Metagenomics and the molecular identification of novel viruses

被引：60

作者：

Bexfield, Nicholas ^{[1
]}

Kellam, Paul ^{[2
]}

机构：

[1] Univ Cambridge, Dept Vet Med, Cambridge CB3 0ES, England

[2] Wellcome Trust Sanger Inst, Cambridge CB10 1SA, England

来源：

VETERINARY JOURNAL | 2011年 / 190卷 / 02期

关键词：

Metagenomics; Virus discovery; Animals; Computational transcriptome subtraction; Hybridisation; ROLLING-CIRCLE AMPLIFICATION; SINGLE-PRIMER AMPLIFICATION; KAPOSIS-SARCOMA; MULTIPLE-SCLEROSIS; VIRAL COMMUNITY; DNA-SEQUENCES; HUMAN CORONAVIRUS; STOOL SAMPLES; HUMAN FECES; GENOMES;

D O I：

10.1016/j.tvjl.2010.10.014

中图分类号：

S85 [动物医学（兽医学）];

学科分类号：

0906 ;

摘要：

There have been rapid recent developments in establishing methods for identifying and characterising viruses associated with animal and human diseases. These methodologies, commonly based on hybridisation or PCR techniques, are combined with advanced sequencing techniques termed 'next generation sequencing'. Allied advances in data analysis, including the use of computational transcriptome subtraction, have also impacted the field of viral pathogen discovery. This review details these molecular detection techniques, discusses their application in viral discovery, and provides an overview of some of the novel viruses discovered. The problems encountered in attributing disease causality to a newly identified virus are also considered. (C) 2010 Elsevier Ltd. All rights reserved.

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页码：191 / 198

页数：8

相关论文

共 114 条

[1] Cloning of a human parvovirus by molecular screening of respiratory tract samples [J].

Allander, T ;

Tammi, MT ;

Eriksson, M ;

Bjerkner, A ;

Tiveljung-Lindell, A ;

Andersson, B .

PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA, 2005, 102 (36) :12891-12896

[2] A virus discovery method incorporating DNase treatment and its application to the identification of two bovine parvovirus species [J].

Allander, T ;

Emerson, SU ;

Engle, RE ;

Purcell, RH ;

Bukh, J .

PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA, 2001, 98 (20) :11609-11614

[3] Identification of a third human polyomavirus [J].

Allander, Tobias ;

Andreasson, Kalle ;

Gupta, Shawon ;

Bjerkner, Annelie ;

Bogdanovic, Gordana ;

Persson, Mats A. A. ;

Dalianis, Tina ;

Ramqvist, Torbjorn ;

Andersson, Bjorn .

JOURNAL OF VIROLOGY, 2007, 81 (08) :4130-4136

[4] PHYLOGENETIC IDENTIFICATION AND IN-SITU DETECTION OF INDIVIDUAL MICROBIAL-CELLS WITHOUT CULTIVATION [J].

AMANN, RI ;

LUDWIG, W ;

SCHLEIFER, KH .

MICROBIOLOGICAL REVIEWS, 1995, 59 (01) :143-169

[5] Virus discovery by sequence-independent genome amplification [J].

Ambrose, Helen E. ;

Clewley, Jonathan P. .

REVIEWS IN MEDICAL VIROLOGY, 2006, 16 (06) :365-383

[6] The marine viromes of four oceanic regions [J].

Angly, Florent E. ;

Felts, Ben ;

Breitbart, Mya ;

Salamon, Peter ;

Edwards, Robert A. ;

Carlson, Craig ;

Chan, Amy M. ;

Haynes, Matthew ;

Kelley, Scott ;

Liu, Hong ;

Mahaffy, Joseph M. ;

Mueller, Jennifer E. ;

Nulton, Jim ;

Olson, Robert ;

Parsons, Rachel ;

Rayhawk, Steve ;

Suttle, Curtis A. ;

Rohwer, Forest .

PLOS BIOLOGY, 2006, 4 (11) :2121-2131

[7] Circular genomes related to anelloviruses identified in human and animal samples by using a combined rolling-circle amplification/sequence-independent single primer amplification approach [J].

Biagini, Philippe ;

Uch, Rathviro ;

Belhouchet, Mourad ;

Attoui, Houssam ;

Cantaloube, Jean-Francois ;

Brisbarre, Nadege ;

de Micco, Philippe .

JOURNAL OF GENERAL VIROLOGY, 2007, 88 :2696-2701

[8] Novel circular DNA viruses in stool samples of wild-living chimpanzees [J].

Blinkova, Olga ;

Victoria, Joseph ;

Li, Yingying ;

Keele, Brandon F. ;

Sanz, Crickette ;

Ndjango, Jean-Bosco N. ;

Peeters, Martine ;

Travis, Dominic ;

Lonsdorf, Elizabeth V. ;

Wilson, Michael L. ;

Pusey, Anne E. ;

Hahn, Beatrice H. ;

Delwart, Eric L. .

JOURNAL OF GENERAL VIROLOGY, 2010, 91 :74-86

[9] Cardioviruses Are Genetically Diverse and Cause Common Enteric Infections in South Asian Children [J].

Blinkova, Olga ;

Kapoor, Amit ;

Victoria, Joseph ;

Jones, Morris ;

Wolfe, Nathan ;

Naeem, Asif ;

Shaukat, Shahzad ;

Sharif, Salmaan ;

Alam, Muhammad Masroor ;

Angez, Mehar ;

Zaidi, Sohail ;

Delwart, Eric L. .

JOURNAL OF VIROLOGY, 2009, 83 (09) :4631-4641

[10] Diversity and population structure of a near-shore marine-sediment viral community [J].

Breitbart, M ;

Felts, B ;

Kelley, S ;

Mahaffy, JM ;

Nulton, J ;

Salamon, P ;

Rohwer, F .

PROCEEDINGS OF THE ROYAL SOCIETY B-BIOLOGICAL SCIENCES, 2004, 271 (1539) :565-574

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