脆蛇转录组序列的分析和系统发育定位

祝静静; 黎万顺; 高虹; 徐通; 鲍秋颖; 郑永祥; 周德敏; 夏钢

脆蛇转录组序列的分析和系统发育定位

1.
华东师范大学~~科学与技术跨学科高等研究院, 上海 200062;
2.
华大基因, 广东深圳 518083;
3.
北京大学~~医学部~~天然药物及仿生药物国家重点实验, 北京 100191

详细信息

中图分类号: Q111
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出版历程
- 收稿日期: 2013-10-01
- 修回日期: 2014-01-01
- 刊出日期: 2014-07-25

De novo transcriptome analysis and the phylogenetic position of glass lizards

1.
Institutes for Advanced Interdisciplinary Research, East China Normal University, Shanghai 200062, China;
2.
BGI-tech, Shenzhen Guangdong 518083, China;
3.
State Key Laboratory of Natural and Biomimetic Drugs, Peaking University Health Science Center, Peaking University, Beijing 100191, China

摘要

摘要: 脆蛇是一种类似于蛇但是又具有蜥蜴的特征的爬行动物, 这些矛盾的特性与脆蛇的系统发育分类学有密切的关系. 脆蛇在传统中药中也有很多治疗作用. 基于这些方面, 本研究利用高通量测序方法对脆蛇胃肠道的转录组序列进行检测, 组装和注释. 最终获得4.6~Gbp高质量的数据, 组装获得58 959个单一的基因, 其中35 708(60.56{\%})个单一基因与数据库的基因相匹配. 为了确定脆蛇与蛇和蜥蜴的同源进化关系, 对同源基因家族和系统进化树进行了分析, 结果显示脆蛇的转录组序列更接近于蛇而不是蜥蜴. 除此之外还鉴定了10 613 cSSR标签, 其中\linebreak1 644个标签根据严格的标准能够用至少一个引物获得. 本研究第一次揭示了脆蛇胃肠道的转录组序列, 确定其在系统发育学上的定位. 这些序列和标签为脆蛇的研究提供了重要的资源.
- 脆蛇 /
- Ophisaurus harti /
- 系统发育 /
- 转录组 /
- cSSR
Abstract: Glass lizards are a group of reptiles that resemble snake and possess many lizard's characteristics that contributed to its ambiguous taxonomy. Meanwhile, glass lizards were recorded to have many therapeutic applications in TCM. Hence, we present the sequencing, de novo assembly and annotation of transcriptome from \textit{Ophisaurus}\textit{ harti}'s gastrointestinal tract. A total 4.6~Gbp of high quality data was generated, 58~959 unigenes were assembled and 35~708 (60.56{\%}) unigenes were annotated to the public databases. To understand the evolutionary relationship among glass lizard, snake and lizard, ortholog gene families and phylogenic tree were performed, and the results all showed that \textit{Ophisaurus}\textit{harti} is more closely related to the snakes than to the lizard. A total of 10~613 cSSR markers from the \textit{Ophisaurus}\textit{harti} transcriptome were identified and 1~644 markers were obtained using at least one primer with a strict criterion. This is the first time to give insight into the transcriptome and phylogenetic evolution in \textit{Ophisaurus harti}. These sequences and markers will provide valuable sources for \textit{Ophisaurus harti} studies.
- glass lizard /
- Ophisaurus harti /
- phylogenetic evolution /
- transcriptome /
- cSSR

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