玉米籽粒淀粉含量全基因组关联分析和候选基因预测  

Genome-wide association study and candidate gene prediction of kernel starch content in maize

作　　者：王锐璞 董振营 高悦欣 鲍建喜 殷芳冰 李金萍 龙艳 万向元 WANG Rui-Pu;DONG Zhen-Ying;GAO Yue-Xin;BAO Jian-Xi;YIN Fang-Bing;LI Jin-Ping;LONG Yan;WAN Xiang-Yuan(Zhongzhi International Institute of Agricultural Biosciences,Shunde Graduate School,School of Chemistry and Biological Engineering,Research Center of Biology and Agriculture,University of Science and Technology Beijing(USTB),Beijing 100083,China;Beijing Engineering Laboratory of Main Crop Bio-Tech Breeding,Beijing International Science and Technology Cooperation Base of Bio-Tech Breeding,Beijing Solidwill Sci-Tech Co.Ltd.,Beijing 100192,China)

机构地区：[1]北京科技大学生物与农业研究中心/化学与生物工程学院/顺德研究生院/北京中智生物农业国际研究院,北京100083 [2]北京首佳利华科技有限公司/主要作物生物育种北京市工程实验室/生物育种北京市国际科技合作基地,北京100192

出　　处：《作物学报》2023年第1期140-152,共13页Acta Agronomica Sinica

基　　金：国家重点研发计划项目“农业生物种质资源挖掘与创新利用”重点专项(2021YFD1200700)资助。

摘　　要：玉米是重要的粮食作物,其籽粒重量的70%来自于淀粉。淀粉不仅是人类及其他动物的主要能量来源,同时也是化工等行业的重要原料。本研究利用711份玉米自交系作为关联群体,对2个环境下玉米籽粒湿基淀粉含量和干基淀粉含量进行统计分析,结合覆盖玉米全基因组的2799个单核苷酸多态性(single nucleotide polymorphism,SNP)标记,通过FarmCPU模型对玉米籽粒淀粉含量性状开展全基因组关联分析(genome-wide association study,GWAS),共关联到67个显著SNP位点,其中23个高可信度显著SNP位点可在多个环境重复检测到。3个高可信度SNP标记位点为本研究首次发现与玉米籽粒淀粉含量相关,其余20个SNP标记位于前人已定位QTL(quantitative trait locus)置信区间或/和已报道与籽粒淀粉含量显著相关SNP标记1 Mb之内。进一步通过基因功能注释、基因本体论(gene ontology,GO)分析及籽粒胚乳基因表达分析,在23个高可信度显著SNP位点上下游各200 kb候选区间共挖掘45个重要候选基因,涉及淀粉生物合成与代谢、碳水化合物代谢、糖代谢、激素代谢等途径,同时检测到2个已报道调控玉米籽粒淀粉含量的基因Ae1和Pin1。通过等位变异效应分析鉴定出9个主效SNP位点及其优异等位变异。本研究为深入解析玉米籽粒淀粉含量遗传机制提供了新的信息,为加速培育高产、优质玉米新品种提供重要基因资源。Maize is an important food crop worldwide,and about 70%of its grain weight comes from starch.Starch is not only the main energy resource for human and other animals but also an important raw material for chemical industries.In this study,an association panel including 711 maize inbred lines was used for the examination of both wet-base starch content and dry-base starch content of maize kernel from two environments combined with 2799 single nucleotide polymorphism(SNP)markers spaning the whole genome of maize,genome-wide association study(GWAS)was carried out using FarmCPU model.67 significant SNPs were identified,of which 23 highly reliable significant SNPs(HRS-SNPs)could be repeatedly associated in different environments.Three HRS-SNPs were reported for the first time by our study,and the remaining 20 HRS-SNPs were either located within the known quantitative trait loci(QTLs)or within 1 Mb of known SNPs associated with mazie kernel starch content.Through gene function annotation,gene ontology(GO)analysis and gene expression analysis,a total of 45 important candidate genes,involving starch biosynthesis,carbohydrate metabolism,sugar metabolism,hormone metabolism,and other pathways were identified within 200 kb regions around the HRS-SNPs.And two genes Ae1 and Pin1 which had been reported to regulate the maize kernel starch content were also detected.Furthermore,elite alles of the nine major SNPs was identified by allelic variation effect analysis.Our study provides new genetic information for further disecting the genetic mechanism of maize kernel starch content and provides important gene resources for accelerating the breeding of new maize varieties with high yield and quality.

关 键 词：玉米 籽粒淀粉含量 全基因组关联分析 候选基因 

分 类 号：S513[农业科学—作物学]