RNA-seq transcriptome profiling of upland cotton (Gossypium hirsutum cv Siokra L-23) root tissue under water deficit stress. Gossypium hirsutum strain:Siokra L-23

An RNA-Seq experiment was performed using field grown cotton plants subjected to different water supplies- well watered and naturally rain fed to identify differentially expressed transcripts under water-deficit stress respectively. We report the first application of the newly published diploid D5 Gossypium raimondii sequence in the study of tetraploid AD1 upland cotton RNA-seq transcriptome analysis. A total of 1,530 transcripts were differentially expressed between well watered and drought stressed root tissues, in patterns confirming the accuracy of this technique for future studies in cotton genomics. Additionally, putative sequence based sub-genome localization of differentially expressed transcripts has detected A2 sub-genome specific gene expression under water deficit stress. These data will help efforts to understand the complex responses governing transcriptomic regulatory mechanisms and identify candidate genes that should benefit applied plant breeding programs.