基于GWAS分析的马铃薯主茎数和单株结薯数候选基因挖掘研究  

Candidate genes related to numbers of main stems and tubers perplant of potato mined using GWAS

作　　者：韩志刚 谢锐 郭景山 郭斌煜 伊六喜[1] 侯建华[1] HAN Zhigang;XIE Rui;GUO Jingshan;GUO Binyu;YI Liuxi;HOU Jianhua(College of Agronomy,Inner Mongolia Agricultural University,Hohhot,Inner Mongolia 010019,China;Special Crops Institute,Inner Mongolia Academy of Agriculture and Husbandry Sciences,Hohhot,Inner Mongolia 010031,China)

机构地区：[1]内蒙古农业大学农学院,内蒙古呼和浩特010019 [2]内蒙古自治区农牧业科学院特色作物研究所,内蒙古呼和浩特010031

出　　处：《西北农林科技大学学报（自然科学版）》2023年第11期22-36,共15页Journal of Northwest A&F University(Natural Science Edition)

基　　金：国家马铃薯产业技术体系项目(CARS-09-ES03);内蒙古农牧业科技创新基金项目(2018CXJJN01)。

摘　　要：【目的】筛选与马铃薯主茎数和单株结薯数显著关联的单核苷酸多态性(SNP)位点并挖掘候选基因,为高产马铃薯分子育种提供基因资源。【方法】以251份马铃薯核心种质为材料,于2018-2019年在马铃薯主产区4个试验点共8个环境下对其主茎数和单株结薯数进行表型鉴定;提取251份马铃薯种质的DNA,并采用高通量IlluminaHiSeq~(TM)对DNA进行测序及处理,获得高质量SNP标记,在此基础上,结合表型性状进行全基因组关联(GWAS)分析,对显著关联的SNP位点所在区域的候选基因通过NR、Swiss-port、KEGG、GO等4个数据库进行功能注释。【结果】2018-2019年的检测结果表明,在环境和基因型互作下,251份马铃薯种质间主茎数与单株结薯数有广泛的表型变异。共获得1 209 969个高质量SNP位点,其中与主茎数显著关联的SNP位点有7个,共挖掘到19个候选基因,其中在3个以上环境重叠的候选基因有9个,其可能编码半乳糖醛酸转移酶、转录因子MYB、赤霉素3-β-双加氧酶及细胞色素P450;与单株结薯数显著关联的SNP位点有13个,共挖掘到33个候选基因,去掉2年间重叠的4个候选基因,实际共关联到29个候选基因,其中在3个以上环境下重叠的候选基因有11个,其可能编码果糖-1,6-二磷酸醛缩酶、生长素响应因子IAA_(13)、转录因子WRKY、bHLH113及MADS-box。【结论】在2年8个环境下共鉴定出20个与马铃薯主茎数和单株结薯数显著相关的SNP位点,挖掘到48个候选基因。【Objective】SNPs significantly related to numbers of main stems and tubers per plant of potato were screened and candidate genes were mined to provide gene resources for molecular breeding of high-yield potatoes.【Method】The phenotyping of a core collection of 251 potato germplasms for numbers of main stems and tubers per plant was carried out in 8 environments at 4 test sites in main potato production areas during 2018-2019.The genomic DNA was extracted,and high-throughput sequencing was performed on IlluminaHiSeq TM platform for identification of high-quality SNPs markers.On this basis,genome-wide association(GWAS)analysis was carried out in combination with phenotypic data,and the candidate genes in the regions surrounding associated SNP sites were annotated through four databases including NR,Swiss-port,KEGG and GO.【Result】With interactions of environment and genotype,251 potato germplasms showed extensive phenotypic variations in numbers of main stems and tubers per plant in 2018 and 2019.A total of 1209969 high-quality SNP sites were obtained.Seven SNP sites were found to be significantly associated with the number of main stems,and a total of 19 candidate genes were mined.There were 9 candidate genes that overlapped in at least 3 different environments,which may encode galactosyltransferase,transcription factor MYB,and gibberellin 3-β-dioxygenase and cytochrome P450.There were 13 SNP sites significantly associated with the number of tubers per plant,and a total of 33 candidate genes were mined.Excluding the 4 candidate genes that overlapped in 2 years,29 candidate genes were associated.Among them,11 candidate genes overlapped in more than 3 environments,which may encode fructose-1,6-diphosphate aldolase,auxin response factor IAA 13,transcription factors WRKY,bHLH113 and MADS-box.【Conclusion】A total of 20 SNP loci significantly related to numbers of main stems and tubers per plant were identified,and 48 candidate genes were mined in 8 environments in 2 years.

关 键 词：马铃薯育种 主茎数 单株结薯数 全基因组关联分析 候选基因挖掘 

分 类 号：Q789[生物学—分子生物学] S532.035.3[农业科学—作物学]