文章摘要
罗氏沼虾SNP标记筛选及不同群体遗传多样性分析
Genetic diversity analysis of SNP markers in different genetic generations and populations of Macrobrachium rosenbergii
投稿时间:2019-04-11  修订日期:2019-11-05
DOI:
中文关键词: 罗氏沼虾  SNP  直接测序法  遗传多样性
英文关键词: Macrobrachium rosenbergii  SNP  direct sequencing  genetic diversity
基金项目:上海市虾类产业技术体系建设项目( 沪农科产字[2014]第5 号)
作者单位E-mail
周晓敏 水产科学国家级实验教学示范中心上海海洋大学 18363850215@163.com 
戴习林 水产科学国家级实验教学示范中心上海海洋大学 xldai@shou.edu.cn 
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中文摘要:
      利用罗氏沼虾性腺组织转录组测序结果,参考NCBI数据库,选取60个SNP位点,以马来西亚野生群体(MW)为样本采用直接测序技术进行位点多态性检测,得到25 个(41.7%)具有二等位基因位点。并对罗氏沼虾上海(SH)、浙江(ZJ)、马来西亚养殖群体(MF)、生长快品系选育群体(BG)及MW群体五个群体的150尾个体进行遗传多样性分析,其观测杂合度Ho和期望杂合度He的分布范围分别为0.18~0.30和0.28~0.37,平均多态信息含量值依次为:0.29、0.24、0.21、0.26、0.33,表现为中低等多态水平;群体间的遗传相似性系数和遗传距离变化范围分别为0.659~0.968、0.032~0.417,MF群体和BG群体遗传相似系数最小、遗传距离最大,SH群体和ZJ群体遗传相似系数最大、遗传距离最小;遗传分化指数和基因流的范围分别为0.045-0.363和0.440-5.293,MF群体和MW群体之间出现最高值,SH群体和ZJ群体出现最低值,SH群体和ZJ群体基因流最高,MF群体和MW群体最低;AMOVA分子方差分析显示,遗传变异主要来源于群体内,群体间的变异为26.33%。五个群体近交系数介于0.151~0.342之间,三个养殖群体的平均近交系数均高于野生群体,对25个位点在五个群体中的基因型统计分析,有9个位点处BG群体的基因型与其它三个养殖群体基因型分离方向相反,有14个位点处三个养殖群体较MW群体,杂合个体频数普遍降低。研究结果为进一步开展罗氏沼虾遗传育种研究及保护政策的制定提供了参考。
英文摘要:
      After high-throughput sequencing of tissue samples from Malaysian wild (MW) giant freshwater prawn (Macrobrachium rosenbergii), twenty-five identified single nucleotide polymorphisms (SNPs) were selected to be the markers for genetic diversity analysis. Additionally, SNP analysis was performed to investigate the genetic diversity of five prawn groups: Shanghai cultured group (SH), Zhejiang cultured group (ZJ), Malaysia cultured group (MF), Malaysia wild group (MW) and breeding-growth strain group (BG). The expected heterozygos (He) and observed heterozygosity (Ho) of the genetic diversity analysis were 0.28-0.37 and 0.18-0.30 respectively, and the average polymorphic information content values of five prawn groups were 0.29, 0.24, 0.21, 0.33 and 0.26, respectively. The results of the present study indicated that the polymorphism of five prawn groups wasSat an intermediate level. The minimal value of genetic similarity coefficient as well as maximal genetic distance was detected between MF and BG groups, on the contrary, the SH and ZJ groups showed the highest similarity coefficient and least genetic distance. Furthermore, the highest value of geneticSdifferentiationScoefficient and least gene flow were simultaneously observed between MF and MW groups. The least differentiationScoefficient and the highestSgene flow were detected between SH and ZJ groups. AMOVA estimated the variation of 26.33% between groups. The inbreeding coefficient was between 0.151 and 0.342. The average inbreeding coefficient of the three cultured populations was higher than that of the MW group. At 9 out of the 25 SNP loci in five groups, the genotype analysis of the BG group is contrary to the other four groups. What’s more, at 14 out of 25 SNPs, the number of heterozygous individuals is generally decreased in three cultured groups compared with the MW group. The findings of the present study provide a novel insight into the molecular basis of genetic breeding of M. rosenbergii through the specific SNPs.
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