Bioinformatic mining of EST-SSR loci in the Pacific oyster, Crassostrea gigas
Wang, Y; Ren, R; Yu, Z; carlzyu@scsio.ac.cn
2008
发表期刊ANIMAL GENETICS
ISSN0268-9146
卷号39期号:3页码:287-289
摘要A set of expressed sequence tag-simple sequence repeat (EST-SSR) markers of the Pacific oyster, Crassostrea gigas, was developed through bioinformatic mining of the GenBank public database. As of June 30, 2007, a total of 5132 EST sequences from GenBank were downloaded and screened for di-, tri- and tetra-nucleotide repeats, with criteria set at a minimum of 5, 4 and 4 repeats for the three categories of SSRs respectively. Seventeen polymorphic microsatellite markers were characterized. Allele numbers ranged from 3 to 10, and the observed and expected heterozygosity values varied from 0.125 to 0.770 and from 0.113 to 0.732 respectively. Eleven loci were at Hardy-Weinberg equilibrium (HWE); the other six loci showed significant departure from HWE (P < 0.01), suggesting possible presence of null alleles. Pairwise check of linkage disequilibrium (LD) indicated that 11 of 136 pairs of loci showed significant LD (P < 0.01), likely due to HWE present in single markers. Cross-species amplification was examined for five other Crassostrea species and reasonable results were obtained, promising usefulness of these markers in oyster genetics.
部门归属[Wang, Y.; Ren, R.; Yu, Z.] Chinese Acad Sci, S China Sea Inst Oceanol, Lab Marine Bioresource Sustainable Utilizat, Guangzhou 510301, Guangdong, Peoples R China
关键词Crassostrea Gigas Cross-species Amplification Est-ssr Microsatellite
学科领域Agriculture, Dairy & Animal Science ; Genetics & Heredity
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收录类别sci
资助项目LMB
WOS记录号WOS:000255475700011
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文献类型期刊论文
条目标识符http://ir.scsio.ac.cn/handle/344004/5002
专题中科院海洋生物资源可持续利用重点实验室
通讯作者carlzyu@scsio.ac.cn
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Wang, Y,Ren, R,Yu, Z,et al. Bioinformatic mining of EST-SSR loci in the Pacific oyster, Crassostrea gigas[J]. ANIMAL GENETICS,2008,39(3):287-289.
APA Wang, Y,Ren, R,Yu, Z,&carlzyu@scsio.ac.cn.(2008).Bioinformatic mining of EST-SSR loci in the Pacific oyster, Crassostrea gigas.ANIMAL GENETICS,39(3),287-289.
MLA Wang, Y,et al."Bioinformatic mining of EST-SSR loci in the Pacific oyster, Crassostrea gigas".ANIMAL GENETICS 39.3(2008):287-289.
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