Novel QTL and Meta-QTL Mapping for Major Quality Traits in Soybean

Heng Chen; Xiangwen Pan; Feifei Wang; Changkai Liu; Xue Wang; Yansheng Li; Qiuying Zhang

doi:10.3389/fpls.2021.774270

Novel QTL and Meta-QTL Mapping for Major Quality Traits in Soybean

Front Plant Sci. 2021 Dec 8:12:774270. doi: 10.3389/fpls.2021.774270. eCollection 2021.

Authors

Heng Chen^{1

2

3}, Xiangwen Pan^{1

2}, Feifei Wang^{1

2}, Changkai Liu^{1

2}, Xue Wang^{1

2

3}, Yansheng Li^{1

2}, Qiuying Zhang^{1

2}

Affiliations

¹ Key Laboratory of Soybean Molecular Design and Breeding, Northeast Institute of Geography and Agroecology, Chinese Academy of Sciences, Harbin, China.
² Innovation Academy for Seed Design, Chinese Academy of Sciences, Harbin, China.
³ College of Advanced Agricultural Sciences, University of Chinese Academy of Sciences, Beijing, China.

Abstract

Isoflavone, protein, and oil are the most important quality traits in soybean. Since these phenotypes are typically quantitative traits, quantitative trait locus (QTL) mapping has been an efficient way to clarify their complex and unclear genetic background. However, the low-density genetic map and the absence of QTL integration limited the accurate and efficient QTL mapping in previous researches. This paper adopted a recombinant inbred lines (RIL) population derived from 'Zhongdou27'and 'Hefeng25' and a high-density linkage map based on whole-genome resequencing to map novel QTL and used meta-analysis methods to integrate the stable and consentaneous QTL. The candidate genes were obtained from gene functional annotation and expression analysis based on the public database. A total of 41 QTL with a high logarithm of odd (LOD) scores were identified through composite interval mapping (CIM), including 38 novel QTL and 2 Stable QTL. A total of 660 candidate genes were predicted according to the results of the gene annotation and public transcriptome data. A total of 212 meta-QTL containing 122 stable and consentaneous QTL were mapped based on 1,034 QTL collected from previous studies. For the first time, 70 meta-QTL associated with isoflavones were mapped in this study. Meanwhile, 69 and 73 meta-QTL, respectively, related to oil and protein were obtained as well. The results promote the understanding of the biosynthesis and regulation of isoflavones, protein, and oil at molecular levels, and facilitate the construction of molecular modular for great quality traits in soybean.

Keywords: Soy isoflavone; Soy protein; meta-analysis; quantitative trait locus (loci) (QTL(s)); soybean oil; whole genome resequencing.