De Novo Genome Assembly of Limpet Bathyacmaea lactea (Gastropoda: Pectinodontidae): The First Reference Genome of a Deep-Sea Gastropod Endemic to Cold Seeps
文献类型：期刊论文
| 作者 | Liu, Ruoyu2,3; Wang, Kun4; Liu, Jun2; Xu, Wenjie4; Zhou, Yang2,3; Zhu, Chenglong4; Wu, Baosheng2,3; Li, Yongxin4; Wang, Wen4; He, Shunping1,2 |
| 刊名 | GENOME BIOLOGY AND EVOLUTION
 |
| 出版日期 | 2020-06-01 |
| 卷号 | 12期号:6页码:905-910 |
| 关键词 | deep-sea adaptation cold seeps limpet Bathyacmaea mollusk genome Nanopore |
| ISSN号 | 1759-6653 |
| DOI | 10.1093/gbe/evaa100 |
| 通讯作者 | Feng, Chenguang(fcg1989@126.com) ; Zhang, Haibin(hzhang@idsse.ac.cn) |
| 英文摘要 | Cold seeps, characterized by the methane, hydrogen sulfide, and other hydrocarbon chemicals, foster one of the most widespread chemosynthetic ecosystems in deep sea that are densely populated by specialized benthos. However, scarce genomic resources severely limit our knowledge about the origin and adaptation of life in this unique ecosystem. Here, we present a genome of a deepsea limpet Bathyacmaea lactea, a common species associated with the dominant mussel beds in cold seeps. We yielded 54.6 gigabases (Gb) of Nanopore reads and 77.9-Gb BGI-seq raw reads, respectively. Assembly harvested a 754.3-Mb genome for B. lactea, with 3,720 contigs and a contig N50 of 1.57 Mb, covering 94.3% of metazoan Benchmarking Universal Single-Copy Orthologs. In total, 23,574 protein-coding genes and 463.4 Mb of repetitive elements were identified. We analyzed the phylogenetic position, substitution rate, demographic history, and TE activity of B. lactea. We also identified 80 expanded gene families and 87 rapidly evolving Gene Ontology categories in the B. lactea genome. Many of these genes were associated with heterocyclic compound metabolism, membrane-bounded organelle, metal ion binding, and nitrogen and phosphorus metabolism. The high-quality assembly and in-depth characterization suggest the B. lactea genome will serve as an essential resource for understanding the origin and adaptation of life in the cold seeps. |
| WOS关键词 | PHYLOGENETIC ANALYSIS ; READ ALIGNMENT ; EVOLUTION ; IMPACT ; TOOL |
| 资助项目 | National Key Research and Development Program of China[2016YFC0304905] ; National Key Research and Development Program of China[2017YFC0306604] ; Major scientific and technological projects of Hainan Province[ZDKJ2019011] ; 1000 Talent Project of Shaanxi Province ; Research Funds for Interdisciplinary subject, NWPU[19SH030408] |
| WOS研究方向 | Evolutionary Biology ; Genetics & Heredity |
| 语种 | 英语 |
| WOS记录号 | WOS:000552380600014 |
| 出版者 | OXFORD UNIV PRESS |
| 资助机构 | National Key Research and Development Program of China ; National Key Research and Development Program of China ; National Key Research and Development Program of China ; National Key Research and Development Program of China ; Major scientific and technological projects of Hainan Province ; Major scientific and technological projects of Hainan Province ; Major scientific and technological projects of Hainan Province ; Major scientific and technological projects of Hainan Province ; 1000 Talent Project of Shaanxi Province ; 1000 Talent Project of Shaanxi Province ; 1000 Talent Project of Shaanxi Province ; 1000 Talent Project of Shaanxi Province ; Research Funds for Interdisciplinary subject, NWPU ; Research Funds for Interdisciplinary subject, NWPU ; Research Funds for Interdisciplinary subject, NWPU ; Research Funds for Interdisciplinary subject, NWPU ; National Key Research and Development Program of China ; National Key Research and Development Program of China ; National Key Research and Development Program of China ; National Key Research and Development Program of China ; Major scientific and technological projects of Hainan Province ; Major scientific and technological projects of Hainan Province ; Major scientific and technological projects of Hainan Province ; Major scientific and technological projects of Hainan Province ; 1000 Talent Project of Shaanxi Province ; 1000 Talent Project of Shaanxi Province ; 1000 Talent Project of Shaanxi Province ; 1000 Talent Project of Shaanxi Province ; Research Funds for Interdisciplinary subject, NWPU ; Research Funds for Interdisciplinary subject, NWPU ; Research Funds for Interdisciplinary subject, NWPU ; Research Funds for Interdisciplinary subject, NWPU ; National Key Research and Development Program of China ; National Key Research and Development Program of China ; National Key Research and Development Program of China ; National Key Research and Development Program of China ; Major scientific and technological projects of Hainan Province ; Major scientific and technological projects of Hainan Province ; Major scientific and technological projects of Hainan Province ; Major scientific and technological projects of Hainan Province ; 1000 Talent Project of Shaanxi Province ; 1000 Talent Project of Shaanxi Province ; 1000 Talent Project of Shaanxi Province ; 1000 Talent Project of Shaanxi Province ; Research Funds for Interdisciplinary subject, NWPU ; Research Funds for Interdisciplinary subject, NWPU ; Research Funds for Interdisciplinary subject, NWPU ; Research Funds for Interdisciplinary subject, NWPU ; National Key Research and Development Program of China ; National Key Research and Development Program of China ; National Key Research and Development Program of China ; National Key Research and Development Program of China ; Major scientific and technological projects of Hainan Province ; Major scientific and technological projects of Hainan Province ; Major scientific and technological projects of Hainan Province ; Major scientific and technological projects of Hainan Province ; 1000 Talent Project of Shaanxi Province ; 1000 Talent Project of Shaanxi Province ; 1000 Talent Project of Shaanxi Province ; 1000 Talent Project of Shaanxi Province ; Research Funds for Interdisciplinary subject, NWPU ; Research Funds for Interdisciplinary subject, NWPU ; Research Funds for Interdisciplinary subject, NWPU ; Research Funds for Interdisciplinary subject, NWPU |
| 源URL | [http://ir.ihb.ac.cn/handle/342005/36855]  |
| 专题 | 水生生物研究所_水生生物多样性与资源保护研究中心_期刊论文 |
| 通讯作者 | Feng, Chenguang; Zhang, Haibin |
| 作者单位 | 1.Chinese Acad Sci, Inst Hydrobiol, Key Lab Aquat Biodivers & Conservat, Wuhan, Peoples R China 2.Chinese Acad Sci, Inst Deep Sea Sci & Engn, Sanya, Peoples R China 3.Univ Chinese Acad Sci, Beijing, Peoples R China 4.Northwestern Polytech Univ, Ctr Ecol & Environm Sci, Xian, Peoples R China |
| 推荐引用方式 GB/T 7714 | Liu, Ruoyu,Wang, Kun,Liu, Jun,et al. De Novo Genome Assembly of Limpet Bathyacmaea lactea (Gastropoda: Pectinodontidae): The First Reference Genome of a Deep-Sea Gastropod Endemic to Cold Seeps[J]. GENOME BIOLOGY AND EVOLUTION,2020,12(6):905-910. |
| APA | Liu, Ruoyu.,Wang, Kun.,Liu, Jun.,Xu, Wenjie.,Zhou, Yang.,...&Zhang, Haibin.(2020).De Novo Genome Assembly of Limpet Bathyacmaea lactea (Gastropoda: Pectinodontidae): The First Reference Genome of a Deep-Sea Gastropod Endemic to Cold Seeps.GENOME BIOLOGY AND EVOLUTION,12(6),905-910. |
| MLA | Liu, Ruoyu,et al."De Novo Genome Assembly of Limpet Bathyacmaea lactea (Gastropoda: Pectinodontidae): The First Reference Genome of a Deep-Sea Gastropod Endemic to Cold Seeps".GENOME BIOLOGY AND EVOLUTION 12.6(2020):905-910. |
入库方式： OAI收割
来源：水生生物研究所
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