Organizing the Global Diversity of Microviruses.
Organizing the Global Diversity of Microviruses.
复制标题
作者：
微病毒包含一系列令人惊讶的小单链DNA噬菌体，由于宏基因组调查的激增，现在已知它们在大多数环境中普遍存在。目前的分类学承认在这个谱系中有相当大的多样性到一个单一的家族（微病毒科），这使得很难充分和准确地评估这个群体中实际存在的变异量。我们收集并整理了迄今为止最大的微病毒基因组，并通过蛋白质共享网络和系统发育分析的结合，在目前的科和属等级之间发现了至少三个有意义的分类水平。当考虑到来自已知谱系的13000多个微病毒基因组和宏基因组样本中尚未分类的微病毒时，将微病毒提升到一个由三个亚目和至少19个假定的科组成的目的水平，可以更好地理解微病毒的多样性，每个科都有各自的亚科。这些修订能够对微病毒动态进行精细评估：例如，在人类肠道中，城市和农村人口之间以及个体之间的微病毒家族丰度存在相当大的差异。此外，我们对基因组内容和基因交换的分析表明，微病毒家族不携带可识别的辅助代谢基因，并且很少（如果有的话）在微病毒家族之间或与其细菌宿主之间进行水平基因转移。这些见解使微病毒分类学与其他噬菌体分类学的当前发展保持一致，并增加了对微病毒生物学的理解。
Microviruses encompass an astonishing array of small, single-stranded DNA phages that, due to the surge in metagenomic surveys, are now known to be prevalent in most environments. Current taxonomy concedes the considerable diversity within this lineage to a single family (the Microviridae), which has rendered it difficult to adequately and accurately assess the amount of variation that actually exists within this group. We amassed and curated the largest collection of microviral genomes to date and, through a combination of protein-sharing networks and phylogenetic analysis, discovered at least three meaningful taxonomic levels between the current ranks of family and genus. When considering more than 13,000 microviral genomes from recognized lineages and as-yet-unclassified microviruses in metagenomic samples, microviral diversity is better understood by elevating microviruses to the level of an order that consists of three suborders and at least 19 putative families, each with their respective subfamilies. These revisions enable fine-scale assessment of microviral dynamics: for example, in the human gut, there are considerable differences in the abundances of microviral families both between urban and rural populations and in individuals over time. In addition, our analysis of genome contents and gene exchange shows that microviral families carry no recognizable accessory metabolic genes and rarely, if ever, engage in horizontal gene transfer across microviral families or with their bacterial hosts. These insights bring microviral taxonomy in line with current developments in the taxonomy of other phages and increase the understanding of microvirus biology.
登录
查看更多内容
影响因子：
64.8
作者：
Jumper J;Evans R;Pritzel A;Green T;Figurnov M;Ronneberger O;Tunyasuvunakool K;Bates R;Žídek A;Potapenko A;Bridgland A;Meyer C;Kohl SAA;Ballard AJ;Cowie A;Romera-Paredes B;Nikolov S;Jain R;Adler J;Back T;Petersen S;Reiman D;Clancy E;Zielinski M;Steinegger M;Pacholska M;Berghammer T;Bodenstein S;Silver D;Vinyals O;Senior AW;Kavukcuoglu K;Kohli P;Hassabis D
通讯作者：
Hassabis D
影响因子：
14.9
作者：
Dion MB;Plante PL;Zufferey E;Shah SA;Corbeil J;Moineau S
通讯作者：
Moineau S
DOI：
10.1038/ismej.2014.43
发表时间：
2014-10
期刊：
The ISME journal
影响因子：
--
作者：
通讯作者：
--
DOI：
10.1073/pnas.1305956110
发表时间：
2013-07-30
影响因子：
11.1
作者：
Holmfeldt, Karin;Solonenko, Natalie;Sullivan, Matthew B.
通讯作者：
Sullivan, Matthew B.
影响因子：
6.4
作者：
Iranzo J;Krupovic M;Koonin EV
通讯作者：
Koonin EV