-
1
-
-
84936817692
-
Analysis of bottlenecks in experimental models of infection
-
Abel, S., P. A. zur Wiesch, B. Davis, and M. Waldor, 2015 Analysis of bottlenecks in experimental models of infection. PLoS Pathog. 11: e1004823. https://doi.org/10.1371/journal.ppat.1004823
-
(2015)
Plos Pathog
, vol.11
-
-
Abel, S.1
Zur Wiesch, P.A.2
Davis, B.3
Waldor, M.4
-
2
-
-
77957156495
-
Risk factors for the evolutionary emergence of pathogens
-
cor-rigenda: J. R. Soc. Interface 8: 1064 (2011)
-
Alexander, H., and T. Day, 2010 Risk factors for the evolutionary emergence of pathogens. J. R. Soc. Interface 7: 1455–1474 [cor-rigenda: J. R. Soc. Interface 8: 1064 (2011)]. https://doi.org/10.1098/rsif.2010.0123
-
(2010)
J. R. Soc. Interface
, vol.7
, pp. 1455-1474
-
-
Alexander, H.1
Day, T.2
-
3
-
-
47349097264
-
Fixation probabilities depend on life history: Fecundity, generation time and survival in a burst-death model
-
Alexander, H., and L. Wahl, 2008 Fixation probabilities depend on life history: fecundity, generation time and survival in a burst-death model. Evolution 62: 1600–1609. https://doi.org/10.1111/j.1558-5646.2008.00396.x
-
(2008)
Evolution
, vol.62
, pp. 1600-1609
-
-
Alexander, H.1
Wahl, L.2
-
4
-
-
58549116149
-
Virulence evolution and the trade-off hypothesis: History, current state of affairs and the future
-
Alizon, S., A. Hurfurd, N. Mideo, and M. Van Baalen, 2009 Virulence evolution and the trade-off hypothesis: history, current state of affairs and the future. J. Evol. Biol. 22: 245–259. https://doi.org/10.1111/j.1420-9101.2008.01658.x
-
(2009)
J. Evol. Biol.
, vol.22
, pp. 245-259
-
-
Alizon, S.1
Hurfurd, A.2
Mideo, N.3
van Baalen, M.4
-
5
-
-
0347185345
-
The role of evolution in the emergence of infectious diseases
-
Antia, R., R. Regoes, J. Koella, and C. Bergstrom, 2003 The role of evolution in the emergence of infectious diseases. Nature 426: 658–661. https://doi.org/10.1038/nature02104
-
(2003)
Nature
, vol.426
, pp. 658-661
-
-
Antia, R.1
Regoes, R.2
Koella, J.3
Bergstrom, C.4
-
6
-
-
33746190701
-
Kinetics of influenza A virus infection in humans
-
Baccam, P., C. Beauchemin, C. A. Macken, F. G. Hayden, and A. S. Perelson, 2006 Kinetics of influenza A virus infection in humans. J. Virol. 80: 7590–7599. https://doi.org/10.1128/JVI. 01623-05
-
(2006)
J. Virol.
, vol.80
, pp. 7590-7599
-
-
Baccam, P.1
Beauchemin, C.2
Macken, C.A.3
Hayden, F.G.4
Perelson, A.S.5
-
7
-
-
79952567961
-
A review of mathematical models of influenza A infections within a host or cell culture: Lessons learned and challenges ahead
-
Beauchemin, C., and A. Handel, 2011 A review of mathematical models of influenza A infections within a host or cell culture: lessons learned and challenges ahead. BMC Public Health 11: S7. https://doi.org/10.1186/1471-2458-11-S1-S7
-
(2011)
BMC Public Health
, vol.11
, pp. 7
-
-
Beauchemin, C.1
Handel, A.2
-
8
-
-
7644242473
-
A simple cellular automaton model for influenza A viral infections
-
Beauchemin, C., J. Samuel, and J. Tuszynski, 2005 A simple cellular automaton model for influenza A viral infections. J. Theor. Biol. 232: 223–234. https://doi.org/10.1016/j.jtbi.2004.08.001
-
(2005)
J. Theor. Biol.
, vol.232
, pp. 223-234
-
-
Beauchemin, C.1
Samuel, J.2
Tuszynski, J.3
-
9
-
-
0033609141
-
Transmission bottlenecks as determinants of virulence in rapidly evolving pathogens
-
Bergstrom, C. T., P. McElhany, and L. A. Real, 1999 Transmission bottlenecks as determinants of virulence in rapidly evolving pathogens. Proc. Natl. Acad. Sci. USA 96: 5095–5100. https://doi.org/10.1073/pnas.96.9.5095
-
(1999)
Proc. Natl. Acad. Sci. USA
, vol.96
, pp. 5095-5100
-
-
Bergstrom, C.T.1
McElhany, P.2
Real, L.A.3
-
10
-
-
84907661333
-
Estimates of the reproduction number for seasonal, pandemic, and zoonotic influenza: A systematic review of the literature
-
Biggerstaff, M., S. Cauchemez, C. Reed, M. Gambhir, and L. Finelli, 2014 Estimates of the reproduction number for seasonal, pandemic, and zoonotic influenza: a systematic review of the literature. BMC Infect. Dis. 14: 480. https://doi.org/10.1186/1471-2334-14-480
-
(2014)
BMC Infect. Dis.
, vol.14
, pp. 480
-
-
Biggerstaff, M.1
Cauchemez, S.2
Reed, C.3
Gambhir, M.4
Finelli, L.5
-
11
-
-
0028338689
-
Mathematical model of antiviral immune response III. Influenza A virus infection
-
Bocharov, G., and A. Romanyukha, 1994 Mathematical model of antiviral immune response III. Influenza A virus infection. J. Theor. Biol. 167: 323–360. https://doi.org/10.1006/jtbi. 1994.1074
-
(1994)
J. Theor. Biol.
, vol.167
, pp. 323-360
-
-
Bocharov, G.1
Romanyukha, A.2
-
12
-
-
84944055938
-
Modeling influenza virus infection: A roadmap for influenza research
-
Boianelli, A., V. K. Nguyen, T. Ebensen, K. Schulze, E. Wilk et al., 2015 Modeling influenza virus infection: a roadmap for influenza research. Viruses 7: 5274–5304. https://doi.org/10.3390/v7102875
-
(2015)
Viruses
, vol.7
, pp. 5274-5304
-
-
Boianelli, A.1
Nguyen, V.K.2
Ebensen, T.3
Schulze, K.4
Wilk, E.5
-
13
-
-
51449086295
-
The biology of influenza viruses
-
Bouvier, N. M., and P. Palese, 2008 The biology of influenza viruses. Vaccine 26: D49–D53. https://doi.org/10.1016/j.vaccine. 2008.07.039
-
(2008)
Vaccine
, vol.26
, pp. D49-D53
-
-
Bouvier, N.M.1
Palese, P.2
-
14
-
-
0033055004
-
Evolution by small steps and rugged landscapes in the RNA virus phi6
-
Burch, C. L., and L. Chao, 1999 Evolution by small steps and rugged landscapes in the RNA virus phi6. Genetics 151: 921– 927.
-
(1999)
Genetics
, vol.151
, pp. 921-927
-
-
Burch, C.L.1
Chao, L.2
-
15
-
-
34548611066
-
Influenza vaccine: The challenge of antigenic drift
-
Carrat, F., and A. Flahault, 2007 Influenza vaccine: the challenge of antigenic drift. Vaccine 25: 6852–6862. https://doi.org/10. 1016/j.vaccine.2007.07.027
-
(2007)
Vaccine
, vol.25
, pp. 6852-6862
-
-
Carrat, F.1
Flahault, A.2
-
16
-
-
42149139969
-
Seasonal influenza in the United States, France, and Australia: Transmission and prospects for control
-
Chowell, G., M. Miller, and C. Viboud, 2008 Seasonal influenza in the United States, France, and Australia: transmission and prospects for control. Epidemiol. Infect. 136: 852–864. https://doi. org/10.1017/S0950268807009144
-
(2008)
Epidemiol. Infect.
, vol.136
, pp. 852-864
-
-
Chowell, G.1
Miller, M.2
Viboud, C.3
-
17
-
-
35348941195
-
Evaluating the importance of within-and between-host selection pressures on the evolution of chronic pathogens
-
Coombs, D., M. Gilchrist, and C. Ball, 2007 Evaluating the importance of within-and between-host selection pressures on the evolution of chronic pathogens. Theor. Popul. Biol. 72: 576– 591. https://doi.org/10.1016/j.tpb.2007.08.005
-
(2007)
Theor. Popul. Biol.
, vol.72
, pp. 576-591
-
-
Coombs, D.1
Gilchrist, M.2
Ball, C.3
-
18
-
-
82755182876
-
Bridging scales in the evolution of infectious disease life histories: Theory
-
Day, T., S. Alizon, and N. Mideo, 2011 Bridging scales in the evolution of infectious disease life histories: theory. Evolution 65: 3448–3461. https://doi.org/10.1111/j.1558-5646.2011.01394.x
-
(2011)
Evolution
, vol.65
, pp. 3448-3461
-
-
Day, T.1
Alizon, S.2
Mideo, N.3
-
19
-
-
85010993690
-
Vaccination has minimal impact on the intrahost diversity of H3N2 influenza viruses
-
Debbink, K., J. T. McCrone, J. G. Petrie, R. Truscon, E. Johnson et al., 2017 Vaccination has minimal impact on the intrahost diversity of H3N2 influenza viruses. PLoS Pathog. 13: e1006194. https://doi.org/10.1371/journal.ppat.1006194
-
(2017)
Plos Pathog
, vol.13
-
-
Debbink, K.1
McCrone, J.T.2
Petrie, J.G.3
Truscon, R.4
Johnson, E.5
-
20
-
-
33847314378
-
Beneficial mutation–selection balance and the effect of linkage on positive selection
-
Desai, M. M., and D. S. Fisher, 2007 Beneficial mutation–selection balance and the effect of linkage on positive selection. Genetics 176: 1759–1798. https://doi.org/10.1534/genetics.106.067678
-
(2007)
Genetics
, vol.176
, pp. 1759-1798
-
-
Desai, M.M.1
Fisher, D.S.2
-
21
-
-
33847256353
-
The speed of evolution and maintenance of variation in asexual populations
-
Desai, M. M., D. S. Fisher, and A. W. Murray, 2007 The speed of evolution and maintenance of variation in asexual populations. Curr. Biol. 17: 385–394. https://doi.org/10.1016/j.cub.2007.01.072
-
(2007)
Curr. Biol.
, vol.17
, pp. 385-394
-
-
Desai, M.M.1
Fisher, D.S.2
Murray, A.W.3
-
22
-
-
84874514993
-
Assessing mathematical models of influenza infections using features of the immune response
-
Dobrovolny, H. M., M. B. Reddy, M. A. Kamal, C. R. Rayner, and C. A. Beauchemin, 2013 Assessing mathematical models of influenza infections using features of the immune response. PLoS One 8: e57088. https://doi.org/10.1371/journal. pone.0057088
-
(2013)
Plos One
, vol.8
-
-
Dobrovolny, H.M.1
Reddy, M.B.2
Kamal, M.A.3
Rayner, C.R.4
Beauchemin, C.A.5
-
23
-
-
0026729636
-
Rapid fitness losses in mammalian RNA virus clones due to Muller’s ratchet
-
Duarte, E., D. Clarke, A. Moya, E. Domingo, and J. Holland, 1992 Rapid fitness losses in mammalian RNA virus clones due to Muller’s ratchet. Proc. Natl. Acad. Sci. USA 89: 6015– 6019. https://doi.org/10.1073/pnas.89.13.6015
-
(1992)
Proc. Natl. Acad. Sci. USA
, vol.89
, pp. 6015-6019
-
-
Duarte, E.1
Clarke, D.2
Moya, A.3
Domingo, E.4
Holland, J.5
-
24
-
-
0027192909
-
Many-trillionfold amplification of single RNA virus particles fails to overcome the Muller’s ratchet effect
-
Duarte, E. A., D. K. Clarke, A. Moya, S. F. Elena, E. Domingo et al., 1993 Many-trillionfold amplification of single RNA virus particles fails to overcome the Muller’s ratchet effect. J. Virol. 67: 3620–3623.
-
(1993)
J. Virol.
, vol.67
, pp. 3620-3623
-
-
Duarte, E.A.1
Clarke, D.K.2
Moya, A.3
Elena, S.F.4
Domingo, E.5
-
25
-
-
0002315524
-
Transmission bottlenecks and the evolution of fitness in rapidly evolving RNA viruses
-
Elena, S. F., R. Sanjuán, A. V. Bordería, and P. E. Turner, 2001 Transmission bottlenecks and the evolution of fitness in rapidly evolving RNA viruses. Infect. Genet. Evol. 1: 41–48. https://doi.org/10.1016/S1567-1348(01)00006-5
-
(2001)
Infect. Genet. Evol.
, vol.1
, pp. 41-48
-
-
Elena, S.F.1
Sanjuán, R.2
Bordería, A.V.3
Turner, P.E.4
-
26
-
-
34447546660
-
The distribution of fitness effects of new mutations
-
Eyre-Walker, A., and P. D. Keightley, 2007 The distribution of fitness effects of new mutations. Nat. Rev. Genet. 8: 610–618. https://doi.org/10.1038/nrg2146
-
(2007)
Nat. Rev. Genet.
, vol.8
, pp. 610-618
-
-
Eyre-Walker, A.1
Keightley, P.D.2
-
27
-
-
80052604121
-
Modeling the effects of vaccination and treatment on pandemic influenza
-
Feng, Z., S. Towers, and Y. Yang, 2011 Modeling the effects of vaccination and treatment on pandemic influenza. AAPS J. 13: 427–437. https://doi.org/10.1208/s12248-011-9284-7
-
(2011)
AAPS J
, vol.13
, pp. 427-437
-
-
Feng, Z.1
Towers, S.2
Yang, Y.3
-
28
-
-
84871875751
-
What limits the evolutionary emergence of pathogens?
-
Gandon, S., M. E. Hochberg, R. D. Holt, and T. Day, 2012 What limits the evolutionary emergence of pathogens? Philos. Trans. R. Soc. Lond. B Biol. Sci. 368: 20120086. https://doi.org/10. 1098/rstb.2012.0086
-
(2012)
Philos. Trans. R. Soc. Lond. B Biol. Sci.
, vol.368
, pp. 20120086
-
-
Gandon, S.1
Hochberg, M.E.2
Holt, R.D.3
Day, T.4
-
30
-
-
0036402639
-
Modeling host-parasite coevo-lution: A nested approach based on mechanistic models
-
Gilchrist, M., and A. Sasaki, 2002 Modeling host-parasite coevo-lution: a nested approach based on mechanistic models. J. Theor. Biol. 218: 289–308. https://doi.org/10.1006/jtbi.2002.3076
-
(2002)
J. Theor. Biol.
, vol.218
, pp. 289-308
-
-
Gilchrist, M.1
Sasaki, A.2
-
32
-
-
61849084110
-
Surviving the bottleneck: Transmission mutants and of microbial populations
-
Handel, A., and M. R. Bennett, 2008 Surviving the bottleneck: transmission mutants and of microbial populations. Genetics 180: 2193–2200. https://doi.org/10.1534/genetics.108.093013
-
(2008)
Genetics
, vol.180
, pp. 2193-2200
-
-
Handel, A.1
Bennett, M.R.2
-
33
-
-
0345830674
-
Evolutionary dynamics of escape from biomedical intervention
-
Iwasa, Y., F. Michor, and M. Nowak, 2003 Evolutionary dynamics of escape from biomedical intervention. Proc. Biol. Sci. 270: 2573–2578. https://doi.org/10.1098/rspb.2003.2539
-
(2003)
Proc. Biol. Sci.
, vol.270
, pp. 2573-2578
-
-
Iwasa, Y.1
Michor, F.2
Nowak, M.3
-
34
-
-
84931565184
-
Bottlenecks in HIV-1 transmission: Insights from the study of founder viruses
-
Joseph, S. B., R. Swanstrom, A. D. M. Kashuba, and M. S. Cohen, 2015 Bottlenecks in HIV-1 transmission: insights from the study of founder viruses. Nat. Rev. Microbiol. 13: 414–425. https://doi.org/10.1038/nrmicro3471
-
(2015)
Nat. Rev. Microbiol.
, vol.13
, pp. 414-425
-
-
Joseph, S.B.1
Swanstrom, R.2
Kashuba, A.D.M.3
Cohen, M.S.4
-
35
-
-
85020212228
-
The HIV-1 transmission bottleneck
-
Kariuki, S. M., P. Selhorst, K. K. Ariën, and J. R. Dorfman, 2017 The HIV-1 transmission bottleneck. Retrovirology 14: 22. https://doi.org/10.1186/s12977-017-0343-8
-
(2017)
Retrovirology
, vol.14
, pp. 22
-
-
Kariuki, S.M.1
Selhorst, P.2
Ariën, K.K.3
Dorfman, J.R.4
-
36
-
-
0032104647
-
Influence of host species on the evolution of the non-structural (NS) gene of influenza A viruses
-
Kawaoka, Y., O. T. Gorman, T. Ito, K. Wells, R. O. Donis et al., 1998 Influence of host species on the evolution of the non-structural (NS) gene of influenza A viruses. Virus Res. 55: 143–156. https://doi.org/10.1016/S0168-1702(98)00038-0
-
(1998)
Virus Res
, vol.55
, pp. 143-156
-
-
Kawaoka, Y.1
Gorman, O.T.2
Ito, T.3
Wells, K.4
Donis, R.O.5
-
37
-
-
84925308704
-
Repeatability of adaptation in experimental populations of different sizes
-
Lachapelle, J., J. Reid, and N. Colegrave, 2015 Repeatability of adaptation in experimental populations of different sizes. Proc. Biol. Sci. 282: 20143033. https://doi.org/10.1098/rspb.2014. 3033
-
(2015)
Proc. Biol. Sci.
, vol.282
, pp. 20143033
-
-
Lachapelle, J.1
Reid, J.2
Colegrave, N.3
-
38
-
-
0017239112
-
Influenza virus population dynamics in the respiratory tract of experimentally infected mice
-
Larson, E. W., J. W. Dominik, A. H. Rowberg, and G. A. Higbee, 1976 Influenza virus population dynamics in the respiratory tract of experimentally infected mice. Infect. Immun. 13: 438– 447.
-
(1976)
Infect. Immun.
, vol.13
, pp. 438-447
-
-
Larson, E.W.1
Dominik, J.W.2
Rowberg, A.H.3
Higbee, G.A.4
-
39
-
-
77951883726
-
Viral shedding and clinical illness in naturally acquired influenza virus infections
-
Lau, L. L., B. J. Cowling, V. J. Fang, K.-H. Chan, E. H. Lau et al., 2010 Viral shedding and clinical illness in naturally acquired influenza virus infections. J. Infect. Dis. 201: 1509–1516. https://doi.org/10.1086/652241
-
(2010)
J. Infect. Dis.
, vol.201
, pp. 1509-1516
-
-
Lau, L.L.1
Cowling, B.J.2
Fang, V.J.3
Chan, K.-H.4
Lau, E.H.5
-
40
-
-
85034659259
-
The impact of population bottlenecks on microbial adaptation
-
LeClair, J. S., and L. M. Wahl, 2017 The impact of population bottlenecks on microbial adaptation. J. Stat. Phys. 172: 114– 125. https://doi.org/10.1007/s10955-017-1924-6
-
(2017)
J. Stat. Phys.
, vol.172
, pp. 114-125
-
-
Leclair, J.S.1
Wahl, L.M.2
-
41
-
-
0026070664
-
Transport of incoming influenza virus nucleocapsids into the nucleus
-
Martin, K., and A. Helenius, 1991 Transport of incoming influenza virus nucleocapsids into the nucleus. J. Virol. 65: 232–244.
-
(1991)
J. Virol.
, vol.65
, pp. 232-244
-
-
Martin, K.1
Helenius, A.2
-
42
-
-
79955553616
-
A mathematical framework for estimating pathogen transmission fitness and inoculum size using data from a competitive mixtures animal model
-
McCaw, J. M., N. Arinaminpathy, A. C. Hurt, J. McVernon, and A. R. McLean, 2011 A mathematical framework for estimating pathogen transmission fitness and inoculum size using data from a competitive mixtures animal model. PLOS Comput. Biol. 7: e1002026. https://doi.org/10.1371/journal.pcbi.1002026
-
(2011)
PLOS Comput. Biol.
, vol.7
-
-
McCaw, J.M.1
Arinaminpathy, N.2
Hurt, A.C.3
McVernon, J.4
McLean, A.R.5
-
43
-
-
85051323990
-
Stochastic processes constrain the within and between host evolution of influenza virus
-
McCrone, J. T., R. J. Woods, E. T. Martin, R. E. Malosh, A. S. Monto et al., 2018 Stochastic processes constrain the within and between host evolution of influenza virus. Elife 7: e35962. https://doi.org/10.7554/eLife.35962
-
(2018)
Elife
, vol.7
-
-
McCrone, J.T.1
Woods, R.J.2
Martin, E.T.3
Malosh, R.E.4
Monto, A.S.5
-
44
-
-
49049118638
-
Linking within-and between-host dynamics in the evolutionary epidemiology of infectious diseases
-
Mideo, N., S. Alizon, and T. Day, 2008 Linking within-and between-host dynamics in the evolutionary epidemiology of infectious diseases. Trends Ecol. Evol. 23: 511–517. https://doi.org/10.1016/j.tree.2008.05.009
-
(2008)
Trends Ecol. Evol.
, vol.23
, pp. 511-517
-
-
Mideo, N.1
Alizon, S.2
Day, T.3
-
45
-
-
33645235646
-
Comparison of the mutation rates of human influenza A and B viruses
-
Nobusawa, E., and K. Sato, 2006 Comparison of the mutation rates of human influenza A and B viruses. J. Virol. 80: 3675– 3678. https://doi.org/10.1128/JVI.80.7.3675-3678.2006
-
(2006)
J. Virol.
, vol.80
, pp. 3675-3678
-
-
Nobusawa, E.1
Sato, K.2
-
46
-
-
0028922116
-
Size of genetic bottlenecks leading to virus fitness loss is determined by mean initial population fitness
-
Novella, I. S., S. F. Elena, A. Moya, E. Domingo, and J. J. Holland, 1995 Size of genetic bottlenecks leading to virus fitness loss is determined by mean initial population fitness. J. Virol. 69: 2869–2872.
-
(1995)
J. Virol.
, vol.69
, pp. 2869-2872
-
-
Novella, I.S.1
Elena, S.F.2
Moya, A.3
Domingo, E.4
Holland, J.J.5
-
47
-
-
0029983967
-
Repeated transfer of small RNA virus populations leading to balanced fitness with infrequent stochastic drift
-
Novella, I. S., S. F. Elena, A. Moya, E. Domingo, and J. J. Holland, 1996 Repeated transfer of small RNA virus populations leading to balanced fitness with infrequent stochastic drift. Mol. Gen. Genet. 252: 733–738. https://doi.org/10.1007/BF02173980
-
(1996)
Mol. Gen. Genet.
, vol.252
, pp. 733-738
-
-
Novella, I.S.1
Elena, S.F.2
Moya, A.3
Domingo, E.4
Holland, J.J.5
-
48
-
-
0030994606
-
The probability of fixation in populations of changing size
-
Otto, S. P., and M. C. Whitlock, 1997 The probability of fixation in populations of changing size. Genetics 146: 723–733.
-
(1997)
Genetics
, vol.146
, pp. 723-733
-
-
Otto, S.P.1
Whitlock, M.C.2
-
49
-
-
56049123655
-
Fixation probabilities for lytic viruses: The attachment-lysis model
-
Patwa, Z., and L. Wahl, 2008 Fixation probabilities for lytic viruses: the attachment-lysis model. Genetics 180: 459–470. https://doi.org/10.1534/genetics.108.090555
-
(2008)
Genetics
, vol.180
, pp. 459-470
-
-
Patwa, Z.1
Wahl, L.2
-
50
-
-
67650744273
-
The impact of host-cell dynamics on the fixation probability for lytic viruses
-
Patwa, Z., and L. Wahl, 2009 The impact of host-cell dynamics on the fixation probability for lytic viruses. J. Theor. Biol. 259: 799– 810. https://doi.org/10.1016/j.jtbi.2009.05.008
-
(2009)
J. Theor. Biol.
, vol.259
, pp. 799-810
-
-
Patwa, Z.1
Wahl, L.2
-
51
-
-
84989265306
-
Connecting within-host dynamics to the rate of viral molecular evolution
-
Peck, K. M., C. H. Chan, and M. M. Tanaka, 2015 Connecting within-host dynamics to the rate of viral molecular evolution. Virus Evol. 1: vev013. https://doi.org/10.1093/ve/vev013
-
(2015)
Virus Evol
, vol.1
-
-
Peck, K.M.1
Chan, C.H.2
Tanaka, M.M.3
-
52
-
-
84869025419
-
The H275Y neuraminidase mutation of the pandemic A/ H1N1 influenza virus lengthens the eclipse phase and reduces viral output of infected cells, potentially compromising fitness in ferrets
-
Pinilla, L. T., B. P. Holder, Y. Abed, G. Boivin, and C. A. Beauchemin, 2012 The H275Y neuraminidase mutation of the pandemic A/ H1N1 influenza virus lengthens the eclipse phase and reduces viral output of infected cells, potentially compromising fitness in ferrets. J. Virol. 86: 10651–10660. https://doi.org/10.1128/JVI.07244-11
-
(2012)
J. Virol.
, vol.86
, pp. 10651-10660
-
-
Pinilla, L.T.1
Holder, B.P.2
Abed, Y.3
Boivin, G.4
Beauchemin, C.A.5
-
53
-
-
84956621342
-
Quantifying influenza virus diversity and transmission in humans
-
Poon, L. L., T. Song, R. Rosenfeld, X. Lin, M. B. Rogers et al., 2016 Quantifying influenza virus diversity and transmission in humans. Nat. Genet. 48: 195–200. https://doi.org/10.1038/ng.3479
-
(2016)
Nat. Genet.
, vol.48
, pp. 195-200
-
-
Poon, L.L.1
Song, T.2
Rosenfeld, R.3
Lin, X.4
Rogers, M.B.5
-
54
-
-
44449164435
-
The genomic and epidemiological dynamics of human influenza A virus
-
Rambaut, A., O. G. Pybus, M. I. Nelson, C. Viboud, J. K. Taubenberger et al., 2008 The genomic and epidemiological dynamics of human influenza A virus. Nature 453: 615–619. https://doi.org/10.1038/nature06945
-
(2008)
Nature
, vol.453
, pp. 615-619
-
-
Rambaut, A.1
Pybus, O.G.2
Nelson, M.I.3
Viboud, C.4
Taubenberger, J.K.5
-
55
-
-
0018665436
-
Murine influenzal tracheitis: A model for the study of influenza and tracheal epithelial repair
-
Ramphal, R., W. Fischlschweiger, J. W. Shands, Jr., and P. A. Small, Jr., 1979 Murine influenzal tracheitis: a model for the study of influenza and tracheal epithelial repair. Am. Rev. Respir. Dis. 120: 1313–1324.
-
(1979)
Am. Rev. Respir. Dis
, vol.120
, pp. 1313-1324
-
-
Ramphal, R.1
Fischlschweiger, W.2
Shands, J.W.3
Small, P.A.4
-
56
-
-
84891628477
-
The effect of population bottlenecks on mutation rate evolution in asexual populations
-
Raynes, Y., A. Halstead, and P. Sniegowski, 2014 The effect of population bottlenecks on mutation rate evolution in asexual populations. J. Evol. Biol. 27: 161–169. https://doi.org/10.1111/2jeb.12284
-
(2014)
J. Evol. Biol.
, vol.27
, pp. 161-169
-
-
Raynes, Y.1
Halstead, A.2
Sniegowski, P.3
-
57
-
-
34848837297
-
Reservoir interactions and disease emergence
-
Reluga, T., R. Meza, D. Walton, and A. Galvani, 2007 Reservoir interactions and disease emergence. Theor. Popul. Biol. 72: 400–408. https://doi.org/10.1016/j.tpb.2007.07.001
-
(2007)
Theor. Popul. Biol.
, vol.72
, pp. 400-408
-
-
Reluga, T.1
Meza, R.2
Walton, D.3
Galvani, A.4
-
58
-
-
0034142287
-
Early stages of influenza virus entry into Mv-1 lung cells: Involvement of dynamin
-
Roy, A.-M. M., J. S. Parker, C. R. Parrish, and G. R. Whittaker, 2000 Early stages of influenza virus entry into Mv-1 lung cells: involvement of dynamin. Virology 267: 17–28. https://doi.org/10.1006/viro.1999.0109
-
(2000)
Virology
, vol.267
, pp. 17-28
-
-
Roy, A.-M.M.1
Parker, J.S.2
Parrish, C.R.3
Whittaker, G.R.4
-
59
-
-
2942565781
-
The distribution of fitness effects caused by single-nucleotide substitutions in an RNA virus
-
Sanjuán, R., A. Moya, and S. F. Elena, 2004 The distribution of fitness effects caused by single-nucleotide substitutions in an RNA virus. Proc. Natl. Acad. Sci. USA 101: 8396–8401. https://doi.org/10.1073/pnas.0400146101
-
(2004)
Proc. Natl. Acad. Sci. USA
, vol.101
, pp. 8396-8401
-
-
Sanjuán, R.1
Moya, A.2
Elena, S.F.3
-
60
-
-
79952480757
-
Influenza A virus infection kinetics: Quantitative data and models
-
Smith, A., and A. S. Perelson, 2011 Influenza A virus infection kinetics: quantitative data and models. Wiley Interdiscip. Rev. Syst. Biol. Med. 3: 429–445. https://doi.org/10.1002/wsbm.129
-
(2011)
Wiley Interdiscip. Rev. Syst. Biol. Med.
, vol.3
, pp. 429-445
-
-
Smith, A.1
Perelson, A.S.2
-
61
-
-
85021187296
-
Transmission bottleneck size estimation from pathogen deep-sequencing data, with an application to human influenza A virus
-
Sobel Leonard, A., D. B. Weissman, B. Greenbaum, E. Ghedin, and K. Koelle, 2017 Transmission bottleneck size estimation from pathogen deep-sequencing data, with an application to human influenza A virus. J. Virol. 91: e00171–00187. https://doi.org/10.1128/JVI.00171-17
-
(2017)
J. Virol
, vol.91
, pp. e00171-e00187
-
-
Sobel Leonard, A.1
Weissman, D.B.2
Greenbaum, B.3
Ghedin, E.4
Koelle, K.5
-
62
-
-
0034935681
-
Apoptosis by influenza viruses correlates with efficiency of viral mRNA synthesis
-
Stray, S. J., and G. M. Air, 2001 Apoptosis by influenza viruses correlates with efficiency of viral mRNA synthesis. Virus Res. 77: 3–17. https://doi.org/10.1016/S0168-1702(01)00260-X
-
(2001)
Virus Res
, vol.77
, pp. 3-17
-
-
Stray, S.J.1
Air, G.M.2
-
63
-
-
13844313860
-
Defense mechanisms against influenza virus infection in the respiratory tract mucosa
-
Tamura, S.-I., and T. Kurata, 2004 Defense mechanisms against influenza virus infection in the respiratory tract mucosa. Jpn. J. Infect. Dis. 57: 236–247.
-
(2004)
Jpn. J. Infect. Dis.
, vol.57
, pp. 236-247
-
-
Tamura, S.-I.1
Kurata, T.2
-
64
-
-
84867018764
-
Evasion of influenza A viruses from innate and adaptive immune responses
-
van de Sandt, C. E., J. H. Kreijtz, and G. F. Rimmelzwaan, 2012 Evasion of influenza A viruses from innate and adaptive immune responses. Viruses 4: 1438–1476. https://doi.org/10.3390/v4091438
-
(2012)
Viruses
, vol.4
, pp. 1438-1476
-
-
van de Sandt, C.E.1
Kreijtz, J.H.2
Rimmelzwaan, G.F.3
-
65
-
-
84910682671
-
Influenza A virus transmission bottlenecks are defined by infection route and recipient host
-
Varble, A., R. A. Albrecht, S. Backes, M. Crumiller, N. M. Bouvier et al., 2014 Influenza A virus transmission bottlenecks are defined by infection route and recipient host. Cell Host Microbe 16: 691–700. https://doi.org/10.1016/j.chom. 2014.09.020
-
(2014)
Cell Host Microbe
, vol.16
, pp. 691-700
-
-
Varble, A.1
Albrecht, R.A.2
Backes, S.3
Crumiller, M.4
Bouvier, N.M.5
-
66
-
-
84984860940
-
The mutational robustness of influenza A virus
-
Visher, E., S. E. Whitefield, J. T. McCrone, W. Fitzsimmons, and A. S. Lauring, 2016 The mutational robustness of influenza A virus. PLoS Pathog. 12: e1005856. https://doi.org/10.1371/journal.ppat.1005856
-
(2016)
Plos Pathog
, vol.12
-
-
Visher, E.1
Whitefield, S.E.2
McCrone, J.T.3
Fitzsimmons, W.4
Lauring, A.S.5
-
67
-
-
84979659104
-
Divergent evolution peaks under intermediate population bottlenecks during bacterial experimental evolution
-
Vogwill, T., R. L. Phillips, D. R. Gifford, and R. C. MacLean, 2016 Divergent evolution peaks under intermediate population bottlenecks during bacterial experimental evolution. Proc. Biol. Sci. 283: 20160749. https://doi.org/10.1098/rspb.2016.0749
-
(2016)
Proc. Biol. Sci.
, vol.283
-
-
Vogwill, T.1
Phillips, R.L.2
Gifford, D.R.3
Maclean, R.C.4
-
68
-
-
0035544558
-
The probability that beneficial mutations are lost in populations with periodic bottlenecks
-
Wahl, L., and P. J. Gerrish, 2001 The probability that beneficial mutations are lost in populations with periodic bottlenecks. Evolution 55: 2606–2610. https://doi.org/10.1111/j.0014-3820.2001.tb00772.x
-
(2001)
Evolution
, vol.55
, pp. 2606-2610
-
-
Wahl, L.1
Gerrish, P.J.2
-
69
-
-
84929009003
-
Survival probability of beneficial mutations in bacterial batch culture
-
Wahl, L., and A. D. Zhu, 2015 Survival probability of beneficial mutations in bacterial batch culture. Genetics 200: 309–320. https://doi.org/10.1534/genetics.114.172890
-
(2015)
Genetics
, vol.200
, pp. 309-320
-
-
Wahl, L.1
Zhu, A.D.2
-
70
-
-
0036811710
-
Evaluating the impact of population bottlenecks in experimental evolution
-
Wahl, L., P. J. Gerrish, and I. Saika-Voivod, 2002 Evaluating the impact of population bottlenecks in experimental evolution. Genetics 162: 961–971.
-
(2002)
Genetics
, vol.162
, pp. 961-971
-
-
Wahl, L.1
Gerrish, P.J.2
Saika-Voivod, I.3
-
71
-
-
0001178031
-
Orthomyxoviruses
-
B. N. Fields, and D. M. Knipe. Lippincott Williams & Wilkins, Philadelphia
-
Wright, P. F., and R. G. Webster, 2001 Orthomyxoviruses, pp. 1533–1579 in Fields Virology, edited by B. N. Fields, and D. M. Knipe. Lippincott Williams & Wilkins, Philadelphia.
-
(2001)
Fields Virology
, pp. 1533-1579
-
-
Wright, P.F.1
Webster, R.G.2
-
72
-
-
85043315189
-
Within-host evolution of human influenza virus
-
Xue, K. S., L. H. Moncla, T. Bedford, and J. D. Bloom, 2018 Within-host evolution of human influenza virus. Trends Microbiol. 26: 781–793. https://doi.org/10.1016/j.tim.2018.02.007
-
(2018)
Trends Microbiol
, vol.26
, pp. 781-793
-
-
Xue, K.S.1
Moncla, L.H.2
Bedford, T.3
Bloom, J.D.4
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