Universität zu Köln

Gao, Na L., Zhang, Chengwei, Zhang, Zhanbing, Hu, Songnian, Lercher, Martin J., Zhao, Xing-Ming, Bork, Peer, Liu, Zhi and Chen, Wei-Hua (2018). MVP: a microbe-phage interaction database. Nucleic Acids Res., 46 (D1). S. D700 - 8. OXFORD: OXFORD UNIV PRESS. ISSN 1362-4962

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Abstract

Phages invade microbes, accomplish host lysis and are of vital importance in shaping the community structure of environmental microbiota. More importantly, most phages have very specific hosts; they are thus ideal tools to manipulate environmental microbiota at species-resolution. The main purpose of MVP (Microbe Versus Phage) is to provide a comprehensive catalog of phage-microbe interactions and assist users to select phage(s) that can target (and potentially to manipulate) specific microbes of interest. We first collected 50 782 viral sequences from various sources and clustered them into 33 097 unique viral clusters based on sequence similarity. We then identified 26 572 interactions between 18 608 viral clusters and 9245 prokaryotes (i.e. bacteria and archaea); we established these interactions based on 30 321 evidence entries that we collected from published datasets, public databases and re-analysis of genomic and metagenomic sequences. Based on these interactions, we calculated the host range for each of the phage clusters and accordingly grouped them into subgroups such as 'species-', genus-' and 'family-' specific phage clusters. MVP is equipped with a modern, responsive and intuitive interface, and is freely availableat:http://mvp.medgenius.info.

Item Type:	Journal Article
Creators:	Creators Email ORCID ORCID Put Code Gao, Na L. UNSPECIFIED UNSPECIFIED UNSPECIFIED Zhang, Chengwei UNSPECIFIED UNSPECIFIED UNSPECIFIED Zhang, Zhanbing UNSPECIFIED UNSPECIFIED UNSPECIFIED Hu, Songnian UNSPECIFIED UNSPECIFIED UNSPECIFIED Lercher, Martin J. UNSPECIFIED UNSPECIFIED UNSPECIFIED Zhao, Xing-Ming UNSPECIFIED UNSPECIFIED UNSPECIFIED Bork, Peer UNSPECIFIED UNSPECIFIED UNSPECIFIED Liu, Zhi UNSPECIFIED UNSPECIFIED UNSPECIFIED Chen, Wei-Hua UNSPECIFIED UNSPECIFIED UNSPECIFIED
URN:	urn:nbn:de:hbz:38-199133
DOI:	10.1093/nar/gkx1124
Journal or Publication Title:	Nucleic Acids Res.
Volume:	46
Number:	D1
Page Range:	S. D700 - 8
Date:	2018
Publisher:	OXFORD UNIV PRESS
Place of Publication:	OXFORD
ISSN:	1362-4962
Language:	English
Faculty:	Unspecified
Divisions:	Unspecified
Subjects:	no entry
Uncontrolled Keywords:	Keywords Language HUMAN GUT MICROBIOME; BACTERIAL; OBESITY; CLASSIFICATION; IDENTIFICATION; DYNAMICS; RESOURCE; CATALOG; GENOMES Multiple languages Biochemistry & Molecular Biology Multiple languages
Refereed:	Yes
URI:	http://kups.ub.uni-koeln.de/id/eprint/19913