| MENG Jie,YANG Mei,XU Fei,LI Xinzheng,LI Li. 2018. Transcriptome assembly of Modiolus modiolus and comparative analysis with Bathymodiolus platifrons. Acta Oceanologica Sinica, 37(8):38－45 |
| Transcriptome assembly of Modiolus modiolus and comparative analysis with Bathymodiolus platifrons |
| 偏顶蛤（Modiolus modiolus）转录组组装及其与深海偏顶蛤（Bathymodiolus platifrons）比较转录组研究 |
| Received:August 18, 2017 Revised:March 13, 2018 |
| DOI：10.1007/s13131-018-1232-2 |
| Key words:mollusc transcriptome comparision positive selection stress adaptation |
| 中文关键词: 双壳贝类 比较转录组 正选择 逆境适应 |
| 基金项目:The Strategic Priority Research Program of the Chinese Academy of Sciences under contract No. XDB06010101; the Technological Innovation Project financially supported by Qingdao National Laboratory for Marine Science and Technology under contract No. 2015ASKJ02-03; Shandong Provincial Natural Science Foundation, China under contract No. ZR2016DQ13; the Earmarked Fund for Modern Agro-industry Technology Research System under contract No. CARS-48; the Taishan Scholars Climbing Program of Shandong; the project funded by China Postdoctoral Science Foundation. |
| Author Name | Affiliation | E-mail | | MENG Jie | CAS Key Laboratory of Experimental Marine Biology, Institute of Oceanology, Chinese Academy of Sciences(CAS), Qingdao 266071, China
Laboratory for Marine Fisheries and Aquaculture, Qingdao National Laboratory for Marine Science and Technology, Qingdao 266071, China
National and Local Joint Engineering Laboratory of Ecological Mariculture, Institute of Oceanology, Chinese Academy of Sciences, Qingdao 266071, China
Center for Ocean Mega-Science, Chinese Academy of Sciences, Qingdao 266071, China | | | YANG Mei | Institute of Oceanology, Chinese Academy of Sciences, Qingdao 266071, China
University of Chinese Academy of Sciences, Beijing 100039, China | | | XU Fei | CAS Key Laboratory of Experimental Marine Biology, Institute of Oceanology, Chinese Academy of Sciences(CAS), Qingdao 266071, China
National and Local Joint Engineering Laboratory of Ecological Mariculture, Institute of Oceanology, Chinese Academy of Sciences, Qingdao 266071, China
Center for Ocean Mega-Science, Chinese Academy of Sciences, Qingdao 266071, China | | | LI Xinzheng | Institute of Oceanology, Chinese Academy of Sciences, Qingdao 266071, China
University of Chinese Academy of Sciences, Beijing 100039, China
Laboratory for Marine Biology and Biotechnology, Qingdao National Laboratory for Marine Science and Technology, Qingdao 266071, China | lixzh@qdio.ac.cn | | LI Li | CAS Key Laboratory of Experimental Marine Biology, Institute of Oceanology, Chinese Academy of Sciences(CAS), Qingdao 266071, China
Laboratory for Marine Fisheries and Aquaculture, Qingdao National Laboratory for Marine Science and Technology, Qingdao 266071, China
National and Local Joint Engineering Laboratory of Ecological Mariculture, Institute of Oceanology, Chinese Academy of Sciences, Qingdao 266071, China
Center for Ocean Mega-Science, Chinese Academy of Sciences, Qingdao 266071, China | lili@qdio.ac.cn |
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| Abstract: |
| The genetic basis for bivalves' adaptation and evolution is not well understood. Even few studies have focused on the mechanism of molluscan molecular evolution between the coastal intertidal zone and deep-sea environment. In our studies, we first conducted the transcritpome assembly of Modiolus modiolus mussels living in coastal intertidal zones. Also, we conducted transcriptome comparison analyses between M. modiolus and Bathymodiolus platifrons living in hydrothermal vents and cold methane/sulfide-hydrocarbon seeps. De novo assemblies of the clean reads yielded a total of 182 476 and 156 261 transcripts with N50 values of 1 769 and 1 545 in M. modiolus and B. platifrons. A total of 27 868 and 23 588 unigenes were identified, which also displayed the similar GO representation patterns. Among the 10 245 pairs of putative orthologs, we identified 26 protein-coding genes under strong positive selection (Ka/Ks>1) and 12 genes showing moderate positive selection (0.5<Ka/Ks<1). Most of those genes are predicted to be involved in stress resistance. Overall, our study first provides the transcriptomic database for M. modiolus. Transcriptome comparison illustrates the genome evolution between M. modiolus and B. platifrons, and provides an important foundation for future studies on these two species. |
| 中文摘要: |
| 双壳类适应性进化遗传基础尚未有大量研究。而生活在沿海潮间带和深海环境中的双壳贝类适应性进化的分子机制更鲜有报道。我们首次测序组装了潮间带生活的偏顶蛤Modiolus modiolus的转录组序列。同时与生活在深海热液冷泉喷口的偏顶蛤Bathymodiolus platifrons进行了比较转录组分析，阐明了这两个物种在不同环境中的适应性进化机制。M. modiolus和B. platifrons的转录组组装共产生182，476和156，261个转录本，N50值分别为1，769和1，545。同时注释到27，868和23，588个基因。GO富集分析表明这些基因有相似的富集模式。两物种进化分析鉴定到10，245个直系同源基因，其中26个基因受到强烈正选择（Ka/Ks＞1），12个基因受到中度正选择（0.5M. modiolus的转录组组装拼接序列，同时通过比较转录组学分析阐明了其与近缘物种B. platifrons的适应性进化机制。这为两个物种后续研究提供了序列资源和研究基础。 |
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