ArticleDNA research : an international journal for rapid publication of reports on genes and genomes2009
In silico analysis of transcription factor repertoire and prediction of stress responsive transcription factors in soybean.
Article in DNA research : an international journal for rapid publication of reports on genes and genomes, 2009. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 44 papers.
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44 citing papers in PubMed, 117 citations in OpenAlex.
- Transcriptional regulatory network reveals key transcription factors for regulating agronomic traits in soybean.Genome biology · 2024Article
- ASRpro: A machine-learning computational model for identifying proteins associated with multiple abiotic stress in plants.The plant genome · 2024Article
- Promoter activity and transcriptome analyses decipher functions of CgbHLH001 gene (Chenopodium glaucum L.) in response to abiotic stress.BMC plant biology · 2023Article
- Emerging roles of NAC transcription factor in medicinal plants: progress and prospects.3 Biotech · 2021Review
- Genome-wide comparative analyses of GATA transcription factors among seven Populus genomes.Scientific reports · 2021Article
- Transcription Factor-Based Genetic Engineering in Microalgae.Plants (Basel, Switzerland) · 2021Review
- Ectopic expression of a poplar gene NAC13 confers enhanced tolerance to salinity stress in transgenic Nicotiana tabacum.Journal of plant research · 2020Article
- Transcriptional alterations during proliferation and lignification in Phyllostachys nigra cells.Scientific reports · 2018Article
- Lateral Root Development in Potato Is Mediated by Stu-mi164 Regulation of NAC Transcription Factor.Frontiers in plant science · 2018Article
- Bioinformatics Approach in Plant Genomic Research.Current genomics · 2016Article
- Over-expression of a NAC 67 transcription factor from finger millet (Eleusine coracana L.) confers tolerance against salinity and drought stress in rice.BMC biotechnology · 2016Article
- W-box and G-box elements play important roles in early senescence of rice flag leaf.Scientific reports · 2016Article
- Transcription Factors and Plants Response to Drought Stress: Current Understanding and Future Directions.Frontiers in plant science · 2016Review
- Comprehensive Analysis of the Soybean (Glycine max) GmLAX Auxin Transporter Gene Family.Frontiers in plant science · 2016Article
- The soybean R2R3 MYB transcription factor GmMYB100 negatively regulates plant flavonoid biosynthesis.Plant molecular biology · 2015Article
- Soybean transcription factor ORFeome associated with drought resistance: a valuable resource to accelerate research on abiotic stress resistance.BMC genomics · 2015Article
- Roles of dehydrin genes in wheat tolerance to drought stress.Journal of advanced research · 2015Article
- Differential expression analysis of a subset of GmNAC genes in shoots of two contrasting drought-responsive soybean cultivars DT51 and MTD720 under normal and drought conditions.Molecular biology reports · 2014Article
- Article
- Transcriptome analysis of salt tolerant common bean (Phaseolus vulgaris L.) under saline conditions.PloS one · 2014Article
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6 authors at 2 institutions in 1 country.
Funding
No grant is acknowledged in the PubMed record.
Abstract
Sequence-specific DNA-binding transcription factors (TFs) are often termed as 'master regulators' which bind to DNA and either activate or repress gene transcription. We have computationally analysed the soybean genome sequence data and constructed a proper set of TFs based on the Hidden Markov Model profiles of DNA-binding domain families. Within the soybean genome, we identified 4342 loci encoding 5035 TF models which grouped into 61 families. We constructed a database named SoybeanTFDB (http://soybeantfdb.psc.riken.jp) containing the full compilation of soybean TFs and significant information such as: functional motifs, full-length cDNAs, domain alignments, promoter regions, genomic organization and putative regulatory functions based on annotations of gene ontology (GO) inferred by comparative analysis with Arabidopsis. With particular interest in abiotic stress signalling, we analysed the promoter regions for all of the TF encoding genes as a means to identify abiotic stress responsive cis-elements as well as all types of cis-motifs provided by the PLACE database. SoybeanTFDB enables scientists to easily access cis-element and GO annotations to aid in the prediction of TF function and selection of TFs with functions of interest. This study provides a basic framework and an important user-friendly public information resource which enables analyses of transcriptional regulation in soybean.
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Read under generation 80e0d062 · epoch 390. Bibliography from PubMed, PubMed Central and OpenAlex; grants from NIH RePORTER; trial links from ClinicalTrials.gov; estimates, votes and beliefs from the OpenQuestion graph.