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Volumn 11, Issue 8, 2011, Pages 2125-2132

Evolutionary dynamics of influenza A nucleoprotein (NP) lineages revealed by large-scale sequence analyses

Author keywords

Influenza; Lineage; Nucleoprotein (NP); Selection; Substitution rate; TMRCA

Indexed keywords

VIRUS NUCLEOPROTEIN;

EID: 82655181926     PISSN: 15671348     EISSN: 15677257     Source Type: Journal    
DOI: 10.1016/j.meegid.2011.07.002     Document Type: Article
Times cited : (20)

References (58)
  • 1
    • 77954272855 scopus 로고    scopus 로고
    • TranslatorX: multiple alignment of nucleotide sequences guided by amino acid translations
    • Abascal F., Zardoya R., Telford M.J. TranslatorX: multiple alignment of nucleotide sequences guided by amino acid translations. Nucleic Acids Res. 2010, 38(Suppl.):W7-13.
    • (2010) Nucleic Acids Res. , vol.38 , Issue.SUPPL.
    • Abascal, F.1    Zardoya, R.2    Telford, M.J.3
  • 2
    • 82655174755 scopus 로고    scopus 로고
    • SeqMaT: a sequence manipulation tool for phylogenetic analysis
    • Attaluri P.K., Christman M.C., Chen Z., Lu G. SeqMaT: a sequence manipulation tool for phylogenetic analysis. Bioinformation 2011, 5:400-401.
    • (2011) Bioinformation , vol.5 , pp. 400-401
    • Attaluri, P.K.1    Christman, M.C.2    Chen, Z.3    Lu, G.4
  • 4
    • 0021326193 scopus 로고
    • Correlation of influenza A virus nucleoprotein genes with host species
    • Bean W.J. Correlation of influenza A virus nucleoprotein genes with host species. Virology 1984, 133:438-442.
    • (1984) Virology , vol.133 , pp. 438-442
    • Bean, W.J.1
  • 6
    • 33750930708 scopus 로고    scopus 로고
    • Avian influenza virus exhibits rapid evolutionary dynamics
    • Chen R., Holmes E.C. Avian influenza virus exhibits rapid evolutionary dynamics. Mol. Biol. Evol. 2006, 23:2336-2341.
    • (2006) Mol. Biol. Evol. , vol.23 , pp. 2336-2341
    • Chen, R.1    Holmes, E.C.2
  • 7
    • 76749122795 scopus 로고    scopus 로고
    • Hitchhiking and the population genetic structure of avian influenza virus
    • Chen R., Holmes E.C. Hitchhiking and the population genetic structure of avian influenza virus. J. Mol. Evol. 2010, 70:98-105.
    • (2010) J. Mol. Evol. , vol.70 , pp. 98-105
    • Chen, R.1    Holmes, E.C.2
  • 8
    • 70349337162 scopus 로고    scopus 로고
    • Panorama phylogenetic diversity and distribution of type A influenza viruses based on their six internal gene sequences
    • Chen J.M., Sun Y.X., Chen J.W., Liu S., Yu J.M., Shen C.J., Sun X.D., Peng D. Panorama phylogenetic diversity and distribution of type A influenza viruses based on their six internal gene sequences. Virol. J. 2009, 6:137.
    • (2009) Virol. J. , vol.6 , pp. 137
    • Chen, J.M.1    Sun, Y.X.2    Chen, J.W.3    Liu, S.4    Yu, J.M.5    Shen, C.J.6    Sun, X.D.7    Peng, D.8
  • 9
  • 11
    • 38649110663 scopus 로고    scopus 로고
    • BEAST: Bayesian evolutionary analysis by sampling trees
    • Drummond A.J., Rambaut A. BEAST: Bayesian evolutionary analysis by sampling trees. BMC Evol. Biol. 2007, 7:214.
    • (2007) BMC Evol. Biol. , vol.7 , pp. 214
    • Drummond, A.J.1    Rambaut, A.2
  • 14
    • 13244255415 scopus 로고    scopus 로고
    • MUSCLE: a multiple sequence alignment method with reduced time and space complexity
    • Edgar R.C. MUSCLE: a multiple sequence alignment method with reduced time and space complexity. BMC Bioinformatics 2004, 5:113.
    • (2004) BMC Bioinformatics , vol.5 , pp. 113
    • Edgar, R.C.1
  • 15
    • 0019444477 scopus 로고
    • Complete structure of A/duck/Ukraine/63 influenza hemagglutinin gene: animal virus as progenitor of human H3 Hong Kong 1968 influenza hemagglutinin
    • Fang R., Min Jou W., Huylebroeck D., Devos R., Fiers W. Complete structure of A/duck/Ukraine/63 influenza hemagglutinin gene: animal virus as progenitor of human H3 Hong Kong 1968 influenza hemagglutinin. Cell 1981, 25:315-323.
    • (1981) Cell , vol.25 , pp. 315-323
    • Fang, R.1    Min Jou, W.2    Huylebroeck, D.3    Devos, R.4    Fiers, W.5
  • 16
    • 33244495782 scopus 로고    scopus 로고
    • Accuracy of coalescent likelihood estimates: do we need more sites, more sequences, or more loci?
    • Felsenstein J. Accuracy of coalescent likelihood estimates: do we need more sites, more sequences, or more loci?. Mol. Biol. Evol. 2006, 23:691-700.
    • (2006) Mol. Biol. Evol. , vol.23 , pp. 691-700
    • Felsenstein, J.1
  • 17
    • 0037468827 scopus 로고    scopus 로고
    • Ecological and immunological determinants of influenza evolution
    • Ferguson N.M., Galvani A.P., Bush R.M. Ecological and immunological determinants of influenza evolution. Nature 2003, 422:428-433.
    • (2003) Nature , vol.422 , pp. 428-433
    • Ferguson, N.M.1    Galvani, A.P.2    Bush, R.M.3
  • 18
    • 0042573997 scopus 로고    scopus 로고
    • A codon-based model of host-specific selection in parasites, with an application to the influenza A virus
    • Forsberg R., Christiansen F.B. A codon-based model of host-specific selection in parasites, with an application to the influenza A virus. Mol. Biol. Evol. 2003, 20:1252-1259.
    • (2003) Mol. Biol. Evol. , vol.20 , pp. 1252-1259
    • Forsberg, R.1    Christiansen, F.B.2
  • 20
    • 77953133359 scopus 로고    scopus 로고
    • Evolutionary dynamics of the N1 neuraminidases of the main lineages of influenza A viruses
    • Fourment M., Wood J.T., Gibbs A.J., Gibbs M.J. Evolutionary dynamics of the N1 neuraminidases of the main lineages of influenza A viruses. Mol. Phylogenet. Evol. 2010, 56:526-535.
    • (2010) Mol. Phylogenet. Evol. , vol.56 , pp. 526-535
    • Fourment, M.1    Wood, J.T.2    Gibbs, A.J.3    Gibbs, M.J.4
  • 22
    • 67649995234 scopus 로고    scopus 로고
    • Evolution of the M gene of the influenza A virus in different host species: large-scale sequence analysis
    • Furuse Y., Suzuki A., Kamigaki T., Oshitani H. Evolution of the M gene of the influenza A virus in different host species: large-scale sequence analysis. Virol. J. 2009, 6:67.
    • (2009) Virol. J. , vol.6 , pp. 67
    • Furuse, Y.1    Suzuki, A.2    Kamigaki, T.3    Oshitani, H.4
  • 24
    • 0025237152 scopus 로고
    • Evolution of the nucleoprotein gene of influenza A virus
    • Gorman O.T., Bean W.J., Kawaoka Y., Webster R.G. Evolution of the nucleoprotein gene of influenza A virus. J. Virol. 1990, 64:1487-1497.
    • (1990) J. Virol. , vol.64 , pp. 1487-1497
    • Gorman, O.T.1    Bean, W.J.2    Kawaoka, Y.3    Webster, R.G.4
  • 25
    • 0025835627 scopus 로고
    • Evolution of influenza A virus nucleoprotein genes: implications for the origins of H1N1 human and classical swine viruses
    • Gorman O.T., Bean W.J., Kawaoka Y., Donatelli I., Guo Y.J., Webster R.G. Evolution of influenza A virus nucleoprotein genes: implications for the origins of H1N1 human and classical swine viruses. J. Virol. 1991, 65:3704-3714.
    • (1991) J. Virol. , vol.65 , pp. 3704-3714
    • Gorman, O.T.1    Bean, W.J.2    Kawaoka, Y.3    Donatelli, I.4    Guo, Y.J.5    Webster, R.G.6
  • 28
    • 76549096678 scopus 로고    scopus 로고
    • Evolution in health and medicine Sackler colloquium: the comparative genomics of viral emergence
    • Holmes E.C. Evolution in health and medicine Sackler colloquium: the comparative genomics of viral emergence. Proc. Natl. Acad. Sci. USA 2010, 107(Suppl. 1):1742-1746.
    • (2010) Proc. Natl. Acad. Sci. USA , vol.107 , Issue.SUPPL. 1 , pp. 1742-1746
    • Holmes, E.C.1
  • 29
    • 0026004791 scopus 로고
    • Evolutionary analysis of the influenza A virus M gene with comparison of the M1 and M2 proteins
    • Ito T., Gorman O.T., Kawaoka Y., Bean W.J., Webster R.G. Evolutionary analysis of the influenza A virus M gene with comparison of the M1 and M2 proteins. J. Virol. 1991, 65:5491-5498.
    • (1991) J. Virol. , vol.65 , pp. 5491-5498
    • Ito, T.1    Gorman, O.T.2    Kawaoka, Y.3    Bean, W.J.4    Webster, R.G.5
  • 30
    • 0036147047 scopus 로고    scopus 로고
    • Rates of molecular evolution in RNA viruses: a quantitative phylogenetic analysis
    • Jenkins G.M., Rambaut A., Pybus O.G., Holmes E.C. Rates of molecular evolution in RNA viruses: a quantitative phylogenetic analysis. J. Mol. Evol. 2002, 54:156-165.
    • (2002) J. Mol. Evol. , vol.54 , pp. 156-165
    • Jenkins, G.M.1    Rambaut, A.2    Pybus, O.G.3    Holmes, E.C.4
  • 31
    • 0024439330 scopus 로고
    • Avian-to-human transmission of the PB1 gene of influenza A viruses in the 1957 and 1968 pandemics
    • Kawaoka Y., Krauss S., Webster R.G. Avian-to-human transmission of the PB1 gene of influenza A viruses in the 1957 and 1968 pandemics. J. Virol. 1989, 63:4603-4608.
    • (1989) J. Virol. , vol.63 , pp. 4603-4608
    • Kawaoka, Y.1    Krauss, S.2    Webster, R.G.3
  • 32
    • 31344448218 scopus 로고    scopus 로고
    • Influenza pandemics of the 20th century
    • Kilbourne E.D. Influenza pandemics of the 20th century. Emerg. Infect. Dis. 2006, 12:9-14.
    • (2006) Emerg. Infect. Dis. , vol.12 , pp. 9-14
    • Kilbourne, E.D.1
  • 34
  • 36
    • 0014752433 scopus 로고
    • Studies on antigenic variations of the haemagglutinin and neuraminidase of swine influenza virus isolates
    • Meier-Ewert H., Dimmock N.J. Studies on antigenic variations of the haemagglutinin and neuraminidase of swine influenza virus isolates. J. Gen. Virol. 1970, 6:409-419.
    • (1970) J. Gen. Virol. , vol.6 , pp. 409-419
    • Meier-Ewert, H.1    Dimmock, N.J.2
  • 38
    • 79956150523 scopus 로고    scopus 로고
    • Genome-scale evolution and phylodynamics of equine H3N8 influenza A virus
    • Murcia P.R., Wood J.L., Holmes E.C. Genome-scale evolution and phylodynamics of equine H3N8 influenza A virus. J. Virol. 2011, 85:5312-5322.
    • (2011) J. Virol. , vol.85 , pp. 5312-5322
    • Murcia, P.R.1    Wood, J.L.2    Holmes, E.C.3
  • 39
    • 0030731422 scopus 로고    scopus 로고
    • Nuclear import and export of influenza virus nucleoprotein
    • Neumann G., Castrucci M.R., Kawaoka Y. Nuclear import and export of influenza virus nucleoprotein. J. Virol. 1997, 71:9690-9700.
    • (1997) J. Virol. , vol.71 , pp. 9690-9700
    • Neumann, G.1    Castrucci, M.R.2    Kawaoka, Y.3
  • 40
    • 0019417811 scopus 로고
    • Evidence for the natural transmission of influenza A virus from wild ducts to swine and its potential importance for man
    • Pensaert M., Ottis K., Vandeputte J., Kaplan M.M., Bachmann P.A. Evidence for the natural transmission of influenza A virus from wild ducts to swine and its potential importance for man. Bull. World Health Organ. 1981, 59:75-78.
    • (1981) Bull. World Health Organ. , vol.59 , pp. 75-78
    • Pensaert, M.1    Ottis, K.2    Vandeputte, J.3    Kaplan, M.M.4    Bachmann, P.A.5
  • 41
    • 0037197919 scopus 로고    scopus 로고
    • Hemagglutinin sequence clusters and the antigenic evolution of influenza A virus
    • Plotkin J.B., Dushoff J., Levin S.A. Hemagglutinin sequence clusters and the antigenic evolution of influenza A virus. Proc. Natl. Acad. Sci. USA 2002, 99:6263-6268.
    • (2002) Proc. Natl. Acad. Sci. USA , vol.99 , pp. 6263-6268
    • Plotkin, J.B.1    Dushoff, J.2    Levin, S.A.3
  • 42
    • 15844406550 scopus 로고    scopus 로고
    • HyPhy: hypothesis testing using phylogenies
    • Pond S.L., Frost S.D., Muse S.V. HyPhy: hypothesis testing using phylogenies. Bioinformatics 2005, 21:676-679.
    • (2005) Bioinformatics , vol.21 , pp. 676-679
    • Pond, S.L.1    Frost, S.D.2    Muse, S.V.3
  • 43
    • 0031773680 scopus 로고    scopus 로고
    • MODELTEST: testing the model of DNA substitution
    • Posada D., Crandall K.A. MODELTEST: testing the model of DNA substitution. Bioinformatics 1998, 14:817-818.
    • (1998) Bioinformatics , vol.14 , pp. 817-818
    • Posada, D.1    Crandall, K.A.2
  • 44
    • 67651100815 scopus 로고    scopus 로고
    • Evolutionary analysis of the dynamics of viral infectious disease
    • Pybus O.G., Rambaut A. Evolutionary analysis of the dynamics of viral infectious disease. Nat. Rev. Genet. 2009, 10:540-550.
    • (2009) Nat. Rev. Genet. , vol.10 , pp. 540-550
    • Pybus, O.G.1    Rambaut, A.2
  • 45
    • 33751214219 scopus 로고    scopus 로고
    • Comparison of avian and human influenza A viruses reveals a mutational bias on the viral genomes
    • Rabadan R., Levine A.J., Robins H. Comparison of avian and human influenza A viruses reveals a mutational bias on the viral genomes. J. Virol. 2006, 80:11887-11891.
    • (2006) J. Virol. , vol.80 , pp. 11887-11891
    • Rabadan, R.1    Levine, A.J.2    Robins, H.3
  • 47
    • 9444252844 scopus 로고    scopus 로고
    • Evidence of an absence: the genetic origins of the 1918 pandemic influenza virus
    • Reid A.H., Taubenberger J.K., Fanning T.G. Evidence of an absence: the genetic origins of the 1918 pandemic influenza virus. Nat. Rev. Microbiol. 2004, 2:909-914.
    • (2004) Nat. Rev. Microbiol. , vol.2 , pp. 909-914
    • Reid, A.H.1    Taubenberger, J.K.2    Fanning, T.G.3
  • 48
    • 77749322610 scopus 로고    scopus 로고
    • Towards an atomic resolution understanding of the influenza virus replication machinery
    • Ruigrok R.W., Crepin T., Hart D.J., Cusack S. Towards an atomic resolution understanding of the influenza virus replication machinery. Curr. Opin. Struct. Biol. 2010, 20:104-113.
    • (2010) Curr. Opin. Struct. Biol. , vol.20 , pp. 104-113
    • Ruigrok, R.W.1    Crepin, T.2    Hart, D.J.3    Cusack, S.4
  • 52
    • 0023201249 scopus 로고
    • The avian influenza virus nucleoprotein gene and a specific constellation of avian and human virus polymerase genes each specify attenuation of avian-human influenza A/Pintail/79 reassortant viruses for monkeys
    • Snyder M.H., Buckler-White A.J., London W.T., Tierney E.L., Murphy B.R. The avian influenza virus nucleoprotein gene and a specific constellation of avian and human virus polymerase genes each specify attenuation of avian-human influenza A/Pintail/79 reassortant viruses for monkeys. J. Virol. 1987, 61:2857-2863.
    • (1987) J. Virol. , vol.61 , pp. 2857-2863
    • Snyder, M.H.1    Buckler-White, A.J.2    London, W.T.3    Tierney, E.L.4    Murphy, B.R.5
  • 53
    • 14644397888 scopus 로고    scopus 로고
    • RAxML-III: a fast program for maximum likelihood-based inference of large phylogenetic trees
    • Stamatakis A., Ludwig T., Meier H. RAxML-III: a fast program for maximum likelihood-based inference of large phylogenetic trees. Bioinformatics 2005, 21:456-463.
    • (2005) Bioinformatics , vol.21 , pp. 456-463
    • Stamatakis, A.1    Ludwig, T.2    Meier, H.3
  • 54
    • 0034983646 scopus 로고    scopus 로고
    • Bayesian selection of continuous-time Markov chain evolutionary models
    • Suchard M.A., Weiss R.E., Sinsheimer J.S. Bayesian selection of continuous-time Markov chain evolutionary models. Mol. Biol. Evol. 2001, 18:1001-1013.
    • (2001) Mol. Biol. Evol. , vol.18 , pp. 1001-1013
    • Suchard, M.A.1    Weiss, R.E.2    Sinsheimer, J.S.3
  • 55
    • 33748789595 scopus 로고    scopus 로고
    • Natural selection on the influenza virus genome
    • Suzuki Y. Natural selection on the influenza virus genome. Mol. Biol. Evol. 2006, 23:1902-1911.
    • (2006) Mol. Biol. Evol. , vol.23 , pp. 1902-1911
    • Suzuki, Y.1
  • 57
    • 79960962872 scopus 로고    scopus 로고
    • Evolution of influenza viral neuraminidase (NA) revealed by large-scale sequence analysis
    • Xu J., Lu G. Evolution of influenza viral neuraminidase (NA) revealed by large-scale sequence analysis. Influenza Other Respi. Viruses 2011, 5(Suppl. 1):395-415.
    • (2011) Influenza Other Respi. Viruses , vol.5 , Issue.SUPPL. 1 , pp. 395-415
    • Xu, J.1    Lu, G.2
  • 58
    • 33845890539 scopus 로고    scopus 로고
    • The mechanism by which influenza A virus nucleoprotein forms oligomers and binds RNA
    • Ye Q., Krug R.M., Tao Y.J. The mechanism by which influenza A virus nucleoprotein forms oligomers and binds RNA. Nature 2006, 444:1078-1082.
    • (2006) Nature , vol.444 , pp. 1078-1082
    • Ye, Q.1    Krug, R.M.2    Tao, Y.J.3


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