文献类型：期刊文献

中文题名：基于RAD高通量测序探讨中国85种杜鹃花属植物的分类

英文题名：Phylogenomic Analysis of 85 Rhododendron Species in China Based on RAD Sequencing

作者：李云飞[1,2,3] 李世明[1,2,3] 金鑫[1,2] 程书[2,3] 王松波[2,3] 侯军亮[1,2,3] 刘家劲[1,2,3,4] 段肖霞[1,2,3,4] 马宏[5] 马永鹏[6] 张耕耘[1,2,3,4]

第一作者：李云飞

机构：[1]深圳华大生命科学研究院,广东深圳518083;[2]深圳市华大农业应用研究院,广东深圳518120;[3]农业基因组学国家重点实验室,广东深圳518083;[4]农业部农业基因组学重点实验室,广东深圳518083;[5]中国林业科学研究院资源昆虫研究所,云南昆明650224;[6]云南省极小种群野生植物综合保护重点实验室,中国科学院昆明植物研究所,云南昆明650201

年份：2019

卷号：32

期号：3

起止页码：1-8

中文期刊名：林业科学研究

外文期刊名：Forest Research

收录：CSTPCD;;Scopus;北大核心:【北大核心2017】；CSCD:【CSCD2019_2020】；

基金：深圳市科技计划项目(JCYJ20150831201123287);深圳作物分子设计聚合育种工程实验室提升项目(深发改[2015]946号);广东省农作物核心资源开发应用企业重点实验室(2011A091000047)

语种：中文

中文关键词：RAD测序;杜鹃花;单核苷酸多态性;资源利用

外文关键词：RAD-seq;Rhododendron;SNPs;resources utilization

分类号：S718.3

摘要：[目的]探讨RAD-seq技术在中国杜鹃花复杂类群分类与物种界定方面的优势。[方法]本研究对杜鹃花属85个种进行了RAD-seq测序,评估了数据的基本特征;同时,以马缨杜鹃基因组作为参考,获得高质量SNP位点,并进一步通过ADMIXTURE、PCA、GCTA及FastTree软件对其进行基因分型、聚类与系统树构建。[结果]本研究中85份材料比对至马缨杜鹃的平均比对率87.52%,在参考基因组上的平均覆盖度为5.21%,最终获得了620371个SNP位点。基于PCA、Structure聚类及系统发育树的分析结果,本研究支持目前在亚属水平(杜鹃亚属、常绿杜鹃亚属、马银花亚属、羊踯躅亚属、映山红亚属和长蕊杜鹃亚属)的形态学分类处理,并突出了鳞片在杜鹃属植物分类中的重要作用。[结论]RAD-seq数据产生的大量SNP位点可区分杜鹃花亚属和组内的大部分物种,说明其在复杂类群分类与物种界定方面具有可行性。
[Objective] This study aims at examining the application of RAD-seq in classifications of the genus Rhododendron.[Method] 85 species of Rhododendron were sequenced using dd-RAD and the basic characteristics data obtained were evaluated.Then,the whole genome sequence of Rh.delavayi were used as the reference genome and the SNP loci were effectively mapped and obtained.These SNP loci were used to construct the phylogenomic relationship among groups employed by ADMIXTURE,PCA,GCTA and FastTree software.[Result] On average,87.52% of reads were mapped to the Rh.delavayi genome and the average coverage to the genome was 5.21%.After cleaning and filtering these data,a total of 620 371 SNPs were obtained.Preliminary analysis of these observed SNP loci by ADMIXTURE,PCA and FastTree revealed that the species grouping was corresponding to subgenus division from Floral of China,though different subsections with subgenus were not clearly differentiated.Moreover,the scale underside leaf was emphasized as the key character to distinguishing subgenus with genus Rhododendron.[Conclusion] The study proves the potential application of RAD-seq in classifications of the large genus Rhododendron and the results will provide insights into resources exploration and utilization of Rhododendrons in China.