Additional file 1 of Temporal responses of conserved miRNAs to drought and their associations with drought tolerance and productivity in rice

Additional file 1: Table S1. Agronomic traits measure among six rice genotypes in drought-treated and well-watered fields. * and ** indicate significant differences at p < 0.05 and p < 0.01 by independent t test between samples from drought and well-watered fields. NA is short for “not available”. Table S2. Content of H2O2 (mmol/g FW) measured among six rice genotypes in drought and well-watered fields. * indicates significant differences at p < 0.05 by independent t test between samples from drought and well-watered fields. Table S3. Osmotic potential measured among six rice genotypes in drought and well-watered fields. * and ** indicate significant differences at p < 0.05 and p < 0.01 by independent t test between samples from drought and well-watered fields. Table S4. Total anti-oxidant capacity (U/g FW) measured among six rice genotypes in drought and well-watered fields. * and ** indicate significant differences at p < 0.05 and p < 0.01 by independent t test between samples from drought and well-watered fields. Table S5. Basic information for sequenced samples. Table S6. Number of expressed, available, drought-responsive miRNAs (DRMs), and recovery-related miRNAs (RRMs). Table S7. Validation of expression patterns and correlation-based predictions by former functionally characterized miRNAs in rice. Table S8. Number of recovery-related miRNAs in five regulation patterns from timepoint D5 to recovery stage (R). Table S9. Number of recovery-related miRNAs (RRMs) in five regulation patterns from timepoint D5 to recovery stage (R). “Varied” indicates the regulation of a miRNA varies among genotypes. Table S10. Target genes predicted by TargetFinder and psRobot for drought-responsive miRNAs. GDP is short for growth, development, and reproduction. DT is short for drought tolerance. NA is short for not assigned. Table S11. Number of predicted target genes of differentially expressed miRNAs in drought responsive genes (DRGs) with different Pearson’s Correlation Coefficient (PCC) values. Table S12. Target genes predicted for miR408-3p and miR408-5p and their PPC values in correlations between miRNA and mRNA. Table S13. Pearson’s correlation coefficients (PCCs) of genes related to plant height (PH) and drought-tolerance (DT) with OsmiR1870-3p and OsmiR1870-5p. Table S14. Basic information for six rice genotypes. Table S15. Information for RNA-sequenced samples. Table S16. Primers of six miRNAs and the reference (U6) for qPCR. Table S17. List of GDP (growth, development, and reproduction)- and DT (drought-tolerance)-associated drought-responsive genes. These DT-associated genes have been functionally characterized. These GDP-associated genes are related to plant height, number of tillers, grain yield, and biomass by former studies.

附加文件1：表S1。干旱处理与正常灌溉田块中6个水稻基因型的农艺性状测定结果。*和**分别表示通过独立样本t检验，干旱组与正常灌溉组样本间差异具有统计学意义（p < 0.05）和极显著统计学意义（p < 0.01）。NA（not available）为“无有效数据”的缩写。
表S2。干旱与正常灌溉田块中6个水稻基因型的过氧化氢（H₂O₂）含量（mmol/g 鲜重（Fresh Weight, FW））测定结果。*表示通过独立样本t检验，干旱组与正常灌溉组样本间差异具有统计学意义（p < 0.05）。
表S3。干旱与正常灌溉田块中6个水稻基因型的渗透势测定结果。*和**分别表示通过独立样本t检验，干旱组与正常灌溉组样本间差异具有统计学意义（p < 0.05）和极显著统计学意义（p < 0.01）。
表S4。干旱与正常灌溉田块中6个水稻基因型的总抗氧化能力（U/g FW，即单位每克鲜重）测定结果。*和**分别表示通过独立样本t检验，干旱组与正常灌溉组样本间差异具有统计学意义（p < 0.05）和极显著统计学意义（p < 0.01）。
表S5。测序样本基本信息。
表S6。6个水稻基因型中表达型、有效型、干旱响应型microRNA（drought-responsive miRNAs, DRMs）以及恢复相关microRNA（recovery-related miRNAs, RRMs）的数量。
表S7。水稻中已功能验证的microRNA的表达模式验证及基于相关性的预测结果。
表S8。从时间点D5至恢复阶段（R）的5种调控模式下恢复相关microRNA（RRMs）的数量。
表S9。从时间点D5至恢复阶段（R）的5种调控模式下恢复相关microRNA（RRMs）的数量。“变异型”表示某microRNA的调控模式在不同水稻基因型间存在差异。
表S10。通过TargetFinder和psRobot预测得到的干旱响应型microRNA（DRMs）的靶基因。GDP（growth, development, and reproduction）即生长、发育与繁殖，DT（drought tolerance）即耐旱性；NA（not assigned）为“未分配”的缩写。
表S11。不同Pearson相关系数（Pearson’s Correlation Coefficient, PCC）区间内，干旱响应基因（drought responsive genes, DRGs）中差异表达microRNA的预测靶基因数量。
表S12。miR408-3p与miR408-5p的预测靶基因及其microRNA与mRNA间相关性的PCC值。
表S13。株高（plant height, PH）与耐旱性（drought-tolerance, DT）相关基因分别与OsmiR1870-3p和OsmiR1870-5p的Pearson相关系数（PCC）。
表S14。6个水稻基因型的基本信息。
表S15。RNA测序样本的相关信息。
表S16。6个microRNA及内参基因U6的实时荧光定量PCR（quantitative real-time PCR, qPCR）引物序列。
表S17。与生长、发育与繁殖（GDP）及耐旱性（DT）相关的干旱响应基因列表。其中，耐旱性相关基因已完成功能验证；生长、发育与繁殖相关基因则在既往研究中被证实与株高、分蘖数、籽粒产量及生物量密切相关。