Abstract
Key message
FLS is a disease that causes severe yield reduction in soybean. In this study, four genes (Glyma.16G176800, Glyma.16G177300, Glyma.16G177400 and Glyma.16G182300) were tentatively confirmed to play an important role in the resistance of soybean to FLS race 7.
Abstract
Frogeye leaf spot (FLS) causes severe yield loss in soybean and has been found in several countries worldwide. Therefore, it is necessary to select and utilize FLS-resistant varieties for the management of FLS. In the present study, 335 representative soybean materials were assessed for partial resistance to FLS race 7. Quantitative trait nucleotide (QTN) and FLS race 7 candidate genes were identified using genome-wide association analysis (GWAS) based on a site-specific amplified fragment sequencing (SLAF-seq) approach. A total of 23,156 single-nucleotide polymorphisms (SNPs) were used to evaluate the level of linkage disequilibrium with a minor allele frequency ≥ 5 and deletion data < 3%. These SNPs covered about 947.01 MBP, nearly 86.09% of the entire soybean genome. In addition, a compressed mixed linear model was utilized to identify association signals for partial resistance to FLS race 7. A total of 15 QTNs associated with resistance were found to be novel for FLS race 7 resistance. A total of 217 candidate genes located in the 200-kb genomic region of these peak SNPs were identified. Based on gene association analysis, qRT-PCR, haplotype analysis and virus-induced gene silencing (VIGS) systems were used to further verify candidate genes Glyma.16G176800, Glyma.16G177300, Glyma.16G177400 and Glyma.16G182300. This indicates that these four candidate genes may participate in FLS race 7 resistance responses.
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Data Availability
The datasets generated during and analyzed during the current study are available from the corresponding author on reasonable request.
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Acknowledgements
We thank LetPub (www.letpub.com) for its linguistic assistance during the preparation of this manuscript.
Funding
This study was conducted in the Key Laboratory of Soybean Biology of the Chinese Education Ministry, Soybean Research & Development Center (CARS) and the Key Laboratory of Northeastern Soybean Biology and Breeding/Genetics of the Chinese Agriculture Ministry, and was financially supported by National Key Research & Development Project (2021YFD1201604), Heilongjiang’s Provincial projects (ZD2022C002, JD22A015), the Chinese National Natural Science Foundation (31971967, U22A20473), the Youth Leading Talent Project of the Ministry of Science and Technology in China (2015RA228), the National Ten-thousand Talents Program, Postdoctoral Fund in Heilongjiang Province (LBH-Q20004) and the National Project (CARS-04-PS06).
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YPH and XZ conceived the study. CN and HRM were responsible for methodology. HLL, SCL, JHZ and YMY contributed to software. CN and HPJ carried out the formal analysis. XZ and YGL conducted investigation. YPH was involved in resources. CN, HRM and YHZ curated the data. CN, HPJ and XZ participated in writing—original draft preparation. XZ and YPH took part in writing—review and editing. WLT and YPH performed the supervision. WLT, YPH and YGL acquired the funding. All authors read and approved the manuscript.
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Na, C., Miao, H., Jiang, H. et al. Genome-wide association analysis of resistance to frogeye leaf spot China race 7 in soybean based on high-throughput sequencing. Theor Appl Genet 136, 119 (2023). https://doi.org/10.1007/s00122-023-04359-1
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DOI: https://doi.org/10.1007/s00122-023-04359-1