Phylomitogenomics of Malacostraca (Arthropoda: Crustacea)

SHEN Xin; TIAN Mei; YAN Binlun; CHU Kahou

doi:10.1007/s13131-015-0583-1

软甲纲(节肢动物门:甲壳动物亚门)系统发育线粒体基因组研究

doi: 10.1007/s13131-015-0583-1

1.
淮海工学院, 江苏省海洋生物技术重点实验室/海洋学院, 江苏连云港 222005;中国科学院, 北京生命科学研究院, 北京 100101;香港中文大学, 生命科学学院, 李福善海洋科学研究中心, 香港
2.
淮海工学院, 江苏省海洋生物技术重点实验室/海洋学院, 江苏连云港 222005
3.
香港中文大学, 生命科学学院, 李福善海洋科学研究中心, 香港

基金项目: The National Natural Science Foundation of China under contract Nos 41476146 and 40906067; Hong Kong Scholars Program under contract No. XJ2012056; China Postdoctoral Science Foundation under contract Nos 2012M510054 and 2012T50218; a project funded by the Priority Academic Program Development of Jiangsu Higher Education Institutions (PAPD).

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- 收稿日期: 2014-02-25
- 修回日期: 2014-08-29

Phylomitogenomics of Malacostraca (Arthropoda: Crustacea)

1.
Jiangsu Key Laboratory of Marine Biotechnology/College of Marine Science, Huaihai Institute of Technology, Lianyungang 222005, China;Beijing Institutes of Life Science, Chinese Academy of Sciences, Beijing 100101, China;Simon F. S. Li Marine Science Laboratory, School of Life Sciences, The Chinese University of Hong Kong, Hong Kong, China
2.
Jiangsu Key Laboratory of Marine Biotechnology/College of Marine Science, Huaihai Institute of Technology, Lianyungang 222005, China
3.
Simon F. S. Li Marine Science Laboratory, School of Life Sciences, The Chinese University of Hong Kong, Hong Kong, China

摘要

摘要: 在过去的十几年里,随着测序技术的进步和研究者的持续关注,后生动物线粒体基因组的数目得到快速增长.系统发育线粒体基因组学(Phylomitogenomics)——基于线粒体基因组信息重建生物亲缘关系的交叉学科,目前业已形成.软甲纲(甲壳动物)形态特征的复杂多样超过了动物界中其它所有的纲,其包含众多的重要海洋无脊椎动物.在本文中,基于86个线粒体基因组,全面、系统的分析了软甲纲(甲壳动物)内部的系统演化关系.在86个软甲纲线粒体基因组中,54个动物的主编码基因排列顺序(不包括转运RNA)与泛甲壳动物线粒体基因组的原始排列相同,包括口足目的6个物种、端足目的3个物种、2种磷虾、7个枝鳃亚目物种,以及36个腹胚亚目物种.然而,其余32个物种的线粒体基因组出现主编码基因的重排.基于蛋白质编码基因的核苷酸序列,借助于贝叶斯方法构建系统发育树,几乎所有节点的支持率都达到100%.系统发育树强烈支持端足目和等足目应聚在一起,组成支眼柄动物(Edriophthalma)(BPP=100).系统发育线粒体基因组分析,强烈支持磷虾类与枝鳃亚目亲缘关系较近,这与发育生物学的研究成果一致.在软甲纲中,目前所完成的线粒体基因组主要集中于十足目;在16个目中有11个目还没有线粒体基因组全序列.未来的研究应该更多的关注于没有代表物种的软甲纲类群.作为一个新兴的研究领域,系统发育线粒体基因组学将成为生命之树(Tree of Life)研究的重要组成.
- 软甲纲 /
- 甲壳动物 /
- 系统发育线粒体基因组 /
- 基因排列 /
- 线粒体基因组
Abstract: Along with the sequencing technology development and continual enthusiasm of researchers on the mitochondrial genomes, the number of metazoan mitochondrial genomes reported has a tremendous growth in the past decades. Phylomitogenomics—reconstruction of phylogenetic relationships based on mitochondrial genomic data—is now possible across large animal groups. Crustaceans in the class Malacostraca display a high diversity of body forms and include large number of ecologically and commercially important species. In this study, comprehensive and systematic analyses of the phylogenetic relationships within Malacostraca were conducted based on 86 mitochondrial genomes available from GenBank. Among 86 malacostracan mitochondrial genomes, 54 species have identical major gene arrangement (excluding tRNAs) to pancrustacean ground pattern, including six species from Stomatopoda, three species from Amphipoda, two krill, seven species from Dendrobranchiata (Decapoda), and 36 species from Pleocyemata (Decapoda). However, the other 32 mitochondrial genomes reported exhibit major gene rearrangements. Phylogenies based on Bayesian analyses of nucleotide sequences of the protein-coding genes produced a robust tree with 100% posterior probability at almost all nodes. The results indicate that Amphipoda and Isopoda cluster together (Edriophthalma) (BPP=100). Phylomitogenomic analyses strong support that Euphausiacea is nested within Decapoda, and closely related to Dendrobranchiata, which is also consistent with the evidence from developmental biology. Yet the taxonomic sampling of mitochondrial genome from Malacostraca is very biased to the order Decapoda, with no complete mitochondrial genomes reported from 11 of the 16 orders. Future researches on sequencing the mitochondrial genomes from a wide variety of malacostracans are necessary to further elucidate the phylogeny of this important group of animals. With the increase in mitochondrial genomes available, phylomitogenomics will emerge as an important component in the Tree of Life researches.
- Malacostraca /
- Crustacea /
- Phylomitogenomics /
- gene arrangement /
- mitochondrial genome

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软甲纲(节肢动物门:甲壳动物亚门)系统发育线粒体基因组研究

doi: 10.1007/s13131-015-0583-1

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Phylomitogenomics of Malacostraca (Arthropoda: Crustacea)

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