Combining genomics and epidemiology to track mumps virus transmission in the United States.
Journal
PLoS biology
ISSN: 1545-7885
Titre abrégé: PLoS Biol
Pays: United States
ID NLM: 101183755
Informations de publication
Date de publication:
02 2020
02 2020
Historique:
received:
22
07
2019
accepted:
03
01
2020
entrez:
12
2
2020
pubmed:
12
2
2020
medline:
15
5
2020
Statut:
epublish
Résumé
Unusually large outbreaks of mumps across the United States in 2016 and 2017 raised questions about the extent of mumps circulation and the relationship between these and prior outbreaks. We paired epidemiological data from public health investigations with analysis of mumps virus whole genome sequences from 201 infected individuals, focusing on Massachusetts university communities. Our analysis suggests continuous, undetected circulation of mumps locally and nationally, including multiple independent introductions into Massachusetts and into individual communities. Despite the presence of these multiple mumps virus lineages, the genomic data show that one lineage has dominated in the US since at least 2006. Widespread transmission was surprising given high vaccination rates, but we found no genetic evidence that variants arising during this outbreak contributed to vaccine escape. Viral genomic data allowed us to reconstruct mumps transmission links not evident from epidemiological data or standard single-gene surveillance efforts and also revealed connections between apparently unrelated mumps outbreaks.
Identifiants
pubmed: 32045407
doi: 10.1371/journal.pbio.3000611
pii: PBIOLOGY-D-19-02116
pmc: PMC7012397
doi:
Substances chimiques
Viral Proteins
0
Types de publication
Journal Article
Research Support, N.I.H., Extramural
Research Support, Non-U.S. Gov't
Langues
eng
Sous-ensembles de citation
IM
Pagination
e3000611Subventions
Organisme : NIAID NIH HHS
ID : T32 AI007061
Pays : United States
Organisme : Howard Hughes Medical Institute
Pays : United States
Organisme : NIGMS NIH HHS
ID : T32 GM007753
Pays : United States
Organisme : NIGMS NIH HHS
ID : U54 GM088558
Pays : United States
Organisme : NIAID NIH HHS
ID : U19 AI110818
Pays : United States
Déclaration de conflit d'intérêts
The authors have declared that no competing interests exist.
Références
Mol Biol Evol. 2013 Mar;30(3):713-24
pubmed: 23180580
J Comput Biol. 2012 May;19(5):455-77
pubmed: 22506599
Wkly Epidemiol Rec. 2012 Jun 1;87(22):217-24
pubmed: 24340404
Virus Evol. 2016 Apr 09;2(1):vew007
pubmed: 27774300
Arch Virol. 1993;128(3-4):371-7
pubmed: 8435047
Mol Biol Evol. 2012 Sep;29(9):2157-67
pubmed: 22403239
Mol Biol Evol. 1994 Sep;11(5):725-36
pubmed: 7968486
Mol Biol Evol. 2011 Feb;28(2):879-87
pubmed: 20889726
Clin Vaccine Immunol. 2013 Mar;20(3):391-6
pubmed: 23324519
Arch Virol. 2005 Sep;150(9):1903-9
pubmed: 15959834
Rev Med Virol. 2015 Mar;25(2):85-101
pubmed: 25424978
J Mol Evol. 1985;22(2):160-74
pubmed: 3934395
Lancet Infect Dis. 2019 Feb;19(2):185-192
pubmed: 30635255
Mol Biol Evol. 2006 Jan;23(1):7-9
pubmed: 16177232
Mol Biol Evol. 2009 Apr;26(4):801-14
pubmed: 19131426
Science. 2014 Sep 12;345(6202):1369-72
pubmed: 25214632
Mol Biol Evol. 2013 Apr;30(4):772-80
pubmed: 23329690
Nat Biotechnol. 2011 May 15;29(7):644-52
pubmed: 21572440
Elife. 2013 May 14;2:e00631
pubmed: 23682315
J Exp Med. 1948 Aug;88(2):223-32
pubmed: 18873870
Am J Epidemiol. 2014 Nov 1;180(9):865-75
pubmed: 25294601
Cell. 2016 Nov 3;167(4):1088-1098.e6
pubmed: 27814506
PLoS Comput Biol. 2014 Jan;10(1):e1003457
pubmed: 24465202
Genome Biol. 2014;15(11):519
pubmed: 25403361
N Engl J Med. 2012 Nov;367(18):1704-13
pubmed: 23113481
N Engl J Med. 2011 Feb 24;364(8):730-9
pubmed: 21345102
Proc Natl Acad Sci U S A. 2019 Sep 17;116(38):19071-19076
pubmed: 31481612
Nat Biotechnol. 2019 Feb;37(2):160-168
pubmed: 30718881
J Virol. 1985 Mar;53(3):727-34
pubmed: 3973964
Mol Biol Evol. 2013 Feb;30(2):239-43
pubmed: 23090976
N Engl J Med. 2017 Sep 7;377(10):947-956
pubmed: 28877026
PLoS Biol. 2006 May;4(5):e88
pubmed: 16683862
mBio. 2015 Jan 20;6(1):
pubmed: 25604787
Nature. 2017 Jun 15;546(7658):411-415
pubmed: 28538734
Science. 2018 Aug 31;361(6405):894-899
pubmed: 30139911
Philos Trans R Soc Lond B Biol Sci. 2008 Dec 27;363(1512):3985-95
pubmed: 18852111
Public Health Rep. 2014 Mar-Apr;129(2):132-8
pubmed: 24587547
Mol Biol Evol. 2012 Aug;29(8):1969-73
pubmed: 22367748
Sci Transl Med. 2018 Mar 21;10(433):
pubmed: 29563321
Clin Infect Dis. 2008 May 1;46(9):1447-9
pubmed: 18419451
J Mol Evol. 1994 Sep;39(3):306-14
pubmed: 7932792
Genome Biol. 2014 Mar 03;15(3):R46
pubmed: 24580807
Nat Microbiol. 2019 Jan;4(1):10-19
pubmed: 30546099
Science. 2017 Nov 17;358(6365):933-936
pubmed: 28971967
Can J Public Health. 2011 Sep-Oct;102(5):341-4
pubmed: 22032098
Bull World Health Organ. 1999;77(1):3-14
pubmed: 10063655
Sci Rep. 2018 Sep 6;8(1):13337
pubmed: 30190529
J Pediatr. 1968 Apr;72(4):536-7
pubmed: 5647297
Nature. 2019 Jan;565(7738):230-233
pubmed: 30602788
Bioinformatics. 2012 Dec 15;28(24):3248-56
pubmed: 23064000
Curr Microbiol. 1993 Sep;27(3):147-51
pubmed: 7691306
Clin Infect Dis. 2018 Aug 1;67(4):493-501
pubmed: 29617951
Mol Biol Evol. 2015 Jan;32(1):268-74
pubmed: 25371430
J Infect Dis. 2008 Aug 15;198(4):508-15
pubmed: 18558869
Nat Methods. 2015 Jan;12(1):59-60
pubmed: 25402007
PLoS Biol. 2005 Sep;3(9):e300
pubmed: 16026181
Nature. 2015 Jul 9;523(7559):217-20
pubmed: 26053121
Mol Biol Evol. 2005 May;22(5):1185-92
pubmed: 15703244
Nucleic Acids Res. 2016 Jan 4;44(D1):D67-72
pubmed: 26590407
J Virol. 1990 Sep;64(9):4137-45
pubmed: 2166809
Bioinformatics. 2009 Aug 15;25(16):2078-9
pubmed: 19505943
N Engl J Med. 2008 Apr 10;358(15):1580-9
pubmed: 18403766
BMC Genomics. 2013 Oct 03;14:674
pubmed: 24088188
Vaccine. 2011 Nov 15;29(49):9271-5
pubmed: 21983156
Sci Transl Med. 2012 Aug 22;4(148):148ra116
pubmed: 22914622
Nat Rev Genet. 2018 Jan;19(1):9-20
pubmed: 29129921
MMWR Morb Mortal Wkly Rep. 2010 Feb 12;59(5):125-9
pubmed: 20150887
PLoS Comput Biol. 2009 Sep;5(9):e1000520
pubmed: 19779555
J Mol Biol. 1990 Oct 5;215(3):403-10
pubmed: 2231712
J Virol. 2012 Jan;86(1):615-20
pubmed: 22072778