玉米茎秆营养品质性状全基因组关联分析及候选基因筛选

doi:10.12190/j.issn.2096-1197.2023.05.01

Abstract

Abstract:

【Objective】Conduct genetic analysis of the main nutritional quality traits of maize stems at the molecular level，to provide theoretical basis for genetic improvement of the main nutritional quality traits of maize stems.【Methods】The study used 381 different types of maize inbred lines as associated populations and planted randomly in the experimental field of the Hebi Academy of Agricultural Sciences in Henan Province in 2016 and 2017. The nutritional quality traits acid washing fiber（ADF），neutral washing fiber（NDF），and digestibility（IVDMD） were investigated during the heading，filling，and maturity stages. Using the Maize SNP50 gene chip，461 053 high-quality SNPs were obtained for genome-wide association analysis.【Results】Using the generalized linear model（GLM） analysis，a total of 392 significantly correlated stem nutritional quality traits SNPs（P<1.08×10^-7） were detected on 10 chromosomes of maize during different growth stages of the two years，with phenotypic variation interpretation rates of 9.69% -17.34%. 97 SNPs were found to be independently associated more than twice，resulting in a total of 77 candidate genes associated with stem nutritional quality traits. Using the mixed linear model（MLM）analysis，a total of 257 significantly correlated SNPs were detected over the two years（P<2.17×10^-6），with phenotypic variation interpretation rates of 9.82% -20.20%. 17 SNPs were found to be independently associated more than twice，resulting in a total of 82 candidate genes. Among them，10 overlap with GLM model candidate genes. A total of 159 candidate association genes were identified by GLM and MLM，among which 43 candidate genes were detected twice or more. Zm00001d021261 was found to be associated with ADF，NDF，and IVDMD in different years 31 times at multiple loci. This gene encoded ATP binding protein and chloroplast sensor kinase，had the highest expression in leaves at maturity stage. Zm00001d021255 was found to be associated with stem nutritional quality traits 10 times at two loci. This gene encoded cysteine rich receptor like protein kinase 25，which was only expressed in developmental internodes and female panicles，can be further studied and validated.【Conclusion】Using GLM and MLM models could quickly and effectively associate significant loci related to maize stem nutrient quality. HC-SNP could be screened through repetitive significant loci，and then associated gene enrichment regions could be excavated.

Key words: Maize, Stem, Acid washing fiber, Neutral washing fiber, Digestibility, Genome-wide association analysis

CLC Number:

S513

WANG Bangtai, YANG Meili, GUO Hua, WANG Jing, WANG Zhihong, LU Hongwei, CHENG Jianmei, QIN Guiwen, CHEN Jiafa. Genome-wide association analysis for maize stem nutritional quality traits and candidate gene selection[J].Journal of Northern Agriculture, 2023, 51(5): 1-22.

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URL: https://journal30.magtechjournal.com/bfnyxb/EN/10.12190/j.issn.2096-1197.2023.05.01

https://journal30.magtechjournal.com/bfnyxb/EN/Y2023/V51/I5/1

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References 27

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Genome-wide association analysis for maize stem nutritional quality traits and candidate gene selection

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