Microsatellite markers from tea plant expressed sequence tags (ESTs) and their applicability for cross-species/genera amplification and genetic mapping

文献类型： 外文期刊

第一作者： Ma, Jian-Qiang

作者： Ma, Jian-Qiang;Ma, Chun-Lei;Yao, Ming-Zhe;Jin, Ji-Qiang;Wang, Zhi-Lan;Wang, Xin-Chao;Chen, Liang

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关键词： Tea plant;EST-SSR;Transferability;Genetic mapping

期刊名称：SCIENTIA HORTICULTURAE （ 影响因子：3.463； 五年影响因子：3.672 ）

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收录情况： SCI

摘要： Bioinformatic mining of EST datasets is an efficient and economical method for developing functional microsatellite markers. The aim of this work is to generate new tea plant EST-SSR markers and to evaluate their potentials for cross-species/genera amplification and in particular genetic linkage mapping. A total collection of 8008 untapped tea plant ESTs were retrieved from GenBank and then clustered into 2982 non-redundant unique sequences, in which 561 microsatellites were identified. Of these SSRs, the di-nucleotide repeats were the most common repeat types (255, 45.5%), then followed by tri- (18.9%), hexa- (14.3%), penta- (13.5%), tetra- (5.3%), hepta- (2.1%), octa- (0.2%), and deca-nucleotide repeats (0.2%). AC/CF and AGA/TCT predominated in dimeric and trimeric repeat motifs, respectively. BLASTX homology searches found that 319 SSR-containing ESTs had significant Arabidopsis protein hits (E-value < 1.00E-05). In total, a set of 97 primer pairs was successfully designed for marker development and validation. Finally, fifty-four primers yielded repeatable and distinct amplification products among 21 tea plant genotypes, however, only 30 loci were polymorphic with an average allele number of 3.4/locus (range: 2-6 alleles/locus). Cross-amplification showed that 87% (26/30) primers could yield scorable products in at least one of nineteen Theaceae species. The transferability ranged from 7 to 77% with a mean of 30%. Furthermore, twenty-five SSR loci were polymorphic for the parents of a pseudo-testcross mapping population of tea plant, indicating they could be utilized for genetic linkage mapping. These novel informative EST-SSR markers will be a useful addition to genetic analysis and molecular breeding programs in tea plant and its related species. (C) 2011 Elsevier B.V. All rights reserved.

分类号： S6

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