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当前位置: 首页 > 文章 > 基于丹霞梧桐转录组数据的EST-SSR标记开发 植物遗传资源学报 2019 (5) 1325-1333
Position: Home > Articles > Characterization and Development of EST-SSR Markers from Transcriptome Datasets of Firmiana danxiaensis H.H.Hsue & H.S.Kiu Journal of Plant Genetic Resources 2019 (5) 1325-1333

基于丹霞梧桐转录组数据的EST-SSR标记开发

作  者：
武星彤;陈璐;王敏求;张原;李鑫玉;林雪莹;周宏;文亚峰
单  位：
中南林业科技大学风景园林学院
关键词：
丹霞梧桐;转录组;EST-SSR;多态性
摘  要：
以丹霞梧桐转录组序列为基础,开发丹霞梧桐EST-SSR标记位点,并利用其对丹霞梧桐群体进行遗传多样性分析,评价丹霞梧桐群体的遗传多样性水平,为丹霞梧桐的合理利用和保护提供依据。应用Primer 3.0、Gen Al Ex6.3、FSTAT和MS-tools等软件进行引物设计和相关遗传参数分析。17858个SSR位点分布于79920个unigene序列,SSR位点密度为1/4.78 kb。SSR重复基序中,三核苷酸(43.64%)为优势核苷酸,其次为四核苷酸(23.52%)和二核苷酸(15.54%)。三核苷酸和二核苷酸优势重复基序分别为AAG/CTT和AG/CT。以16个样本为材料,从设计的73对引物中共筛选出16对多态性EST-SSR引物,多态性信息含量(PIC)的平均值为0.546,所开发位点具有较高的多态性。主成分分析(PCA)表明,这些位点具有很好地鉴别不同地区样本,甚至单株的能力。3个群体的遗传多样性参数对比结果表明,丹霞梧桐群体具有中等程度的遗传多样性,其期望杂合度(He)的变化范围为0.550～0.605。地质、历史气候变化及人为干扰等因素可能是造成丹霞梧桐群体偏离哈代-温伯格平衡的主要原因。本研究所开发的EST-SSR多态性位点可为丹霞梧桐遗传结构分析和分子辅助育种等相关研究奠定良好基础。
译  名：
Characterization and Development of EST-SSR Markers from Transcriptome Datasets of Firmiana danxiaensis H.H.Hsue & H.S.Kiu
作  者：
WU Xing-tong;CHEN Lu;WANG Min-qiu;ZHANG Yuan;LI Xin-yu;LIN Xue-ying;ZHOU Hong;WEN Ya-feng;College of Landscape Architecture,Central South University of Forestry and Technology;Department of Wildlife Conservation of Shaoguan;
关键词：
Firmiana danxiaensis H.H.Hsue & H.S.Kiu;;transcriptome;;EST-SSR;;polymorphism
摘  要：
The microsatellite markers in Firmiana danxiaensis H.H.Hsue & H.S. Kiu were developed by taking use of the transcriptome dataset.These markers were subjected for analyzing the genetic diversity of extant populations to provide basis for rational utilization and the protection of Firmiana danxiaensis H.H.Hsue & H.S. Kiu. Primer 3.0,GenAlEx6.3,FSTAT and MS-tools were deployed to explore primers and analyze the genetic parameters.As a result,17858 SSRs were identified from 79920 unigenes with a frequency of 1/4.78 kb.Trinucleotide,tetranucleotide and dinucleotide accounted for 43.64%,23.52% and 15.54%,respectively.AAG/CTT and AG/CT were the most abundant repeat motif for trinucleotide and dinucleotide,respectively.Out of seventy-three primers that were tested in 16 genotypes,16 primers were polymorphic with an average value of polymorphic information content(PIC) 0.546.The principal component analysis(PCA) showed that these loci are efficient to identify individuals from different regions and each individuals.A moderate genetic diversity among three Firmiana danxiaensis H.H.Hsue & H.S. Kiu populations and the expected heterozygosity(He) varied from 0.550 to 0.605 were observed.The geology,historical climate change and human disturbance may be the main reasons for Firmiana danxiaensis H.H.Hsue & H.S. Kiu deviated from Hardy-Weinberg equilibrium.Taken together,these newly developed EST-SSR markers will lay foundation for unlocking the genetic structure and the marker-assisted breeding of Firmiana danxiaensis H.H.Hsue & H.S. Kiu.

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