BenthGenome
Nicotiana benthamiana originates from the remote regions of northern Australia. It is used extensively in laboratories around the world for many types of research including metabolic engineering, plant-microbe interactions, RNAi, vaccine production and functional genomics. This site aims to provide easy access to our latest genome and transcriptome assemblies of both laboratory and wild strains of Nicotiana benthamiana.
Description
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Nicotiana benthamiana originates from the remote regions of northern Australia. It is used extensively in laboratories around the world for many types of research including metabolic engineering, plant-microbe interactions, RNAi, vaccine production and functional genomics. This site aims to provide easy access to our latest genome and transcriptome assemblies of both laboratory and wild strains of Nicotiana benthamiana.
metasource: Fairsharing.orgversion: FAIRsharing.org: BenthGenome; BenthGenome; DOI: https://doi.org/10.25504/FAIRsharing.d1cs3q; Last edited: Jan. 8, 2019, 1:23 p.m.; Last accessed: Jan 03 2022 7:07 p.m.
Webpage:
http://benthgenome.qut.edu.au/Webpage
More detailed information about this field from each metasource.
http://benthgenome.qut.edu.au/
metasource: Fairsharing.orgversion: FAIRsharing.org: BenthGenome; BenthGenome; DOI: https://doi.org/10.25504/FAIRsharing.d1cs3q; Last edited: Jan. 8, 2019, 1:23 p.m.; Last accessed: Jan 03 2022 7:07 p.m.
Licence:
Name: Copyright Queensland University of TechnologyLicence name
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Copyright Queensland University of Technology
metasource: Fairsharing.orgversion: FAIRsharing.org: BenthGenome; BenthGenome; DOI: https://doi.org/10.25504/FAIRsharing.d1cs3q; Last edited: Jan. 8, 2019, 1:23 p.m.; Last accessed: Jan 03 2022 7:07 p.m.
Licence URL
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http://www.banana21.org/about.html
metasource: Fairsharing.orgversion: FAIRsharing.org: BenthGenome; BenthGenome; DOI: https://doi.org/10.25504/FAIRsharing.d1cs3q; Last edited: Jan. 8, 2019, 1:23 p.m.; Last accessed: Jan 03 2022 7:07 p.m.
Publications:
Publications
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De novo transcriptome sequence assembly and analysis of RNA silencing genes of Nicotiana benthamiana
PMID: 23555698
metasource: Fairsharing.org
version: FAIRsharing.org: BenthGenome; BenthGenome; DOI: https://doi.org/10.25504/FAIRsharing.d1cs3q; Last edited: Jan. 8, 2019, 1:23 p.m.; Last accessed: Jan 03 2022 7:07 p.m.
The widely used Nicotiana benthamiana 16c line has an unusual T-DNA integration pattern including a transposon sequence
PMID: 28231340
metasource: Fairsharing.org
version: FAIRsharing.org: BenthGenome; BenthGenome; DOI: https://doi.org/10.25504/FAIRsharing.d1cs3q; Last edited: Jan. 8, 2019, 1:23 p.m.; Last accessed: Jan 03 2022 7:07 p.m.
Publications
More detailed information about this field from each metasource.
De novo transcriptome sequence assembly and analysis of RNA silencing genes of Nicotiana benthamiana
PMID: 23555698
metasource: Fairsharing.org
version: FAIRsharing.org: BenthGenome; BenthGenome; DOI: https://doi.org/10.25504/FAIRsharing.d1cs3q; Last edited: Jan. 8, 2019, 1:23 p.m.; Last accessed: Jan 03 2022 7:07 p.m.
The widely used Nicotiana benthamiana 16c line has an unusual T-DNA integration pattern including a transposon sequence
PMID: 28231340
metasource: Fairsharing.org
version: FAIRsharing.org: BenthGenome; BenthGenome; DOI: https://doi.org/10.25504/FAIRsharing.d1cs3q; Last edited: Jan. 8, 2019, 1:23 p.m.; Last accessed: Jan 03 2022 7:07 p.m.
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De novo transcriptome sequence assembly and analysis of RNA silencing genes of Nicotiana benthamiana
PubMed citations: 95.
95 articles citing: De novo transcriptome sequence assembly and analysis of RNA silencing genes of Nicotiana benthamiana
Biocontrol Potential of Endophytic Plant-Growth-Promoting Bacteria against Phytopathogenic Viruses: Molecular Interaction with the Host Plant and Comparison with Chitosan. PMID:35805989
Historical and Scientific Evidence for the Origin and Cultural Importance to Australia's First-Nations Peoples of the Laboratory Accession of Nicotiana benthamiana, a Model for Plant Virology. PMID:35458501
MiR398-regulated antioxidants contribute to Bamboo mosaic virus accumulation and symptom manifestation. PMID:34695209
Genetic evidence for the involvement of Dicer-like 2 and 4 as well as Argonaute 2 in the Nicotiana benthamiana response against Pelargonium line pattern virus. PMID:34623234
Beyond identity: Understanding the contribution of the 5' nucleotide of the antisense strand to RNAi activity. PMID:34492058
RNA interference of an orthologue of Dicer of Meloidogyne incognita alludes to the gene's importance in nematode development. PMID:34045504
Multiple cellular compartments engagement in Nicotiana benthamiana-peanut stunt virus-satRNA interactions revealed by systems biology approach. PMID:34028582
Topical Application of Escherichia coli-Encapsulated dsRNA Induces Resistance in Nicotiana benthamiana to Potato Viruses and Involves RDR6 and Combined Activities of DCL2 and DCL4. PMID:33805277
RNAi activation with homologous and heterologous sequences that induce resistance against the begomovirus Pepper golden mosaic virus (PepGMV). PMID:33604230
In silico identification and characterization of AGO, DCL and RDR gene families and their associated regulatory elements in sweet orange (Citrus sinensis L.). PMID:33347517
Histidine-Rich Defensins from the Solanaceae and Brasicaceae Are Antifungal and Metal Binding Proteins. PMID:32847065
smsMap: mapping single molecule sequencing reads by locating the alignment starting positions. PMID:32753028
Genome-Wide Identification of RNA Silencing-Related Genes and Their Expressional Analysis in Response to Heat Stress in Barley (Hordeum vulgare L.). PMID:32570964
Comparison of two different host plant genera responding to grapevine leafroll-associated virus 3 infection. PMID:32444786
Fine-tune control of targeted RNAi efficacy by plant artificial small RNAs. PMID:32396204
Double-Stranded-RNA-Binding Protein 2 Participates in Antiviral Defense. PMID:32213615
Genome-wide identification, characterization and phylogenetic analysis of Dicer-like (DCL) gene family in Coffea arabica. PMID:31902983
Genome and transcriptome characterization of the glycoengineered Nicotiana benthamiana line ΔXT/FT. PMID:31324144
Symptomatic plant viroid infections in phytopathogenic fungi. PMID:31182602
RNA Interference: A Natural Immune System of Plants to Counteract Biotic Stressors. PMID:30634662
RNA-Seq De Novo Assembly and Differential Transcriptome Analysis of Korean Medicinal Herb Cirsium japonicum var. spinossimum. PMID:30602095
Identification and characterization of SSR, SNP and InDel molecular markers from RNA-Seq data of guar (Cyamopsis tetragonoloba, L. Taub.) roots. PMID:30572838
Identification and characterisation of microRNAs and their target genes in phosphate-starved Nicotiana benthamiana by small RNA deep sequencing and 5'RACE analysis. PMID:30558535
DCL-suppressed Nicotiana benthamiana plants: valuable tools in research and biotechnology. PMID:30343523
Transient expression of intron-containing transgenes generates non-spliced aberrant pre-mRNAs that are processed into siRNAs. PMID:30251012
The Defense Response of Nicotiana benthamiana to Peanut Stunt Virus Infection in the Presence of Symptom Exacerbating Satellite RNA. PMID:30142955
A Genetic Network for Systemic RNA Silencing in Plants. PMID:29439213
Leucine-rich repeat receptor-like gene screen reveals that Nicotiana RXEG1 regulates glycoside hydrolase 12 MAMP detection. PMID:29426870
Transcriptome sequence analysis and mining of SSRs in Jhar Ber (Ziziphus nummularia (Burm.f.) Wight & Arn) under drought stress. PMID:29402924
Transcriptome Landscape at Different Developmental Stages of a Drought Tolerant Cultivar of Flax (Linum usitatissimum). PMID:29170736
High Quality Unigenes and Microsatellite Markers from Tissue Specific Transcriptome and Development of a Database in Clusterbean (Cyamopsis tetragonoloba, L. Taub). PMID:29120386
Transcriptome analysis of Phelipanche aegyptiaca seed germination mechanisms stimulated by fluridone, TIS108, and GR24. PMID:29099877
De novo Assembly and Characterization of Cajanus scarabaeoides (L.) Thouars Transcriptome by Paired-End Sequencing. PMID:28748187
CaRDR1, an RNA-Dependent RNA Polymerase Plays a Positive Role in Pepper Resistance against TMV. PMID:28702034
Production of human vitronectin in Nicotiana benthamiana using the INPACT hyperexpression platform. PMID:28640945
Time-resolved dual transcriptomics reveal early induced Nicotiana benthamiana root genes and conserved infection-promoting Phytophthora palmivora effectors. PMID:28494759
Roles of Dicer-Like Proteins 2 and 4 in Intra- and Intercellular Antiviral Silencing. PMID:28455401
Crispr/Cas9 Mediated Inactivation of Argonaute 2 Reveals its Differential Involvement in Antiviral Responses. PMID:28432338
The widely used Nicotiana benthamiana 16c line has an unusual T-DNA integration pattern including a transposon sequence. PMID:28231340
RNA-Seq of Guar (Cyamopsis tetragonoloba, L. Taub.) Leaves: De novo Transcriptome Assembly, Functional Annotation and Development of Genomic Resources. PMID:28210265
Candidate genes that have facilitated freshwater adaptation by palaemonid prawns in the genus Macrobrachium: identification and expression validation in a model species (M. koombooloomba). PMID:28194319
Harnessing host ROS-generating machinery for the robust genome replication of a plant RNA virus. PMID:28154139
A thioredoxin NbTRXh2 from Nicotiana benthamiana negatively regulates the movement of Bamboo mosaic virus. PMID:28052479
Transcriptome analysis reveals common differential and global gene expression profiles in bluetongue virus serotype 16 (BTV-16) infected peripheral blood mononuclear cells (PBMCs) in sheep and goats. PMID:28003963
Genome-Wide Identification of Dicer-Like, Argonaute, and RNA-Dependent RNA Polymerase Gene Families in Brassica Species and Functional Analyses of Their Arabidopsis Homologs in Resistance to Sclerotinia sclerotiorum. PMID:27833632
Infiltration-RNAseq: transcriptome profiling of Agrobacterium-mediated infiltration of transcription factors to discover gene function and expression networks in plants. PMID:27777610
A transcriptomic scan for potential candidate genes involved in osmoregulation in an obligate freshwater palaemonid prawn (Macrobrachium australiense). PMID:27761323
Combined Activity of DCL2 and DCL3 Is Crucial in the Defense against Potato Spindle Tuber Viroid. PMID:27732664
Distinct Effects of p19 RNA Silencing Suppressor on Small RNA Mediated Pathways in Plants. PMID:27711201
Interplays between Soil-Borne Plant Viruses and RNA Silencing-Mediated Antiviral Defense in Roots. PMID:27695446
De novo transcriptome assembly and analysis of differentially expressed genes of two barley genotypes reveal root-zone-specific responses to salt exposure. PMID:27527578
Global Transcriptomic Analysis Reveals the Mechanism of Phelipanche aegyptiaca Seed Germination. PMID:27428962
Tissue-Specific Venom Composition and Differential Gene Expression in Sea Anemones. PMID:27389690
Global transcriptome changes in perennial ryegrass during early infection by pink snow mould. PMID:27346054
Transcriptome Analysis of the Sydney Rock Oyster, Saccostrea glomerata: Insights into Molluscan Immunity. PMID:27258386
A gene expression microarray for Nicotiana benthamiana based on de novo transcriptome sequence assembly. PMID:27213006
Sequencing and characterization of leaf transcriptomes of six diploid Nicotiana species. PMID:27096138
Sequencing, De novo Assembly, Functional Annotation and Analysis of Phyllanthus amarus Leaf Transcriptome Using the Illumina Platform. PMID:26858723
Cucumber Necrosis Virus Recruits Cellular Heat Shock Protein 70 Homologs at Several Stages of Infection. PMID:26719261
Functional dissection of a plant Argonaute. PMID:26673719
Identification of Nicotiana benthamiana microRNAs and their targets using high throughput sequencing and degradome analysis. PMID:26626050
Effect of temperature on the pathogenesis, accumulation of viral and satellite RNAs and on plant proteome in peanut stunt virus and satellite RNA-infected plants. PMID:26579153
Transcriptome-enabled marker discovery and mapping of plastochron-related genes in Petunia spp. PMID:26400485
De Novo Assembly and Characterization of Four Anthozoan (Phylum Cnidaria) Transcriptomes. PMID:26384772
Encapsidation of Host RNAs by Cucumber Necrosis Virus Coat Protein during both Agroinfiltration and Infection. PMID:26269190
L-type lectin receptor kinases in Nicotiana benthamiana and tomato and their role in Phytophthora resistance. PMID:26248665
Use of the de novo transcriptome analysis of silver-leaf nightshade (Solanum elaeagnifolium) to identify gene expression changes associated with wounding and terpene biosynthesis. PMID:26149407
TRUFA: A User-Friendly Web Server for de novo RNA-seq Analysis Using Cluster Computing. PMID:26056424
Novel and Stress Relevant EST Derived SSR Markers Developed and Validated in Peanut. PMID:26046991
Phosphatidic acid produced by phospholipase D promotes RNA replication of a plant RNA virus. PMID:26020241
Homeologs of the Nicotiana benthamiana Antiviral ARGONAUTE1 Show Different Susceptibilities to microRNA168-Mediated Control. PMID:26015446
Horsetails Are Ancient Polyploids: Evidence from Equisetum giganteum. PMID:26002871
Suppress to Survive-Implication of Plant Viruses in PTGS. PMID:25999662
Comparative transcriptome analysis within the Lolium/Festuca species complex reveals high sequence conservation. PMID:25886302
A RNA-seq approach to identify putative toxins from acrorhagi in aggressive and non-aggressive Anthopleura elegantissima polyps. PMID:25886045
Differential responses to virus challenge of laboratory and wild accessions of australian species of nicotiana, and comparative analysis of RDR1 gene sequences. PMID:25822508
De novo characterization of fall dormant and nondormant alfalfa (Medicago sativa L.) leaf transcriptome and identification of candidate genes related to fall dormancy. PMID:25799491
Current status and prospects for the study of Nicotiana genomics, genetics, and nicotine biosynthesis genes. PMID:25582664
An intracellular transcriptomic atlas of the giant coenocyte Caulerpa taxifolia. PMID:25569326
Biochemical and molecular changes associated with heteroxylan biosynthesis in Neolamarckia cadamba (Rubiaceae) during xylogenesis. PMID:25426124
De novo assembly, characterization and functional annotation of Senegalese sole (Solea senegalensis) and common sole (Solea solea) transcriptomes: integration in a database and design of a microarray. PMID:25366320
Exploring the genes of yerba mate (Ilex paraguariensis A. St.-Hil.) by NGS and de novo transcriptome assembly. PMID:25330175
De novo transcriptome sequence assembly and identification of AP2/ERF transcription factor related to abiotic stress in parsley (Petroselinum crispum). PMID:25268141
De novo transcriptome sequence assembly from coconut leaves and seeds with a focus on factors involved in RNA-directed DNA methylation. PMID:25193496
De novo assembly and annotation of the transcriptome of the agricultural weed Ipomoea purpurea uncovers gene expression changes associated with herbicide resistance. PMID:25155274
Specific argonautes selectively bind small RNAs derived from potato spindle tuber viroid and attenuate viroid accumulation in vivo. PMID:25100851
Transcriptional and biochemical responses of monoacylglycerol acyltransferase-mediated oil synthesis and associated senescence-like responses in Nicotiana benthamiana. PMID:24904604
RNA sequencing analysis of the gametophyte transcriptome from the liverwort, Marchantia polymorpha. PMID:24841988
Towards decrypting cryptobiosis--analyzing anhydrobiosis in the tardigrade Milnesium tardigradum using transcriptome sequencing. PMID:24651535
Combining transcriptome assemblies from multiple de novo assemblers in the allo-tetraploid plant Nicotiana benthamiana. PMID:24614631
Leafy biofactories: producing industrial oils in non-seed biomass. PMID:24531718
Comprehensive transcriptome assembly of Chickpea (Cicer arietinum L.) using sanger and next generation sequencing platforms: development and applications. PMID:24465857
Deep sequencing-based transcriptome profiling reveals comprehensive insights into the responses of Nicotiana benthamiana to beet necrotic yellow vein virus infections containing or lacking RNA4. PMID:24416380
De novo assembly and characterization of the transcriptome of the parasitic weed dodder identifies genes associated with plant parasitism. PMID:24399359
Differential expression of tomato spotted wilt virus-derived viral small RNAs in infected commercial and experimental host plants. PMID:24143182 -
The widely used Nicotiana benthamiana 16c line has an unusual T-DNA integration pattern including a transposon sequence
PubMed citations: 6.
6 articles citing: The widely used Nicotiana benthamiana 16c line has an unusual T-DNA integration pattern including a transposon sequence
Systemic GFP silencing is associated with high transgene expression in Nicotiana benthamiana. PMID:33720987
High-Pressure-Sprayed Double Stranded RNA Does Not Induce RNA Interference of a Reporter Gene. PMID:33391294
Are the current gRNA ranking prediction algorithms useful for genome editing in plants? PMID:31978124
Combining a Simple Method for DNA/RNA/Protein Co-Purification and Arabidopsis Protoplast Assay to Facilitate Viroid Research. PMID:30987196
The Rapid Methylation of T-DNAs Upon Agrobacterium Inoculation in Plant Leaves. PMID:30930927
An Insight into T-DNA Integration Events in Medicago sativa. PMID:28895894
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rna interference
metasource: Fairsharing.org
version: FAIRsharing.org: BenthGenome; BenthGenome; DOI: https://doi.org/10.25504/FAIRsharing.d1cs3q; Last edited: Jan. 8, 2019, 1:23 p.m.; Last accessed: Jan 03 2022 7:07 p.m.
vaccine
metasource: Fairsharing.org
version: FAIRsharing.org: BenthGenome; BenthGenome; DOI: https://doi.org/10.25504/FAIRsharing.d1cs3q; Last edited: Jan. 8, 2019, 1:23 p.m.; Last accessed: Jan 03 2022 7:07 p.m.
Tags
More detailed information about this field from each metasource.
rna interference
metasource: Fairsharing.orgversion: FAIRsharing.org: BenthGenome; BenthGenome; DOI: https://doi.org/10.25504/FAIRsharing.d1cs3q; Last edited: Jan. 8, 2019, 1:23 p.m.; Last accessed: Jan 03 2022 7:07 p.m.
vaccine
metasource: Fairsharing.orgversion: FAIRsharing.org: BenthGenome; BenthGenome; DOI: https://doi.org/10.25504/FAIRsharing.d1cs3q; Last edited: Jan. 8, 2019, 1:23 p.m.; Last accessed: Jan 03 2022 7:07 p.m.
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