燕麦全基因组SSR位点鉴定及多态性标记开发  

Identification of SSR Loci and Development of Polymorphic Markers in Whole Genome of Oat

作　　者：陈凯凌 武涛 徐逸群 高佳 张美俊[1,2] 李欣[1] 贾举庆[1,2] CHEN Kai-ling;WU Tao;XU Yi-qun;GAO Jia;ZHANG Mei-jun;LI Xin;JIA Ju-qing(College of Agriculture,Shanxi Agricultural University,Taigu 030801;Shanxi Agricultural University,National Laboratory of Minor Crops Germplasm Innovation and Molecular Breeding(in preparation),Taiyuan 030031)

机构地区：[1]山西农业大学农学院,太谷030801 [2]山西农业大学杂粮种质资源创新与分子育种国家实验室(筹),太原030031

出　　处：《生物技术通报》2024年第2期120-129,共10页Biotechnology Bulletin

基　　金：杂粮种质资源创新与分子育种国家实验室(筹)自主研发项目(202204010910001-26);山西省回国留学人员科研资助项目(2020-067)。

摘　　要：【目的】了解燕麦基因组SSR位点分布情况并开发燕麦全基因组SSR标记,为燕麦皮裸基因克隆、遗传图谱构建、群体多样性分析等提供科学的参考依据。【方法】利用已公布的“三分三”裸燕麦参考基因组,通过TBtools软件对燕麦全基因组的SSR位点进行检索并利用EXCEL和SPSS软件对检索数据分析其分布特征。根据检索结果设计引物,在构建的F_(2)遗传群体中小规模进行非变性聚丙烯酰胺凝胶电泳验证,并克隆测序其有效性与真实性。【结果】在燕麦基因组中,SSR数量众多,类型丰富。全基因组共检索到828138个SSR位点,SSR平均密度为78.16个/Mb,平均距离为12.90 kb。单、双、三核苷酸重复类型占主导优势。基元重复次数主要集中在5次和6次,A/T、AG/CT和AAC/GTT重复基元为优势基元。燕麦基因组SSR位点呈现中度多态性,长度变化范围为11-1587 bp。并由此开发设计52对多态性引物在试验材料中进行扩增验证,在构建的遗传群体中均具有多态性。【结论】在“三分三”裸燕麦参考基因组中开发SSR引物有效可行,可以用于后续进一步试验研究。【Objective】Due to the limited number of SSR markers developed in oat,it is difficult to meet the needs of functional gene mapping and polymorphism marker development in oat.【Method】Using the published reference genome,the SSR loci of the whole oat genome were retrieved by TBtools software,and their distribution characteristics were analyzed by Excel and SPSS software.【Result】The SSR was abundant and varied in oat genome.A total of 828138 SSR loci were identified in the whole genome,with an average density of 78.16 SSR/Mb and an average distance of 12.90 kb.Single,double and trinucleotide repeat types were dominant.The repetitions of the primitives were mainly 5 and 6,and the A/T,AG/CT and AAC/GTT repetitions were the dominant primitives.The SSR loci of oat genome showed moderate polymorphism,with length ranging from 11 to 1587 bp.Through the systematic identification and analysis of the whole oat gene SSR locus,52 pairs of polymorphic primers were developed and validated in the test material.【Conclusion】The development of SSR primers in the reference genome of“Sanfensan”naked oat is effective and feasible,and can be used for further experimental research.

关 键 词：燕麦 皮裸 SSR标记 引物开发 多态性 

分 类 号：S512.6[农业科学—作物学]