Additional file 7 of Up-regulation of apoptotic- and cell survival-related gene pathways following exposures of western corn rootworm to B. thuringiensis crystalline pesticidal proteins in transgenic maize roots

Additional file 7: Supplementary Table S6. Transcripts with significant differences in read counts (expression) between Diabrotica virgifera virgifera larvae infected with Metarhizium anisopliae (Ma) (T3; Table 2) compared to control non-Bt maize (T7). For each transcript, standard output are shown for DESeq2 (baseMean = the average of the normalized counts taken over all samples; log2FoldChange = log2 fold change between the groups; lfcSE = standard error of the log2FoldChange; stat = Wald statistic; pvalue = Wald test P-value; BH_padj = Benjamini-Hochberg adjusted P-value) and EdgeR (logFC = log2 fold change between the groups; logCPM = the average log2-counts-per-million; PValue = the two-sided P-value; BF_FDR = Bonferroni adjusted P-value). Lack of significance for any given transcript in DESeq2 or EdgeR results shown as “-”. The 1199 transcripts differentially expressed in both DESeq2 and EdgeR estimates are shown above the horizonal line. Transcript annotations include presence (Y) or absence (N) of signal_peptide probability (signalp_prob) threshold of > 0.700 shown only for “complete” proteins (match length = 1.0 to Drosophila melanogaster (Dm) or Trobiolium castaneum (Tc) protein models). PFAMSCAN_PfamA search results (format transcript query start, transcript query end: frame, strand (+ or -), range of hit to PFAM domain/PFAM domain name/ E-value/percent identity). Predicted protein information given (transcript start: transcript end: frame: strand (+ or -): amino acid sequence). BLASTx query results to indicated databases shown in standard output format with “/” indicating no values for queries receiving of hits.

附加文件7：补充表S6。本表格收录了被绿僵菌（Metarhizium anisopliae, Ma）侵染的西方玉米根萤叶甲（Diabrotica virgifera virgifera）幼虫组（T3；见表2）与饲喂非转Bt基因玉米的对照组（T7）之间，转录本测序读段计数（即表达量）存在显著差异的转录本信息。针对每个转录本，展示了DESeq2与EdgeR的标准分析输出结果：其中DESeq2的输出参数包括：baseMean（所有样本标准化计数的平均值）、log2FoldChange（组间log2折叠变化）、lfcSE（log2折叠变化的标准误）、stat（Wald统计量）、pvalue（Wald检验P值）、BH_padj（Benjamini-Hochberg校正P值）；EdgeR的输出参数包括：logFC（组间log2折叠变化）、logCPM（平均log2计数每百万）、PValue（双侧P值）、BF_FDR（Bonferroni校正P值）。若某转录本在DESeq2或EdgeR分析中无显著性差异，则以"-"标注。在DESeq2与EdgeR分析中均鉴定出差异表达的1199个转录本，展示于水平线之上。转录本注释包含：仅针对"完整"蛋白（与黑腹果蝇（Drosophila melanogaster, Dm）或赤拟谷盗（Tribolium castaneum, Tc）蛋白模型的匹配长度为1.0），标注信号肽概率（signalp_prob）阈值>0.700的存在（Y）或缺失（N）情况。PFAMSCAN_PfamA搜索结果格式为：转录本查询起始位点、转录本查询终止位点：读码框、链方向（+或-）、PFAM结构域命中区间/PFAM结构域名称/E值/序列一致性百分比。此外还提供预测蛋白信息，格式为：转录本起始位点：转录本终止位点：读码框：链方向（+或-）：氨基酸序列。针对指定数据库的BLASTx查询结果以标准输出格式展示，若查询无命中结果，则以"/"标注无对应数值。