Development and characterization of genomic and expressed SSRs for levant cotton (Gossypium herbaceum L.)
Development and characterization of genomic and expressed SSRs for levant cotton (Gossypium herbaceum L.)
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DOI：
10.1007/s00122-011-1729-y
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发表时间：
2012-02-01
影响因子：
5.4
通讯作者：
Sawant, Samir V.
中科院分区：
文献类型：
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作者：
Jena, Satya Narayan;Srivastava, Anukool;Sawant, Samir V.
为了开发简单序列重复(SSR)标记，利用4个微卫星富集型基因组文库对草棉的CA(15)、GA(15)、AAG(8)和ATG(8)重复序列和5个草棉cDNA文库的转录组序列进行了分析。从重复序列丰富的基因组文库中筛选出428个唯一克隆，得到584个基因组SSR(GSSR)。此外，对8,900个SSR序列进行了99,780个非基因的转录组测序，共12,471个表达SSR。本研究将1,970个表达的SSR和263个gSSR添加到公共领域，用于棉花遗传研究。在4个棉花品种上对150个gSSR和50个表达的SSR进行检测时，68个gSSR和12个表达的SSR表现出多态性。将这200个SSR标记进一步应用于15个黎凡特棉花品种的遗传多样性分析。这是首次报道利用重复序列丰富的基因组文库和表达序列数据库开发草本植物微卫星标记。
Four microsatellite-enriched genomic libraries for CA(15), GA(15), AAG(8) and ATG(8) repeats and transcriptome sequences of five cDNA libraries of Gossypium herbaceum were explored to develop simple sequence repeat (SSR) markers. A total of 428 unique clones from repeat enriched genomic libraries were mined for 584 genomic SSRs (gSSRs). In addition, 99,780 unigenes from transcriptome sequencing were explored for 8,900 SSR containing sequences with 12,471 expressed SSRs. The present study adds 1,970 expressed SSRs and 263 gSSRs to the public domain for the use of genetic studies of cotton. When 150 gSSRs and 50 expressed SSRs were tested on a panel of four species of cotton, 68 gSSRs and 12 expressed SSRs revealed polymorphism. These 200 SSRs were further deployed on 15 genotypes of levant cotton for the genetic diversity assessment. This is the first report on the successful use of repeat enriched genomic library and expressed sequence database for microsatellite markers development in G. herbaceum.