Origins of major archaeal clades correspond to gene acquisitions from bacteria.
Origins of major archaeal clades correspond to gene acquisitions from bacteria.
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DOI：
10.1038/nature13805
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发表时间：
2015-01-01
期刊：
影响因子：
64.8
通讯作者：
Martin, William F.
中科院分区：
文献类型：
--
作者：
Nelson-Sathi, Shijulal;Sousa, Filipa L.;Roettger, Mayo;Lozada-Chavez, Nabor;Thiergart, Thorsten;Janssen, Arnold;Bryant, David;Landan, Giddy;Schoenheit, Peter;Siebers, Bettina;McInerney, James O.;Martin, William F.
人们对主要原核生物群体起源的机制知之甚少。原则上，原核生物中物种和高等分类群的起源应该具有相似的机制——与环境的生态相互作用与涉及谱系特异性基因创新和谱系特异性基因获取的自然遗传变异相结合。为了研究古细菌中高等分类群的起源，我们在 1,847 个参考细菌基因组的同源物背景下，确定了 134 个已测序古细菌基因组的 267,568 个蛋白质编码基因的基因分布和基因系统发育。在我们的样本中，古细菌特定基因家族定义了 13 个传统上公认的古细菌高等分类单元。在这里，我们报告说，这 13 个类群的起源出乎意料地对应于从细菌获得的 2,264 个类群特异性基因。域间基因转移是高度不对称的，从细菌到古细菌的转移频率比反之亦然的频率高 5 倍以上。在原核生物之间的主要进化转变中发现的基因转移特别表明从细菌中获得代谢功能的基因是高等古菌类群起源的关键创新。
The mechanisms that underlie the origin of major prokaryotic groups are poorly understood. In principle, the origin of both species and higher taxa among prokaryotes should entail similar mechanisms — ecological interactions with the environment paired with natural genetic variation involving lineage-specific gene innovations and lineage-specific gene acquisitions. To investigate the origin of higher taxa in archaea, we have determined gene distributions and gene phylogenies for the 267,568 protein coding genes of 134 sequenced archaeal genomes in the context of their homologs from 1,847 reference bacterial genomes. Archaea-specific gene families define 13 traditionally recognized archaeal higher taxa in our sample. Here we report that the origins of these 13 groups unexpectedly correspond to 2,264 group-specific gene acquisitions from bacteria. Interdomain gene transfer is highly asymmetric, transfers from bacteria to archaea are more than 5-fold more frequent than vice versa. Gene transfers identified at major evolutionary transitions among prokaryotes specifically implicate gene acquisitions for metabolic functions from bacteria as key innovations in the origin of higher archaeal taxa.
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DOI：
10.1002/bies.201300037
发表时间：
2013-09
期刊：
BioEssays : news and reviews in molecular, cellular and developmental biology
影响因子：
--
作者：
Wolf YI;Koonin EV
通讯作者：
Koonin EV
影响因子：
3.3
作者：
Williams D;Gogarten JP;Papke RT
通讯作者：
Papke RT
影响因子：
5.8
作者：
Stamatakis, A;Ludwig, T;Meier, H
通讯作者：
Meier, H
影响因子：
3.3
作者：
Puigbò P;Wolf YI;Koonin EV
通讯作者：
Koonin EV
DOI：
10.1073/pnas.0610699104
发表时间：
2007-02-13
影响因子：
11.1
作者：
Doolittle, W. Ford;Bapteste, Eric
通讯作者：
Bapteste, Eric