Abstract
Key message
Five loci related to soybean protein and amino acid contents were colocated by performing linkage mapping and GWAS. The haplotype analysis showed that Glyma.08G109100 may be useful to improve the soybean seed composition.
Abstract
Soybean (Glycine max (L.) Merr.) seeds are good protein sources. Although genetic variation is abundant, natural variation in seed amino acids and their derived traits is lacking across soybean accessions. Here, we determined the contents of protein and 17 amino acids, obtained 36 derived traits based on the protein and total amino acid contents, and derived 34 traits based on seven amino acid family groups. Furthermore, we performed a linkage analysis of the contents of 17 amino acids and 73 amino acid-derived traits based on the recombinant inbred line (RIL)-derived Kefeng No. 1 × Nannong 1138–2. Six hundred thirty-nine quantitative trait loci (QTLs) were identified, explaining 6.07–39.00% of the phenotypic variation. Among these loci, five were detected in diverse soybean accessions using a genome-wide association study. A network analysis revealed that some loci that were significantly associated with multiple amino acids were tightly linked on chromosome 8 based on linkage disequilibrium values, which also further confirmed the results of the correlation analysis among amino acid traits. Through a combination of a genome-wide association study, linkage analysis, qRT–PCR, and genomic polymorphism comparison, Glyma.08G109100 on chromosome 8, which may affect amino acid contents, was selected. The haplotype analysis showed that Hap-T of Glyma.08G109100 may be useful to improve the contents of protein and 16 amino acids in soybean. This study provides new insights into the genetic basis of the amino acid composition in soybean seeds and may facilitate marker-based breeding of soybean with improved nutritional value.
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Data availability
The datasets generated during and/or analysed during the current study are available from the corresponding author on reasonable request.
Change history
23 March 2023
A Correction to this paper has been published: https://doi.org/10.1007/s00122-023-04323-z
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Funding
The work was supported in part by the National Key Research and Development Program of China (2021YFF1001204), the National Natural Science Foundation of China (32090065, 31871649), and the Horizon 2020 of European Union (EUCLEG/727312).
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WY conducted the experiment, including phenotyping, association analysis, linkage analysis, visualizing the data, interpreting the results, and drafting the manuscript. HL and WY performed haplotype analysis. YM conducted phenotypic collection. JH, CG, and FH participated in the phenotypic analysis. WY, GK and DY designed the research experiments. HL, HW, XF, DY and GK revised the manuscript. All authors read and approved the final version to be published.
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Communicated by Istvan Rajcan.
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Yuan, W., Huang, J., Li, H. et al. Genetic dissection reveals the complex architecture of amino acid composition in soybean seeds. Theor Appl Genet 136, 17 (2023). https://doi.org/10.1007/s00122-023-04280-7
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DOI: https://doi.org/10.1007/s00122-023-04280-7