Whole genome analysis of influenza A(H3) viruses detected between 2016-2018 in the scope of EuroEVA/I-MOVE vaccine effectiveness study

Detalhes bibliográficos
Autor(a) principal: Pechirra, Pedro
Data de Publicação: 2018
Outros Autores: Borges, Vítor, Cristóvão, Paula, Costa, Inês, Conde, Patrícia, Machado, Ausenda, Rodrigues, Ana Paula, Gomez, Verónica, Kislaya, Irina, Nunes, Baltazar, Gomes, João Paulo, Guiomar, Raquel
Tipo de documento: Artigo de conferência
Idioma: eng
Título da fonte: Repositório Científico de Acesso Aberto de Portugal (Repositórios Cientìficos)
Texto Completo: http://hdl.handle.net/10400.18/5856
Resumo: Abstract publicado em: https://www.escaide.eu/sites/escaide/files/documents/book_escaide2018_updated-dec-2018.pdf
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spelling Whole genome analysis of influenza A(H3) viruses detected between 2016-2018 in the scope of EuroEVA/I-MOVE vaccine effectiveness studyInfluenza VirusVaccine EffectivenessWhole-genome SequencingVaccine FailureInfecções RespiratóriasAbstract publicado em: https://www.escaide.eu/sites/escaide/files/documents/book_escaide2018_updated-dec-2018.pdfBackground: NGS techniques, allow a much deeper genetic analysis of influenza viruses, compared to traditional Sanger sequencing of hemagglutinin gene. The present study aims to perform phylogenetic and mutational analysis at whole-genome level in order to search for genetic features related to vaccine failure. Methods: Nasopharyngeal swabs were collected during 2016/17 and 2017/18 winter seasons, from ILI patients participating in EuroEVA/I-MOVE study. Whole genome sequences were obtained for 179 influenza A(H3) viruses by NGS in a MiSeq platform and subsequent bioinformatics analysis using the web-based platform INSaFLU (https://insaflu.insa.pt/). Additional fine-tune sequence analysis was performed using MEGA-7. Results: All sequenced viruses clustered in 2 HA-based genetic groups: 58 (32.4%) in 3C.2a group and 121 (67.6%) in 3C.2a1. Vaccine failure cases were detected in a higher proportion in 3C.2a1 group (20/121, 16.5%) than in 3C.2a (8/58, 13.8%). WGS analysis further revealed intra-subtype reassortments based on the closest genetic relatedness of each viral segment to the representative virus of seasonal A(H3) genetic (sub-)groups, with viruses being distributed in 6 different patterns of genome constellation. The group with all genomic segments most closely related to A/Singapore/INFIMH-16-0019/2016 harboured a higher number of vaccine failure cases (14/69, 20.3%). Despite 16 viruses (from 28 detected in vaccinated cases) presented amino acid substitutions not found in unvaccinated cases, these substitutions revealed a sporadic pattern. Conclusions: Vaccine failure cases were not exclusive of any genetic group or reassortment pattern, although they were found in slightly higher proportion among 3C.2a1 viruses and in viruses with all genetic segments mostly similar to A/Singapore/INFIMH-16-0019/2016. The further use of WGS in flu surveillance is essential to better understand genetic determinants of infection and evolutionary dynamics of influenza virus.Repositório Científico do Instituto Nacional de SaúdePechirra, PedroBorges, VítorCristóvão, PaulaCosta, InêsConde, PatríciaMachado, AusendaRodrigues, Ana PaulaGomez, VerónicaKislaya, IrinaNunes, BaltazarGomes, João PauloGuiomar, Raquel2019-02-18T13:27:45Z2018-11-232018-11-23T00:00:00Zinfo:eu-repo/semantics/publishedVersioninfo:eu-repo/semantics/conferenceObjectapplication/pdfhttp://hdl.handle.net/10400.18/5856enginfo:eu-repo/semantics/openAccessreponame:Repositório Científico de Acesso Aberto de Portugal (Repositórios Cientìficos)instname:Agência para a Sociedade do Conhecimento (UMIC) - FCT - Sociedade da Informaçãoinstacron:RCAAP2023-07-20T15:41:01Zoai:repositorio.insa.pt:10400.18/5856Portal AgregadorONGhttps://www.rcaap.pt/oai/openaireopendoar:71602024-03-19T18:40:25.243801Repositório Científico de Acesso Aberto de Portugal (Repositórios Cientìficos) - Agência para a Sociedade do Conhecimento (UMIC) - FCT - Sociedade da Informaçãofalse
dc.title.none.fl_str_mv Whole genome analysis of influenza A(H3) viruses detected between 2016-2018 in the scope of EuroEVA/I-MOVE vaccine effectiveness study
title Whole genome analysis of influenza A(H3) viruses detected between 2016-2018 in the scope of EuroEVA/I-MOVE vaccine effectiveness study
spellingShingle Whole genome analysis of influenza A(H3) viruses detected between 2016-2018 in the scope of EuroEVA/I-MOVE vaccine effectiveness study
Pechirra, Pedro
Influenza Virus
Vaccine Effectiveness
Whole-genome Sequencing
Vaccine Failure
Infecções Respiratórias
title_short Whole genome analysis of influenza A(H3) viruses detected between 2016-2018 in the scope of EuroEVA/I-MOVE vaccine effectiveness study
title_full Whole genome analysis of influenza A(H3) viruses detected between 2016-2018 in the scope of EuroEVA/I-MOVE vaccine effectiveness study
title_fullStr Whole genome analysis of influenza A(H3) viruses detected between 2016-2018 in the scope of EuroEVA/I-MOVE vaccine effectiveness study
title_full_unstemmed Whole genome analysis of influenza A(H3) viruses detected between 2016-2018 in the scope of EuroEVA/I-MOVE vaccine effectiveness study
title_sort Whole genome analysis of influenza A(H3) viruses detected between 2016-2018 in the scope of EuroEVA/I-MOVE vaccine effectiveness study
author Pechirra, Pedro
author_facet Pechirra, Pedro
Borges, Vítor
Cristóvão, Paula
Costa, Inês
Conde, Patrícia
Machado, Ausenda
Rodrigues, Ana Paula
Gomez, Verónica
Kislaya, Irina
Nunes, Baltazar
Gomes, João Paulo
Guiomar, Raquel
author_role author
author2 Borges, Vítor
Cristóvão, Paula
Costa, Inês
Conde, Patrícia
Machado, Ausenda
Rodrigues, Ana Paula
Gomez, Verónica
Kislaya, Irina
Nunes, Baltazar
Gomes, João Paulo
Guiomar, Raquel
author2_role author
author
author
author
author
author
author
author
author
author
author
dc.contributor.none.fl_str_mv Repositório Científico do Instituto Nacional de Saúde
dc.contributor.author.fl_str_mv Pechirra, Pedro
Borges, Vítor
Cristóvão, Paula
Costa, Inês
Conde, Patrícia
Machado, Ausenda
Rodrigues, Ana Paula
Gomez, Verónica
Kislaya, Irina
Nunes, Baltazar
Gomes, João Paulo
Guiomar, Raquel
dc.subject.por.fl_str_mv Influenza Virus
Vaccine Effectiveness
Whole-genome Sequencing
Vaccine Failure
Infecções Respiratórias
topic Influenza Virus
Vaccine Effectiveness
Whole-genome Sequencing
Vaccine Failure
Infecções Respiratórias
description Abstract publicado em: https://www.escaide.eu/sites/escaide/files/documents/book_escaide2018_updated-dec-2018.pdf
publishDate 2018
dc.date.none.fl_str_mv 2018-11-23
2018-11-23T00:00:00Z
2019-02-18T13:27:45Z
dc.type.status.fl_str_mv info:eu-repo/semantics/publishedVersion
dc.type.driver.fl_str_mv info:eu-repo/semantics/conferenceObject
format conferenceObject
status_str publishedVersion
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dc.language.iso.fl_str_mv eng
language eng
dc.rights.driver.fl_str_mv info:eu-repo/semantics/openAccess
eu_rights_str_mv openAccess
dc.format.none.fl_str_mv application/pdf
dc.source.none.fl_str_mv reponame:Repositório Científico de Acesso Aberto de Portugal (Repositórios Cientìficos)
instname:Agência para a Sociedade do Conhecimento (UMIC) - FCT - Sociedade da Informação
instacron:RCAAP
instname_str Agência para a Sociedade do Conhecimento (UMIC) - FCT - Sociedade da Informação
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repository.name.fl_str_mv Repositório Científico de Acesso Aberto de Portugal (Repositórios Cientìficos) - Agência para a Sociedade do Conhecimento (UMIC) - FCT - Sociedade da Informação
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