Additional file 1 of Transcriptomic analysis of temporal shifts in berry development between two grapevine cultivars of the Pinot family reveals potential genes controlling ripening time

Additional file 1: Table S1. Clonal relation of PN and PNP confirmed by 24 SSR markers. Table S2. Sampling and phenotypical observations (BBCH) for 2014. Table S3. Sampling and phenotypical observations (BBCH) for 2017. Table S4. Pearsonr correlations of gene expression values over time between both years. Table S5. Top 500 genes influencing principal component PC1. Table S6. Top 500 genes influencing principal component PC2. Table S7. Cluster memberships of clusters obtained from the cluster analysis PN/PNP. Table S8. Cluster memberships of clusters obtained from the cluster analysis PN. Table S9. Cluster memberships of clusters obtained from the cluster analysis PNP. Table S10. GO term enrichment for the clusters from the cluster analysis of PN/PNP. Table S11. GO term enrichment for the clusters from the cluster analysis of PN. Table S12. GO term enrichment for the clusters from the cluster analysis of PNP. Table S13. Differentially expressed genes between PN and PNP in both years and filtering steps. Table S14. Overlap of 12 putatively ripening time control DEGs (time points: DAF 0-35 from 2014 intersecting with DAF 0-42 from 2017) and 388 veraison-specific DEGs (time points: DAF35+41 from 2014 intersecting with DAF42+49 from 2017) with previous transcriptomic grapevine studies. Table S15. VitisNet enrichment for intersecting DEGs. Table S16. VitisNet enrichment for regulatory DEGs. Table S17. VitisNet enrichment for veraison-specific DEGs. Table S18. Up- & Down-regulated TFs among the DEGs. Table S19. ENA sample identifier and metadata linked to the study for PNP RNA-Seq reads from 2014 (PRJEB39262). Table S20. ENA sample identifier and metadata linked to the study for PN RNA-Seq reads from 2014 (PRJEB39261). Table S21. ENA sample identifier and metadata linked to the study for PNP RNA-Seq reads from 2017 (PRJEB39264). Table S22. ENA sample identifier and metadata linked to the study for PN RNA-Seq reads from 2017 (PRJEB39263). Table S23. Sequences of primers used for qRT-PCR.

附加文件1：表S1. 经24个简单序列重复（SSR，Simple Sequence Repeat）标记验证的PN与PNP的克隆亲缘关系。表S2. 2014年采样与表型观测数据（BBCH）。表S3. 2017年采样与表型观测数据（BBCH）。表S4. 两年间基因表达值随时间变化的皮尔逊相关系数。表S5. 影响主成分PC1的前500个基因。表S6. 影响主成分PC2的前500个基因。表S7. 基于PN/PNP聚类分析得到的各聚类簇成员归属信息。表S8. 基于PN聚类分析得到的各聚类簇成员归属信息。表S9. 基于PNP聚类分析得到的各聚类簇成员归属信息。表S10. PN/PNP聚类分析所得聚类簇的基因本体（GO，Gene Ontology）功能富集分析结果。表S11. PN聚类分析所得聚类簇的GO功能富集分析结果。表S12. PNP聚类分析所得聚类簇的GO功能富集分析结果。表S13. 两年间PN与PNP之间的差异表达基因（DEG，Differentially Expressed Gene）及筛选步骤。表S14. 12个假定成熟时间调控DEGs（2014年DAF 0-35时段与2017年DAF 0-42时段的交集）与388个转色期特异性DEGs（2014年DAF35+41时段与2017年DAF42+49时段的交集）与既往葡萄转录组学研究的重叠情况。表S15. 交集DEGs的VitisNet功能富集分析结果。表S16. 调控性DEGs的VitisNet功能富集分析结果。表S17. 转色期特异性DEGs的VitisNet功能富集分析结果。表S18. 差异表达基因中上调与下调的转录因子（TF，Transcription Factor）。表S19. 2014年PNP RNA测序（RNA-Seq）读段对应研究的欧洲核苷酸档案馆（ENA，European Nucleotide Archive）样本标识符及关联元数据（项目编号PRJEB39262）。表S20. 2014年PN RNA-Seq读段对应研究的ENA样本标识符及关联元数据（项目编号PRJEB39261）。表S21. 2017年PNP RNA-Seq读段对应研究的ENA样本标识符及关联元数据（项目编号PRJEB39264）。表S22. 2017年PN RNA-Seq读段对应研究的ENA样本标识符及关联元数据（项目编号PRJEB39263）。表S23. 定量实时聚合酶链式反应（qRT-PCR，quantitative real-time polymerase chain reaction）所用引物序列。