Titre:	Human virome in nasopharynx and tracheal secretion samples
Auteur(s):	Souza, Larissa da Costa Blawid, Rosana Silva, João Marcos Fagundes Nagata, Tatsuya
metadata.dc.identifier.orcid:	http://orcid.org/0000-0002-7114-017X
Assunto::	Vírus Saúde pública Sequenciamento genômico Testes diagnósticos
Date de publication:	2019
Editeur:	Instituto Oswaldo Cruz, Ministério da Saúde
Référence bibliographique:	SOUZA, Larissa da Costa et al. Human virome in nasopharynx and tracheal secretion samples. Memórias do Instituto Oswaldo Cruz, Rio de Janeiro, v. 114, e190198, 2019. DOI: https://doi.org/10.1590/0074-02760190198. Disponível em: http://scielo.br/scielo.php?script=sci_arttext&pid=S0074-02762019000100349. Acesso em: 23 jan. 2020.
Abstract:	BACKGROUND In Brazil the implementation of the Sentinel Surveillance System of Influenza began in 2000. Central public health laboratories use reverse transcription-quantitative polymerase chain reaction (RT-qPCR) for diagnosis of respiratory viruses, but this protocol identifies only specific targets, resulted in inconclusive diagnosis for many samples. Thus, high-throughput sequencing (HTS) would be complementary method in the identification of pathogens in inconclusive samples for RT-qPCR or other specific detection protocols. OBJECTIVES This study aimed to detect unidentified viruses using HTS approach in negative samples of nasopharynx/tracheal secretions by the standard RT-qPCR collected in the Federal District, Brazil. METHODS Nucleic acids were extracted from samples collected in winter period of 2016 and subjected to HTS. The results were confirmed by the multiplex PR21 RT-qPCR, which identifies 21 respiratory pathogens. FINDINGS The main viruses identified by HTS were of families Herpesviridae, Coronaviridae, Parvoviridae and Picornaviridae, with the emphasis on rhinoviruses. The presence of respiratory viruses in the samples was confirmed by the PR21 multiplex RT-qPCR. Coronavirus, enterovirus, bocavirus and rhinovirus were found by multiplex RT-qPCR as well as by HTS analyses. MAIN CONCLUSIONS Wide virus diversity was found by different methodologies and high frequency of rhinovirus occurrence was confirmed in population in winter, showing its relevance for public health.
Licença::	(CC BY)
DOI:	https://doi.org/10.1590/0074-02760190198
Collection(s) :	Artigos publicados em periódicos e afins

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