普通小麦籽粒过氧化物酶活性全基因组关联分析

doi:10.3864/j.issn.0578-1752.2017.21.016

Abstract

Abstract: 【Objective】 Peroxidase (POD) activity has browning and bleaching effects on the color of flour and flour-based products during processing and storage. Identification of associated loci and candidate genes for grain POD activity is important for molecular marker-assisted selection (MAS) in wheat quality breeding. 【Method】 In the present study, the POD activities were surveyed with 151 and 82 Chinese bread wheat cultivars from Yellow & Huai Winter Wheat Region (YHRVWWR) and Northern China Plain Winter Wheat Region (NWWR), respectively, and each set of cultivars was planted in four environments. A genome-wide association study (GWAS) was performed using the mixed linear model (MLM) based on 18 189 and 18 417 high-quality SNP markers from 90K SNP array for two sets of cultivars, respectively. 【Result】The POD activity of the tested materials showed extensive phenotypic variation and diversity. The variation coefficient of YHRVWWR was 15.4%-21.8%, the heritability was 0.79, and the variation coefficient of NWWR was 15.0%-19.9%, the heritability was 0.82. The POD activity of the materials in different environments showed a significant correlation, and the correlation coefficients were 0.46-0.89 (P＜0.0001) and 0.50-0.87 (P＜0.0001) in YHRVWWR and NWWR, respectively. The polymorphic information content of value was between 0.09-0.38, and the minimum allele frequency was between 0.05-0.5. The population structure analysis showed that the two natural populations in YHRVWWR and NWWR were simple and could be divided into three subgroups. In the YHRVWWR cultivars, 20 loci were found to be associated with POD activity (P＜0.001), which were located on chromosomes 1A, 2A, 2B, 2D, 3A, 3B, 3D, 4A, 4B, 5A, 5B, 6A, 6D and 7A, and each explained 7.8%-13.3% of phenotypic variation. In the NWWR cultivars, 20 loci showed significant association with POD activity (P＜0.001), which were located on chromosomes 1A, 1B, 1D, 2A, 2B, 2D, 3A, 3B, 4B, 6A, 6B, 7A, 7B and 7D, explaining 14.4%-23.2% of phenotypic variation. Two loci were detected in both the YHRVWWR and NWWR cultivars, and the associated SNPs could be used to develop STARP (Semi-thermal asymmetric reverse PCR) or CAPS markers. The regression analysis showed that the POD activity of wheat grain was higher with the increasing number of favorable alleles. Meanwhile, three candidate genes PMM-D1, PER40,and F775_31640 were scanned, encoding phosphomannomutase, horseradish peroxidasesand alkyl hydro peroxide reductase, respectively. 【Conclusion】The genetic diversity of the two natural populations in YHRVWWR and NWWR are rich in genetic structure and were suitable for genome-wide association analysis. Twenty POD activity loci were found in 2 natural populations, respectively, and three candidate genes were detected. Regression analysis showed that the more favorable alleles variation, the higher the POD activity.

SHI Jia, ZHAI ShengNan, LIU JinDong, WEI JingXin, BAI Lu, GAO WenWei, WEN WeiE, HE ZhongHu, XIA XianChun, GENG HongWei. Genome-Wide Association Study of Grain Peroxidase Activity in Common Wheat[J].Scientia Agricultura Sinica, 2017, 50(21): 4212-4227.

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