A highly abundant bacteriophage discovered in the unknown sequences of human faecal metagenomes.
A highly abundant bacteriophage discovered in the unknown sequences of human faecal metagenomes.
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DOI：
10.1038/ncomms5498
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发表时间：
2014-07-24
影响因子：
16.6
通讯作者：
Edwards, Robert A.
中科院分区：
文献类型：
--
作者：
Dutilh, Bas E.;Cassman, Noriko;McNair, Katelyn;Sanchez, Savannah E.;Silva, Genivaldo G. Z.;Boling, Lance;Barr, Jeremy J.;Speth, Daan R.;Seguritan, Victor;Aziz, Ramy K.;Felts, Ben;Dinsdale, Elizabeth A.;Mokili, John L.;Edwards, Robert A.
宏基因组学，即对完整微生物群落的遗传物质进行测序，是发现新型微生物和病毒的有前途的工具。病毒宏基因组通常含有许多未知序列。在这里，我们描述了一个以前未识别的噬菌体存在于大多数已发表的人类粪便宏基因组中的发现，我们称之为crAsphage。它的~97 kbp基因组在公开可用的宏基因组中的丰度是所有其他已知宏基因组的6倍;它分别占病毒样颗粒（VLP）衍生的宏基因组和总社区宏基因组中所有读数的90%和22%;并且它占公共数据库中所有人类粪便宏基因组测序读数的1.68%。大多数crAsage编码的蛋白质与数据库中的已知序列不匹配，这就是为什么它以前没有被检测到。使用一种新的共现分析方法，我们预测该噬菌体的拟杆菌宿主，与拟杆菌相关蛋白质同源物和噬菌体基因组中编码的独特碳水化合物结合结构域一致。 微生物群落的宏基因组学研究经常报告来自未知病毒的DNA序列。在这里，Dutilh等人分析了宏基因组数据，揭示了来自人类粪便的丰富、普遍存在的病毒的完整基因组，并预测该病毒感染拟杆菌属的细菌。
Metagenomics, or sequencing of the genetic material from a complete microbial community, is a promising tool to discover novel microbes and viruses. Viral metagenomes typically contain many unknown sequences. Here we describe the discovery of a previously unidentified bacteriophage present in the majority of published human faecal metagenomes, which we refer to as crAssphage. Its ~97 kbp genome is six times more abundant in publicly available metagenomes than all other known phages together; it comprises up to 90% and 22% of all reads in virus-like particle (VLP)-derived metagenomes and total community metagenomes, respectively; and it totals 1.68% of all human faecal metagenomic sequencing reads in the public databases. The majority of crAssphage-encoded proteins match no known sequences in the database, which is why it was not detected before. Using a new co-occurrence profiling approach, we predict a Bacteroides host for this phage, consistent with Bacteroides-related protein homologues and a unique carbohydrate-binding domain encoded in the phage genome. Metagenomic studies of microbial communities often report DNA sequences from unidentified viruses. Here, Dutilh et al. analyse metagenomic data to reveal the complete genome of an abundant, ubiquitous virus from human faeces, and predict that the virus infects bacteria of the Bacteroides group.
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影响因子：
4.8
作者：
Hawkins, Shawn A.;Layton, Alice C.;Sayler, Gary S.
通讯作者：
Sayler, Gary S.
影响因子：
14.9
作者：
Benson DA;Cavanaugh M;Clark K;Karsch-Mizrachi I;Ostell J;Pruitt KD;Sayers EW
通讯作者：
Sayers EW
影响因子：
64.8
作者：
Arumugam, Manimozhiyan;Raes, Jeroen;Pelletier, Eric;Le Paslier, Denis;Yamada, Takuji;Mende, Daniel R.;Fernandes, Gabriel R.;Tap, Julien;Bruls, Thomas;Batto, Jean-Michel;Bertalan, Marcelo;Borruel, Natalia;Casellas, Francesc;Fernandez, Leyden;Gautier, Laurent;Hansen, Torben;Hattori, Masahira;Hayashi, Tetsuya;Kleerebezem, Michiel;Kurokawa, Ken;Leclerc, Marion;Levenez, Florence;Manichanh, Chaysavanh;Nielsen, H. Bjorn;Nielsen, Trine;Pons, Nicolas;Poulain, Julie;Qin, Junjie;Sicheritz-Ponten, Thomas;Tims, Sebastian;Torrents, David;Ugarte, Edgardo;Zoetendal, Erwin G.;Wang, Jun;Guarner, Francisco;Pedersen, Oluf;de Vos, Willem M.;Brunak, Soren;Dore, Joel;Weissenbach, Jean;Ehrlich, S. Dusko;Bork, Peer
通讯作者：
Bork, Peer
影响因子：
4.3
作者：
Faust K;Sathirapongsasuti JF;Izard J;Segata N;Gevers D;Raes J;Huttenhower C
通讯作者：
Huttenhower C
DOI：
10.1073/pnas.1305923110
发表时间：
2013-06-25
影响因子：
11.1
作者：
Barr, Jeremy J.;Auro, Rita;Rohwer, Forest
通讯作者：
Rohwer, Forest