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茶树EST-SNP分布特征及标记开发
引用本文:王丽鸳,张成才,成浩,韦康. 茶树EST-SNP分布特征及标记开发[J]. 茶叶科学, 2012, 32(4): 369-376. DOI: 10.13305/j.cnki.jts.2012.04.014
作者姓名:王丽鸳  张成才  成浩  韦康
作者单位:中国农业科学院茶叶研究所,国家茶树改良中心,浙江 杭州 310008
基金项目:现代农业产业技术体系建设专项资金,浙江省自然科学基金,浙江省茶产业技术创新战略联盟专项资金
摘    要:对NCBI网上公开的12757条茶树ESTs序列进行聚类,成功构建了茶树的独立基因(Unigene)数据库,发现茶树的EST序列冗余率约为68.2%。初步建立了茶树EST-SNP标记开发体系,明确了茶树EST中SNP的分布规律,茶树编码区的SNP发生频率约为0.58%,平均200bp就有1个SNP位点,并进一步推算出茶树基因组DNA序列的杂合率约为0.38%,平均300个碱基就可能出现1个杂合位点。从237个多基因聚类簇中发现了818个SNP候选位点,设计了25对SNP引物进行DNA重测序验证,发现EST-SNP候选位点的多态检出率为75%。

关 键 词:茶树  表达序列标签  单核苷酸序列多态性  
收稿时间:2011-11-02

Characterization of EST-derived SNPs and Development of SNP-markers in Tea (Camellia sinensis)
WANG Li-yuan , ZHANG Cheng-cai , CHENG Hao , WEI Kang. Characterization of EST-derived SNPs and Development of SNP-markers in Tea (Camellia sinensis)[J]. Journal of Tea Science, 2012, 32(4): 369-376. DOI: 10.13305/j.cnki.jts.2012.04.014
Authors:WANG Li-yuan    ZHANG Cheng-cai    CHENG Hao    WEI Kang
Affiliation:Tea Research Institute, Chinese Academy of Agricultural Sciences; National Center for Tea Improvement, Hangzhou 310008, China
Abstract:By clustering the 12 757 ESTs of tea downloaded from NCBI,a unigene database of tea was successfully built.It was found that the redundancy rate for ESTs from tea was approximately 68.2%.An EST-SNP exploiting system for tea was established preliminarily.The SNP distribution was identified.The occurrence frequency for coding region SNP in tea was appropriately 0.58%.It meant that there was average one SNP in every 200 bp of tea ESTs.Furthermore,the hybrid rate for tea genome was deduced to be 0.38%,averagely one hybrid DNA site per 300 bp.Totally 818 candidated SNP were exploited from 237 multigene clusters.Then 25 pairs of SNP primers were designed and 75% of these sites were validated to be polymorphism by DNA sequencing.
Keywords:tea plant  Camellia sinensis  EST  SNP
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