메뉴 건너뛰기




Volumn 91, Issue 11, 2010, Pages 2846-2856

Metagenomic sequencing for virus identification in a public-health setting

Author keywords

[No Author keywords available]

Indexed keywords

ARTICLE; BK VIRUS; CELL CULTURE; GENE SEQUENCE; GENOTYPE; HERPES SIMPLEX VIRUS; HUMAN; HUMAN CELL; METAGENOMICS; NETHERLANDS; NEWCASTLE DISEASE PARAMYXOVIRUS; NONHUMAN; PATHOGENICITY; PHYLOGENY; POLYMERASE CHAIN REACTION; PRIORITY JOURNAL; PUBLIC HEALTH; VIRUS IDENTIFICATION; BODILY SECRETIONS; CARDIOVIRUS; CLASSIFICATION; CLUSTER ANALYSIS; DNA SEQUENCE; ENTEROVIRUS; GENETICS; ISOLATION AND PURIFICATION; MOLECULAR GENETICS; NEWCASTLE DISEASE VIRUS; PROCEDURES; SEQUENCE HOMOLOGY; VIROLOGY; VIRUS CULTURE; VIRUS DISEASES;

EID: 78049386423     PISSN: 00221317     EISSN: 14652099     Source Type: Journal    
DOI: 10.1099/vir.0.024612-0     Document Type: Article
Times cited : (51)

References (52)
  • 1
    • 45249110442 scopus 로고    scopus 로고
    • New saffold cardioviruses in 3 children, Canada
    • Abed, Y. & Boivin, G. (2008). New Saffold cardioviruses in 3 children, Canada. Emerg Infect Dis 14, 834-836. (Pubitemid 351838657)
    • (2008) Emerging Infectious Diseases , vol.14 , Issue.5 , pp. 834-836
    • Abed, Y.1    Boivin, G.2
  • 3
    • 0030801002 scopus 로고    scopus 로고
    • Gapped BLAST and PSI-BLAST: A new generation of protein database search programs
    • DOI 10.1093/nar/25.17.3389
    • Altschul, S. F., Madden, T. L., Schaffer, A. A., Zhang, J., Zhang, Z., Miller, W. & Lipman, D. J. (1997). Gapped BLAST and PSI-BLAST: a new generation of protein database search programs. Nucleic Acids Res 25, 3389-3402. (Pubitemid 27359211)
    • (1997) Nucleic Acids Research , vol.25 , Issue.17 , pp. 3389-3402
    • Altschul, S.F.1    Madden, T.L.2    Schaffer, A.A.3    Zhang, J.4    Zhang, Z.5    Miller, W.6    Lipman, D.J.7
  • 5
    • 66149121345 scopus 로고    scopus 로고
    • Cardioviruses are genetically diverse and cause common enteric infections in South Asian children
    • Blinkova, O., Kapoor, A., Victoria, J., Jones, M., Wolfe, N., Naeem, A., Shaukat, S., Sharif, S., Alam, M. M. & other authors (2009). Cardioviruses are genetically diverse and cause common enteric infections in South Asian children. J Virol 83, 4631-4641.
    • (2009) J Virol , vol.83 , pp. 4631-4641
    • Blinkova, O.1    Kapoor, A.2    Victoria, J.3    Jones, M.4    Wolfe, N.5    Naeem, A.6    Shaukat, S.7    Sharif, S.8    Alam, M.M.9
  • 7
    • 33644873469 scopus 로고    scopus 로고
    • Method for discovering novel DNA viruses in blood using viral particle selection and shotgun sequencing
    • Breitbart, M. & Rohwer, F. (2005). Method for discovering novel DNA viruses in blood using viral particle selection and shotgun sequencing. Biotechniques 39, 729-736.
    • (2005) Biotechniques , vol.39 , pp. 729-736
    • Breitbart, M.1    Rohwer, F.2
  • 11
    • 14944358901 scopus 로고    scopus 로고
    • Analysis of the virus population present in equine faeces indicates the presence of hundreds of uncharacterized virus genomes
    • Cann, A. J., Fandrich, S. E. & Heaphy, S. (2005). Analysis of the virus population present in equine faeces indicates the presence of hundreds of uncharacterized virus genomes. Virus Genes 30, 151-156.
    • (2005) Virus Genes , vol.30 , pp. 151-156
    • Cann, A.J.1    Fandrich, S.E.2    Heaphy, S.3
  • 13
    • 77950836969 scopus 로고    scopus 로고
    • Cultivation and serological characterization of a human Theiler's-like cardiovirus associated with diarrheal disease
    • Chiu, C. Y., Greninger, A., Chen, E., Haggerty, T. D., Parsonnet, J., Delwart, E., DeRisi, J. L. & Ganem, D. (2010). Cultivation and serological characterization of a human Theiler's-like cardiovirus associated with diarrheal disease. J Virol 84, 4407-4414.
    • (2010) J Virol , vol.84 , pp. 4407-4414
    • Chiu, C.Y.1    Greninger, A.2    Chen, E.3    Haggerty, T.D.4    Parsonnet, J.5    Delwart, E.6    DeRisi, J.L.7    Ganem, D.8
  • 16
    • 33947607974 scopus 로고    scopus 로고
    • Viral metagenomics
    • Delwart, E. L. (2007). Viral metagenomics. Rev Med Virol 17, 115-131.
    • (2007) Rev Med Virol , vol.17 , pp. 115-131
    • Delwart, E.L.1
  • 18
    • 70349675587 scopus 로고    scopus 로고
    • Metagenomic analysis of RNA viruses in a fresh water lake
    • Djikeng, A., Kuzmickas, R., Anderson, N. G. & Spiro, D. J. (2009). Metagenomic analysis of RNA viruses in a fresh water lake. PLoS One 4, e7264.
    • (2009) PLoS One , vol.4
    • Djikeng, A.1    Kuzmickas, R.2    Anderson, N.G.3    Spiro, D.J.4
  • 22
    • 0002051540 scopus 로고    scopus 로고
    • BioEdit: A user-friendly biological sequence alignment editor and analysis program for Windows 95/98/NT
    • Hall, T. A. (1999). BioEdit: a user-friendly biological sequence alignment editor and analysis program for Windows 95/98/NT. Nucleic Acids Symp Ser 41, 95-98.
    • (1999) Nucleic Acids Symp Ser , vol.41 , pp. 95-98
    • Hall, T.A.1
  • 23
    • 20744441655 scopus 로고    scopus 로고
    • New DNA viruses identified in patients with acute viral infection syndrome
    • Jones, M. S., Kapoor, A., Lukashov, V. V., Simmonds, P., Hecht, F. & Delwart, E. (2005). New DNA viruses identified in patients with acute viral infection syndrome. J Virol 79, 8230-8236.
    • (2005) J Virol , vol.79 , pp. 8230-8236
    • Jones, M.S.1    Kapoor, A.2    Lukashov, V.V.3    Simmonds, P.4    Hecht, F.5    Delwart, E.6
  • 26
    • 33846556711 scopus 로고    scopus 로고
    • Role of cell culture for virus detection in the age of technology
    • Leland, D. S. & Ginocchio, C. C. (2007). Role of cell culture for virus detection in the age of technology. Clin Microbiol Rev 20, 49-78.
    • (2007) Clin Microbiol Rev , vol.20 , pp. 49-78
    • Leland, D.S.1    Ginocchio, C.C.2
  • 27
    • 75449118921 scopus 로고    scopus 로고
    • Multiple diverse circoviruses infect farm animals and are commonly found in human and chimpanzee feces
    • Li, L., Kapoor, A., Slikas, B., Bamidele, O. S., Wang, C., Shaukat, S., Masroor, M. A., Wilson, M. L., Ndjango, J. B. & other authors (2010). Multiple diverse circoviruses infect farm animals and are commonly found in human and chimpanzee feces. J Virol 84, 1674-1682.
    • (2010) J Virol , vol.84 , pp. 1674-1682
    • Li, L.1    Kapoor, A.2    Slikas, B.3    Bamidele, O.S.4    Wang, C.5    Shaukat, S.6    Masroor, M.A.7    Wilson, M.L.8    Ndjango, J.B.9
  • 28
    • 56449119821 scopus 로고    scopus 로고
    • Phylogenetic analysis of the species Theilovirus: Emerging murine and human pathogens
    • Liang, Z., Kumar, A. S., Jones, M. S., Knowles, N. J. & Lipton, H. L. (2008). Phylogenetic analysis of the species Theilovirus: emerging murine and human pathogens. J Virol 82, 11545-11554.
    • (2008) J Virol , vol.82 , pp. 11545-11554
    • Liang, Z.1    Kumar, A.S.2    Jones, M.S.3    Knowles, N.J.4    Lipton, H.L.5
  • 29
    • 0032889281 scopus 로고    scopus 로고
    • Full-length human immunodeficiency virus type 1 genomes from subtype C-infected seroconverters in India, with evidence of intersubtype recombination
    • Lole, K. S., Bollinger, R. C., Paranjape, R. S., Gadkari, D., Kulkarni, S. S., Novak, N. G., Ingersoll, R., Sheppard, H. W. & Ray, S. C. (1999). Full-length human immunodeficiency virus type 1 genomes from subtype C-infected seroconverters in India, with evidence of intersubtype recombination. J Virol 73, 152-160.
    • (1999) J Virol , vol.73 , pp. 152-160
    • Lole, K.S.1    Bollinger, R.C.2    Paranjape, R.S.3    Gadkari, D.4    Kulkarni, S.S.5    Novak, N.G.6    Ingersoll, R.7    Sheppard, H.W.8    Ray, S.C.9
  • 30
    • 62749189896 scopus 로고    scopus 로고
    • Discovery of a novel single-stranded DNA virus from a sea turtle fibropapilloma by using viral metagenomics
    • Ng, T. F., Manire, C., Borrowman, K., Langer, T., Ehrhart, L. & Breitbart, M. (2009a). Discovery of a novel single-stranded DNA virus from a sea turtle fibropapilloma by using viral metagenomics. J Virol 83, 2500-2509.
    • (2009) J Virol , vol.83 , pp. 2500-2509
    • Ng, T.F.1    Manire, C.2    Borrowman, K.3    Langer, T.4    Ehrhart, L.5    Breitbart, M.6
  • 31
    • 67449103680 scopus 로고    scopus 로고
    • Novel anellovirus discovered from a mortality event of captive California sea lions
    • Ng, T. F., Suedmeyer, W. K., Wheeler, E., Gulland, F. & Breitbart, M. (2009b). Novel anellovirus discovered from a mortality event of captive California sea lions. J Gen Virol 90, 1256-1261.
    • (2009) J Gen Virol , vol.90 , pp. 1256-1261
    • Ng, T.F.1    Suedmeyer, W.K.2    Wheeler, E.3    Gulland, F.4    Breitbart, M.5
  • 32
    • 33747160715 scopus 로고    scopus 로고
    • Sensitive, seminested PCR amplification of VP1 sequences for direct identification of all enterovirus serotypes from original clinical specimens
    • Nix, W. A., Oberste, M. S. & Pallansch, M. A. (2006). Sensitive, seminested PCR amplification of VP1 sequences for direct identification of all enterovirus serotypes from original clinical specimens. J Clin Microbiol 44, 2698-2704.
    • (2006) J Clin Microbiol , vol.44 , pp. 2698-2704
    • Nix, W.A.1    Oberste, M.S.2    Pallansch, M.A.3
  • 36
    • 0036330981 scopus 로고    scopus 로고
    • The phage proteomic tree: A genome-based taxonomy for phage
    • DOI 10.1128/JB.184.16.4529-4535.2002
    • Rohwer, F. & Edwards, R. (2002). The phage proteomic tree: a genome-based taxonomy for phage. J Bacteriol 184, 4529-4535. (Pubitemid 34832581)
    • (2002) Journal of Bacteriology , vol.184 , Issue.16 , pp. 4529-4535
    • Rohwer, F.1    Edwards, R.2
  • 38
    • 60849116949 scopus 로고    scopus 로고
    • A new generic real-time reverse transcription polymerase chain reaction assay for vesiviruses; vesiviruses were not detected in human samples
    • Svraka, S., Duizer, E., Egberink, H., Dekkers, J., Vennema, H. & Koopmans, M. (2009a). A new generic real-time reverse transcription polymerase chain reaction assay for vesiviruses; vesiviruses were not detected in human samples. J Virol Methods 157, 1-7.
    • (2009) J Virol Methods , vol.157 , pp. 1-7
    • Svraka, S.1    Duizer, E.2    Egberink, H.3    Dekkers, J.4    Vennema, H.5    Koopmans, M.6
  • 39
    • 66749189202 scopus 로고    scopus 로고
    • Novel approach for detection of enteric viruses to enable syndrome surveillance of acute viral gastroenteritis
    • Svraka, S., van der Veer, B., Duizer, E., Dekkers, J., Koopmans, M. & Vennema, H. (2009b). Novel approach for detection of enteric viruses to enable syndrome surveillance of acute viral gastroenteritis. J Clin Microbiol 47, 1674-1679.
    • (2009) J Clin Microbiol , vol.47 , pp. 1674-1679
    • Svraka, S.1    Van Der Veer, B.2    Duizer, E.3    Dekkers, J.4    Koopmans, M.5    Vennema, H.6
  • 40
    • 34547781750 scopus 로고    scopus 로고
    • MEGA4: Molecular Evolutionary Genetics Analysis (MEGA) software version 4.0
    • DOI 10.1093/molbev/msm092
    • Tamura, K., Dudley, J., Nei, M. & Kumar, S. (2007). MEGA4: molecular evolutionary genetics analysis (MEGA) software version 4.0. Mol Biol Evol 24, 1596-1599. (Pubitemid 47236692)
    • (2007) Molecular Biology and Evolution , vol.24 , Issue.8 , pp. 1596-1599
    • Tamura, K.1    Dudley, J.2    Nei, M.3    Kumar, S.4
  • 41
    • 0027968068 scopus 로고
    • CLUSTAL W: Improving the sensitivity of progressive multiple sequence alignment through sequence weighting, position-specific gap penalties and weight matrix choice
    • Thompson, J. D., Higgins, D. G. & Gibson, T. J. (1994). CLUSTAL W: improving the sensitivity of progressive multiple sequence alignment through sequence weighting, position-specific gap penalties and weight matrix choice. Nucleic Acids Res 22, 4673-4680.
    • (1994) Nucleic Acids Res , vol.22 , pp. 4673-4680
    • Thompson, J.D.1    Higgins, D.G.2    Gibson, T.J.3
  • 50
    • 0032085440 scopus 로고    scopus 로고
    • Enterovirus infections
    • Zaoutis, T. & Klein, J. D. (1998). Enterovirus infections. Pediatr Rev 19, 183-191.
    • (1998) Pediatr Rev , vol.19 , pp. 183-191
    • Zaoutis, T.1    Klein, J.D.2


* 이 정보는 Elsevier사의 SCOPUS DB에서 KISTI가 분석하여 추출한 것입니다.