Additional file 4 of A primary cell wall cellulose-dependent defense mechanism against vascular pathogens revealed by time-resolved dual transcriptomics

Additional file 4: Table S3. Fo5176 differentially expressed genes (DEGs) during Arabidopsis root infection over time. Significant DEGs in Fo5176 during Arabidopsis root infection compared to in vitro germinated microconidia. Logarithmic fold-change (logFC) and corrected p-value (FDR) are presented in columns for each time point separately; gaps correspond to non-significant changes in gene expression at those time points. The genes are clustered based on their co-expression pattern (Additional file 5: Figure S2A). DEGs with the entry “no cluster” were not associated to a cluster by the clustering algorithm, DEGs only expressed in vitro were not included in the clustering (excluded). All DEGs were further analyzed for presence of carbohydrate active domains in their corresponding encoded protein sequences using the dbCAN2-meta server (http://bcb.unl.edu/dbCAN2/, 8 October 2020) and were highlighted in yellow (Additional file 5: Figure S2B). The genes were described based on IPR and PFAM; IPR_description: protein family classification by InterPro, PFAM: protein family classification by PFAM (both obtained from [10]).

附加文件4：表S3。Fo5176在拟南芥根系感染过程中随时间变化的差异表达基因（differentially expressed genes, DEGs）。本表格统计的Fo5176显著差异表达基因，为拟南芥根系感染样本相较于体外萌发微分生孢子的DEGs。各时间点单独以列形式展示对数倍变化（logarithmic fold-change, logFC）与校正后p值（false discovery rate, FDR）；单元格空白代表对应时间点的基因表达无显著变化。本次分析的基因基于其共表达模式进行聚类（附加文件5：图S2A）。标注为"no cluster"的DEGs未被聚类算法分配至任一聚类组；仅在体外表达的DEGs未被纳入聚类分析（已排除）。所有DEGs进一步通过dbCAN2-meta服务器（http://bcb.unl.edu/dbCAN2/，2020年10月8日）对其编码蛋白序列中的碳水化合物活性结构域进行了分析，相关基因以黄色高亮标注（附加文件5：图S2B）。本次基因注释基于IPR与PFAM：IPR_description指通过InterPro数据库进行的蛋白质家族分类，PFAM指通过PFAM数据库进行的蛋白质家族分类（两项注释均源自文献[10]）。