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CHINESE JOURNAL OF OIL CROP SCIENCES ›› 2021, Vol. 43 ›› Issue (6): 1006-1015.doi: 10.19802/j.issn.1007-9084.2020358

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Identification of candidate gene controlling shade-tolerant by BSA-Seq in soybean

Wei-ming ZENG1(), Yan-zhu SU2(), Zhen-guang LAI1, Shou-zhen YANG1, Huai-zhu CHEN1, Yu-rong TAN1, Zu-dong SUN1(), Jun-yi GAI2()   

  1. 1.Institute of Economic Crops of Guangxi Academy of Agricultural Sciences/ MOA Southwest Experimental Station of Maize -Soybean Intercrop, Nanning 530007, China
    2.Soybean Research Institute of Nanjing Agricultural University/ MOA Key Laboratory for Soybean Biology, Genetics and Breeding, Nanjing 210095, China
  • Received:2020-12-18 Online:2021-12-22 Published:2021-12-23
  • Contact: Zu-dong SUN,Jun-yi GAI E-mail:zengweiying_1981@163.com;2016201065@njau.edu.cn;sunzudong639@163.com;sri@njau.edu.cn;sunzudong639@163.com

Abstract:

Intercropping patterns of soybean is an important model in southern China, the shading stress of high stalk crops is an important factor that affects the yield and quality of intercropped soybean. Therefore, it is particularly important to analyze the shade tolerance of soybean. In this study, a recombinant inbred lines (RILs) established from the shade-tolerant (Aijiaozao) and shade-sensitive (Chippewa), 30 shade-tolerant and shade-sensitive accessions were selected to construct two DNA hybrid pools, respectively. Progeny hybrid and parent pools were covered for an average depth of 60× and 30×. By calculating the SNP-index of two progeny pools, the differences of SNP-index between shade-tolerant and shade-sensitive chromosomal segments were compared. And the candidate genes of shade tolerance were predicted based on their functional annotations. The results showed that 11 963 077 single nucleotide polymorphisms (SNPs) were obtained from four samples. There were 408 genes were found that they were mainly located on chromosome1 (51 942-505 708 bp), chr. 4 (50 972 768-51 854 631 bp), chr. 9 (48 778 767-50 178 743 bp) and chr. 18 (40 858 027-43 909 456 bp). According to gene annotation and functional analysis, five candidate genes might be related to shade tolerance of soybean, including 1-aminocyclopropane-1-carboxylate oxidase 5-like, auxin-induced protein 5NG4-like, phytochrome-associated serine/threonine protein phosphatase-like, MYBJ6 and MYB128 were identified. They might play an important role in the process of soybean shade tolerance. The results will lay an important foundation for the molecular mechanism of soybean shade tolerance, and laid solid theoretical foundation for map-based cloning of shade-tolerant genes in soybean.

Key words: soybean, shade tolerance, BSA-Seq, candidate gene

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