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dc.contributor.authorShin, Jin H
dc.contributor.authorVaughn, Justin N
dc.contributor.authorAbdel-Haleem, Hussein
dc.contributor.authorChavarro, Carolina
dc.contributor.authorAbernathy, Brian
dc.contributor.authorKim, Kyung D
dc.contributor.authorJackson, Scott A
dc.contributor.authorLi, Zenglu
dc.date.accessioned2015-02-25T16:25:20Z
dc.date.available2015-02-25T16:25:20Z
dc.date.issued2015-02-03
dc.identifier.citationBMC Plant Biology. 2015 Feb 03;15(1):26
dc.identifier.urihttp://dx.doi.org/10.1186/s12870-015-0422-8
dc.identifier.urihttp://hdl.handle.net/10724/31011
dc.description.abstractAbstract Background Among abiotic stresses, drought is the most common reducer of crop yields. The slow-wilting soybean genotype PI 416937 is somewhat robust to water deficit and has been used previously to map the trait in a bi-parental population. Since drought stress response is a complex biological process, whole genome transcriptome analysis was performed to obtain a deeper understanding of the drought response in soybean. Results Contrasting data from PI 416937 and the cultivar ‘Benning’, we developed a classification system to identify genes that were either responding to water-deficit in both genotypes or that had a genotype x environment (GxE) response. In spite of very different wilting phenotypes, 90% of classifiable genes had either constant expression in both genotypes (33%) or very similar response profiles (E genes, 57%). By further classifying E genes based on expression profiles, we were able to discern the functional specificity of transcriptional responses at particular stages of water-deficit, noting both the well-known reduction in photosynthesis genes as well as the less understood up-regulation of the protein transport pathway. Two percent of classifiable genes had a well-defined GxE response, many of which are located within slow-wilting QTLs. We consider these strong candidates for possible causal genes underlying PI 416937’s unique drought avoidance strategy. Conclusions There is a general and functionally significant transcriptional response to water deficit that involves not only known pathways, such as down-regulation of photosynthesis, but also up-regulation of protein transport and chromatin remodeling. Genes that show a genotypic difference are more likely to show an environmental response than genes that are constant between genotypes. In this study, at least five genes that clearly exhibited a genotype x environment response fell within known QTL and are very good candidates for further research into slow-wilting.
dc.titleTranscriptomic changes due to water deficit define a general soybean response and accession-specific pathways for drought avoidance
dc.typeJournal Article
dc.date.updated2015-02-11T04:13:53Z
dc.description.versionPeer Reviewed
dc.language.rfc3066en
dc.rights.holderJin Hee Shin et al.; licensee BioMed Central Ltd.


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