菰核基因组SSR引物的开发及其在稻族植物中的通用性检测  

Development and transferability analysis of SSR primers in wild rice Zizania latifolia(Poaceae)

作　　者：Wagutu Godfrey Kinyori Njeri Henry Kariuki 樊香绒[1,4,5] 陈媛媛 Wagutu Godfrey Kinyori;Njeri Henry Kariuki;Fan Xiang-Rong;Chen Yuan-Yuan(Key Laboratory of Aquatic Botany and Watershed Ecology,Wuhan Botanical Garden,Chinese Academy of Sciences,Wuhan 430074,China;University of Chinese Academy of Sciences,Beijing 100049,China;Sino-Africa Joint Research Center,Chinese Academy of Sciences,Wuhan 430074,China;College of Science,Tibet University,Lhasa 850000,China;Research Center for Ecology and Environment of Qinghai-Tibetan Plateau,Tibet University,Lhasa 850000,China)

机构地区：[1]中国科学院武汉植物园水生植物与流域生态重点实验室,武汉430074 [2]中国科学院大学,北京100049 [3]中国科学院中非联合研究中心,武汉430074 [4]西藏大学理学院,拉萨850000 [5]西藏大学青藏高原生态环境研究中心,拉萨850000

出　　处：《植物科学学报》2020年第1期105-111,共7页Plant Science Journal

基　　金：中国科学院武汉植物园科研骨干人才计划(Y855291B01)。

摘　　要：利用数据库中已有的部分菰(Zizania latifolia Turcz.)核基因组序列,采用in silico方法开发其SSR引物,并选取我国不同纬度的5个菰野生种群,对合成的64对引物进行筛选。结果显示:64对引物中有15对至少在一个种群中表现出多态性;共发现84个等位基因,每个位点平均有5.6个等位基因。在5个种群中,观察杂合度为0.000~0.941,预期杂合度为0.072~0.625。种群间的基因流(Nm=0.576)水平较低导致了种群间表现出较高的遗传分化(FST=0.432)。进一步对稻族其他物种的通用性检测发现,15个多态位点中,有8个位点在亚洲栽培稻(Oryza sativa L.)中得到扩增,有9个位点在普通野生稻(O.rufipogon Griff.)中得到扩增。Zizania latifolia Turcz.,also known as Manchurian wild rice,is a member of the tribe Oryzeae,and a major wild ecological and genetic resource.In this study,nuclear SSR primers were developed in silico based on part of the existing genome sequences of Z.latifolia.Five wild populations of the species from different regions across China were selected to screen 64 developed primers.Results showed that 15 primer pairs were polymorphic in at least one population.In addition,we identified a total of 84 alleles,with an average of 5.6 alleles per locus.For the different populations,the level of observed and expected heterozygosity ranged from 0.000 to 0.941 and 0.072 to 0.625,respectively.Relatively high genetic differentiation between populations(FST=0.432)was found,as evidenced by low levels of gene flow(Nm=0.576)among populations.These newly developed markers will facilitate further study of the level and pattern of genetic diversity,and the development of germplasm resource conservation strategies for natural extant Z.latifolia populations.In the cross-species transferability test,eight and nine of the 15 loci were successfully amplified in Oryza sativa L.and O.rufipogon Griff.,respectively.

关 键 词：微卫星标记 参照基因组 简单重复序列(SSR) 野生稻 菰 

分 类 号：Q78[生物学—分子生物学]