ArticleBMC genomics2015
The WRKY transcription factor family and senescence in switchgrass.
Article in BMC genomics, 2015. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 43 papers.
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43 citing papers in PubMed.
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- The positive impact of the NtTAS14-like1 gene on osmotic stress response in Nicotiana tabacum.Plant cell reports · 2023Article
- Functional Characterisation of the Transcription FactorPlants (Basel, Switzerland) · 2023Article
- Multi-algorithm cooperation research of WRKY genes under nitrogen stress in Panax notoginseng.Protoplasma · 2023Article
- Genome-wide analysis of the WRKY genes and their important roles during cold stress in white clover.PeerJ · 2023Article
- Identification of the WRKY Gene Family and Characterization of Stress-Responsive Genes inInternational journal of molecular sciences · 2022Article
- Characterization and expression analysis ofPhysiology and molecular biology of plants : an international journal of functional plant biology · 2022Article
- Exploring the genetic potential of Pakistani soybean cultivars through RNA-seq based transcriptome analysis.Molecular biology reports · 2022Article
- Insight into the Phylogeny and Binding Ability of WRKY Transcription Factors.International journal of molecular sciences · 2022Article
- Genome-wide identification, comprehensive characterization of transcription factors, cis-regulatory elements, protein homology, and protein interaction network of DREB gene family inFrontiers in plant science · 2022Article
- Genome-wide analysis and characterization of GRAS family in switchgrass.Bioengineered · 2021Article
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- Dissecting the Role of Promoters of Pathogen-sensitive Genes in Plant Defense.Current genomics · 2020Review
- Genome-wide analysis of the abiotic stress-related bZIP family in switchgrass.Molecular biology reports · 2020Article
- Dynamic Expansion and Functional Evolutionary Profiles of Plant Conservative Gene Family SBP-Box in Twenty Two Flowering Plants and the Origin of miR156.Biomolecules · 2020Article
- Cloning and molecular characterization of Triticum aestivum ornithine amino transferase (TaOAT) encoding genes.BMC plant biology · 2020Article
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11 authors.
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Abstract
backgroundEarly aerial senescence in switchgrass (Panicum virgatum) can significantly limit biomass yields. WRKY transcription factors that can regulate senescence could be used to reprogram senescence and enhance biomass yields.
methodsAll potential WRKY genes present in the version 1.0 of the switchgrass genome were identified and curated using manual and bioinformatic methods. Expression profiles of WRKY genes in switchgrass flag leaf RNA-Seq datasets were analyzed using clustering and network analyses tools to identify both WRKY and WRKY-associated gene co-expression networks during leaf development and senescence onset.
resultsWe identified 240 switchgrass WRKY genes including members of the RW5 and RW6 families of resistance proteins. Weighted gene co-expression network analysis of the flag leaf transcriptomes across development readily separated clusters of co-expressed genes into thirteen modules. A visualization highlighted separation of modules associated with the early and senescence-onset phases of flag leaf growth. The senescence-associated module contained 3000 genes including 23 WRKYs. Putative promoter regions of senescence-associated WRKY genes contained several cis-element-like sequences suggestive of responsiveness to both senescence and stress signaling pathways. A phylogenetic comparison of senescence-associated WRKY genes from switchgrass flag leaf with senescence-associated WRKY genes from other plants revealed notable hotspots in Group I, IIb, and IIe of the phylogenetic tree.
conclusionsWe have identified and named 240 WRKY genes in the switchgrass genome. Twenty three of these genes show elevated mRNA levels during the onset of flag leaf senescence. Eleven of the WRKY genes were found in hotspots of related senescence-associated genes from multiple species and thus represent promising targets for future switchgrass genetic improvement. Overall, individual WRKY gene expression profiles could be readily linked to developmental stages of flag leaves.
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