Data obtained from reanalysis of RNA sequencing data from drought-stressed roots and salinity-stressed leaves of pearl millet

Reads from previous RNA sequencing with drought-stressed roots and salinity-stressed leaves of pearl millet (NCBI SRA accession numbers SRP125789 and SRP128956, respectively) were analyzed as given below. The data derived from this analysis are available here.The reads were mapped to the reference pearl millet genome BWA (MEM). Reads mapped for each gene were counted by featureCounts. Differentially expressed genes (DEGs) were detected by either DESeq2 or a custom script. Either 500-b or 1000-b promoter sequences of pearl millet were prepared by processing their 5000-b promoter sequences downloaded from TGIF-DB (https://webpark2116.sakura.ne.jp/rlgpr/). Motifs enriched in these 500-b and 1000-b promoter sequences of the above DEGs were detected by Homer. The custom script used can be provided upon request.

本研究对既往来自珍珠粟干旱胁迫根与盐胁迫叶的RNA测序读段（reads）开展分析，其对应的NCBI SRA（Sequence Read Archive）登录号分别为SRP125789与SRP128956，具体分析流程如下。本分析所得数据集可在此处获取。测序读段通过BWA（MEM算法）比对至珍珠粟参考基因组，随后利用featureCounts对比对至各基因的读段进行计数。通过DESeq2或自定义脚本鉴定差异表达基因（differentially expressed genes, DEGs）；从TGIF-DB数据库（https://webpark2116.sakura.ne.jp/rlgpr/）下载的珍珠粟5000 bp启动子序列经处理后，可得到其500 bp与1000 bp的启动子序列。利用Homer工具在上述差异表达基因的500 bp与1000 bp启动子序列中鉴定富集的基序（motif）。所需自定义脚本可应要求提供。