indian SARS-CoV-2 Genomes Reveals Prevalence of D614G Mutation in Spike Protein Predicting an Increase in Interaction With TMPRSS2 and Virus Infectivity. PMID:33329480
Genome sequencing of deep-sea hydrothermal vent snails reveals adaptions to extreme environments. PMID:33319911
Evolution and expansion of the RUNX2 QA repeat corresponds with the emergence of vertebrate complexity. PMID:33319865
Therapeutic genetic variation revealed in diverse Hsp104 homologs. PMID:33319748
Run or Die in the Evolution of New MicroRNAs-Testing the Red Queen Hypothesis on De Novo New Genes. PMID:33306129
The comparative genomic landscape of adaptive radiation in crater lake cichlid fishes. PMID:33305470
Using in silico predicted ancestral genomes to improve the efficiency of paleogenome reconstruction. PMID:33304488
Limb work and joint work minimization reveal an energetic benefit to the elbows-back, knees-forward limb design in parasagittal quadrupeds. PMID:33290670
The Tetracentron genome provides insight into the early evolution of eudicots and the formation of vessel elements. PMID:33267872
Genome-Wide Analysis of Nubian Ibex Reveals Candidate Positively Selected Genes That Contribute to Its Adaptation to the Desert Environment. PMID:33266380
Mosquito genomes are frequently invaded by transposable elements through horizontal transfer. PMID:33253164
Comparative analysis of the complete mitochondrial genomes of three rockfishes (Scorpaeniformes, Sebastiscus) and insights into the phylogenetic relationships of Sebastidae. PMID:33245090
MicroRNA retrocopies generated via L1-mediated retrotransposition in placental mammals help to reveal how their parental genes were transcribed. PMID:33244051
Speciation and adaptive evolution reshape antioxidant enzymatic system diversity across the phylum Nematoda. PMID:33243226
Novel hepaci- and pegi-like viruses in native Australian wildlife and non-human primates. PMID:33240526
Mycena genomes resolve the evolution of fungal bioluminescence. PMID:33229585
Origins and Long-Term Patterns of Copy-Number Variation in Rhesus Macaques. PMID:33226085
The origin and evolution of a distinct mechanism of transcription initiation in yeasts. PMID:33219055
Stochastic Gain and Loss of Novel Transcribed Open Reading Frames in the Human Lineage. PMID:33210146
Insights into the Metabolism and Evolution of the Genus Acidiphilium, a Typical Acidophile in Acid Mine Drainage. PMID:33203689
A comprehensive analysis of cotton VQ gene superfamily reveals their potential and extensive roles in regulating cotton abiotic stress. PMID:33198654
A comparative genomics multitool for scientific discovery and conservation. PMID:33177664
Progressive Cactus is a multiple-genome aligner for the thousand-genome era. PMID:33177663
Unexpected Discovery and Expression of Amphibian Class II Endogenous Retroviruses. PMID:33177199
Innovation of heterochromatin functions drives rapid evolution of essential ZAD-ZNF genes in Drosophila. PMID:33169670
Modes of genetic adaptations underlying functional innovations in the rumen. PMID:33165812
Analysis of the small chromosomal Prionium serratum (Cyperid) demonstrates the importance of reliable methods to differentiate between mono- and holocentricity. PMID:33165742
Genome-scale phylogeny and contrasting modes of genome evolution in the fungal phylum Ascomycota. PMID:33148650
Ecomorphology of the pectoral girdle in anurans (Amphibia, Anura): Shape diversity and biomechanical considerations. PMID:33144978
Snake W Sex Chromosome: The Shadow of Ancestral Amniote Super-Sex Chromosome. PMID:33142713
Virulence mismatches in index hosts shape the outcomes of cross-species transmission. PMID:33122433
Genetic, transcriptional, and regulatory landscape of monolignol biosynthesis pathway in Miscanthus × giganteus. PMID:33117433
To the Land and Beyond: Crab Microbiomes as a Paradigm for the Evolution of Terrestrialization. PMID:33117320
RTP4 Is a Potent IFN-Inducible Anti-flavivirus Effector Engaged in a Host-Virus Arms Race in Bats and Other Mammals. PMID:33113352
Comparative ACE2 variation and primate COVID-19 risk. PMID:33110195
AMPA receptor auxiliary subunits emerged during early vertebrate evolution by neo/subfunctionalization of unrelated proteins. PMID:33108974
Mitochondrial DNA Sequence Diversity in Mammals: A Correlation between the Effective and Census Population Sizes. PMID:33095231
SON and SRRM2 are essential for nuclear speckle formation. PMID:33095160
Genome streamlining in a minute herbivore that manipulates its host plant. PMID:33095158
Forest stratification shapes allometry and flight morphology of tropical butterflies. PMID:33081613
Evolutionary analysis of the Moringa oleifera genome reveals a recent burst of plastid to nucleus gene duplications. PMID:33077763
Reconstruction of ancient homeobox gene linkages inferred from a new high-quality assembly of the Hong Kong oyster (Magallana hongkongensis) genome. PMID:33059600
Evolutionary Mechanisms of Long-Term Genome Diversification Associated With Niche Partitioning in Marine Picocyanobacteria. PMID:33042072
The mole genome reveals regulatory rearrangements associated with adaptive intersexuality. PMID:33033216
Widespread Evolution of Molecular Resistance to Snake Venom α-Neurotoxins in Vertebrates. PMID:33023159
Genomic Characteristics Distinguish Geographically Distributed Dehalococcoidia. PMID:33013780
Multiple Isolated Transcription Factors Act as Switches and Contribute to Species Uniqueness. PMID:33003522
Evolutionary History of Alzheimer Disease-Causing Protein Family Presenilins with Pathological Implications. PMID:33001284
Innovations present in the primate interneuron repertoire. PMID:32999462
Gene Loss and Evolution of the Plastome. PMID:32992972
Ionotropic Receptors as a Driving Force behind Human Synapse Establishment. PMID:32986821
Comparative masticatory myology in anteaters and its implications for interpreting morphological convergence in myrmecophagous placentals. PMID:32983632
Evolutionary history of dimethylsulfoniopropionate (DMSP) demethylation enzyme DmdA in marine bacteria. PMID:32974097
Exploration into the origins and mobilization of di-hydrofolate reductase genes and the emergence of clinical resistance to trimethoprim. PMID:32969787
Whitefly genomes contain ribotoxin coding genes acquired from plants. PMID:32968092
The genome of Cleistogenes songorica provides a blueprint for functional dissection of dimorphic flower differentiation and drought adaptability. PMID:32964579
Eye size and investment in frogs and toads correlate with adult habitat, activity pattern and breeding ecology. PMID:32962540
Novel Gene Rearrangement and the Complete Mitochondrial Genome of Cynoglossus monopus: Insights into the Envolution of the Family Cynoglossidae (Pleuronectiformes). PMID:32962212
Origin and Evolution of the Gene Family of Proteinaceous Pheromones, the Exocrine Gland-Secreting Peptides, in Rodents. PMID:32961551
Treefrogs exploit temporal coherence to form perceptual objects of communication signals. PMID:32961090
Rhesus macaques as a tractable physiological model of human ageing. PMID:32951555
Complex Evolution of Light-Dependent Protochlorophyllide Oxidoreductases in Aerobic Anoxygenic Phototrophs: Origin, Phylogeny, and Function. PMID:32931580
Eco-evolutionary feedbacks mediated by bacterial membrane vesicles. PMID:32926132
The Globin Gene Family in Arthropods: Evolution and Functional Diversity. PMID:32922435
Evaluating the probability of CRISPR-based gene drive contaminating another species. PMID:32908593
Functional, Morphological, and Evolutionary Characterization of Hearing in Subterranean, Eusocial African Mole-Rats. PMID:32888484
Colocality to Cofunctionality: Eukaryotic Gene Neighborhoods as a Resource for Function Discovery. PMID:32886760
Analysis of muntjac deer genome and chromatin architecture reveals rapid karyotype evolution. PMID:32873878
Evolutionary and Functional Analysis of Korean Native Pig Using Single Nucleotide Polymorphisms. PMID:32868490
The Genome Sequence of Alpine Megacarpaea delavayi Identifies Species-Specific Whole-Genome Duplication. PMID:32849811
Sequencing the Genome of Indian Flying Fox, Natural Reservoir of Nipah Virus, Using Hybrid Assembly and Conservative Secondary Scaffolding. PMID:32849415
Lactobacilli and other gastrointestinal microbiota of Peromyscus leucopus, reservoir host for agents of Lyme disease and other zoonoses in North America. PMID:32817657
Genome-wide functional analysis of hot pepper immune receptors reveals an autonomous NLR clade in seed plants. PMID:32810286
Effective Population Size Predicts Local Rates but Not Local Mitigation of Read-through Errors. PMID:32797190
Supersized Ribosomal RNA Expansion Segments in Asgard Archaea. PMID:32785681
The biosynthesis of the anti-microbial diterpenoid leubethanol in Leucophyllum frutescens proceeds via an all-cis prenyl intermediate. PMID:32777127
The whale shark genome reveals how genomic and physiological properties scale with body size. PMID:32753383
The molecular basis of thioalcohol production in human body odour. PMID:32719469
Accounting for diverse evolutionary forces reveals mosaic patterns of selection on human preterm birth loci. PMID:32709900
Phylogenetic variation in cortical layer II immature neuron reservoir of mammals. PMID:32690132
Plasmids Related to the Symbiotic Nitrogen Fixation Are Not Only Cooperated Functionally but Also May Have Evolved over a Time Span in Family Rhizobiaceae. PMID:32687170
The Andaman day gecko paradox: an ancient endemic without pronounced phylogeographic structure. PMID:32678130
Unravelling the Complex Duplication History of Deuterostome Glycerol Transporters. PMID:32664262
Whole-genome, transcriptome, and methylome analyses provide insights into the evolution of platycoside biosynthesis in Platycodon grandiflorus, a medicinal plant. PMID:32637140
Complete Mitogenomes of Three Carangidae (Perciformes) Fishes: Genome Description and Phylogenetic Considerations. PMID:32630142
Desiccation does not drastically increase the accessibility of exogenous DNA to nuclear genomes: evidence from the frequency of endosymbiotic DNA transfer. PMID:32611311
Birth of a pathway for sulfur metabolism in early amniote evolution. PMID:32601391
Dynamic transcriptional and chromatin accessibility landscape of medaka embryogenesis. PMID:32591361
Endopolyploidy is a common response to UV-B stress in natural plant populations, but its magnitude may be affected by chromosome type. PMID:32582956
Yellow sea mediated segregation between North East Asian Dryophytes species. PMID:32579561
Gene expression and regulatory factors of the mechanistic target of rapamycin (mTOR) complex 1 predict mammalian longevity. PMID:32578071
Patterns of Sequence and Expression Diversification Associate Members of the PADRE Gene Family With Response to Fungal Pathogens. PMID:32547597
Changes in taxonomic and phylogenetic diversity in the Anthropocene. PMID:32546087
Genome Assembly and Annotation of Soft-Shelled Adlay (Coix lacryma-jobi Variety ma-yuen), a Cereal and Medicinal Crop in the Poaceae Family. PMID:32528499
ACE2 diversity in placental mammals reveals the evolutionary strategy of SARS-CoV-2. PMID:32520981
Gray whale transcriptome reveals longevity adaptations associated with DNA repair and ubiquitination. PMID:32515539
Comparative ACE2 variation and primate COVID-19 risk. PMID:32511330
Structural studies of geranylgeranylglyceryl phosphate synthase, a prenyltransferase found in thermophilic Euryarchaeota. PMID:32496216
Spatial inter-centromeric interactions facilitated the emergence of evolutionary new centromeres. PMID:32469306
Multi-faceted analysis provides little evidence for recurrent whole-genome duplications during hexapod evolution. PMID:32460826
Universal metabolic constraints shape the evolutionary ecology of diving in animals. PMID:32453989
An Unusual Amino Acid Substitution Within Hummingbird Cytochrome c Oxidase Alters a Key Proton-Conducting Channel. PMID:32444359
Axes of visual adaptation in the ecologically diverse family Cichlidae. PMID:32439270
Gene expression of functionally-related genes coevolves across fungal species: detecting coevolution of gene expression using phylogenetic comparative methods. PMID:32434474
Pig-specific RNA editing during early embryo development revealed by genome-wide comparisons. PMID:32433824
Smash++: an alignment-free and memory-efficient tool to find genomic rearrangements. PMID:32432328
The genome of Mekong tiger perch (Datnioides undecimradiatus) provides insights into the phylogenetic position of Lobotiformes and biological conservation. PMID:32424221
Adaptation of the master antioxidant response connects metabolism, lifespan and feather development pathways in birds. PMID:32424161
The Evolution of Human Cancer Gene Duplications across Mammals. PMID:32421773
Humanization of yeast genes with multiple human orthologs reveals functional divergence between paralogs. PMID:32421706
Genomes of the Venus Flytrap and Close Relatives Unveil the Roots of Plant Carnivory. PMID:32413308
Intron and gene size expansion during nervous system evolution. PMID:32410625
Identification of RAG-like transposons in protostomes suggests their ancient bilaterian origin. PMID:32399063
The First Draft Genome of the Plasterer Bee Colletes gigas (Hymenoptera: Colletidae: Colletes). PMID:32386319
A high-quality reference genome of wild Cannabis sativa. PMID:32377363
Condensation of Ded1p Promotes a Translational Switch from Housekeeping to Stress Protein Production. PMID:32359423
Model-Based Detection of Whole-Genome Duplications in a Phylogeny. PMID:32359154
Selection following Gene Duplication Shapes Recent Genome Evolution in the Pea Aphid Acyrthosiphon pisum. PMID:32359152
Low abundance of NDUFV2 and NDUFS4 subunits of the hydrophilic complex I domain and VDAC1 predicts mammalian longevity. PMID:32353747
A draft genome assembly of spotted hyena, Crocuta crocuta. PMID:32345970
Acinetobacter baumannii Resistance: A Real Challenge for Clinicians. PMID:32340386
Oncopeltus-like gene expression patterns in Murgantia histrionica, a new hemipteran model system, suggest ancient regulatory network divergence. PMID:32337018
Apcdd1 is a dual BMP/Wnt inhibitor in the developing nervous system and skin. PMID:32320685
Clade composition of a plant community indicates its phylogenetic diversity. PMID:32313633
Do major host shifts spark diversification in butterflies? PMID:32313623
Harnessing genomics to fast-track genetic improvement in aquaculture. PMID:32300217
Thermodynamic and Evolutionary Coupling between the Native and Amyloid State of Globular Proteins. PMID:32294448
Viral zoonotic risk is homogenous among taxonomic orders of mammalian and avian reservoir hosts. PMID:32284401
Full-length transcriptome sequencing provides insights into the evolution of apocarotenoid biosynthesis in Crocus sativus. PMID:32280432
Draft genomes of two Atlantic bay scallop subspecies Argopecten irradians irradians and A. i. concentricus. PMID:32251283
The Litsea genome and the evolution of the laurel family. PMID:32245969
Corticotropin-Releasing Factor Family: A Stress Hormone-Receptor System's Emerging Role in Mediating Sex-Specific Signaling. PMID:32244319
Antiviral Activity and Adaptive Evolution of Avian Tetherins. PMID:32238588
Fangs for the Memories? A Survey of Pain in Snakebite Patients Does Not Support a Strong Role for Defense in the Evolution of Snake Venom Composition. PMID:32235759
Water lily (Nymphaea thermarum) genome reveals variable genomic signatures of ancient vascular cambium losses. PMID:32234787
Comparative Cytology of Female Meiosis I Among Drosophila Species. PMID:32217631
Whole-genome sequencing of leopard coral grouper ( Plectropomus leopardus) and exploration of regulation mechanism of skin color and adaptive evolution. PMID:32212431
Identification of novel synaptonemal complex components in C. elegans. PMID:32211899
Sex and suicide: The curious case of Toll-like receptors. PMID:32203540
A Pan-plant Protein Complex Map Reveals Deep Conservation and Novel Assemblies. PMID:32191846
Expression and Localization of Kcne2 in the Vertebrate Retina. PMID:32191288
Comparative Analysis of Complete Mitochondrial Genomes of Three Gerres Fishes (Perciformes: Gerreidae) and Primary Exploration of Their Evolution History. PMID:32182936
Phylogenetic Modeling of Regulatory Element Turnover Based on Epigenomic Data. PMID:32176292
Horizontal transfer and evolution of transposable elements in vertebrates. PMID:32170101
Characterization of the prohormone complement in Amphiprion and related fish species integrating genome and transcriptome assemblies. PMID:32163422
Long transposon-rich centromeres in an oomycete reveal divergence of centromere features in Stramenopila-Alveolata-Rhizaria lineages. PMID:32150559
Origin and evolution of the Rax homeobox gene by comprehensive evolutionary analysis. PMID:32144893
Evolutionary and Molecular Characterization of liver-enriched gene 1. PMID:32144352
Systematic metadata analysis of brown rot fungi gene expression data reveals the genes involved in Fenton's reaction and wood decay process. PMID:32128279
Evolutionary Analysis of the Zinc Finger and Homeoboxes Family of Proteins Identifies Multiple Conserved Domains and a Common Early Chordate Ancestor. PMID:32125369
TimeMeter assesses temporal gene expression similarity and identifies differentially progressing genes. PMID:32123905
The structure, functional evolution, and evolutionary trajectories of the H+-PPase gene family in plants. PMID:32122295
Unusual sequence characteristics of human chromosome 19 are conserved across 11 nonhuman primates. PMID:32106815
Horizontal Gene Transfer to a Defensive Symbiont with a Reduced Genome in a Multipartite Beetle Microbiome. PMID:32098813
Draft Genome Assembly of Floccularia luteovirens, an Edible and Symbiotic Mushroom on Qinghai-Tibet Plateau. PMID:32098800
Evolutionary Dynamics of the POTE Gene Family in Human and Nonhuman Primates. PMID:32085667
Inter-species variation in monovalent anion substrate selectivity and inhibitor sensitivity in the sodium iodide symporter (NIS). PMID:32084174
Systematic analysis of the Hippo pathway organization and oncogenic alteration in evolution. PMID:32081887
Organization of Squamata (Reptilia) assemblages in Mediterranean archipelagos. PMID:32076536
Extensive Genetic Diversity of Polyomaviruses in Sympatric Bat Communities: Host Switching versus Coevolution. PMID:32075934
Exceptional Enlargement of the Mitochondrial Genome Results from Distinct Causes in Different Rain Frogs (Anura: Brevicipitidae: Breviceps). PMID:32064272
Evolutionary conservation of within-family biodiversity patterns. PMID:32060281
Baby Genomics: Tracing the Evolutionary Changes That Gave Rise to Placentation. PMID:32053193
Characterizing lineage-specific evolution and the processes driving genomic diversification in chordates. PMID:32046633
A chromosome-scale genome assembly of Isatis indigotica, an important medicinal plant used in traditional Chinese medicine: An Isatis genome. PMID:32025321
Dynamic Evolution of the Cthrc1 Genes, a Newly Defined Collagen-Like Family. PMID:32022859
Baseline and stress-induced corticosterone levels across birds and reptiles do not reflect urbanization levels. PMID:31993201
The Ficus erecta genome aids Ceratocystis canker resistance breeding in common fig (F. carica). PMID:31978270
Germline-restricted chromosome (GRC) in the sand martin and the pale martin (Hirundinidae, Aves): synapsis, recombination and copy number variation. PMID:31974427
Extinction pulse at Eocene-Oligocene boundary drives diversification dynamics of two Australian temperate floras. PMID:31964242
Mutations in orthologous PETALOSA TOE-type genes cause a dominant double-flower phenotype in phylogenetically distant eudicots. PMID:31960023
The most abundant maternal lncRNA Sirena1 acts post-transcriptionally and impacts mitochondrial distribution. PMID:31956907
Avian and serpentine endogenous foamy viruses, and new insights into the macroevolutionary history of foamy viruses. PMID:31942244
Whole-genome sequencing of 128 camels across Asia reveals origin and migration of domestic Bactrian camels. PMID:31925316
Comparative Analyses of Vertebrate Gut Microbiomes Reveal Convergence between Birds and Bats. PMID:31911491
Molecular evidence for adaptive evolution of olfactory-related genes in cervids. PMID:31902105
Evolutionarily conserved pachytene piRNA loci are highly divergent among modern humans. PMID:31900453
One evolutionarily selected amino acid variation is sufficient to provide functional specificity in the cold shock protein paralogs of Staphylococcus aureus. PMID:31876031
Ancestral-sequence reconstruction unveils the structural basis of function in mammalian FMOs. PMID:31873300
Empathy and compassion toward other species decrease with evolutionary divergence time. PMID:31862944
Characterization of p53 Family Homologs in Evolutionary Remote Branches of Holozoa. PMID:31861340
Predicting transfer RNA gene activity from sequence and genome context. PMID:31857444
New insights into mammalian sex chromosome structure and evolution using high-quality sequences from bovine X and Y chromosomes. PMID:31856728
The Melanin-Concentrating Hormone (MCH) System: A Tale of Two Peptides. PMID:31849590
Retroviruses drive the rapid evolution of mammalian APOBEC3 genes. PMID:31843890
Profusion of G-quadruplexes on both subunits of metazoan ribosomes. PMID:31834895
A genomic predictor of lifespan in vertebrates. PMID:31831772
The epigenomic landscape of transposable elements across normal human development and anatomy. PMID:31822674
Evolutionary Dynamics of Structural Variation at a Key Locus for Color Pattern Diversification in Cichlid Fishes. PMID:31821504
Coevolution of Snake Venom Toxic Activities and Diet: Evidence that Ecological Generalism Favours Toxicological Diversity. PMID:31817769
Delineating the role of c-FLIP/NEMO interaction in the CD95 network via rational design of molecular probes. PMID:31815628
Horizontal Transfer and Gene Loss Shaped the Evolution of Alpha-Amylases in Bilaterians. PMID:31810981
Recapitulation-like developmental transitions of chromatin accessibility in vertebrates. PMID:31807314
Deciphering the high-quality genome sequence of coriander that causes controversial feelings. PMID:31799788
An Integrated Model of Minor Intron Emergence and Conservation. PMID:31798628
Comparative skeletal anatomy of neonatal ursids and the extreme altriciality of the giant panda. PMID:31792960
Dynamic Evolution of Antimicrobial Peptides Underscores Trade-Offs Between Immunity and Ecological Fitness. PMID:31781114
The Genome of the Blind Soil-Dwelling and Ancestrally Wingless Dipluran Campodea augens: A Key Reference Hexapod for Studying the Emergence of Insect Innovations. PMID:31778187
Patterns and drivers of species richness and turnover of neo-endemic and palaeo-endemic vascular plants in a Mediterranean hotspot: the case of Crete, Greece. PMID:31720249
Chromosomal-level reference genome of Chinese peacock butterfly (Papilio bianor) based on third-generation DNA sequencing and Hi-C analysis. PMID:31682256
Assembly and Annotation of a Draft Genome of the Medicinal Plant Polygonum cuspidatum. PMID:31681373
Novel Polyomaviruses in Mammals from Multiple Orders and Reassessment of Polyomavirus Evolution and Taxonomy. PMID:31658738
Ancestral reconstruction of protein interaction networks. PMID:31658251
One thousand plant transcriptomes and the phylogenomics of green plants. PMID:31645766
Retrotransposons spread potential cis-regulatory elements during mammary gland evolution. PMID:31642473
Eutherian-Specific Gene TRIML2 Attenuates Inflammation in the Evolution of Placentation. PMID:31633784
ASPEN, a methodology for reconstructing protein evolution with improved accuracy using ensemble models. PMID:31621582
The Evolution of Tau Phosphorylation and Interactions. PMID:31619983
The Structure, Evolution, and Gene Expression Within the Caprine Leukocyte Receptor Complex. PMID:31616444
The allotetraploid origin and asymmetrical genome evolution of the common carp Cyprinus carpio. PMID:31604932
The Evolutionary History of Ephs and Ephrins: Toward Multicellular Organisms. PMID:31589243
RiceRelativesGD: a genomic database of rice relatives for rice research. PMID:31560050
Cross-Kingdom Analysis of Diversity, Evolutionary History, and Site Selection within the Eukaryotic Macrophage Migration Inhibitory Factor Superfamily. PMID:31554205
The First Highly Contiguous Genome Assembly of Pikeperch (Sander lucioperca), an Emerging Aquaculture Species in Europe. PMID:31540274
The Impact of Natural Selection on the Evolution and Function of Placentally Expressed Galectins. PMID:31504490
Roles for DNA polymerase δ in initiating and terminating leading strand DNA replication. PMID:31488849
Cooption of the pteridine biosynthesis pathway underlies the diversification of embryonic colors in water striders. PMID:31484764
Genomic Data Reveal Conserved Female Heterogamety in Giant Salamanders with Gigantic Nuclear Genomes. PMID:31439718
A high-quality genome assembly for the endangered golden snub-nosed monkey (Rhinopithecus roxellana). PMID:31437279
A chromosomal-level genome assembly for the insect vector for Chagas disease, Triatoma rubrofasciata. PMID:31425588
Body coloration and mechanisms of colour production in Archelosauria: the case of deirocheline turtles. PMID:31417734
TRIM69 Inhibits Vesicular Stomatitis Indiana Virus. PMID:31375575
Genome of the Komodo dragon reveals adaptations in the cardiovascular and chemosensory systems of monitor lizards. PMID:31358948
The glycoproteins EDIL3 and MFGE8 regulate vesicle-mediated eggshell calcification in a new model for avian biomineralization. PMID:31358619
The First Co-Opted Endogenous Foamy Viruses and the Evolutionary History of Reptilian Foamy Viruses. PMID:31336856
Phased genome sequence of an interspecific hybrid flowering cherry, 'Somei-Yoshino' (Cerasus × yedoensis). PMID:31334758
JPhyloIO: a Java library for event-based reading and writing of different phylogenetic file formats through a common interface. PMID:31331268
Diurnal variation in opsin expression and common housekeeping genes necessitates comprehensive normalization methods for quantitative real-time PCR analyses. PMID:31325910
GC content of vertebrate exome landscapes reveal areas of accelerated protein evolution. PMID:31311498
The role of inoculum dispersal and plant species identity in the assembly of leaf endophytic fungal communities. PMID:31310633
Experimental Evidence for Adaptation to Species-Specific Gut Microbiota in House Mice. PMID:31292233
Multi-species comparisons of snakes identify coordinated signalling networks underlying post-feeding intestinal regeneration. PMID:31288694
CATACOMB: An endogenous inducible gene that antagonizes H3K27 methylation activity of Polycomb repressive complex 2 via an H3K27M-like mechanism. PMID:31281901
Novel insights into endogenous RNA viral elements in Ixodes scapularis and other arbovirus vector genomes. PMID:31249694
Several phased siRNA annotation methods can frequently misidentify 24 nucleotide siRNA-dominated PHAS loci. PMID:31245701
Gene expression across mammalian organ development. PMID:31243369
On estimating evolutionary probabilities of population variants. PMID:31238981
Analysis of Uncharacterized mKiaa1211 Expression during Mouse Development and Cardiovascular Morphogenesis. PMID:31234534
Evolution of protein kinase substrate recognition at the active site. PMID:31233486
For common community phylogenetic analyses, go ahead and use synthesis phylogenies. PMID:31225900
Genome of the tropical plant Marchantia inflexa: implications for sex chromosome evolution and dehydration tolerance. PMID:31217536
Simultaneous TE Analysis of 19 Heliconiine Butterflies Yields Novel Insights into Rapid TE-Based Genome Diversification and Multiple SINE Births and Deaths. PMID:31214686
SynGO: An Evidence-Based, Expert-Curated Knowledge Base for the Synapse. PMID:31171447
The GMC superfamily of oxidoreductases revisited: analysis and evolution of fungal GMC oxidoreductases. PMID:31168323
Integrating natural history collections and comparative genomics to study the genetic architecture of convergent evolution. PMID:31154982
Cytochrome P450 Monooxygenase-Mediated Metabolic Utilization of Benzo[a]Pyrene by Aspergillus Species. PMID:31138742
Back to the Salt Mines: Genome and Transcriptome Comparisons of the Halophilic Fungus Aspergillus salisburgensis and Its Halotolerant Relative Aspergillus sclerotialis. PMID:31137536
Conservation Genomics in the Sagebrush Sea: Population Divergence, Demographic History, and Local Adaptation in Sage-Grouse (Centrocercus spp.). PMID:31135036
Thermodynamically stable and genetically unstable G-quadruplexes are depleted in genomes across species. PMID:31114920
Host diet and evolutionary history explain different aspects of gut microbiome diversity among vertebrate clades. PMID:31097702
Nonlinear sequence similarity between the Xist and Rsx long noncoding RNAs suggests shared functions of tandem repeat domains. PMID:31097619
Contraction of the ROS Scavenging Enzyme Glutathione S-Transferase Gene Family in Cetaceans. PMID:31092607
Islands of retroelements are major components of Drosophila centromeres. PMID:31086362
De novo assembly of the Indian blue peacock (Pavo cristatus) genome using Oxford Nanopore technology and Illumina sequencing. PMID:31077316
Convergent Co-option of the Retroviral gag Gene during the Early Evolution of Mammals. PMID:31068420
Control of Development, Secondary Metabolism and Light-Dependent Carotenoid Biosynthesis by the Velvet Complex of Neurospora crassa. PMID:31068340
Evolution of Cell Wall Polymers in Tip-Growing Land Plant Gametophytes: Composition, Distribution, Functional Aspects and Their Remodeling. PMID:31057570
Functional Proteomics of Nuclear Proteins in Tetrahymena thermophila: A Review. PMID:31052454
An Emergent Integrated Aging Process Conserved Across Primates. PMID:31046108
Immunolocalization and phylogenetic profiling of the feather protein with the highest cysteine content. PMID:31037447
Whole genome sequencing reveals the impact of recent artificial selection on red sea bream reared in fish farms. PMID:31019228
Genome streamlining via complete loss of introns has occurred multiple times in lichenized fungal mitochondria. PMID:31016002
Evaluation of a Chicken 600K SNP genotyping array in non-model species of grouse. PMID:31015535
Evolution of buffering in a genetic circuit controlling plant stem cell proliferation. PMID:30988512
FGMP: assessing fungal genome completeness. PMID:30987585
Metabolic physiology explains macroevolutionary trends in the melanic colour system across amniotes. PMID:30963907
Chromosome-scale assemblies reveal the structural evolution of African cichlid genomes. PMID:30942871
The genome of the giant Nomura's jellyfish sheds light on the early evolution of active predation. PMID:30925871
Two Independent Plastid accD Transfers to the Nuclear Genome of Gnetum and Other Insights on Acetyl-CoA Carboxylase Evolution in Gymnosperms. PMID:30924880
Olfactomedin domain-containing proteins: evolution, functional divergence, expression patterns and damaging SNPs. PMID:30915543
Molecular cytogenetic characterization of repetitive sequences comprising centromeric heterochromatin in three Anseriformes species. PMID:30913221
Low guanylyl cyclase activity in Weddell seals: implications for peripheral vasoconstriction and perfusion of the brain during diving. PMID:30892912
A putative antimicrobial peptide from Hymenoptera in the megaplasmid pSCL4 of Streptomyces clavuligerus ATCC 27064 reveals a singular case of horizontal gene transfer with potential applications. PMID:30891203
Long-read based assembly and synteny analysis of a reference Drosophila subobscura genome reveals signatures of structural evolution driven by inversions recombination-suppression effects. PMID:30885123
Strong selection of the TLR2 coding region among the Lagomorpha suggests an evolutionary history that differs from other mammals. PMID:30874861
Computational analysis of the evolutionarily conserved Missing In Metastasis/Metastasis Suppressor 1 gene predicts novel interactions, regulatory regions and transcriptional control. PMID:30858428
Origin and recent expansion of an endogenous gammaretroviral lineage in domestic and wild canids. PMID:30845962
Characterization and phylogeny of bitter taste receptor genes (Tas2r) in Squamata. PMID:30840187
The Draft Genome of an Octocoral, Dendronephthya gigantea. PMID:30825304
Evolution of the Highly Repetitive PEVK Region of Titin Across Mammals. PMID:30804022
Proteomic Analysis of Histones H2A/H2B and Variant Hv1 in Tetrahymena thermophila Reveals an Ancient Network of Chaperones. PMID:30796450
Patterns of microsatellite distribution across eukaryotic genomes. PMID:30795733
Genome-wide characterization, molecular evolution and expression profiling of the metacaspases in potato (Solanum tuberosum L.). PMID:30793051
Evolution of salivary glue genes in Drosophila species. PMID:30696414
A Shift in Aggregation Avoidance Strategy Marks a Long-Term Direction to Protein Evolution. PMID:30692195
Meiotic drive shapes rates of karyotype evolution in mammals. PMID:30690715
A Machine Learning Method for Detecting Autocorrelation of Evolutionary Rates in Large Phylogenies. PMID:30689923
Evolution of the Drosophila melanogaster Chromatin Landscape and Its Associated Proteins. PMID:30689829
Multivariate analysis of genomic variables, effective population size, and mutation rate. PMID:30683153
Early Triassic marine reptile representing the oldest record of unusually small eyes in reptiles indicating non-visual prey detection. PMID:30679783
Identification and Characterization of Mitogen-Activated Protein Kinase (MAPK) Genes in Sunflower (Helianthus annuus L.). PMID:30678298
Contrasting Patterns of Rapid Molecular Evolution within the p53 Network across Mammal and Sauropsid Lineages. PMID:30668691
A High-quality Draft Genome Assembly of Sinella curviseta: A Soil Model Organism (Collembola). PMID:30668671
Comparative Ecology of Bartonella and Brucella Infections in Wild Carnivores. PMID:30662899
Biological relevance of computationally predicted pathogenicity of noncoding variants. PMID:30659175
Stout camphor tree genome fills gaps in understanding of flowering plant genome evolution. PMID:30626928
Conserved transcriptomic profiles underpin monogamy across vertebrates. PMID:30617061
Activation of the Bile Acid Pathway and No Observed Antimicrobial Peptide Sequences in the Skin of a Poison Frog. PMID:30606754
Rapid birth-death evolution and positive selection in detoxification-type glutathione S-transferases in mammals. PMID:30586459
The dilemma of bacterial expansins evolution. The unusual case of Streptomyces acidiscabies and Kutzneria sp. 744. PMID:30574264
Multiple trans QTL and one cis-regulatory deletion are associated with the differential expression of cone opsins in African cichlids. PMID:30563463
Liriodendron genome sheds light on angiosperm phylogeny and species-pair differentiation. PMID:30559417
Structural Patching Fosters Divergence of Mitochondrial Ribosomes. PMID:30517740
Metazoan evolution of glutamate receptors reveals unreported phylogenetic groups and divergent lineage-specific events. PMID:30465522
Comparative Characterization of the Complete Mitochondrial Genomes of the Three Apple Snails (Gastropoda: Ampullariidae) and the Phylogenetic Analyses. PMID:30463257
Global fingerprint of humans on the distribution of Bartonella bacteria in mammals. PMID:30439961
LncRNAs in polyploid cotton interspecific hybrids are derived from transposon neofunctionalization. PMID:30419941
Tempo and Mode of Genome Evolution in the Budding Yeast Subphylum. PMID:30415838
Masking release in temporally fluctuating noise depends on comodulation and overall level in Cope's gray treefrog. PMID:30404526
SAGD: a comprehensive sex-associated gene database from transcriptomes. PMID:30380119
Ancestral Genomes: a resource for reconstructed ancestral genes and genomes across the tree of life. PMID:30371900
Temperature-dependent behaviors of parasitic helminths. PMID:30336196
A phosphatidylinositol 4,5-bisphosphate redistribution-based sensing mechanism initiates a phagocytosis programing. PMID:30323235
Insight into the evolution and functional characteristics of the pan-genome assembly from sesame landraces and modern cultivars. PMID:30315621
Using transcriptomics to enable a plethodontid salamander (Bolitoglossa ramosi) for limb regeneration research. PMID:30253734
Pseudogenes Provide Evolutionary Evidence for the Competitive Endogenous RNA Hypothesis. PMID:30252115
Repeated inversions within a pannier intron drive diversification of intraspecific colour patterns of ladybird beetles. PMID:30242156
Functional Evolution of Avian RIG-I-Like Receptors. PMID:30213147
Distribution, Diversity, and Evolution of Endogenous Retroviruses in Perissodactyl Genomes. PMID:30209175
A Single Mechanism of Biogenesis, Initiated and Directed by PIWI Proteins, Explains piRNA Production in Most Animals. PMID:30193099
CRISPR/Cas9-mediated gene knockin in the hydroid Hydractinia symbiolongicarpus. PMID:30176818
A standardized bacterial taxonomy based on genome phylogeny substantially revises the tree of life. PMID:30148503
Reflections on the evolution of the vertebrate tissue inhibitors of metalloproteinases. PMID:30125136
The chromosome-level genome assemblies of two rattans (Calamus simplicifolius and Daemonorops jenkinsiana). PMID:30101322
JustOrthologs: a fast, accurate and user-friendly ortholog identification algorithm. PMID:30084941
Molecular Adaptations for Sensing and Securing Prey and Insight into Amniote Genome Diversity from the Garter Snake Genome. PMID:30060036
Kinome-wide identification of phosphorylation networks in eukaryotic proteomes. PMID:30016513
A comprehensive database of thermal developmental plasticity in reptiles. PMID:30015809
Ancient Evolutionary Origin and Positive Selection of the Retroviral Restriction Factor Fv1 in Muroid Rodents. PMID:29976659
Systematic estimation of insertion dates of endogenous bornavirus-like elements in vesper bats. PMID:29973433
The soft explosive model of placental mammal evolution. PMID:29969980
Expansion and diversification of the gibberellin receptor GIBBERELLIN INSENSITIVE DWARF1 (GID1) family in land plants. PMID:29956113
Characterization of the Complete Mitochondrial Genome Sequences of Three Croakers (Perciformes, Sciaenidae) and Novel Insights into the Phylogenetics. PMID:29895774
D-GENIES: dot plot large genomes in an interactive, efficient and simple way. PMID:29888139
Evolutionary divergence of 3' UTRs in cichlid fishes. PMID:29866078
Trabecular architecture in the sciuromorph femoral head: allometry and functional adaptation. PMID:29785282
Resolution effects in reconstructing ancestral genomes. PMID:29764371
Lipidome Evolution in Mammalian Tissues. PMID:29762743
Cross-species inference of long non-coding RNAs greatly expands the ruminant transcriptome. PMID:29690875
Neutral Theory, Disease Mutations, and Personal Exomes. PMID:29688514
A death in the family: Sea lamprey (Petromyzon marinus) avoidance of confamilial alarm cues diminishes with phylogenetic distance. PMID:29686855
Novel Genes, Ancient Genes, and Gene Co-Option Contributed to the Genetic Basis of the Radula, a Molluscan Innovation. PMID:29672732
DNA Repair Network Analysis Reveals Shieldin as a Key Regulator of NHEJ and PARP Inhibitor Sensitivity. PMID:29656893
Tracing the evolution of the heterotrimeric G protein α subunit in Metazoa. PMID:29642851
Differential Evolution of Antiretroviral Restriction Factors in Pteropid Bats as Revealed by APOBEC3 Gene Complexity. PMID:29617834
Glutamine Codon Usage and polyQ Evolution in Primates Depend on the Q Stretch Length. PMID:29608721
The evolution, distribution and diversity of endogenous circoviral elements in vertebrate genomes. PMID:29601845
Origin and evolution of the nuclear auxin response system. PMID:29580381
Concurrent action of purifying selection and gene conversion results in extreme conservation of the major stress-inducible Hsp70 genes in mammals. PMID:29572464
Evolutionary divergence of the sex-determining gene MID uncoupled from the transition to anisogamy in volvocine algae. PMID:29549112
Proximate mechanisms affecting seasonal differences in migration speed of avian species. PMID:29515154
A SNP resource for studying North American moose. PMID:29479424
Diverse papillomaviruses identified in Weddell seals. PMID:29469687
Comparative Analysis of Epidermal Differentiation Genes of Crocodilians Suggests New Models for the Evolutionary Origin of Avian Feather Proteins. PMID:29447391
Reconstruction of the sialylation pathway in the ancestor of eukaryotes. PMID:29440651
Evidence for contemporary plant mitoviruses. PMID:29438872
Positively Selected Effector Genes and Their Contribution to Virulence in the Smut Fungus Sporisorium reilianum. PMID:29390140
Gene Turnover and Diversification of the α- and β-Globin Gene Families in Sauropsid Vertebrates. PMID:29340581
Identifying human diamine sensors for death related putrescine and cadaverine molecules. PMID:29324768
Cross-species Comparison of Proteome Turnover Kinetics. PMID:29321186
De novo assembling and primary analysis of genome and transcriptome of gray whale Eschrichtius robustus. PMID:29297306
Reading and editing the Pleurodeles waltl genome reveals novel features of tetrapod regeneration. PMID:29273779
Draft genome of the milu (Elaphurus davidianus). PMID:29267854
The rises and falls of opsin genes in 59 ray-finned fish genomes and their implications for environmental adaptation. PMID:29138475
Establishment of molecular genetic approaches to study gene expression and function in an invasive hemipteran, Halyomorpha halys. PMID:29075432
Holocentric chromosomes: from tolerance to fragmentation to colonization of the land. PMID:29069342
A Horizontally Transferred Autonomous Helitron Became a Full Polydnavirus Segment in Cotesia vestalis. PMID:29042411
Genomic DNA variation confirmed Seriola lalandi comprises three different populations in the Pacific, but with recent divergence. PMID:28839140
Construction and Optimization of a Large Gene Coexpression Network in Maize Using RNA-Seq Data. PMID:28768814
Diverse and highly recombinant anelloviruses associated with Weddell seals in Antarctica. PMID:28744371
Recruitment of histone modifications to assist mRNA dosage maintenance after degeneration of cytosine DNA methylation during animal evolution. PMID:28720579 -
TimeTree2: species divergence times on the iPhone
PubMed citations: 65.
65 articles citing: TimeTree2: species divergence times on the iPhone
The evolution of quantitative sensitivity. PMID:34957840
Citrullination Was Introduced into Animals by Horizontal Gene Transfer from Cyanobacteria. PMID:34730808
Origins and Evolution of the Primate Hepatitis B Virus. PMID:34108947
The new chimeric chiron genes evolved essential roles in zebrafish embryonic development by regulating NAD+ levels. PMID:33521859
Evolution of Hominin Polyunsaturated Fatty Acid Metabolism: From Africa to the New World. PMID:30942856
A phosphatidylinositol 4,5-bisphosphate redistribution-based sensing mechanism initiates a phagocytosis programing. PMID:30323235
Pairs of Adjacent Conserved Noncoding Elements Separated by Conserved Genomic Distances Act as Cis-Regulatory Units. PMID:30184074
JustOrthologs: a fast, accurate and user-friendly ortholog identification algorithm. PMID:30084941
Horizontal transfer of BovB and L1 retrotransposons in eukaryotes. PMID:29983116
Fern genomes elucidate land plant evolution and cyanobacterial symbioses. PMID:29967517
Yearly fluctuations of flower landscape in a Mediterranean scrubland: Consequences for floral resource availability. PMID:29346453
Target-Specificity in Scorpions; Comparing Lethality of Scorpion Venoms across Arthropods and Vertebrates. PMID:28976932
Evolution of intrinsic disorder in eukaryotic proteins. PMID:28597295
A Chromosome-Scale Assembly of the Bactrocera cucurbitae Genome Provides Insight to the Genetic Basis of white pupae. PMID:28450369
Ruminant-specific multiple duplication events of PRDM9 before speciation. PMID:28292260
Evolution of Brain Active Gene Promoters in Human Lineage Towards the Increased Plasticity of Gene Regulation. PMID:28233272
Neocortex expansion is linked to size variations in gene families with chemotaxis, cell-cell signalling and immune response functions in mammals. PMID:27707894
Inflammasome Activation Can Mediate Tissue-Specific Pathogenesis or Protection in Staphylococcus aureus Infection. PMID:27460814
lolal Is an Evolutionarily New Epigenetic Regulator of dpp Transcription during Dorsal-Ventral Axis Formation. PMID:27401231
Grouping substitution types into different relaxed molecular clocks. PMID:27325837
Phylogenomic analyses of bat subordinal relationships based on transcriptome data. PMID:27291671
Contraction of the type I IFN locus and unusual constitutive expression of IFN-α in bats. PMID:26903655
Horizontal acquisition of toxic alkaloid synthesis in a clade of plant associated fungi. PMID:26688468
Using Disease-Associated Coding Sequence Variation to Investigate Functional Compensation by Human Paralogous Proteins. PMID:26604664
Comparative Genomics Identifies Epidermal Proteins Associated with the Evolution of the Turtle Shell. PMID:26601937
Gain of a New Exon by a Lineage-Specific Alu Element-Integration Event in the BCS1L Gene during Primate Evolution. PMID:26537194
The evolutionary landscape of intergenic trans-splicing events in insects. PMID:26521696
A Molecular Evolutionary Reference for the Human Variome. PMID:26464126
Fungal Infection Induces Sex-Specific Transcriptional Changes and Alters Sexual Dimorphism in the Dioecious Plant Silene latifolia. PMID:26448481
A respiratory chain controlled signal transduction cascade in the mitochondrial intermembrane space mediates hydrogen peroxide signaling. PMID:26438848
Long-Lasting Gene Conversion Shapes the Convergent Evolution of the Critical Methanogenesis Genes. PMID:26384370
Trends in genome dynamics among major orders of insects revealed through variations in protein families. PMID:26251035
Evolutionary analysis of selective constraints identifies ameloblastin (AMBN) as a potential candidate for amelogenesis imperfecta. PMID:26223266
It's more than stamp collecting: how genome sequencing can unify biological research. PMID:26003218
The evolutionary fate of alternatively spliced homologous exons after gene duplication. PMID:25931610
Relaxing the Molecular Clock to Different Degrees for Different Substitution Types. PMID:25931515
Molecular evolution and diversification of the Argonaute family of proteins in plants. PMID:25626325
Integrative view of α2,3-sialyltransferases (ST3Gal) molecular and functional evolution in deuterostomes: significance of lineage-specific losses. PMID:25534026
Positive selection and multiple losses of the LINE-1-derived L1TD1 gene in mammals suggest a dual role in genome defense and pluripotency. PMID:25211013
Nocturnality in synapsids predates the origin of mammals by over 100 million years. PMID:25186003
Genomic landscape and evolutionary dynamics of mariner transposable elements within the Drosophila genus. PMID:25163909
A draft de novo genome assembly for the northern bobwhite (Colinus virginianus) reveals evidence for a rapid decline in effective population size beginning in the Late Pleistocene. PMID:24621616
Comparison of ultra-conserved elements in drosophilids and vertebrates. PMID:24349264
Inhibition of rat muscle and liver phosphofructokinases by high doses of ethanol. PMID:24324886
ANRIL/CDKN2B-AS shows two-stage clade-specific evolution and becomes conserved after transposon insertions in simians. PMID:24225082
The expansion and functional diversification of the mammalian ribonuclease a superfamily epitomizes the efficiency of multigene families at generating biological novelty. PMID:24162010
MEGA6: Molecular Evolutionary Genetics Analysis version 6.0. PMID:24132122
Evolutionary history of chordate PAX genes: dynamics of change in a complex gene family. PMID:24023886
Expansion of ruminant-specific microRNAs shapes target gene expression divergence between ruminant and non-ruminant species. PMID:24020371
How old is my gene? PMID:23915718
Dynactin subunit p150(Glued) is a neuron-specific anti-catastrophe factor. PMID:23874158
Alu elements in primates are preferentially lost from areas of high GC content. PMID:23717800
A multi-platform draft de novo genome assembly and comparative analysis for the Scarlet Macaw (Ara macao). PMID:23667475
Human microRNAs originated from two periods at accelerated rates in mammalian evolution. PMID:23171859
Estimating divergence times in large molecular phylogenies. PMID:23129628
INSL4 pseudogenes help define the relaxin family repertoire in the common ancestor of placental mammals. PMID:22961112
Positive Selection and the Evolution of izumo Genes in Mammals. PMID:22957301
The diversity of class II transposable elements in mammalian genomes has arisen from ancestral phylogenetic splits during ancient waves of proliferation through the genome. PMID:22923465
Exploring spatial patterns of gene expression from fruit fly embryogenesis on the iPhone. PMID:22923306
Phylogenomic analyses support the position of turtles as the sister group of birds and crocodiles (Archosauria). PMID:22839781
An endogenous foamy-like viral element in the coelacanth genome. PMID:22761578
Performance of computational tools in evaluating the functional impact of laboratory-induced amino acid mutations. PMID:22685075
Human genomic disease variants: a neutral evolutionary explanation. PMID:22665443
The Hematopoietic Expression Viewer: expanding mobile apps as a scientific tool. PMID:22576171
Large-scale transcriptome sequencing and gene analyses in the crab-eating macaque (Macaca fascicularis) for biomedical research. PMID:22554259
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phylogenetics
metasource: bio.tools
version: extracted_at: 2022-11-04T11:24:12.319930
data submission, annotation and curation
metasource: bio.tools
version: extracted_at: 2022-11-04T11:24:12.319930
taxonomy
metasource: bio.tools
version: extracted_at: 2022-11-04T11:24:12.319930
Tags
More detailed information about this field from each metasource.
phylogenetics
metasource: bio.toolsversion: extracted_at: 2022-11-04T11:24:12.319930
data submission, annotation and curation
metasource: bio.toolsversion: extracted_at: 2022-11-04T11:24:12.319930
taxonomy
metasource: bio.toolsversion: extracted_at: 2022-11-04T11:24:12.319930
phylogenetics data submission, annotation and curation taxonomy
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