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题名: An NGS-based approach for the identification of sex-specific markers in snakehead (Channa argus)
作者: Ou, Mi1, 2; Yang, Cheng1, 2; Luo, Qing3; Huang, Rong1; Zhang, Ai-Di1; Liao, Lan-Jie1; Li, Yong-Ming1; He, Li-Bo1; Zhu, Zuo-Yan1; Chen, Kun-Ci3; Wang, Ya-Ping1
关键词: next generation sequencing ; sex-specific molecular markers ; snakehead
刊名: ONCOTARGET
发表日期: 2017-11-17
DOI: 10.18632/oncotarget.21924
卷: 8, 期:58, 页:98733-98744
收录类别: SCI
文章类型: Article
WOS标题词: Science & Technology ; Life Sciences & Biomedicine
类目[WOS]: Oncology ; Cell Biology
研究领域[WOS]: Oncology ; Cell Biology
英文摘要: We described a next generation sequencing (NGS)-based approach to identify sex-specific markers and subsequently determine whether a species has male or female heterogamety. To test the accuracy of this technique, we examined the snakehead (Channa argus), which is economically important freshwater fish in China. Males grow faster than females, and there is significant interest in developing methods to skew breeding towards all-males to increase biomass yields. NGS was conducted on DNAs of individual female and male, the male reads were spitted into 60 bp K-mers and aligned to the female reference genome assembled by female reads, unaligned male K-mers-60 were kept in next filter process. Meanwhile, DNA sample of 48 females was pooled and sequenced, this data was further used to filter out the previous unaligned male K-mers-60. Hence, numbers of candidate Y chromosome-specific sequences were screened out, their sex-specificity were validated in wild snakeheads through PCR amplification. Finally, three Y chromosome-specific fragments (Contig-275834, Contig-359642, and Contig-418354) were identified, and specific primers were obtained to distinguish the sex of snakehead. Additionally, a pair of primers of Contig-275834 (275834X/Y-F and 275834X/Y-R) was exploited to distinguish XX females, XY males, and YY super-males, whose amplification products of different lengths were produced for different sexes. Therefore, our work demonstrated the ability of NGS data in identification of sex-specific markers, and the pipeline adopted in our study could be applied in any species of sex differentiation. Furthermore, the sex-specific markers have tremendous potential for improving the efficiency of all-male breeding practices in snakehead.
关键词[WOS]: TILAPIA OREOCHROMIS-NILOTICUS ; LINKED MARKERS ; GENETIC SEX ; DNA MARKERS ; DIFFERENTIATION ; AFLP ; POPULATIONS ; SALMON ; FISH
语种: 英语
项目资助者: Strategic Priority Research Programme of Chinese Academy of Sciences(XDA08030203) ; National Natural Science Foundation of China(31130055) ; Independent project of State Key Laboratory of Freshwater Ecology and Biotechnology(2016FBZ02)
WOS记录号: WOS:000419392300080
ISSN号: 1949-2553
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内容类型: 期刊论文
URI标识: http://ir.ihb.ac.cn/handle/342005/50635
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.Chinese Acad Sci, State Key Lab Freshwater Ecol & Biotechnol, Inst Hydrobiol, Wuhan 430072, Peoples R China
2.Univ Chinese Acad Sci, Beijing 100049, Peoples R China
3.Chinese Acad Fishery Sci, Pearl River Fisheries Res Inst, Guangzhou 510380, Guangdong, Peoples R China
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