Transcriptomics Analysis of Crassostrea hongkongensis for the Discovery of Reproduction-Related Genes
Tong, Ying1; Zhang, Yang1; Huang, Jiaomei1; Xiao, Shu1; Zhang, Yuehuan1; Li, Jun1; Chen, Jinhui1; Yu, Ziniu1; yzhang@scsio.ac.cn; carlzyu@scsio.ac.cn
2015
发表期刊PLOS ONE
卷号10期号:8页码:e0134280-
摘要Background The reproductive mechanisms of mollusk species have been interesting targets in biological research because of the diverse reproductive strategies observed in this phylum. These species have also been studied for the development of fishery technologies in molluscan aquaculture. Although the molecular mechanisms underlying the reproductive process have been well studied in animal models, the relevant information from mollusks remains limited, particularly in species of great commercial interest. Crassostrea hongkongensis is the dominant oyster species that is distributed along the coast of the South China Sea and little genomic information on this species is available. Currently, high-throughput sequencing techniques have been widely used for investigating the basis of physiological processes and facilitating the establishment of adequate genetic selection programs. Results The C.hongkongensis transcriptome included a total of 1,595,855 reads, which were generated by 454 sequencing and were assembled into 41,472 contigs using de novo methods. Contigs were clustered into 33,920 isotigs and further grouped into 22,829 isogroups. Approximately 77.6% of the isogroups were successfully annotated by the Nr database. More than 1,910 genes were identified as being related to reproduction. Some key genes involved in germline development, sex determination and differentiation were identified for the first time in C.hongkongensis (nanos, piwi, ATRX, FoxL2, beta-catenin, etc.). Gene expression analysis indicated that vasa, nanos, piwi, ATRX, FoxL2, beta-catenin and SRD5A1 were highly or specifically expressed in C. hongkongensis gonads. Additionally, 94,056 single nucleotide polymorphisms (SNPs) and 1,699 simple sequence repeats (SSRs) were compiled. Conclusions Our study significantly increased C.hongkongensis genomic information based on transcriptomics analysis. The group of reproduction-related genes identified in the present study constitutes a new tool for research on bivalve reproduction processes. The large group of molecular markers discovered in this study will be useful for population screening and marker assisted selection programs in C.hongkongensis aquaculture.
部门归属LMB
学科领域Science & Technology - Other Topics
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文献类型期刊论文
条目标识符http://ir.scsio.ac.cn/handle/344004/14788
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yzhang@scsio.ac.cn; carlzyu@scsio.ac.cn
作者单位1.[Tong, Ying
2.Zhang, Yang
3.Huang, Jiaomei
4.Xiao, Shu
5.Zhang, Yuehuan
6.Li, Jun
7.Yu, Ziniu] Chinese Acad Sci, South China Sea Inst Oceanol, Lab Appl Marine Biol, Key Lab Marine Bioresource Sustainable Utilizat, Guangzhou, Guangdong, Peoples R China
8.[Tong, Ying
9.Zhang, Yang
10.Huang, Jiaomei
11.Xiao, Shu
12.Zhang, Yuehuan
13.Li, Jun
14.Yu, Ziniu] South China Sea Bioresource Exploitat & Utilizat, Guangzhou, Guangdong, Peoples R China
15.[Chen, Jinhui] Qingyuan Polytech, Qingyuan, Peoples R China
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Tong, Ying,Zhang, Yang,Huang, Jiaomei,et al. Transcriptomics Analysis of Crassostrea hongkongensis for the Discovery of Reproduction-Related Genes[J]. PLOS ONE,2015,10(8):e0134280-.
APA Tong, Ying.,Zhang, Yang.,Huang, Jiaomei.,Xiao, Shu.,Zhang, Yuehuan.,...&carlzyu@scsio.ac.cn.(2015).Transcriptomics Analysis of Crassostrea hongkongensis for the Discovery of Reproduction-Related Genes.PLOS ONE,10(8),e0134280-.
MLA Tong, Ying,et al."Transcriptomics Analysis of Crassostrea hongkongensis for the Discovery of Reproduction-Related Genes".PLOS ONE 10.8(2015):e0134280-.
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