Journal Article

Genetic mapping high protein content QTL from soybean ‘Nanxiadou 25’ and candidate gene analysis

Yang, Wenying, Lian, Jianqiu, Yu, Xiaobo, An, Jiangang, Liu, Liezhao, Wang, Jia, Zeng, Zhaoqiong, Zhang, Mingrong, Mao, Lin, Feng, Jun, Wu, Haiying

2021

Overview

Background Soybean is a globally important legume crop that provides a primary source of high-quality vegetable protein and oil. Seed protein content (SPC) is a valuable quality trait controlled by multiple genes in soybean. Results In this study, we performed quantitative trait loci (QTL) mapping, QTL-seq, and RNA sequencing (RNA-seq) to reveal the genes controlling protein content in the soybean by using the high protein content variety Nanxiadou 25. A total of 50 QTL for SPC distributed on 14 chromosomes except chromosomes 4, 12, 14, 17, 18, and 19 were identified by QTL mapping using 178 recombinant inbred lines (RILs). Among these QTL, the major QTL q SPC _20–1 and q SPC _20–2 on chromosome 20 were repeatedly detected across six tested environments, corresponding to the location of the major QTL detected using whole-genome sequencing-based QTL-seq. 329 candidate DEGs were obtained within the QTL region of q SPC _20–1 and q SPC _20–2 via gene expression profile analysis. Nine of which were associated with SPC, potentially representing candidate genes. Clone sequencing results showed that different single nucleotide polymorphisms (SNPs) and indels between high and low protein genotypes in Glyma.20G088000 and Glyma.16G066600 may be the cause of changes in this trait. Conclusions These results provide the basis for research on candidate genes and marker-assisted selection (MAS) in soybean breeding for seed protein content.

• Publisher: BioMed Central,BioMed Central Ltd,Springer Nature B.V,BMC
• Subject: Agricultural research / Agriculture / Biomedical and Life Sciences / Chromosome 20 / Chromosome Mapping / Chromosomes / Confidence intervals / Crops, Agricultural - chemistry / Crops, Agricultural - genetics / Gene expression / Gene Expression Regulation, Plant / Gene loci / Gene mapping / Gene sequencing / Genes / Genetic aspects / Genetic Association Studies / Genetic Markers / Genetic Variation / Genetics and crop biotechnology / Genomes / Genotype / Genotype & phenotype / Genotypes / Glycine max - chemistry / Glycine max - genetics / Inbreeding / Legumes / Life Sciences / Marker-assisted selection / Nucleotides / Nutrient content / oils / Peptide mapping / Physiological aspects / Plant breeding / Plant proteins / Plant Proteins - analysis / Plant Proteins - genetics / Plant Sciences / Population / protein content / Protein sources / Proteins / QTL-seq / Quantitative genetics / Quantitative Trait Loci / Quantitative trait loci (QTL) / quantitative traits / Research Article / Ribonucleic acid / RNA / RNA sequencing / RNA-seq / Seed protein content / Seeds / Seeds - chemistry / sequence analysis / Sequence Analysis, RNA / Single-nucleotide polymorphism / Soybean / Soybeans / Tree Biology / vegetable protein / Whole genome sequencing