Additional file 1 of RNA-Seq reveals different responses to drought in Neotropical trees from savannas and seasonally dry forests

Additional file 1 Supplementary Tables with summary of sequence data analysis and results of functional annotation and enrichment analysis, acronyms and Transcription Factor Families among differentially expressed genes (DEGs), including Tables S1 to S7. Table S1 Summary of sequence data for each library before and after filtering. % loss is the percentage of reads removed after filtering; Table S2 Alignment of RNA-seq reads of each library in the reference genome of Handroanthus impetiginosus, using the software STAR. % mapping is the percentage of reads mapped to one contig of the reference genome; % multiple is the percentage of reads mapped to more than one contig; % non-alignment is the percentage of reads not aligned to the reference genome; % MAPQ > = 30 is the percentage of reads with mapping alignment > = 30; Table S3 Functional enrichment of GO terms for up- and down-regulated genes in Tabebuia aurea, based on the Fisher exact test with a false discord rate (FDR) < 0.05. Ontology is the class of gene function; F, molecular function; P, biological process; C, cellular component; Number in BG/Ref, number of GO terms in the reference genome; Table S4 Functional enrichment of GO terms for up and down-regulated genes in Handroanthus impetiginosus, based on the Fisher exact test with a false discord rate (FDR) < 0.05. Ontology is the class of gene function; F, molecular function; P, biological process; C, cellular component; Number in BG/Ref, number of GO terms in the reference genome; Table S5 Functional enrichment of GO terms for up and down-regulated genes in Handroanthus serratifolius, based on the Fisher exact test with a false discord rate (FDR) < 0.05. Ontology is the class of gene function; F, molecular function; P, biological process; C, cellular component; Number in BG/Ref, number of GO terms in the reference genome; Table S6 Functional anotation of Handroanthus impetiginosus genes with differential expression represented by log2-fold-change, in T. aurea, H. ochraceus, H. impetiginosus and H. serratifolius. The table shows shared and exclusive expressed genes among species, based on the reference genome annotation. Gene_name: gene name of H. impetiginosus genes; Acession: Acession identifier to H. impetiginosus genes on NCBI; Protein_product: Protein identifier to H. impetiginosus products on NCBI; Uniprot_name: Uniprot identifier to H. impetiginosus genes; Best_hit: Blast best hit result against Arabidopsis thaliana proteins (v. Araport11); Description: description of A. thaliana genes; GO_Term: gene ontology term; EC_number: enzyme comission number of enzyme; KO_identifier: KEGG orthology identifier; KOG: eukaryotic orthologous group; PANTHER: protein alnalysis through evolutionary relationships; PFAM: protein families; log2FC: log2-fold-change; padj: adjusted p-value with false discovery rate (FDR); CEG: conserved expressed genes; DiEG: divergent expressed genes; Table S7 Description of the acronyms of Transcription Factors Family among differentially expressed genes (DEGs) in H. impetiginosus, H. ochraceus, H. serratifolius and T. aurea. (XLSX 5179 kb)附加文件1：包含序列数据分析汇总、功能注释与富集分析结果，以及差异表达基因（differentially expressed genes, DEGs）中的转录因子家族（Transcription Factor Families）缩略语的补充表格，涵盖表S1至S7。 表S1：各文库过滤前后的序列数据汇总。% loss为过滤后移除的reads百分比； 表S2：使用STAR软件将各文库的RNA-seq reads比对至紫花风铃木（Handroanthus impetiginosus）参考基因组的比对结果。% mapping为比对至参考基因组单条重叠群（contig）的reads占比；% multiple为比对至多条重叠群的reads占比；% non-alignment为未比对至参考基因组的reads占比；% MAPQ ≥30为比对质量值≥30的reads占比； 表S3：基于Fisher精确检验且错误发现率（false discord rate, FDR）<0.05的分析标准，黄钟木（Tabebuia aurea）差异表达基因的GO（Gene Ontology）功能富集分析结果。Ontology为基因功能类别；F代表分子功能；P代表生物过程；C代表细胞组分；Number in BG/Ref为参考基因组中的GO条目总数； 表S4：基于Fisher精确检验且FDR<0.05的分析标准，紫花风铃木差异表达基因的GO功能富集分析结果，各参数含义同表S3； 表S5：基于Fisher精确检验且FDR<0.05的分析标准，锯齿叶风铃木（Handroanthus serratifolius）差异表达基因的GO功能富集分析结果，各参数含义同表S3； 表S6：以log2倍变化（log2-fold-change）表征的紫花风铃木差异表达基因的功能注释，涉及黄钟木、赭黄风铃木（H. ochraceus）、紫花风铃木及锯齿叶风铃木。该表格基于参考基因组注释，展示了物种间共有与特有的表达基因。各字段说明如下：Gene_name：紫花风铃木基因的基因名；Acession：NCBI数据库中紫花风铃木基因的登录号标识符；Protein_product：NCBI数据库中紫花风铃木蛋白产物的标识符；Uniprot_name：紫花风铃木基因的UniProt标识符；Best_hit：与拟南芥（Arabidopsis thaliana）蛋白（版本Araport11）进行BLAST比对得到的最佳匹配结果；Description：拟南芥基因的功能描述；GO_Term：基因本体论条目；EC_number：酶的酶学委员会编号；KO_identifier：KEGG直系同源标识符；KOG：真核直系同源群；PANTHER：基于进化关系的蛋白质分析；PFAM：蛋白质家族；log2FC：log2倍变化量；padj：经错误发现率（FDR）校正的校正p值；CEG：保守表达基因；DiEG：分化表达基因； 表S7：紫花风铃木、赭黄风铃木、锯齿叶风铃木及黄钟木中差异表达基因所涉及的转录因子家族缩略语说明。（XLSX格式，文件大小5179 kb）