Additional file 1 of Salt tolerance involved candidate genes in rice: an integrative meta-analysis approach

Additional files 1: Table S1. List of the QTL mapping studies used for meta-QTL analysis for traits associated with the salt tolerance in rice. Table S2. The summary of the original QTLs related to salt tolerance traits. Table S3. The Summary of the original QTLs related to salinity tolerance included in the meta–analysis. Table S4. The consensus QTLs of 32 traits identified by meta–analysis in rice. Table S5. The original microarray datasets selected for meta-analysis of rice under salinity stress. Table S6. The list of possible candidate genes in the meta-QTL regions (The asterisk on meta position column, represents promising genes located in the hotspot positions). Table S7. The list of publicly accessible RNA-seq datasets was used in this study. Table S8. The list of reported salinity tolerance related genes in rice based on the literature review, classified into four tissues (including shoot, root, seedling, and leaves) in 4 sheets. Table S9. List of primers used for qRT-PCR analysis. Fig. S1. Number of the original QTLs that are associated with each salt tolerance related trait (Traits along with their abbreviations are provided in Table S2). Fig. S2. Number of the original QTLs related to the salt tolerance in each chromosome of rice. Fig. S3. Number of differentially expressed genes (DEGs) identified by RNA-seq meta-analysis in four tissues (including shoot, root, seedling, and leaves). Fig. S4. Number of differentially expressed genes (DEGs) identified by microarray meta-analysis in four tissues (including shoot, root, seedling and leaves). Fig. S5. GO term assignment of the identified DEGs located in the meta-QTL positions to three main categories of cellular component, molecular function, and biological process. Fig. S6. Graph illustrating of the melt curves from qRT-PCR of the selected potential candidate genes in FL478.附加文件1：表S1。用于水稻耐盐相关性状元数量性状基因座（meta-QTL）分析的数量性状基因座（Quantitative Trait Locus，QTL）定位研究列表。 表S2。耐盐相关性状的原始QTL汇总表。 表S3。纳入本元分析的盐胁迫耐性相关原始QTL汇总表。 表S4。通过元分析鉴定的水稻32个性状的一致性QTL列表。 表S5。为水稻盐胁迫元分析筛选的原始微阵列数据集列表。 表S6。元QTL区域内潜在候选基因列表（元位置列中的星号代表位于热点区域的优质候选基因）。 表S7。本研究使用的公开可用RNA测序（RNA-seq）数据集列表。 表S8。经文献综述整理的水稻盐胁迫耐性相关已报道基因列表，按茎、根、幼苗、叶片4种组织分为4个工作表。 表S9。用于实时荧光定量PCR（qRT-PCR）分析的引物列表。 图S1。各耐盐相关性状关联的原始QTL数量（性状及其缩写信息详见表S2）。 图S2。水稻各染色体上与耐盐性相关的原始QTL数量。 图S3。通过RNA-seq元分析在4种组织（茎、根、幼苗、叶片）中鉴定的差异表达基因（Differentially Expressed Genes，DEGs）数量。 图S4。通过微阵列元分析在4种组织（茎、根、幼苗、叶片）中鉴定的差异表达基因（DEGs）数量。 图S5。对位于元QTL区域的鉴定所得差异表达基因进行基因本体（Gene Ontology，GO）功能注释，分为细胞组分、分子功能与生物过程三大类别。 图S6。展示水稻品种FL478中所选潜在候选基因qRT-PCR熔解曲线的图谱。