脊尾白虾线粒体基因组SNP位点的筛选及其特征分析  

Screening and Characteristic Analysis of Mitochondrial Genome SNPs in Ridgetail White Prawn Exopalamon carinicauda

作　　者：朱佶轩 戴琴 段健诚 高娜 高威 阎斌伦 高焕 ZHU Jixuan;DAI Qin;DUAN Jiancheng;GAO Na;GAO Wei;YAN Binlun;GAO Huan(Jiangsu Key Laboratory of Marine Biotechnology, Jiangsu Key Laboratory of Marine Bioresources and Environment, Jiangsu Ocean University, Lianyungang 222005, China;Co-Innovation Center of Jiangsu Marine Bio-Industry Technology, Lianyungang 222005, China;The Jiangsu Provincial Infrastructure for Conservation and Utilization of Agricultural Germplasm, Nanjing 210014, China)

机构地区：[1]江苏海洋大学,江苏省海洋生物技术重点实验室,江苏省海洋生物资源与生态环境重点实验室,江苏连云港222005 [2]江苏省海洋生物产业技术协同创新中心,江苏连云港222005 [3]江苏省农业种质资源保护与利用平台,江苏南京210014

出　　处：《水产科学》2021年第3期387-393,共7页Fisheries Science

基　　金：江苏省高等学校自然科学研究重大项目(17KJA240001);江苏省优势学科建设工程项目(PAPD);江苏省“六大人才高峰”创新人才团队项目(2016-HYGC-CXTD-004);江苏省2018年度普通高校研究生科研创新计划项目(KYCX18-2571).

摘　　要：基于mtDNA全序列设计109对引物,利用高分辨率溶解曲线技术,对采自江苏省连云港和南通吕四港沿海地区养殖池塘中平均体长(5.23±0.33)cm的脊尾白虾潜在的单核苷酸多态性(SNP)位点进行筛查,以获得脊尾白虾线粒体基因组(mtDNA)上的SNP位点。结果显示,在109对引物中,有80对引物具有特异性扩增结果;高分辨率熔解曲线(HRM)检测分析表明,80对引物中有9对引物的扩增产物中含有SNP位点,共包含16个SNP位点。统计结果显示,脊尾白虾线粒体基因组中的SNP位点均为单倍型,分布频率为0.10/100 bp,其中转换突变(G/A和C/T)占全部SNP位点的87.5%,颠换突变(A/T)占12.5%,未出现插入、缺失等突变形式;定位分析发现,获得的16个SNP位点分布在脊尾白虾mtDNA的COX1、cob、COX2、tRNAAsp、nad1、nad4、nad57个区域,在COX1基因区域中SNP位点最多,有5个SNP位点,其次是在cob区域中有3个SNP位点;进一步比对SNP位点编码的对应氨基酸,结果显示同义SNP位点占总个数的43.7%,而非同义SNP位点相对较多,占56.3%,可能会导致蛋白质的性质和功能发生变化。本研究筛查出的SNP位点,将为进一步开展脊尾白虾的系谱鉴定和遗传多样性分析等工作提供帮助。The potential SNP sites of ridgetail white prawn Exopalaemon carinicauda were screened to obtain single nucleotide polymorphisms(SNP)sites in the mitochondrial genome(mtDNA)of ridgetail white prawn with average body length of(5.23±0.33)cm collected from the culture ponds in coastal areas of Lianyungang and Nantong,Jiangsu Province,using high-resolution melting curve(HRM)technology by 109 pairs of primers designed based on the full sequence of mtDNA.HRM analysis showed that the amplification products of 9 pairs of primers in 80 pairs contained SNP sites,which contained 16 SNPs in total.Statistical results showed that the SNP sites in the mitochondrial genome of ridgetail white prawn were haplotypes with a frequency of 0.10/100 bp,among which the transformation mutations(G/A and C/T)accounted for 87.5%of the total SNPs,and the translation mutations(A/T)accounted for 12.5%,without insertion,deletion and other mutations.Location analysis revealed that the 16 SNPs obtained were distributed in COX1,cob,COX2,tRNAAsp,nad1,nad4,and nad5.In the 7 regions,there was the maximal SNPs in the COX1 gene region,with 5 SNP sites,followed by 3 SNP sites in the cob region.Moreover,further comparison of the corresponding amino acids encoded by SNPs showed that the synonymous SNP accounts for 43.7%of the total number,while the non synonymous SNP accounts for 56.3%,which may lead to changes in the properties and functions of proteins.The screening of SNPs in this study will be helpful for the further work of pedigree identification and genetic diversity analysis of ridgetail white prawn.

关 键 词：脊尾白虾 SNP位点筛选 高分辨率熔解曲线 线粒体基因组 

分 类 号：Q78[生物学—分子生物学]