Additional file 2: of Comparative RNA-sequencing-based transcriptome profiling of buds from profusely flowering ‘Qinguan’ and weakly flowering ‘Nagafu no. 2’ apple varieties reveals novel insights into the regulatory mechanisms underlying floral induction

Table S4. Kyoto Encyclopedia of Genes and Genomes analysis of up-regulated genes, including the seven expression pattern types (a-, b-, c-, d-, e-, f-, and g-type) in ‘Qinguan’ buds relative to ‘Nagafu No. 2’ buds. The up-regulated genes were identified based on the Venn diagrams and cluster analysis in Fig. 5. Table S5. Kyoto Encyclopedia of Genes and Genomes analysis of down-regulated genes, including the seven expression pattern types (a-, b-, c-, d-, e-, f-, and g-type) in ‘Qinguan’ buds relative to ‘Nagafu No. 2’ buds. The down-regulated genes were identified based on the Venn diagrams and cluster analysis in Fig. 5. Table S6. Carbohydrate, fatty acid, and lipid pathways related to differentially expressed genes in ‘Qinguan’ and ‘Nagafu No. 2’ buds. The differentially expressed genes were detected based on the model in Fig. 7. Table S7. Hormone pathways related to differentially expressed genes in ‘Qinguan’ and ‘Nagafu No. 2’ buds. These hormone-related genes are mainly involved in hormone synthesis, signaling, and response pathways. The model and cluster analysis of these genes are presented in Figs. 8 and 9. Table S8. Detailed information of transcription factor family members in ‘Qinguan’ and ‘Nagafu No. 2’ buds. Table S9. Differentially expressed flowering-related genes in ‘Qinguan’ and ‘Nagafu No. 2’ buds. The flowering-related genes located on different chromosomes are presented in Fig. 11. (XLSX 153 kb)

表S4 针对‘秦冠（Qinguan）’芽与‘长富2号（Nagafu No.2）’芽的上调基因开展的京都基因与基因组百科全书（Kyoto Encyclopedia of Genes and Genomes, KEGG）富集分析，涵盖7种表达模式类型（a型、b型、c型、d型、e型、f型及g型）。本研究中上调基因的鉴定基于图5中的维恩图与聚类分析结果。表S5 针对‘秦冠’芽与‘长富2号’芽的下调基因开展的京都基因与基因组百科全书（KEGG）富集分析，涵盖7种表达模式类型（a型、b型、c型、d型、e型、f型及g型）。本研究中下调基因的鉴定基于图5中的维恩图与聚类分析结果。表S6 关联‘秦冠’与‘长富2号’芽差异表达基因的碳水化合物、脂肪酸及脂质代谢通路信息。本研究中差异表达基因的筛选基于图7中的分析模型。表S7 关联‘秦冠’与‘长富2号’芽差异表达基因的激素代谢通路信息。此类激素相关基因主要参与激素合成、信号转导及响应通路。该类基因的分析模型与聚类分析结果展示于图8与图9中。表S8 ‘秦冠’与‘长富2号’芽中转录因子家族成员的详细信息。表S9 ‘秦冠’与‘长富2号’芽中差异表达的开花相关基因信息。位于不同染色体上的开花相关基因分布情况展示于图11中。(XLSX 153 kb)