| Potatoes(Solanum tuberosum L.),an important food crop,is distributed in two thirds countries and regions in the world.China is the largest producer of potatoes,with an annual planting area of about 80 million mu and the total output ranking fourth,only secondary to corn,rice and wheat.The varieties currently used in production are bred through conventional cross breeding and directional improvement in 3 or 4 rounds with introduced germplasm,which highlights the problem of narrow genetic background of potatoes.The study aims to improve the utilization rate of potato germplasm resources and provide reference for the innovation of excellent potato varieties with 251 potato germplasms as associated populations.In the study significant SNP loci and candidate genes related to 7 main agronomic traits and 1 quality trait of potato are obtained by whole genome association analysis(GWAS).And gene function annotation was performed in GO,KEGG,Swiss-port,NR database with SNP(single nucleotide polymorphism)as a molecular marker,combined with the phenotypic data in eight environments within the recent two years the whole genome was re sequenced by the third generation high-throughput sequencing method.The main findings are as follows:1.3.15 Tb valid data are acquired by the re-sequence of 251 potato germplasm.The average valid data of each sample is 12.56 G,and the average GC content is 35.80%.The average comparison rate with the reference genome is 95.67%,the average sequencing depth is 15.26 X,and the average coverage is 95.60%.After filtering and screening,1,209,969 high-quality SNP loci are obtained distributed on 239 scaffolds.2.148(clear pedigree)materials are divided into 6 groups for structure analysis,among which Q value of 36 varieties is over 0.6,accounting for 24.3%;148 potato varieties are divided into 3 groups for cluster analysis,6 subgroups,the genetic relationship between some potato varieties has a certain geographical region,but it is not necessary;the genetic similarity coefficiency between varieties is between 0.784 and 0.958 with an average of 0.842.3.The number of main stems of yield-related traits is associated with a total of 7 SNP loci,which are scaffold NW＿006238930.1pos3430854/1943447,NW＿006239 327.1 pos 228762,NW＿006239326.1pos207474,NW＿006238928.1pos703333,N W＿0068.12391 27.1pos392935,NW＿006239127.1pos392935 and NW＿33700623912pos392935.19 candidate genes are obtained;the tubers per plant is related to 13 loci: N W＿006238927.1pos4457420/4492499,NW＿006238928.1pos570084,NW＿006239132.1pos 434606,NW＿006239332.1pos391731,NW＿006239532.1pos36992,NW＿006239127.1pos104350,NW＿006238927.1pos2321173,NW＿006238934.1pos3948491,NW＿006239133.1pos821510,NW＿006238927.1pos3645899,NW＿006239132.1pos415937,N W＿006239128.1 pos981618.29 candidate genes are obtained.4.Tuber traits are associated with a total of 23 SNP loci,of which 5 loci for skin color are scaffold NW＿0062 39526.1pos206766/144604,NW＿006238934.1pos83435/931481/ 458160,and 9 candidate genes are obtained;2 loci for flesh color a re NW＿00623933 0.1pos358708/336304,10 candidate genes are obtained;8 loci for th-e eye number are NW＿006238934.1pos868386/947615/1198187/3435390,NW＿006239133.1pos821510,NW＿006239526.1pos147024,NW＿00623 8934.1pos 813481/834358,13 candidate genes are obtained;6 sites for the eye depth,NW＿006238934.1pos3144590/9301/88731/9476 15/3708437,NW＿006239526.1pos 144821,9 candidate genes are obtained;2 sites for skin smoothness were NW＿006238927.1pos2800459,NW＿006239128.1pos1000076,6 candidate genes are obtained.5.The starch content of quality-related traits is associated with 5 SNP loci,Scaffold NW＿006238930.1pos73045/314345,NW＿006238928.1pos1028427,NW＿006238934.1pos1558500,NW＿006238932.1pos2306479 respectively,20 candidate genes are obtained. |
