Plasma virome of 781 Brazilians with unexplained symptoms of arbovirus infection include a novel parvovirus and densovirus

PloS One
Elizabeth FahsbenderEric Delwart

Abstract

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.

References

Jun 1, 1992·Computer Applications in the Biosciences : CABIOS·D T JonesJ M Thornton
Mar 23, 2004·Nucleic Acids Research·Robert C Edgar
Jun 16, 2005·Journal of Virology·Morris S JonesEric Delwart
Apr 24, 2009·The Journal of General Virology·Ethel-Michele de Villiers, Karin Gunst
Jun 15, 2010·Cell Host & Microbe·Rachel M SchowalterChristopher B Buck
Feb 22, 2012·PLoS Neglected Tropical Diseases·Nathan L YozwiakJoseph L DeRisi
Jun 22, 2012·PloS One·Kristine M WylieGregory A Storch
Oct 3, 2012·PLoS Pathogens·Gilda GrardEric M Leroy
Mar 19, 2013·Virology Journal·Hitomi FukumotoHarutaka Katano
Oct 18, 2013·Molecular Biology and Evolution·Koichiro TamuraSudhir Kumar
Feb 25, 2014·Archives of Virology·Gábor ReuterPéter Pankovics
Nov 19, 2014·Proceedings of the National Academy of Sciences of the United States of America·Ian HewsonC Drew Harvell
Dec 17, 2014·Journal of Virological Methods·Linlin LiEric Delwart
Feb 15, 2015·Archives of Virology·Sonia SpandoleGrigore Mihăescu
Mar 18, 2015·PLoS Neglected Tropical Diseases·Matthew H StremlauChristian T Happi
Oct 22, 2015·Emerging Infectious Diseases·Rathviro UchPhilippe Biagini
Apr 7, 2016·Infection, Genetics and Evolution : Journal of Molecular Epidemiology and Evolutionary Genetics in Infectious Diseases·Wen-Tao YangChun-Feng Wang
May 27, 2016·Journal of Clinical Microbiology·Kelly E CollerGeorge J Dawson
Jun 17, 2016·Transfusion·Wen ZhangEric Delwart
Jun 28, 2016·Archives of Virology·Mart KrupovicArvind Varsani
Jul 31, 2016·Virology Journal·Shixing YangWen Zhang
Aug 16, 2016·Archives of Virology·Tung Gia PhanEric Delwart
Sep 25, 2016·Journal of Invertebrate Pathology·Peter TijssenMax Bergoin
Oct 30, 2016·Proceedings of the National Academy of Sciences of the United States of America·Si LiuDaohong Jiang
Mar 13, 2017·The Journal of General Virology·William Marciel de SouzaRobert James Gifford
Mar 23, 2017·PLoS Pathogens·Ahmed MoustafaAmalio Telenti
May 13, 2017·Transfusion·Pierre LauOlivier Preynat-Seauve
Jul 26, 2017·BMC Microbiology·Claude GiryMarie-Christine Jaffar-Bandjee
Oct 12, 2017·Clinical Infectious Diseases : an Official Publication of the Infectious Diseases Society of America·Sneha SomasekarCharles Y Chiu
Mar 15, 2018·Emerging Microbes & Infections·Samuel CordeyValérie D'Acremont

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Citations

Jan 14, 2021·Future Microbiology·Rita de Cnc Garcia, Luciane Aa Leon
Oct 30, 2020·Journal of Virology·Yanpeng LiEric Delwart
May 1, 2021·Emerging Microbes & Infections·Samuel CordeyLaurent Kaiser
May 19, 2021·Infection, Genetics and Evolution : Journal of Molecular Epidemiology and Evolutionary Genetics in Infectious Diseases·Benoît de ThoisyJean-François Guégan

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Datasets Mentioned

BETA
PRJNA602336

Methods Mentioned

BETA
ELISA
PCR
Assay
Illumina sequencing
electrophoresis
PCRs

Software Mentioned

MEGA6
BLASTx
MUSCLE
Ensemble

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