Identification of Potential Gene Regulatory Pathways Affecting the Ratio of Four-Seed Pod in Soybean.
Identification of Potential Gene Regulatory Pathways Affecting the Ratio of Four-Seed Pod in Soybean.
复制标题
影响大豆四粒果率的潜在基因调控途径的鉴定。
DOI：
10.3389/fgene.2021.717770
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发表时间：
2021
影响因子：
3.7
通讯作者：
Sun L
中科院分区：
文献类型：
--
作者：
Fang T;Bai Y;Huang W;Wu Y;Yuan Z;Luan X;Liu X;Sun L
四粒角果数是受基因和环境影响的重要农艺性状之一，对大豆产量具有潜在的改良作用。然而，影响四粒角果比例(每株四粒角果数量与总角果数量的比例)的基因调控网络尚不清楚。本研究对四粒结角率高的品种黑农48(HN48)和低四粒结角率的品种河农(HN64)杂交后代的一系列重组自交系进行了批量分离测序。在四粒角果比例分别小于10%和大于30%的情况下，对花芽和幼荚两个不同生长阶段的组织进行了分析。为了确定与大豆四粒角果比相关的潜在基因调控途径，我们对四个散装群体进行了差异表达分析。编码光系统II 5-kDa蛋白的差异表达基因(DEG)具有参与光合作用能量转换的功能。此外，在不同发育阶段和不同四粒角果比例下，还鉴定出79个常见的角果。其中，4个编码钙结合蛋白的基因和1个WRKY转录因子在植物-病原菌相互作用途径中表现出丰富的表达，并且在根中表达水平较高。此外，在已报道的四粒豆荚的数量性状基因座(QTL)区间中发现了10个deg，其中2个显著富含戊糖和葡萄糖醛酸的相互转化途径。这些发现为理解受特定环境影响的潜在基因调控网络提供了基本的见解，并为确定影响大豆四粒角果比例的靶标奠定了基础。
The number of four-seed pods is one of the most important agronomic traits affected by gene and environment that can potentially improve soybean (Glycine max) yield. However, the gene regulatory network that affects the ratio of four-seed pod (the ratio of the number of four-seed pods to the total number of pods in each individual plant) is yet unclear. Here, we performed bulked segregant RNA sequencing (BSR-seq) on a series of recombinant inbred lines (RILs) derived from hybrid progenies between Heinong 48 (HN48), a cultivar with a high ratio of four-seed pod, and Henong 64 (HN64), a cultivar with a low ratio of four-seed pod. Two tissues, flower bud and young pod, at two different growth stages, R1 and R3, were analyzed under the ratios of four-seed pod at less than 10% and greater than 30%, respectively. To identify the potential gene regulation pathways associated with the ratio of soybean four-seed pod, we performed differentially expressed analysis on the four bulked groups. A differentially expressed gene (DEG) encoding a photosystem II 5-kDa protein had the function of participating in the energy conversion of photosynthesis. In addition, 79 common DEGs were identified at different developmental stages and under different ratios of four-seed pod. Among them, four genes encoding calcium-binding proteins and a WRKY transcription factor were enriched in the plant–pathogen interaction pathway, and they showed a high level of expression in roots. Moreover, 10 DEGs were identified in the reported quantitative trait locus (QTL) interval of four-seed pod, and two of them were significantly enriched in the pentose and glucuronate interconversion pathway. These findings provide basic insights into the understanding of the underlying gene regulatory network affected by specific environment and lay the foundation for identifying the targets that affect the ratio of four-seed pod in soybean.
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DOI：
10.1093/bioinformatics/btu638
发表时间：
2015-01-15
期刊：
Bioinformatics (Oxford, England)
影响因子：
--
作者：
Anders S;Pyl PT;Huber W
通讯作者：
Huber W
影响因子：
2.4
作者：
Sayama T;Tanabata T;Saruta M;Yamada T;Anai T;Kaga A;Ishimoto M
通讯作者：
Ishimoto M
影响因子：
4.3
作者：
Louvet, Romain;Cavel, Emilie;Pelloux, Jerome
通讯作者：
Pelloux, Jerome
影响因子：
3
作者：
Liu, FL;Andersen, MN;Jensen, CR
通讯作者：
Jensen, CR
影响因子：
5.4
作者：
Gutierrez-Gonzalez, Juan Jose;Wu, Xiaolei;Zhang, Juan;Lee, Jeong-Dong;Ellersieck, Mark;Shannon, J. Grover;Yu, Oliver;Nguyen, Henry T.;Sleper, David A.
通讯作者：
Sleper, David A.