Genome-wide survey and analysis of microsatellites in the Pacific oyster genome: abundance, distribution, and potential for marker development
文献类型：期刊论文
| 作者 | Wang Jiafeng1,2; Qi Haigang1; Li Li1; Zhang Guofan1 |
| 刊名 | CHINESE JOURNAL OF OCEANOLOGY AND LIMNOLOGY
 |
| 出版日期 | 2014 |
| 卷号 | 32期号:1页码:8-21 |
| 关键词 | microsatellites genome Pacific oyster Crassostrea gigas |
| 通讯作者 | Qi, HG (reprint author), Chinese Acad Sci, Inst Oceanol, Qingdao 266071, Peoples R China. |
| 英文摘要 | Microsatellites are a ubiquitous component of the eukaryote genome and constitute one of the most popular sources of molecular markers for genetic studies. However, no data are currently available regarding microsatellites across the entire genome in oysters, despite their importance to the aquaculture industry. We present the first genome-wide investigation of microsatellites in the Pacific oyster Crassostrea gigas by analysis of the complete genome, resequencing, and expression data. The Pacific oyster genome is rich in microsatellites. A total of 604 653 repeats were identified, in average of one locus per 815 base pairs (bp). A total of 12 836 genes had coding repeats, and 7 332 were expressed normally, including genes with a wide range of molecular functions. Compared with 20 different species of animals, microsatellites in the oyster genome typically exhibited 1) an intermediate overall frequency; 2) relatively uniform contents of (A)n and (C)n repeats and abundant long (C)n repeats (a parts per thousand yen24 bp); 3) large average length of (AG)n repeats; and 4) scarcity of trinucleotide repeats. The microsatellite-flanking regions exhibited a high degree of polymorphism with a heterozygosity rate of around 2.0%, but there was no correlation between heterozygosity and microsatellite abundance. A total of 19 462 polymorphic microsatellites were discovered, and dinucleotide repeats were the most active, with over 26% of loci found to harbor allelic variations. In all, 7 451 loci with high potential for marker development were identified. Better knowledge of the microsatellites in the oyster genome will provide information for the future design of a wide range of molecular markers and contribute to further advancements in the field of oyster genetics, particularly for molecular-based selection and breeding. |
| 学科主题 | Marine & Freshwater Biology; Oceanography |
| 收录类别 | SCI |
| 语种 | 英语 |
| WOS记录号 | WOS:000332003500002 |
| 源URL | [http://ir.qdio.ac.cn/handle/337002/24217]  |
| 专题 | 海洋研究所_海洋生物技术研发中心 |
| 作者单位 | 1.Chinese Acad Sci, Inst Oceanol, Qingdao 266071, Peoples R China 2.Univ Chinese Acad Sci, Beijing 100049, Peoples R China |
| 推荐引用方式 GB/T 7714 | Wang Jiafeng,Qi Haigang,Li Li,et al. Genome-wide survey and analysis of microsatellites in the Pacific oyster genome: abundance, distribution, and potential for marker development[J]. CHINESE JOURNAL OF OCEANOLOGY AND LIMNOLOGY,2014,32(1):8-21. |
| APA | Wang Jiafeng,Qi Haigang,Li Li,&Zhang Guofan.(2014).Genome-wide survey and analysis of microsatellites in the Pacific oyster genome: abundance, distribution, and potential for marker development.CHINESE JOURNAL OF OCEANOLOGY AND LIMNOLOGY,32(1),8-21. |
| MLA | Wang Jiafeng,et al."Genome-wide survey and analysis of microsatellites in the Pacific oyster genome: abundance, distribution, and potential for marker development".CHINESE JOURNAL OF OCEANOLOGY AND LIMNOLOGY 32.1(2014):8-21. |
入库方式： OAI收割
来源：海洋研究所
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