College of Agronomy and Biotechnology, Southwest University, Chongqing 400715, China.
Institute of Specialty Crop, Chongqing Academy of Agricultural Sciences, Chongqing 402160, China.
Int J Mol Sci. 2023 Sep 18;24(18):14230. doi: 10.3390/ijms241814230.
Soybean () is an important crop, rich in proteins, vegetable oils and several other phytochemicals, which is often affected by light during growth. However, the specific regulatory mechanisms of leaf development under shade conditions have yet to be understood. In this study, the transcriptome and metabolome sequencing of leaves from the shade-tolerant soybean 'Nanxiadou 25' under natural light (ND1) and 50% shade rate (SHND1) were carried out, respectively. A total of 265 differentially expressed genes (DEGs) were identified, including 144 down-regulated and 121 up-regulated genes. Meanwhile, KEGG enrichment analysis of DEGs was performed and 22 DEGs were significantly enriched in the top five pathways, including histidine metabolism, riboflavin metabolism, vitamin B6 metabolism, glycerolipid metabolism and cutin, suberine and wax biosynthesis. Among all the enrichment pathways, the most DEGs were enriched in plant hormone signaling pathways with 19 DEGs being enriched. Transcription factors were screened out and 34 differentially expressed TFs (DETFs) were identified. Weighted gene co-expression network analysis (WGCNA) was performed and identified 10 core hub genes. Combined analysis of transcriptome and metabolome screened out 36 DEGs, and 12 potential candidate genes were screened out and validated by quantitative real-time polymerase chain reaction (qRT-PCR) assay, which may be related to the mechanism of shade tolerance in soybean, such as ATP phosphoribosyl transferase (ATP-PRT2), phosphocholine phosphatase (PEPC), AUXIN-RESPONSIVE PROTEIN (IAA17), PURPLE ACID PHOSPHATASE (PAP), etc. Our results provide new knowledge for the identification and function of candidate genes regulating soybean shade tolerance and provide valuable resources for the genetic dissection of soybean shade tolerance molecular breeding.
大豆（）是一种重要的作物，富含蛋白质、植物油和几种其他植物化学物质，在生长过程中经常受到光的影响。然而，在遮荫条件下叶片发育的具体调控机制尚不清楚。本研究分别对耐荫大豆‘南夏至 25’在自然光（ND1）和 50%遮荫率（SHND1）下的叶片进行了转录组和代谢组测序。共鉴定出 265 个差异表达基因（DEGs），包括 144 个下调基因和 121 个上调基因。同时，对 DEGs 进行了 KEGG 富集分析，有 22 个 DEGs 在 5 条主要途径中显著富集，包括组氨酸代谢、核黄素代谢、维生素 B6 代谢、甘油脂代谢和角质、栓质和蜡生物合成。在所有富集途径中，植物激素信号通路中富集的 DEGs 最多，有 19 个 DEGs 被富集。筛选出转录因子，鉴定出 34 个差异表达转录因子（DETFs）。进行加权基因共表达网络分析（WGCNA），鉴定出 10 个核心枢纽基因。对转录组和代谢组进行联合分析，筛选出 36 个 DEGs，筛选出 12 个潜在的候选基因，并通过定量实时聚合酶链反应（qRT-PCR）检测进行验证，这些候选基因可能与大豆耐荫性机制有关，如 ATP 磷酸核糖基转移酶（ATP-PRT2）、磷酸胆碱磷酸酶（PEPC）、生长素响应蛋白（IAA17）、紫色酸性磷酸酶（PAP）等。本研究结果为鉴定和功能调控大豆耐荫性的候选基因提供了新的知识，为大豆耐荫性分子育种的遗传解析提供了有价值的资源。
