Plasma virome of 781 Brazilians with unexplained symptoms of arbovirus infection include a novel parvovirus and densovirus.
Journal
PloS one
ISSN: 1932-6203
Titre abrégé: PLoS One
Pays: United States
ID NLM: 101285081
Informations de publication
Date de publication:
2020
2020
Historique:
received:
21
01
2020
accepted:
19
02
2020
entrez:
6
3
2020
pubmed:
7
3
2020
medline:
23
6
2020
Statut:
epublish
Résumé
Plasma from patients with dengue-like symptoms was collected in 2013 to 2016 from the Brazilian states of Tocantins and Amapa. 781 samples testing negative for IgM against Dengue, Zika, and Chikungunya viruses and for flaviviruses, alphaviruses and enteroviruses RNA using RT-PCRs were analyzed using viral metagenomics. Viral particles-associated nucleic acids were enriched, randomly amplified, and deep sequenced in 102 mini-pools generating over 2 billion reads. Sequence data was analyzed for the presence of known and novel eukaryotic viral reads. Anelloviruses were detected in 80%, human pegivirus 1 in 19%, and parvovirus B19 in 17% of plasma pools. HIV and enteroviruses were detected in two pools each. Previously uncharacterized viral genomes were also identified, and their presence in single plasma samples confirmed by PCR. Chapparvovirus and ambidensovirus genomes, both in the Parvoviridae family, were partially characterized showing 33% and 34% identity in their NS1 sequences to their closest relative. Molecular surveillance using pre-existing plasma from febrile patients provides a readily scalable approach for the detection of novel, potentially emerging, viruses.
Identifiants
pubmed: 32134963
doi: 10.1371/journal.pone.0229993
pii: PONE-D-20-01845
pmc: PMC7058308
doi:
Types de publication
Journal Article
Research Support, Non-U.S. Gov't
Langues
eng
Sous-ensembles de citation
IM
Pagination
e0229993Déclaration de conflit d'intérêts
This study was partially supported by Vitalant Research Institute, an unrestricted research grant from Grifols Diagnostic Solutions Inc., FAPESP #2016/01735-2 and CNPq #400354/2016-0. Antonio Charlys da-Costa is funded by FAPESP #2017/00021-9. This does not alter our adherence to PLOS ONE policies on sharing data and materials. There are no patents, products in development or marketed products to declare.
Références
Transfusion. 2015 Aug;55(8):1889-99
pubmed: 25721073
Transfusion. 2017 Jul;57(7):1787-1800
pubmed: 28497550
Front Microbiol. 2019 Dec 05;10:2815
pubmed: 31866980
PLoS Pathog. 2012 Sep;8(9):e1002924
pubmed: 23028323
Arch Virol. 2015 Apr;160(4):893-908
pubmed: 25680568
Virology. 2013 Jul 5;441(2):95-106
pubmed: 23562481
New Microbiol. 2019 Apr;42(2):118-120
pubmed: 31034081
J Gen Virol. 2017 Mar;98(3):517
pubmed: 28366188
Transfusion. 2016 Sep;56(9):2248-55
pubmed: 27306718
PLoS Pathog. 2017 Mar 22;13(3):e1006292
pubmed: 28328962
Emerg Infect Dis. 2020 Feb;26(2):265-272
pubmed: 31961294
Emerg Infect Dis. 2015 Nov;21(11):2096-8
pubmed: 26488181
Emerg Microbes Infect. 2018 Mar 14;7(1):27
pubmed: 29535292
PLoS One. 2012;7(6):e27735
pubmed: 22719819
Virus Evol. 2018 Mar 30;4(1):vey008
pubmed: 29644096
Arch Virol. 2016 Sep;161(9):2633-43
pubmed: 27343045
Blood Transfus. 2016 Sep;14(5):400-7
pubmed: 27136432
J Virol. 2017 Aug 24;91(18):
pubmed: 28659484
Cell. 2018 Oct 4;175(2):530-543.e24
pubmed: 30220458
Viruses. 2019 Jun 06;11(6):
pubmed: 31174309
Virol J. 2013 Mar 13;10:84
pubmed: 23496956
Blood. 2011 Jun 30;117(26):7099-101
pubmed: 21464370
mBio. 2018 Apr 17;9(2):
pubmed: 29666290
Genome Announc. 2014 Aug 28;2(4):
pubmed: 25169858
J Virol. 2005 Jul;79(13):8230-6
pubmed: 15956568
J Virol. 2019 May 15;93(11):
pubmed: 30867308
Virology. 2015 Aug;482:98-104
pubmed: 25839169
Virus Res. 2004 Jan;99(1):17-24
pubmed: 14687942
Clin Microbiol Infect. 2019 Oct;25(10):1167-1168
pubmed: 31238117
mBio. 2015 Sep 22;6(5):e01466-15
pubmed: 26396247
PLoS One. 2014 Jul 16;9(7):e102724
pubmed: 25029500
Virol J. 2013 Feb 14;10:58
pubmed: 23410000
J Clin Microbiol. 2016 Aug;54(8):2023-30
pubmed: 27225404
Open Forum Infect Dis. 2019 Jul 12;6(8):ofz329
pubmed: 31660385
Vox Sang. 2018 Jul 18;:
pubmed: 30022500
Cell. 2018 Oct 4;175(2):347-359.e14
pubmed: 30290141
Proc Natl Acad Sci U S A. 2014 Dec 2;111(48):17278-83
pubmed: 25404293
Arch Virol. 2016 Nov;161(11):3231-5
pubmed: 27522586
Clin Microbiol Infect. 2019 Oct;25(10):1277-1285
pubmed: 31059795
PLoS One. 2019 Jun 20;14(6):e0218318
pubmed: 31220115
Arch Virol. 2014 Aug;159(8):2161-4
pubmed: 24562429
mSphere. 2018 Aug 22;3(4):
pubmed: 30135221
Virus Res. 2019 Feb;261:9-20
pubmed: 30543873
Clin Infect Dis. 2017 Oct 16;65(9):1477-1485
pubmed: 29020199
BMC Microbiol. 2017 Jul 24;17(1):164
pubmed: 28738838
Clin Infect Dis. 2019 Feb 15;68(5):810-817
pubmed: 30304533
Nucleic Acids Res. 2015 Apr 20;43(7):e46
pubmed: 25586223
J Virol Methods. 2015 Mar;213:139-46
pubmed: 25497414
PLoS Negl Trop Dis. 2012;6(2):e1485
pubmed: 22347512
J Gen Virol. 2016 Dec;97(12):3359-3367
pubmed: 27902331
Mol Biol Evol. 2013 Dec;30(12):2725-9
pubmed: 24132122
Infect Genet Evol. 2016 Jul;41:107-112
pubmed: 27051046
Arch Virol. 2019 Jan;164(1):3-16
pubmed: 30225519
J Gen Virol. 2019 Jun;100(6):968-974
pubmed: 31090532
Nat Rev Genet. 2019 Jun;20(6):341-355
pubmed: 30918369
J Clin Microbiol. 2019 Aug 26;57(9):
pubmed: 31217274
J Infect. 2019 Oct;79(4):383-388
pubmed: 31398374
J Gen Virol. 2009 Aug;90(Pt 8):1999-2004
pubmed: 19386784
J Gen Virol. 2015 Jul;96(Pt 7):1521-32
pubmed: 25667328
Viruses. 2019 Apr 27;11(5):
pubmed: 31035625
Cell Host Microbe. 2010 Jun 25;7(6):509-15
pubmed: 20542254
PLoS Negl Trop Dis. 2015 Mar 17;9(3):e0003631
pubmed: 25781465
Microbiol Resour Announc. 2019 Aug 29;8(35):
pubmed: 31467101
Emerg Infect Dis. 2018 Nov;24(11):2063-2067
pubmed: 30334714
PLoS Pathog. 2015 Dec 11;11(12):e1005325
pubmed: 26658760
J Virol. 2013 Nov;87(22):11966-77
pubmed: 24027301
Virology. 2020 Jan 2;539:80-91
pubmed: 31706163
Proc Natl Acad Sci U S A. 2016 Nov 8;113(45):12803-12808
pubmed: 27791095
Emerg Microbes Infect. 2019;8(1):613-623
pubmed: 30999808
Virus Res. 1993 Aug;29(2):99-114
pubmed: 8212862
J Invertebr Pathol. 2016 Oct;140:83-96
pubmed: 27663091
J Gen Virol. 2017 Feb;98(2):225-229
pubmed: 28284244
Viruses. 2019 Oct 22;11(10):
pubmed: 31652508
Virus Genes. 2018 Feb;54(1):33-40
pubmed: 29043660
Virol J. 2016 Jul 29;13:133
pubmed: 27473724
Virology. 2011 Sep 15;418(1):49-56
pubmed: 21813149
Nucleic Acids Res. 2004 Mar 19;32(5):1792-7
pubmed: 15034147
Comput Appl Biosci. 1992 Jun;8(3):275-82
pubmed: 1633570
Virus Genes. 2016 Aug;52(4):564-7
pubmed: 26995221