基于全基因组重测序SNP标记的148份马铃薯种质遗传多样性分析
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国家马铃薯产业技术体系(CARS09ES03);


Analysis of Genetic Diversity of 148 Potato Germplasm Based on SNP Markers from Whole Genome Resequencing
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    摘要:

    为了解148份国内外四倍体马铃薯普通栽培种的遗传背景和亲缘关系,该研究通过第三代高通量测序手段进行全基因组重测序,以SNP为分子标记、遗传相似系数为指标,结合系谱信息,利用群体结构与聚类分析相结合的方法,分析该群体遗传多样性。结果表明:(1)通过有效过滤筛选后获得1 209 969个高质量SNP位点,明确定位在染色体水平上的SNP位点为1 192 472个,占比98.55%;除11号染色体没有位点分布外,5号染色体分布位点最多,7号染色体最少。(2)各品种间遗传相似系数在0.784~0.958之间,平均为0.842,且主要集中于0.800~0.880(有10 604个),占97.5%。(3)群体结构分析显示,将148份材料分为6个群组,Q值>0.6的品种有36个,占比24.3%,遗传背景较单一的品种中,华北区育成品种有16个占44.4 %,国外品种有13个占36.1%,二者共占80.5%,说明华北区育成品种及国外品种的遗传组分相对单一而且比例高于其他区域品种。(4)聚类分析结果表明148份马铃薯品种被划分为3个类群,‘中薯系列’、‘陇薯系列’及‘冀张薯系列’品种聚在一起有着一定的地理区域性,其他不同地理来源的马铃薯品种相互交错分布,说明育成区域的差别与亲缘关系并无必然联系,同时也说明各育种单位相互引种频繁,新品种选育过程中存在基因交流情况。群体结构分析与聚类分析分群结果基本吻合,相互验证。研究认为,马铃薯绝大部分普通栽培种品种间遗传相似性很高,遗传背景不够丰富,在育种中亟待引入新型种质,拓宽遗传基础。

    Abstract:

    In order to understand the genetic background and genetic relationship of 148 S. tuberosum of tetraploid potato at home and abroad, the whole genome was resequenced through the thirdgeneration highthroughput sequencing method. Using SNP as molecular markers, genetic similarity coefficient as indicator and pedigree information, we analyzed the genetic diversity of the population by using a combination of population structure and cluster analysis. The results showed that: (1) 1 209 969 highquality SNP loci were obtained after effective filtering and screening. The number of SNP loci clearly located at the chromosome level was 1 192 472, accounting for 98.55%. Except for chromosome 11, which has no loci distribution, chromosome 5 has the most, Chromosome 7 is the least. (2) The genetic similarity coefficients among various breeds ranged from 0.784 to 0.958, with an average of 0.842, mainly concentrated in the range of 0.800 to 0.880, with 10 604, accounting for 97.5%. (3) The structure analysis showed that 148 materials were divided into 6 groups, 36 varieties with Q value> 0.6, accounting for 24.3%. Among varieties with a relatively single genetic background, 16 varieties bred in North China accounted for 44.4%. 13 foreign varieties accounted for 36.1%, and the two together accounted for 80.5%, indicating that the genetic components of bred varieties in North China and foreign varieties have a higher percentage of genetic components than other regional varieties. (4) The results of cluster analysis showed that 148 potato varieties were divided into 3 groups. The varieties of ‘Zhongshu Series’, ‘Longshu Series’ and ‘Jizhangshu Series’ clustered together have a certain geographic region, and other varieties of different geographic origin. The interlaced distribution of potato varieties shows that the differences in breeding areas are not necessarily related to genetic relationships. Breeding units frequently introduce each other, and there are gene exchanges between different areas during the selection and breeding of new varieties. The results of structure analysis and cluster analysis are basically consistent and mutually verify. Studies have shown that most S. tuberosum have a high genetic similarity, and the genetic background is not rich enough. It is urgent to introduce new germplasm in breeding to broaden the genetic basis.

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韩志刚,郝文胜,谢 锐,等.基于全基因组重测序SNP标记的148份马铃薯种质遗传多样性分析[J].西北植物学报,2021,41(8):1302-1314

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  • 在线发布日期: 2021-09-10
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