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题名: Microsatellite Development for an Endangered Bream Megalobrama pellegrini (Teleostei, Cyprinidae) Using 454 Sequencing
作者: Wang, Jinjin1; Yu, Xiaomu; Zhao, Kai3; Zhang, Yaoguang1; Tong, Jingou; Peng, Zuogang1
通讯作者: Tong, JG (reprint author), Chinese Acad Sci, Inst Hydrobiol, State Key Lab Freshwater Ecol & Biotechnol, Wuhan 430072, Peoples R China.
关键词: high-throughput microsatellite isolation ; next-generation sequencing ; breams ; cross-amplification
刊名: INTERNATIONAL JOURNAL OF MOLECULAR SCIENCES
发表日期: 2012-03-01
DOI: 10.3390/ijms13033009
卷: 13, 期:3, 页:3009-3021
收录类别: SCI
文章类型: Article
部门归属: [Wang, Jinjin; Zhang, Yaoguang; Peng, Zuogang] Southwest Univ, Key Lab Aquat Sci Chongqing, Sch Life Sci, Key Lab Freshwater Fish Reprod & Dev,Minist Educ, Chongqing 400715, Peoples R China; Chinese Acad Sci, Inst Hydrobiol, State Key Lab Freshwater Ecol & Biotechnol, Wuhan 430072, Peoples R China; [Zhao, Kai] Chinese Acad Sci, NW Plateau Inst Biol, Key Lab Adaptat & Evolut Plateau Biota AEPB, Xining 810001, Peoples R China
WOS标题词: Science & Technology ; Physical Sciences
资助者: National Natural Science Foundation of China[30970341, 31071903]; Chongqing Natural Science Foundation (CSTC)[2010BB1015]; Fundamental Research Funds for the Central Universities[XDJK2011B010]; Special Fund for Agro-scientific Research in the Public Interest of China[200903048-08, 200903045]
类目[WOS]: Chemistry, Multidisciplinary
研究领域[WOS]: Chemistry
摘要: Megalobrama pellegrini is an endemic fish species found in the upper Yangtze River basin in China. This species has become endangered due to the construction of the Three Gorges Dam and overfishing. However, the available genetic data for this species is limited. Here, we developed 26 polymorphic microsatellite markers from the M. pellegrini genome using next-generation sequencing techniques. A total of 257,497 raw reads were obtained from a quarter-plate run on 454 GS-FLX titanium platforms and 49,811 unique sequences were generated with an average length of 404 bp; 24,522 (49.2%) sequences contained microsatellite repeats. Of the 53 loci screened, 33 were amplified successfully and 26 were polymorphic. The genetic diversity in M. pellegrini was moderate, with an average of 3.08 alleles per locus, and the mean observed and expected heterozygosity were 0.47 and 0.51, respectively. In addition, we tested cross-species amplification for all 33 loci in four additional breams: M. amblycephala, M. skolkovii, M. terminalis, and Sinibrama wui. The cross-species amplification showed a significant high level of transferability (79%-97%), which might be due to their dramatically close genetic relationships. The polymorphic microsatellites developed in the current study will not only contribute to further conservation genetic studies and parentage analyses of this endangered species, but also facilitate future work on the other closely related species.
英文摘要: Megalobrama pellegrini is an endemic fish species found in the upper Yangtze River basin in China. This species has become endangered due to the construction of the Three Gorges Dam and overfishing. However, the available genetic data for this species is limited. Here, we developed 26 polymorphic microsatellite markers from the M. pellegrini genome using next-generation sequencing techniques. A total of 257,497 raw reads were obtained from a quarter-plate run on 454 GS-FLX titanium platforms and 49,811 unique sequences were generated with an average length of 404 bp; 24,522 (49.2%) sequences contained microsatellite repeats. Of the 53 loci screened, 33 were amplified successfully and 26 were polymorphic. The genetic diversity in M. pellegrini was moderate, with an average of 3.08 alleles per locus, and the mean observed and expected heterozygosity were 0.47 and 0.51, respectively. In addition, we tested cross-species amplification for all 33 loci in four additional breams: M. amblycephala, M. skolkovii, M. terminalis, and Sinibrama wui. The cross-species amplification showed a significant high level of transferability (79%-97%), which might be due to their dramatically close genetic relationships. The polymorphic microsatellites developed in the current study will not only contribute to further conservation genetic studies and parentage analyses of this endangered species, but also facilitate future work on the other closely related species.
关键词[WOS]: POLYMORPHIC MICROSATELLITES ; LOCI ; CARP ; TECHNOLOGY ; LIBRARIES ; SOFTWARE ; MARKERS
语种: 英语
WOS记录号: WOS:000302174500031
ISSN号: 1661-6596
Citation statistics:
内容类型: 期刊论文
URI标识: http://ir.ihb.ac.cn/handle/342005/16949
Appears in Collections:鱼类生物学及渔业生物技术研究中心_期刊论文

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作者单位: 1.Southwest Univ, Key Lab Aquat Sci Chongqing, Sch Life Sci, Key Lab Freshwater Fish Reprod & Dev,Minist Educ, Chongqing 400715, Peoples R China
2.Chinese Acad Sci, Inst Hydrobiol, State Key Lab Freshwater Ecol & Biotechnol, Wuhan 430072, Peoples R China
3.Chinese Acad Sci, NW Plateau Inst Biol, Key Lab Adaptat & Evolut Plateau Biota AEPB, Xining 810001, Peoples R China

Recommended Citation:
Wang, Jinjin; Yu, Xiaomu; Zhao, Kai; Zhang, Yaoguang; Tong, Jingou; Peng, Zuogang.Microsatellite Development for an Endangered Bream Megalobrama pellegrini (Teleostei, Cyprinidae) Using 454 Sequencing,INTERNATIONAL JOURNAL OF MOLECULAR SCIENCES,2012,13(3):3009-3021
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