Analysis of the Skin Transcriptome in Two Oujiang Color Varieties of Common Carp
文献类型：期刊论文
| 作者 | Wang, Chenghui1,2; Wachholtz, Michael2; Wang, Jun2; Liao, Xiaolin2,3,4; Lu, Guoqing2 |
| 刊名 | PLOS ONE
 |
| 出版日期 | 2014-03-06 |
| 卷号 | 9期号:3页码:8 |
| ISSN号 | 1932-6203 |
| DOI | 10.1371/journal.pone.0090074 |
| 英文摘要 | Background: Body color and coloration patterns are important phenotypic traits to maintain survival and reproduction activities. The Oujiang color varieties of common carp (Cyprinus carpio var. color), with a narrow distribution in Zhejiang Province of China and a history of aquaculture for over 1,200 years, consistently exhibit a variety of body color patterns. The molecular mechanism underlying diverse color patterns in these variants is unknown. To the practical end, it is essential to develop molecular markers that can distinguish different phenotypes and assist selective breeding. Methodology/Principal Findings: In this exploratory study, we conducted Roche 454 transcriptome sequencing of two pooled skin tissue samples of Oujiang common carp, which correspond to distinct color patterns, red with big black spots (RB) and whole white (WW), and a total of 737,525 sequence reads were generated. The reads obtained in this study were co-assembled jointly with common carp Roche 454 sequencing reads downloaded from NCBI SRA database, resulting in 43,923 isotigs and 546,676 singletons. Over 31 thousand (31,445; 71.6%) isotigs were found with significant BLAST matches (E<1e-10) to the nr protein database, which corresponds to 12,597 annotated zebrafish genes. A total of 70,947 isotigs and singletons (transcripts) were annotated with Gene Ontology, and 60,221 transcripts were found with corresponding EC numbers. Out of 145 zebrafish pigmentation genes, orthologs for 117 were recovered in Oujiang color carp transcriptome, including 18 found only among singletons. Our transcriptome analysis revealed over 52,902 SNPs in Oujiang common carp, and identified 63 SNP markers that are putatively unique either for RB or WW. Conclusions: The transcriptome of Oujiang color varieties of common carp obtained through this study, along with the pigmentation genes recovered and the color pattern-specific molecular markers developed, will facilitate future research on the molecular mechanism of color patterns and promote aquaculture of Oujiang color varieties of common carp through molecular marker assisted-selective breeding. |
| 资助项目 | Special Fund for Agro-Scientific Research in the Public Interest[200903045] ; National Natural Science Foundation of China[30972250] ; Shanghai University Knowledge Service Platform[ZF1206] |
| WOS研究方向 | Science & Technology - Other Topics |
| 语种 | 英语 |
| WOS记录号 | WOS:000332483600028 |
| 出版者 | PUBLIC LIBRARY SCIENCE |
| 源URL | [http://202.127.146.157/handle/2RYDP1HH/3959]  |
| 专题 | 中国科学院武汉植物园 |
| 通讯作者 | Wang, Chenghui |
| 作者单位 | 1.Shanghai Ocean Univ, Minist Agr, Key Lab Freshwater Fisheries Germplasm Resources, Shanghai, Peoples R China 2.Univ Nebraska, Dept Biol, Omaha, NE 68182 USA 3.Minist Water Resources, Key Lab Ecol Impacts Hydraul Projects & Restorat, Inst Hydroecol, Wuhan, Peoples R China 4.Chinese Acad Sci, Wuhan, Peoples R China |
| 推荐引用方式 GB/T 7714 | Wang, Chenghui,Wachholtz, Michael,Wang, Jun,et al. Analysis of the Skin Transcriptome in Two Oujiang Color Varieties of Common Carp[J]. PLOS ONE,2014,9(3):8. |
| APA | Wang, Chenghui,Wachholtz, Michael,Wang, Jun,Liao, Xiaolin,&Lu, Guoqing.(2014).Analysis of the Skin Transcriptome in Two Oujiang Color Varieties of Common Carp.PLOS ONE,9(3),8. |
| MLA | Wang, Chenghui,et al."Analysis of the Skin Transcriptome in Two Oujiang Color Varieties of Common Carp".PLOS ONE 9.3(2014):8. |
入库方式： OAI收割
来源：武汉植物园
浏览0
下载0
收藏0
其他版本
除非特别说明，本系统中所有内容都受版权保护，并保留所有权利。