-
1
-
-
0026576063
-
Evolution and ecology of influenza A viruses
-
Webster RG, Bean WJ, Gorman OT, Chambers TM, Kawaoka Y (1992) Evolution and ecology of influenza A viruses. Microbiological Reviews 56: 152-179.
-
(1992)
Microbiological Reviews
, vol.56
, pp. 152-179
-
-
Webster, R.G.1
Bean, W.J.2
Gorman, O.T.3
Chambers, T.M.4
Kawaoka, Y.5
-
2
-
-
44949193800
-
The evolutionary genetics and emergence of avian influenza viruses in wild birds
-
Dugan VG, Chen R, Spiro DJ, Sengamalay N, Zaborsky J, et al. (2008) The evolutionary genetics and emergence of avian influenza viruses in wild birds. PLoS Pathogens 4: e1000076.
-
(2008)
PLoS Pathogens
, vol.4
-
-
Dugan, V.G.1
Chen, R.2
Spiro, D.J.3
Sengamalay, N.4
Zaborsky, J.5
-
3
-
-
34248190910
-
Genome analysis linking recent European and African influenza (H5N1) viruses
-
Salzberg SL, Kingsford C, Cattoli G, Spiro DJ, Janies DA, et al. (2007) Genome analysis linking recent European and African influenza (H5N1) viruses. Emerg Infect Dis 13: 713.
-
(2007)
Emerg Infect Dis
, vol.13
, pp. 713
-
-
Salzberg, S.L.1
Kingsford, C.2
Cattoli, G.3
Spiro, D.J.4
Janies, D.A.5
-
4
-
-
34547730145
-
Influenza virus susceptibility and resistance to oseltamivir
-
Aoki FY, Boivin G, Roberts N (2007) Influenza virus susceptibility and resistance to oseltamivir. Antiviral Therapy 12: 603-616.
-
(2007)
Antiviral Therapy
, vol.12
, pp. 603-616
-
-
Aoki, F.Y.1
Boivin, G.2
Roberts, N.3
-
5
-
-
34447271704
-
Surveillance of resistance to adamantanes among influenza A(H3N2) and A(H1N1) viruses isolated worldwide
-
Deyde VM, Xu X, Bright RA, Shaw M, Smith CB, et al. (2007) Surveillance of resistance to adamantanes among influenza A(H3N2) and A(H1N1) viruses isolated worldwide. J Infect Dis 196: 249-257.
-
(2007)
J Infect Dis
, vol.196
, pp. 249-257
-
-
Deyde, V.M.1
Xu, X.2
Bright, R.A.3
Shaw, M.4
Smith, C.B.5
-
6
-
-
34548223154
-
Neuraminidase inhibitor resistance in influenza viruses
-
Reece PA (2007) Neuraminidase inhibitor resistance in influenza viruses. J Med Virol 79: 1577-1586.
-
(2007)
J Med Virol
, vol.79
, pp. 1577-1586
-
-
Reece, P.A.1
-
7
-
-
46049087326
-
Vaccination and antigenic drift in influenza
-
Boni MF (2008) Vaccination and antigenic drift in influenza. Vaccine 26 Suppl 3: C8-14.
-
(2008)
Vaccine
, vol.26 SUPPL. 3
-
-
Boni, M.F.1
-
8
-
-
0020629723
-
Antigenic drift in influenza virus H3 hemagglutinin from 1968 to 1980: Multiple evolutionary pathways and sequential amino acid changes at key antigenic sites
-
Both GW, Sleigh MJ, Cox NJ, Kendal AP (1983) Antigenic drift in influenza virus H3 hemagglutinin from 1968 to 1980: multiple evolutionary pathways and sequential amino acid changes at key antigenic sites. Journal of Virology 48: 52-60.
-
(1983)
Journal of Virology
, vol.48
, pp. 52-60
-
-
Both, G.W.1
Sleigh, M.J.2
Cox, N.J.3
Kendal, A.P.4
-
11
-
-
3142682239
-
Mapping the antigenic and genetic evolution of influenza virus
-
Smith DJ, Lapedes AS, de Jong JC, Bestebroer TM, Rimmelzwaan GF, et al. (2004) Mapping the antigenic and genetic evolution of influenza virus. Science 305: 371-376.
-
(2004)
Science
, vol.305
, pp. 371-376
-
-
Smith, D.J.1
Lapedes, A.S.2
de Jong, J.C.3
Bestebroer, T.M.4
Rimmelzwaan, G.F.5
-
12
-
-
67650407532
-
Antigenic and genetic characteristics of swine-origin 2009 A(H1N1) influenza viruses circulating in humans
-
Garten RJ, Davis CT, Russell CA, Shu B, Lindstrom S, et al. (2009) Antigenic and genetic characteristics of swine-origin 2009 A(H1N1) influenza viruses circulating in humans. Science 325: 197-201.
-
(2009)
Science
, vol.325
, pp. 197-201
-
-
Garten, R.J.1
Davis, C.T.2
Russell, C.A.3
Shu, B.4
Lindstrom, S.5
-
13
-
-
24944468625
-
Whole-genome analysis of human influenza A virus reveals multiple persistent lineages and reassortment among recent H3N2 viruses
-
Holmes EC, Ghedin E, Miller N, Taylor J, Bao YM, et al. (2005) Whole-genome analysis of human influenza A virus reveals multiple persistent lineages and reassortment among recent H3N2 viruses. PLoS Biology 3: e300.
-
(2005)
PLoS Biology
, vol.3
-
-
Holmes, E.C.1
Ghedin, E.2
Miller, N.3
Taylor, J.4
Bao, Y.M.5
-
14
-
-
40349089871
-
Multiple reassortment events in the evolutionary history of H1N1 influenza A virus since 1918
-
Nelson MI, Viboud C, Simonsen L, Bennett RT, Griesemer SB, et al. (2008) Multiple reassortment events in the evolutionary history of H1N1 influenza A virus since 1918. PLoS Pathog 4.
-
(2008)
PLoS Pathog
, vol.4
-
-
Nelson, M.I.1
Viboud, C.2
Simonsen, L.3
Bennett, R.T.4
Griesemer, S.B.5
-
15
-
-
34547756397
-
The genesis and spread of reassortment human influenza A/H3N2 viruses conferring adamantane resistance
-
Simonsen L, Viboud C, Grenfell BT, Dushoff J, Jennings L, et al. (2007) The genesis and spread of reassortment human influenza A/H3N2 viruses conferring adamantane resistance. Mol Biol Evol 24: 1811.
-
(2007)
Mol Biol Evol
, vol.24
, pp. 1811
-
-
Simonsen, L.1
Viboud, C.2
Grenfell, B.T.3
Dushoff, J.4
Jennings, L.5
-
16
-
-
67649538978
-
Origins and evolutionary genomics of the 2009 swine-origin H1N1 influenza A epidemic
-
Smith GJ, Vijaykrishna D, Bahl J, Lycett SJ, Worobey M, et al. (2009) Origins and evolutionary genomics of the 2009 swine-origin H1N1 influenza A epidemic. Nature 459: 1122-1125.
-
(2009)
Nature
, vol.459
, pp. 1122-1125
-
-
Smith, G.J.1
Vijaykrishna, D.2
Bahl, J.3
Lycett, S.J.4
Worobey, M.5
-
17
-
-
67650494311
-
Geographic dependence, surveillance, and origins of the 2009 influenza A (H1N1) virus
-
Trifonov V, Khiabanian H, Rabadan R (2009) Geographic dependence, surveillance, and origins of the 2009 influenza A (H1N1) virus. N Engl J Med 361: 115-119.
-
(2009)
N Engl J Med
, vol.361
, pp. 115-119
-
-
Trifonov, V.1
Khiabanian, H.2
Rabadan, R.3
-
18
-
-
0024347652
-
Increased viral pathogenicity after insertion of a 28 S ribosomal RNA sequence into the haemagglutinin gene of an influenza virus
-
Khatchikian D, Orlich M, Rott R (1989) Increased viral pathogenicity after insertion of a 28 S ribosomal RNA sequence into the haemagglutinin gene of an influenza virus. Nature 340: 156-157.
-
(1989)
Nature
, vol.340
, pp. 156-157
-
-
Khatchikian, D.1
Orlich, M.2
Rott, R.3
-
19
-
-
0028086229
-
Nonhomologous recombination between the hemagglutinin gene and the nucleoprotein gene of an influenza virus
-
Orlich M, Gottwald H, Rott R (1994) Nonhomologous recombination between the hemagglutinin gene and the nucleoprotein gene of an influenza virus. Virology 204: 462-465.
-
(1994)
Virology
, vol.204
, pp. 462-465
-
-
Orlich, M.1
Gottwald, H.2
Rott, R.3
-
20
-
-
12144289244
-
Recombination resulting in virulence shift in avian influenza outbreak, Chile
-
Suarez DL, Senne DA, Banks J, Brown IH, Essen SC, et al. (2004) Recombination resulting in virulence shift in avian influenza outbreak, Chile. Emerging Infectious Diseases 10: 693-699.
-
(2004)
Emerging Infectious Diseases
, vol.10
, pp. 693-699
-
-
Suarez, D.L.1
Senne, D.A.2
Banks, J.3
Brown, I.H.4
Essen, S.C.5
-
21
-
-
0035822899
-
Recombination in the Hemagglutinin Gene of the 1918 "Spanish Flu"
-
Gibbs MJ, Armstrong JS, Gibbs AJ (2001) Recombination in the Hemagglutinin Gene of the 1918 "Spanish Flu". Science 293: 1842.
-
(2001)
Science
, vol.293
, pp. 1842
-
-
Gibbs, M.J.1
Armstrong, J.S.2
Gibbs, A.J.3
-
22
-
-
52049113188
-
Homologous recombination evidence in human and swine influenza A viruses
-
He C-Q, Han G-Z, Wang D, Liu W, Li G-R, et al. (2008) Homologous recombination evidence in human and swine influenza A viruses. Virology 380: 12.
-
(2008)
Virology
, vol.380
, pp. 12
-
-
He, C.Q.1
Han, G.Z.2
Wang, D.3
Liu, W.4
Li, G.R.5
-
23
-
-
57749185695
-
Homologous recombination as an evolutionary force in the avian influenza A virus
-
He C-Q, Xie Z-X, Han G-Z, Dong J-B, Wang D, et al. (2009) Homologous recombination as an evolutionary force in the avian influenza A virus. Mol Biol Evol 26: 177.
-
(2009)
Mol Biol Evol
, vol.26
, pp. 177
-
-
He, C.Q.1
Xie, Z.X.2
Han, G.Z.3
Dong, J.B.4
Wang, D.5
-
25
-
-
0037066845
-
Questioning the Evidence for Genetic Recombination in the 1918 "Spanish Flu" Virus
-
Worobey M, Rambaut A, Pybus OG, Robertson DL (2002) Questioning the Evidence for Genetic Recombination in the 1918 "Spanish Flu" Virus. Science 296: 211.
-
(2002)
Science
, vol.296
, pp. 211
-
-
Worobey, M.1
Rambaut, A.2
Pybus, O.G.3
Robertson, D.L.4
-
26
-
-
43249110221
-
Homologous recombination is very rare or absent in human influenza A virus
-
Boni MF, Zhou Y, Taubenberger JK, Holmes EC (2008) Homologous recombination is very rare or absent in human influenza A virus. J Virol 82: 4807.
-
(2008)
J Virol
, vol.82
, pp. 4807
-
-
Boni, M.F.1
Zhou, Y.2
Taubenberger, J.K.3
Holmes, E.C.4
-
27
-
-
47649098543
-
Homologous recombination is unlikely to play a major role in influenza B virus evolution
-
Han G-Z, Liu X-P, Li S-S (2008) Homologous recombination is unlikely to play a major role in influenza B virus evolution. Virol J 5: 65.
-
(2008)
Virol J
, vol.5
, pp. 65
-
-
Han, G.Z.1
Liu, X.P.2
Li, S.S.3
-
28
-
-
36749025693
-
Isolates of Zaire ebolavirus from wild apes reveal genetic lineage and recombinants
-
Wittmann TJ, Biek R, Hassanin A, Rouquet P, Reed P, et al. (2007) Isolates of Zaire ebolavirus from wild apes reveal genetic lineage and recombinants. Proc Natl Acad Sci U S A 104: 17123-17127.
-
(2007)
Proc Natl Acad Sci U S A
, vol.104
, pp. 17123-17127
-
-
Wittmann, T.J.1
Biek, R.2
Hassanin, A.3
Rouquet, P.4
Reed, P.5
-
29
-
-
0142088791
-
Phylogenetic analysis reveals a low rate of homologous recombination in negative-sense RNA viruses
-
Chare ER, Gould EA, Holmes EC (2003) Phylogenetic analysis reveals a low rate of homologous recombination in negative-sense RNA viruses. Journal of General Virology 84: 2691-2703.
-
(2003)
Journal of General Virology
, vol.84
, pp. 2691-2703
-
-
Chare, E.R.1
Gould, E.A.2
Holmes, E.C.3
-
30
-
-
0032411722
-
Nonsegmented negative-strand RNA viruses: Genetics and manipulation of viral genomes
-
Conzelmann KK (1998) Nonsegmented negative-strand RNA viruses: genetics and manipulation of viral genomes. Annu Rev Genet 32: 123-162.
-
(1998)
Annu Rev Genet
, vol.32
, pp. 123-162
-
-
Conzelmann, K.K.1
-
31
-
-
69249214151
-
Mixed Infection and the Genesis of Influenza Virus Diversity
-
Ghedin E, Fitch A, Boyne A, Griesemer S, DePasse J, et al. (2009) Mixed Infection and the Genesis of Influenza Virus Diversity. Journal of Virology 83: 8832-8841.
-
(2009)
Journal of Virology
, vol.83
, pp. 8832-8841
-
-
Ghedin, E.1
Fitch, A.2
Boyne, A.3
Griesemer, S.4
DePasse, J.5
-
32
-
-
50149087104
-
Anomalies in the influenza virus genome database: New biology or laboratory errors?
-
Krasnitz M, Levine AJ, Rabadan R (2008) Anomalies in the influenza virus genome database: new biology or laboratory errors? J Virol 82: 8947.
-
(2008)
J Virol
, vol.82
, pp. 8947
-
-
Krasnitz, M.1
Levine, A.J.2
Rabadan, R.3
-
33
-
-
34250757252
-
An Exact Nonparametric Method for Inferring Mosaic Structure in Sequence Triplets
-
Boni MF, Posada D, Feldman MW (2007) An Exact Nonparametric Method for Inferring Mosaic Structure in Sequence Triplets. Genetics 176: 1035-1047.
-
(2007)
Genetics
, vol.176
, pp. 1035-1047
-
-
Boni, M.F.1
Posada, D.2
Feldman, M.W.3
-
34
-
-
0032889281
-
Full-length human immunodeficiency virus type 1 genomes from subtype Cinfected seroconverters in India, with evidence of intersubtype recombination
-
Lole KS, Bollinger RC, Paranjape RS, Gadkari D, Kulkarni SS, et al. (1999) Full-length human immunodeficiency virus type 1 genomes from subtype Cinfected 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
-
36
-
-
57049130912
-
Frequent inter-species transmission and geographic subdivision in avian influenza viruses from wild birds
-
Chen R, Holmes EC (2009) Frequent inter-species transmission and geographic subdivision in avian influenza viruses from wild birds. Virology 383: 156-161.
-
(2009)
Virology
, vol.383
, pp. 156-161
-
-
Chen, R.1
Holmes, E.C.2
-
37
-
-
66149093121
-
Different evolutionary trajectories of European avian-like and classical swine H1N1 influenza A viruses
-
Dunham EJ, Dugan VG, Kaser EK, Perkins SE, Brown IH, et al. (2009) Different evolutionary trajectories of European avian-like and classical swine H1N1 influenza A viruses. J Virol 83: 5485-5494.
-
(2009)
J Virol
, vol.83
, pp. 5485-5494
-
-
Dunham, E.J.1
Dugan, V.G.2
Kaser, E.K.3
Perkins, S.E.4
Brown, I.H.5
-
38
-
-
0029971526
-
Antigenic and genetic evolution of equine H3N8 influenza A viruses
-
Daly JM, Lai AC, Binns MM, Chambers TM, Barrandeguy M, et al. (1996) Antigenic and genetic evolution of equine H3N8 influenza A viruses. J Gen Virol 77 (Pt 4): 661-671.
-
(1996)
J Gen Virol
, vol.77
, Issue.PART 4
, pp. 661-671
-
-
Daly, J.M.1
Lai, A.C.2
Binns, M.M.3
Chambers, T.M.4
Barrandeguy, M.5
-
39
-
-
58149514542
-
Animal genetic resource trade flows: Economic assessment
-
Gollin D, Van Dusen E, Blackburn H (2009) Animal genetic resource trade flows: Economic assessment. Livestock Science 120: 248-255.
-
(2009)
Livestock Science
, vol.120
, pp. 248-255
-
-
Gollin, D.1
Van Dusen, E.2
Blackburn, H.3
-
41
-
-
41149146470
-
Phylogenetic evidence against evolutionary stasis and natural abiotic reservoirs of influenza A virus
-
Worobey M (2008) Phylogenetic evidence against evolutionary stasis and natural abiotic reservoirs of influenza A virus. J Virol 82: 3769-3774.
-
(2008)
J Virol
, vol.82
, pp. 3769-3774
-
-
Worobey, M.1
-
42
-
-
33750403801
-
RAxML-VI-HPC: Maximum likelihood-based phylogenetic analyses with thousands of taxa and mixed models
-
Stamatakis A (2006) RAxML-VI-HPC: maximum likelihood-based phylogenetic analyses with thousands of taxa and mixed models. Bioinformatics 22: 2688.
-
(2006)
Bioinformatics
, vol.22
, pp. 2688
-
-
Stamatakis, A.1
-
43
-
-
50249100595
-
A rapid bootstrap algorithm for the RAxML Web servers
-
Stamatakis A, Hoover P, Rougemont J (2008) A rapid bootstrap algorithm for the RAxML Web servers. Syst Biol 57: 758.
-
(2008)
Syst Biol
, vol.57
, pp. 758
-
-
Stamatakis, A.1
Hoover, P.2
Rougemont, J.3
-
44
-
-
27144474904
-
Large-scale sequencing of human influenza reveals the dynamic nature of viral genome evolution
-
Ghedin E, Sengamalay NA, Shumway M, Zaborsky J, Feldblyum T, et al. (2005) Large-scale sequencing of human influenza reveals the dynamic nature of viral genome evolution. Nature 437: 1162-1166.
-
(2005)
Nature
, vol.437
, pp. 1162-1166
-
-
Ghedin, E.1
Sengamalay, N.A.2
Shumway, M.3
Zaborsky, J.4
Feldblyum, T.5
-
45
-
-
3042666256
-
MUSCLE: Multiple sequence alignment with high accuracy and high throughput
-
Edgar RC (2004) MUSCLE: multiple sequence alignment with high accuracy and high throughput. Nucleic Acids Research 32: 1792-1797.
-
(2004)
Nucleic Acids Research
, vol.32
, pp. 1792-1797
-
-
Edgar, R.C.1
-
46
-
-
38249041699
-
Large deviations for the maxima of some random fields
-
Hogan ML, Siegmund D (1986) Large deviations for the maxima of some random fields. Adv Appl Math 7: 2.
-
(1986)
Adv Appl Math
, vol.7
, pp. 2
-
-
Hogan, M.L.1
Siegmund, D.2
-
48
-
-
0031773680
-
MODELTEST: Testing the model of DNA substitution
-
Posada D, Crandall KA (1998) MODELTEST: testing the model of DNA substitution. Bioinformatics 14: 817-818.
-
(1998)
Bioinformatics
, vol.14
, pp. 817-818
-
-
Posada, D.1
Crandall, K.A.2
-
49
-
-
0031041347
-
A likelihood method for the detection of selection and recombination using nucleotide sequences
-
Grassly NC, Holmes EC (1997) A likelihood method for the detection of selection and recombination using nucleotide sequences. Molecular Biology and Evolution 14: 239.
-
(1997)
Molecular Biology and Evolution
, vol.14
, pp. 239
-
-
Grassly, N.C.1
Holmes, E.C.2
|