The Ecology and Evolution of Influenza Viruses.
Journal
Cold Spring Harbor perspectives in medicine
ISSN: 2157-1422
Titre abrégé: Cold Spring Harb Perspect Med
Pays: United States
ID NLM: 101571139
Informations de publication
Date de publication:
01 07 2020
01 07 2020
Historique:
pubmed:
25
12
2019
medline:
22
7
2021
entrez:
25
12
2019
Statut:
epublish
Résumé
The patterns and processes of influenza virus evolution are of fundamental importance, underpinning such traits as the propensity to emerge in new host species and the ability to rapidly generate antigenic variation. Herein, we review key aspects of the ecology and evolution of influenza viruses. We begin with an exploration of the origins of influenza viruses within the orthomyxoviruses, showing how our perception of the evolutionary history of these viruses has been transformed with metagenomic sequencing. We then outline the diversity of virus subtypes in different species and the processes by which these viruses have emerged in new hosts, with a particular focus on the role played by segment reassortment. We then turn our attention to documenting the spread and phylodynamics of seasonal influenza A and B viruses in human populations, including the drivers of antigenic evolution, and finish with a discussion of virus diversity and evolution at the scale of individual hosts.
Identifiants
pubmed: 31871237
pii: cshperspect.a038489
doi: 10.1101/cshperspect.a038489
pmc: PMC7328453
pii:
doi:
Types de publication
Journal Article
Research Support, Non-U.S. Gov't
Review
Langues
eng
Sous-ensembles de citation
IM
Informations de copyright
Copyright © 2020 Cold Spring Harbor Laboratory Press; all rights reserved.
Références
Nature. 2005 Oct 20;437(7062):1162-6
pubmed: 16208317
PLoS Med. 2006 Apr;3(4):e89
pubmed: 16509764
Elife. 2014 Nov 11;3:
pubmed: 25385532
Nature. 2009 Jun 25;459(7250):1122-5
pubmed: 19516283
PLoS Pathog. 2014 Oct 23;10(10):e1004455
pubmed: 25340642
Proc Natl Acad Sci U S A. 2011 Nov 29;108(48):19359-64
pubmed: 22084096
APMIS. 2002 Apr;110(4):273-82
pubmed: 12076262
N Engl J Med. 2013 May 16;368(20):1888-97
pubmed: 23577628
PLoS Pathog. 2013 Feb;9(2):e1003176
pubmed: 23408893
Science. 2013 Dec 13;342(6164):1337-42
pubmed: 24337289
J Infect Dis. 2013 Jan 1;207(1):106-14
pubmed: 22930808
Mol Ecol. 2017 Mar;26(5):1420-1431
pubmed: 27997047
J Virol. 2020 Feb 14;94(5):
pubmed: 31801858
PLoS Pathog. 2008 Aug 22;4(8):e1000133
pubmed: 18725925
Virus Res. 2004 Jul;103(1-2):67-73
pubmed: 15163491
PLoS Pathog. 2018 Jan 11;14(1):e1006780
pubmed: 29324895
PLoS Pathog. 2007 Sep 14;3(9):1220-8
pubmed: 17941707
J Virol. 1998 Sep;72(9):7367-73
pubmed: 9696833
Nat Microbiol. 2016 May 23;1(6):16058
pubmed: 27572841
PLoS Pathog. 2013;9(8):e1003570
pubmed: 24009503
Virology. 2013 Aug 15;443(1):150-60
pubmed: 23725694
BMC Evol Biol. 2015 Jun 26;15:120
pubmed: 26111936
Elife. 2018 May 03;7:
pubmed: 29683424
Euro Surveill. 2014 Jun 26;19(25):
pubmed: 24993557
J Infect. 2017 Aug;75(2):179-182
pubmed: 28535998
Avian Dis. 2016 May;60(1 Suppl):378-86
pubmed: 27309082
Nature. 2005 Oct 6;437(7060):889-93
pubmed: 16208372
J Gen Virol. 2018 Jan;99(1):3-16
pubmed: 29244017
Elife. 2017 Jun 27;6:
pubmed: 28653624
Virology. 2009 Aug 1;390(2):289-97
pubmed: 19501380
Nature. 2008 May 29;453(7195):615-9
pubmed: 18418375
PLoS Pathog. 2013;9(6):e1003443
pubmed: 23818849
PLoS Pathog. 2008 May 30;4(5):e1000076
pubmed: 18516303
Trends Microbiol. 2015 Mar;23(3):142-53
pubmed: 25564096
BMC Evol Biol. 2017 May 25;17(1):118
pubmed: 28545432
PLoS One. 2013 Apr 23;8(4):e61201
pubmed: 23637797
Nat Microbiol. 2019 Dec;4(12):2298-2309
pubmed: 31527796
Science. 2006 Apr 21;312(5772):384-8
pubmed: 16627734
Nat Microbiol. 2019 Nov;4(11):1781-1789
pubmed: 31332385
Science. 2006 Dec 22;314(5807):1898-903
pubmed: 17185596
Curr Top Microbiol Immunol. 2014;385:377-401
pubmed: 25007845
Science. 2004 Jul 16;305(5682):371-6
pubmed: 15218094
Nature. 2018 Apr;556(7700):197-202
pubmed: 29618816
Vaccine. 2010 Jun 23;28(29):4609-15
pubmed: 20470798
Nature. 2014 Apr 10;508(7495):254-7
pubmed: 24531761
Nat Ecol Evol. 2019 Feb;3(2):302-311
pubmed: 30510176
J Gen Virol. 2019 May;100(5):773-777
pubmed: 31017567
J Infect Dis. 2011 Jan 15;203(2):168-74
pubmed: 21288815
Virus Res. 2008 Mar;132(1-2):33-41
pubmed: 18054811
J Virol. 2017 Aug 10;91(17):
pubmed: 28637755
Cell Host Microbe. 2013 Oct 16;14(4):446-52
pubmed: 24055604
Nature. 2019 Mar;567(7746):109-112
pubmed: 30787439
Nature. 2014 Mar 6;507(7490):57-61
pubmed: 24572367
Virology. 1989 Apr;169(2):408-17
pubmed: 2705304
Science. 2013 Nov 22;342(6161):976-9
pubmed: 24264991
J Clin Microbiol. 2006 Mar;44(3):1123-6
pubmed: 16517910
Nature. 1981 Jan 29;289(5796):373-8
pubmed: 6162101
J Clin Microbiol. 2000 Jun;38(6):2453-6
pubmed: 10835031
J Mol Evol. 2010 Jan;70(1):98-105
pubmed: 20041240
J Virol. 2019 Jan 4;93(2):
pubmed: 30381492
Vaccine. 2011 Nov 21;29(50):9368-75
pubmed: 22001877
Influenza Other Respir Viruses. 2009 Sep;3(5):207-13
pubmed: 19768134
Proc Natl Acad Sci U S A. 2013 Oct 1;110(40):E3840-8
pubmed: 24043788
Biol Direct. 2006 Oct 26;1:34
pubmed: 17067369
Mol Biol Evol. 1999 Nov;16(11):1457-65
pubmed: 10555276
Elife. 2014;3:e01914
pubmed: 24497547
Proc Natl Acad Sci U S A. 2014 Jun 3;111(22):8107-12
pubmed: 24778238
Science. 2004 Jan 16;303(5656):327-32
pubmed: 14726583
J Virol. 1999 Oct;73(10):8851-6
pubmed: 10482643
BMC Evol Biol. 2014 Jan 24;14:16
pubmed: 24456010
Mol Biol Evol. 2006 Dec;23(12):2336-41
pubmed: 16945980
mBio. 2015 Apr 07;6(2):
pubmed: 25852163
Science. 2009 Jul 10;325(5937):197-201
pubmed: 19465683
J Gen Virol. 2012 Oct;93(Pt 10):2195-2203
pubmed: 22791604
J Virol. 2013 Sep;87(18):10182-9
pubmed: 23864623
Immunol Rev. 2008 Oct;225:314-31
pubmed: 18837791
J Virol. 2004 Aug;78(15):8372-81
pubmed: 15254209
Bioinformatics. 2018 Dec 1;34(23):4121-4123
pubmed: 29790939
Nature. 2012 May 02;486(7403):420-8
pubmed: 22722205
J Gen Virol. 2003 Sep;84(Pt 9):2285-2292
pubmed: 12917448
J Gen Virol. 1992 Feb;73 ( Pt 2):383-7
pubmed: 1538194
J Virol. 2000 Sep;74(18):8243-51
pubmed: 10954521
Science. 2012 Jun 22;336(6088):1534-41
pubmed: 22723413
PLoS Pathog. 2013;9(10):e1003657
pubmed: 24130481
J Virol. 2010 Jul;84(14):6943-54
pubmed: 20444896
Proc Natl Acad Sci U S A. 2015 Jan 13;112(2):548-53
pubmed: 25548189
PLoS Pathog. 2014 Nov 06;10(11):e1004395
pubmed: 25375777
Science. 2006 Apr 21;312(5772):394-7
pubmed: 16627737
Sci Rep. 2016 Nov 09;6:36839
pubmed: 27827462
Adv Virus Res. 2008;72:127-54
pubmed: 19081490
J Virol. 2018 Jul 31;92(16):
pubmed: 29875234
Nature. 2013 Oct 10;502(7470):241-4
pubmed: 23965623
Elife. 2016 Mar 15;5:e13974
pubmed: 26978794
Trends Microbiol. 2018 Sep;26(9):781-793
pubmed: 29534854
J Virol. 2014 Mar;88(5):2844-57
pubmed: 24371052
Science. 2005 Oct 21;310(5747):482-5
pubmed: 16186182
J Virol. 2015 Mar;89(6):2990-4
pubmed: 25540375
Proc Natl Acad Sci U S A. 2009 Jul 14;106(28):11709-12
pubmed: 19597152
Ecol Lett. 2012 Jan;15(1):24-33
pubmed: 22008513
Am J Epidemiol. 2018 Dec 1;187(12):2498-2502
pubmed: 30508193
Virology. 2010 Jun 5;401(2):179-89
pubmed: 20227102
PLoS Pathog. 2018 Sep 13;14(9):e1007200
pubmed: 30212586
PLoS One. 2011;6(6):e20664
pubmed: 21697989
Virus Evol. 2017 Jul 28;3(2):vex018
pubmed: 28775894
PLoS Pathog. 2014 Feb 20;10(2):e1003932
pubmed: 24586153
Virology. 1998 May 10;244(2):315-21
pubmed: 9601502
PLoS Biol. 2005 Sep;3(9):e300
pubmed: 16026181
J Virol. 2015 Jul;89(13):6860-73
pubmed: 25903329
Nature. 2015 Jul 9;523(7559):217-20
pubmed: 26053121
Cell. 2014 Apr 10;157(2):329-339
pubmed: 24725402
J Infect Dis. 2002 Nov 15;186(10):1490-3
pubmed: 12404167
J Virol. 2009 Sep;83(17):8832-41
pubmed: 19553313
Curr Opin Virol. 2018 Feb;28:20-25
pubmed: 29107838
J Virol. 2000 Jul;74(13):6015-20
pubmed: 10846083
Nat Commun. 2014;5:3142
pubmed: 24457975
Cell Host Microbe. 2018 Oct 10;24(4):558-568.e7
pubmed: 30269969
Proc Natl Acad Sci U S A. 2006 Feb 21;103(8):2845-50
pubmed: 16473931
Elife. 2015 Jan 29;4:
pubmed: 25633976
Virus Res. 2000 Jun;68(1):71-85
pubmed: 10930664
Elife. 2015 Jan 16;4:e05055
pubmed: 25594904
Nature. 2016 Dec 22;540(7634):539-543
pubmed: 27880757
mSphere. 2018 Jan 3;3(1):
pubmed: 29299533
Proc Natl Acad Sci U S A. 1997 Jul 22;94(15):7712-8
pubmed: 9223253
Science. 1997 Mar 21;275(5307):1793-6
pubmed: 9065404
BMC Biol. 2016 Dec 29;14(1):117
pubmed: 28034300
Proc Natl Acad Sci U S A. 2016 Mar 22;113(12):E1701-9
pubmed: 26951657
Emerg Infect Dis. 2003 Mar;9(3):304-10
pubmed: 12643824
mBio. 2016 Apr 05;7(2):e00431-16
pubmed: 27048802
Proc Biol Sci. 2014 Feb 26;281(1781):20140098
pubmed: 24573857
J Virol. 2016 May 27;90(12):5561-5573
pubmed: 27030268
Proc Natl Acad Sci U S A. 2012 Mar 13;109(11):4269-74
pubmed: 22371588
Annu Rev Virol. 2017 Sep 29;4(1):105-121
pubmed: 28548881
Cell Mol Life Sci. 2016 Dec;73(23):4433-4448
pubmed: 27392606