|Identification of the genetic locus associated with the crinkled leaf phenotype in a soybean (Glycine max L.) mutant by BSA-Seq technology
|OCHAR Kingsley1*, SU Bo-hong1, 2*, ZHOU Ming-ming1, 4, LIU Zhang-xiong1, GAO Hua-wei1, 2, SOBHI F. Lamlom1, 3, QIU Li-juan1
|1 National Key Facility for Crop Gene Resources and Genetic Improvement, Institute of Crop Sciences, Chinese Academy of Agricultural Sciences, Beijing 100081, P.R.China
2 College of Agriculture, Northeast Agricultural University/Key Laboratory of Soybean Biology in Chinese Education Ministry, Harbin 150030, P.R.China
3 Plant Production Department, Faculty of Agriculture Saba Basha, Alexandria University, Alexandria 21531, Egypt
4 School of Agriculture, Yangtze University, Jingzhou 434025, P.R.China
叶片是植物的主要光合器官，对作物品种的产量起着重要作用。鉴定导致叶片表型变异的致病突变和候选基因是大豆籽粒增产的重要育种目标。以大豆品种中品661为背景，研究了EMS诱导的具有异常皱叶表型的大豆突变体DWARFCRINKLEDLEAF1 (DCL1)。为了研究与皱叶性状相关的基因组位点，我们从Zp661和DCL1的杂交中构建了F2分离群体。采用整体分离分析(bulk separation analysis, BSA)结合全基因组重测序方法，通过欧氏距离(Euclidean distance, ED)关联算法检测出12个总长度为20.32 Mb的候选基因组区域与目标性状连锁。测序结果显示，Glyma.19G207100基因第1外显子存在一个单核苷酸突变(C:G>T: A)。基于该SNP衍生的CAPS标记对候选基因进行了验证，结果表明亲本之间存在核苷酸多态性。因此，我们的研究结果表明Glyma.19G207100(命名为GLYCINE MAX DWARF CRINKLED LEAF 1, GmDCL1)是一个可能参与大豆突变体DCL1皱叶性状形态发生的候选基因。本研究为该基因的功能验证提供了基础，并为大豆增产育种提供了前景。
The leaf is the main photosynthetic organ of plants, and it plays a significant role in the yield of crop species. Identifying the causal mutations and candidate genes that underlie leaf phenotypic variation is an important breeding target in soybean grain yield improvement. An ethyl methyl sulfonate (EMS)-induced soybean mutant DWARFCRINKLEDLEAF1 (DCL1) with an aberrant crinkled leaf phenotype was identified in the background of the soybean cultivar Zhongpin 661 (Zp661). We constructed an F2 segregating population from a cross between Zp661 and DCL1 in order to investigate the genomic locus associated with the crinkled leaf trait. Using bulk segregant analysis (BSA) combined with the whole-genome resequencing method, the Euclidean distance (ED) correlation algorithm detected 12 candidate genomic regions with a total length of 20.32 Mb that were linked to the target trait. Following a comparative analysis of the sequence data for the wild-type and mutant pools, only one single nucleotide mutation (C:G>T:A) located on the first exon of Glyma.19G207100 was found to be associated with the trait. Candidate gene validation based on a CAPS marker derived from the detected single-nucleotide polymorphism (SNP) indicated a nucleotide polymorphism between the two parents. Therefore, our findings reveal that Glyma.19G207100, which is renamed as GLYCINE MAX DWARF CRINKLED LEAF 1 (GmDCL1), is a promising candidate gene involved in the morphogenesis of the crinkled leaf trait of the soybean mutant DCL1. This study provides a basis for the functional validation of this gene, with prospects for soybean breeding targeting grain yield enhancement.
Received: 06 July 2021
Accepted: 09 September 2021
|Fund: The research was supported by the Platform of National Crop Germplasm Recourses of China and the Agricultural Science and Technology Innovation Program (ASTIP) of Chinese Academy of Agricultural Sciences.
|About author: Kingsley OCHAR, E-mail: email@example.com; SU Bo-hong, E-mail: firstname.lastname@example.org; Correspondence QIU Li-juan, Tel/Fax: +86-10-82105840, E-mail: email@example.com
* These authors contributed equally to this study.
Cite this article:
OCHAR Kingsley, SU Bo-hong, ZHOU Ming-ming, LIU Zhang-xiong, GAO Hua-wei, SOBHI F. Lamlom, QIU Li-juan.
Identification of the genetic locus associated with the crinkled leaf phenotype in a soybean (Glycine max L.) mutant by BSA-Seq technology. Journal of Integrative Agriculture, 21(12): 3524-3539.
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