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Volumn 18, Issue , 2013, Pages 31-41

Whole-genome, deep pyrosequencing analysis of a duck influenza A virus evolution in swine cells

Author keywords

Influenza A virus; Mixed infection; Pyrosequencing; Reassortment; Viral evolution; Within host diversity

Indexed keywords

ARTICLE; CELL TYPE; DUCK; DUCK INFLUENZA A VIRUS; EVOLUTION; GENE MUTATION; GENETIC REASSORTMENT; HOMOGENATE; INFLUENZA VIRUS A; NETHERLANDS; NONHUMAN; NUCLEOTIDE SEQUENCE; POPULATION GENETICS; PRIORITY JOURNAL; PYROSEQUENCING; SINGLE NUCLEOTIDE POLYMORPHISM; SWINE; TRACHEAL CELL; VIRUS GENOME; VIRUS ISOLATION; VIRUS STRAIN;

EID: 84878429833     PISSN: 15671348     EISSN: 15677257     Source Type: Journal    
DOI: 10.1016/j.meegid.2013.04.034     Document Type: Article
Times cited : (17)

References (47)
  • 1
    • 0034701739 scopus 로고    scopus 로고
    • A review of avian influenza in different bird species
    • Alexander D.J. A review of avian influenza in different bird species. Vet. Microbiol. 2000, 74(1-2):3-13.
    • (2000) Vet. Microbiol. , vol.74 , Issue.1-2 , pp. 3-13
    • Alexander, D.J.1
  • 3
    • 78650161976 scopus 로고    scopus 로고
    • Quantifying microbial communities with 454 pyrosequencing: does read abundance count?
    • Amend A.S., Seifert K.A., Bruns T.D. Quantifying microbial communities with 454 pyrosequencing: does read abundance count?. Mol. Ecol. 2010, 19(24):5555-5565.
    • (2010) Mol. Ecol. , vol.19 , Issue.24 , pp. 5555-5565
    • Amend, A.S.1    Seifert, K.A.2    Bruns, T.D.3
  • 5
  • 7
    • 0030747157 scopus 로고    scopus 로고
    • RNA virus mutations and fitness for survival
    • Domingo E., Holland J.J. RNA virus mutations and fitness for survival. Ann. Rev. Microbiol. 1997, 51(1):151-178.
    • (1997) Ann. Rev. Microbiol. , vol.51 , Issue.1 , pp. 151-178
    • Domingo, E.1    Holland, J.J.2
  • 9
    • 0027221640 scopus 로고
    • Rates of spontaneous mutation among RNA viruses
    • Drake J.W. Rates of spontaneous mutation among RNA viruses. Proc. Natl. Acad. Sci. U.S.A. 1993, 90(9):4171-4175.
    • (1993) Proc. Natl. Acad. Sci. U.S.A. , vol.90 , Issue.9 , pp. 4171-4175
    • Drake, J.W.1
  • 12
    • 78751493390 scopus 로고    scopus 로고
    • Perspectives on influenza evolution and the role of research
    • Forrest H.L., Webster R.G. Perspectives on influenza evolution and the role of research. Anim. Health Res. Rev. 2010, 11(Special Issue 01):3-18.
    • (2010) Anim. Health Res. Rev. , vol.11 , Issue.SPEC. ISSUE. 01 , pp. 3-18
    • Forrest, H.L.1    Webster, R.G.2
  • 13
    • 0035822899 scopus 로고    scopus 로고
    • Recombination in the hemagglutinin gene of the 1918 « Spanish Flu »
    • Gibbs M.J., Armstrong J.S., Gibbs A.J. Recombination in the hemagglutinin gene of the 1918 « Spanish Flu ». Science 2001, 293(5536):1842-1845.
    • (2001) Science , vol.293 , Issue.5536 , pp. 1842-1845
    • Gibbs, M.J.1    Armstrong, J.S.2    Gibbs, A.J.3
  • 15
    • 77956152508 scopus 로고    scopus 로고
    • The impact of PCR-generated recombination on diversity estimation of mixed viral populations by deep sequencing
    • Görzer I., Guelly C., Trajanoski S., Puchhammer-Stöckl E. The impact of PCR-generated recombination on diversity estimation of mixed viral populations by deep sequencing. J. Virol. Methods 2010, 169(1):248-252.
    • (2010) J. Virol. Methods , vol.169 , Issue.1 , pp. 248-252
    • Görzer, I.1    Guelly, C.2    Trajanoski, S.3    Puchhammer-Stöckl, E.4
  • 16
    • 0020081254 scopus 로고
    • Antigenic and genetic characterization of a novel hemagglutinin subtype of influenza A viruses from gulls
    • Hinshaw V.S., Air G.M., Gibbs A.J., Graves L., Prescott B., Karunakaran D. Antigenic and genetic characterization of a novel hemagglutinin subtype of influenza A viruses from gulls. J. Virol. 1982, 42(3):865-872.
    • (1982) J. Virol. , vol.42 , Issue.3 , pp. 865-872
    • Hinshaw, V.S.1    Air, G.M.2    Gibbs, A.J.3    Graves, L.4    Prescott, B.5    Karunakaran, D.6
  • 18
    • 77954383399 scopus 로고    scopus 로고
    • The RNA virus quasispecies: fact or fiction?
    • Holmes E.C. The RNA virus quasispecies: fact or fiction?. J. Mol. Biol. 2010, 400(3):271-273.
    • (2010) J. Mol. Biol. , vol.400 , Issue.3 , pp. 271-273
    • Holmes, E.C.1
  • 19
    • 0035137605 scopus 로고    scopus 로고
    • Pandemic threat posed by Avian influenza A viruses
    • Horimoto T., Kawaoka Y. Pandemic threat posed by Avian influenza A viruses. Clin. Microbiol. Rev. 2001, 14(1):129-149.
    • (2001) Clin. Microbiol. Rev. , vol.14 , Issue.1 , pp. 129-149
    • Horimoto, T.1    Kawaoka, Y.2
  • 20
    • 22944457912 scopus 로고    scopus 로고
    • Influenza: lessons from past pandemics, warnings from current incidents
    • Horimoto T., Kawaoka Y. Influenza: lessons from past pandemics, warnings from current incidents. Nat. Rev. Microbiol. 2005, 3(8):591-600.
    • (2005) Nat. Rev. Microbiol. , vol.3 , Issue.8 , pp. 591-600
    • Horimoto, T.1    Kawaoka, Y.2
  • 22
    • 0026536430 scopus 로고
    • Fidelity of HIV-1 reverse transcriptase copying RNA in vitro
    • Ji J., Loeb L.A. Fidelity of HIV-1 reverse transcriptase copying RNA in vitro. Biochemistry 1992, 31(4):954-958.
    • (1992) Biochemistry , vol.31 , Issue.4 , pp. 954-958
    • Ji, J.1    Loeb, L.A.2
  • 23
    • 0032052803 scopus 로고    scopus 로고
    • Stimulation and suppression of PCR-mediated recombination
    • Judo M.S., Wedel A.B., Wilson C. Stimulation and suppression of PCR-mediated recombination. Nucleic Acids Res. 1998, 26(7):1819-1825.
    • (1998) Nucleic Acids Res. , vol.26 , Issue.7 , pp. 1819-1825
    • Judo, M.S.1    Wedel, A.B.2    Wilson, C.3
  • 24
    • 73349110099 scopus 로고    scopus 로고
    • Wrinkles in the rare biosphere: pyrosequencing errors can lead to artificial inflation of diversity estimates
    • Kunin V., Engelbrektson A., Ochman H., Hugenholtz P. Wrinkles in the rare biosphere: pyrosequencing errors can lead to artificial inflation of diversity estimates. Environ. Microbiol. 2009, 12(1):118-123.
    • (2009) Environ. Microbiol. , vol.12 , Issue.1 , pp. 118-123
    • Kunin, V.1    Engelbrektson, A.2    Ochman, H.3    Hugenholtz, P.4
  • 25
    • 84872497766 scopus 로고    scopus 로고
    • Swine influenza
    • Lavoisier, Paris, P.-C. Lefèvre, J. Blancou, R. Chermette, G. Uilenberg (Eds.)
    • Kuntz-Simon G., Kaiser C., Madec F. Swine influenza. Infectious and Parasitic Diseases of Livestock 2010, 273-285. Lavoisier, Paris. P.-C. Lefèvre, J. Blancou, R. Chermette, G. Uilenberg (Eds.).
    • (2010) Infectious and Parasitic Diseases of Livestock , pp. 273-285
    • Kuntz-Simon, G.1    Kaiser, C.2    Madec, F.3
  • 26
    • 67649884743 scopus 로고    scopus 로고
    • Fast and accurate short read alignment with Burrows-Wheeler transform
    • Li H., Durbin R. Fast and accurate short read alignment with Burrows-Wheeler transform. Bioinformatics 2009, 25(14):1754-1760.
    • (2009) Bioinformatics , vol.25 , Issue.14 , pp. 1754-1760
    • Li, H.1    Durbin, R.2
  • 28
    • 31744435976 scopus 로고    scopus 로고
    • BEAMing up for detection and quantification of rare sequence variants
    • Li M., Diehl F., Dressman D., Vogelstein B., Kinzler K.W. BEAMing up for detection and quantification of rare sequence variants. Nat. Methods 2006, 3(2):95-97.
    • (2006) Nat. Methods , vol.3 , Issue.2 , pp. 95-97
    • Li, M.1    Diehl, F.2    Dressman, D.3    Vogelstein, B.4    Kinzler, K.W.5
  • 30
    • 79959341239 scopus 로고    scopus 로고
    • Assessment of replicate bias in 454 pyrosequencing and a multi-purpose read-filtering tool
    • Mariette J., Noirot C., Klopp C. Assessment of replicate bias in 454 pyrosequencing and a multi-purpose read-filtering tool. BMC Res. Notes 2011, 4(1):149.
    • (2011) BMC Res. Notes , vol.4 , Issue.1 , pp. 149
    • Mariette, J.1    Noirot, C.2    Klopp, C.3
  • 34
    • 0017326035 scopus 로고
    • The genes of influenza virus
    • Palese P. The genes of influenza virus. Cell 1977, 10(1):1-10.
    • (1977) Cell , vol.10 , Issue.1 , pp. 1-10
    • Palese, P.1
  • 36
    • 0034201441 scopus 로고    scopus 로고
    • EMBOSS: the European Molecular Biology Open Software Suite
    • Rice P., Longden I., Bleasby A. EMBOSS: the European Molecular Biology Open Software Suite. Trends Genet. 2000, 16(6):276-277.
    • (2000) Trends Genet. , vol.16 , Issue.6 , pp. 276-277
    • Rice, P.1    Longden, I.2    Bleasby, A.3
  • 39
    • 0022377314 scopus 로고
    • The nucleoprotein as a possible major factor in determining host specificity of influenza H3N2 viruses
    • Scholtissek C., Bürger H., Kistner O., Shortridge K.F. The nucleoprotein as a possible major factor in determining host specificity of influenza H3N2 viruses. Virology 1985, 147(2):287-294.
    • (1985) Virology , vol.147 , Issue.2 , pp. 287-294
    • Scholtissek, C.1    Bürger, H.2    Kistner, O.3    Shortridge, K.F.4
  • 41
    • 0028009540 scopus 로고
    • An estimation of the nucleotide substitution rate at defined positions in the influenza virus haemagglutinin gene
    • Suárez-López P., Ortín J. An estimation of the nucleotide substitution rate at defined positions in the influenza virus haemagglutinin gene. J. Gen. Virol. 1994, 75(Pt. 2):389-393.
    • (1994) J. Gen. Virol. , vol.75 , Issue.PART 2 , pp. 389-393
    • Suárez-López, P.1    Ortín, J.2
  • 42
    • 77956283658 scopus 로고    scopus 로고
    • 454 Pyrosequencing and Sanger sequencing of tropical mycorrhizal fungi provide similar results but reveal substantial methodological biases
    • Tedersoo L., Nilsson R.H., Abarenkov K., Jairus T., Sadam A., Saar I., Bahram M., Bechem E., Chuyong G., Kõljalg U. 454 Pyrosequencing and Sanger sequencing of tropical mycorrhizal fungi provide similar results but reveal substantial methodological biases. New Phytol. 2010, 188(1):291-301.
    • (2010) New Phytol. , vol.188 , Issue.1 , pp. 291-301
    • Tedersoo, L.1    Nilsson, R.H.2    Abarenkov, K.3    Jairus, T.4    Sadam, A.5    Saar, I.6    Bahram, M.7    Bechem, E.8    Chuyong, G.9    Kõljalg, U.10
  • 44
    • 84878443572 scopus 로고    scopus 로고
    • WHO, WHO|Influenza (Seasonal). (accessed 13.07.11.).
    • WHO, 2009. WHO|Influenza (Seasonal). (accessed 13.07.11.). http://www.who.int/mediacentre/factsheets/fs211/en/.
    • (2009)
  • 46
    • 0037066845 scopus 로고    scopus 로고
    • Questioning the evidence for genetic recombination in the 1918 « Spanish Flu » virus
    • 211-211
    • Worobey M., Rambaut A., Pybus O.G., Robertson D.L. Questioning the evidence for genetic recombination in the 1918 « Spanish Flu » virus. Science 2002, 296(5566). 211-211.
    • (2002) Science , vol.296 , Issue.5566
    • Worobey, M.1    Rambaut, A.2    Pybus, O.G.3    Robertson, D.L.4
  • 47
    • 84867060060 scopus 로고    scopus 로고
    • Read length versus depth of coverage for viral quasispecies reconstruction
    • Zagordi O., Däumer M., Beisel C., Beerenwinkel N. Read length versus depth of coverage for viral quasispecies reconstruction. PLoS ONE 2012, 7(10):e47046.
    • (2012) PLoS ONE , vol.7 , Issue.10
    • Zagordi, O.1    Däumer, M.2    Beisel, C.3    Beerenwinkel, N.4


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