Abstract
Soybean [Glycine max (L.) Merr.] is an important legume crop worldwide, which provides abundant plant protein and oil for human beings. Soybean mosaic virus (SMV) can cause serious damage to the yield and quality of soybean, but it is difficult to control SMV with chemicals, breeding SMV-resistant varieties has become the most effective way to control the disease. Therefore, it is important to identify SMV resistance genes from soybean resources and apply them to soybean breeding. In this study, the disease rates (DRs) of 219 soybean accessions to SMV strain SC7 in two environments were investigated. A high-density NJAU 355 K SoySNP array was used for genome-wide association study (GWAS) of DR. A 274 kb region on chromosome 15 (1,110,567 bp to 1,384,173 bp) was repeatedly detected in two environments. Six new significant single nucleotide polymorphisms (SNPs) on chromosome 15 were identified. Four of these six SNPs were located within two candidate genes, Glyma.15G015700 and Glyma.15G015800. The elite haplotype Glyma.15G015700Hap I with low DR exhibited strong resistance to SC7. The expression of Glyma.15G015700 in the SMV-resistant accession increased significantly after inoculation with SC7. Furthermore, most of the proteins predicted to interact with Glyma.15G015700 are heat shock proteins, which have been shown to be related to disease resistance. In summary, new SMV resistance loci and a new candidate gene, Glyma.15G015700, were identified and might be utilized in further soybean disease resistance breeding.
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All the data generated in the experiments are presented in the manuscript and its supplementary files.
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Acknowledgements
This work was supported by the high-performance computing platform of Bioinformatics Center, Nanjing Agricultural University.
Funding
This work was supported by the National Natural Science Foundation of China (32090065, 32001507, 32260466), Jiangsu Province Agriculture Science and Technology Innovation [CX (22) 3088] and JBGS (2021) 060.
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All authors contributed to the study conception and design. YXP, HC and DYY conceived the research plan; YXP, RJY, DBJ, ZJC, RFY, CYY and HW performed the experiments; YXP analyzed the data and wrote the article with help from HC and DYY. All authors read and approved the final manuscript.
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Supplementary file2 Expression profiles of two candidate genes in different soybean tissues. DAF, days after flowering. (XLSX 41 KB)
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Pu, Y., Yan, R., Jia, D. et al. Identification of soybean mosaic virus strain SC7 resistance loci and candidate genes in soybean [Glycine max (L.) Merr.]. Mol Genet Genomics 299, 54 (2024). https://doi.org/10.1007/s00438-024-02151-4
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DOI: https://doi.org/10.1007/s00438-024-02151-4