Comparative pangenome analysis of capsulated Haemophilus influenzae serotype f highlights their high genomic stability

Detalhes bibliográficos
Autor(a) principal: Gonzalez-Diaz, Aida
Data de Publicação: 2022
Outros Autores: Carrera-Salinas, Anna, Pinto, Miguel, Cubero, Meritxell, van der Ende, Arie, Langereis, Jeroen D., Domínguez, M. Ángeles, Ardanuy, Carmen, Bajanca-Lavado, Paula, Marti, Sara
Tipo de documento: Artigo
Idioma: eng
Título da fonte: Repositório Científico de Acesso Aberto de Portugal (Repositórios Cientìficos)
Texto Completo: http://hdl.handle.net/10400.18/8373
Resumo: Comparative Study
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spelling Comparative pangenome analysis of capsulated Haemophilus influenzae serotype f highlights their high genomic stabilityHaemophilus influenzaeGenetic DiversitySerotype fMulti-locus Sequence TypeSerotypingWhole Genome SequencingInfecções RespiratóriasComparative StudyHaemophilus influenzae is an opportunistic pathogen adapted to the human respiratory tract. Non-typeable H. influenzae are highly heterogeneous, but few studies have analysed the genomic variability of capsulated strains. This study aims to examine the genetic diversity of 37 serotype f isolates from the Netherlands, Portugal, and Spain, and to compare all capsulated genomes available on public databases. Serotype f isolates belonged to CC124 and shared few single nucleotide polymorphisms (SNPs) (n = 10,999), but a high core genome (> 80%). Three main clades were identified by the presence of 75, 60 and 41 exclusive genes for each clade, respectively. Multi-locus sequence type analysis of all capsulated genomes revealed a reduced number of clonal complexes associated with each serotype. Pangenome analysis showed a large pool of genes (n = 6360), many of which were accessory genome (n = 5323). Phylogenetic analysis revealed that serotypes a, b, and f had greater diversity. The total number of SNPs in serotype f was significantly lower than in serotypes a, b, and e (p < 0.0001), indicating low variability within the serotype f clonal complexes. Capsulated H. influenzae are genetically homogeneous, with few lineages in each serotype. Serotype f has high genetic stability regardless of time and country of isolation.Tis study was funded by Instituto de Salud Carlos III (ISCIII) through the Projects from the Fondo de Investigaciones Sanitarias “PI16/00977” to SM, and CIBER de Enfermedades Respiratorias (CIBERES–CB06/06/0037), co-funded by the European Regional Development Fund/European Social Fund (ERDF/ESF, “Investing in your future”), and CERCA Programme/Generalitat de Catalunya for institutional support. Bioinformatic analysis was supported by an Amazon Web Services (AWS) research grant to SM. AC was supported by FPU grant “FPU16/02202” (Formación de Profesorado Universitario, Ministerio de Educación, Spain), and SM was supported by Miguel Servet contract “CP19/00096” (ISCIII).Nature ResearchRepositório Científico do Instituto Nacional de SaúdeGonzalez-Diaz, AidaCarrera-Salinas, AnnaPinto, MiguelCubero, Meritxellvan der Ende, ArieLangereis, Jeroen D.Domínguez, M. ÁngelesArdanuy, CarmenBajanca-Lavado, PaulaMarti, Sara2022-12-02T15:36:18Z2022-02-242022-02-24T00:00:00Zinfo:eu-repo/semantics/publishedVersioninfo:eu-repo/semantics/articleapplication/pdfhttp://hdl.handle.net/10400.18/8373engSci Rep. 2022 Feb 24;12(1):3189. doi: 10.1038/s41598-022-07185-52045-232210.1038/s41598-022-07185-5info: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:RCAAP2023-07-20T15:42:31Zoai:repositorio.insa.pt:10400.18/8373Portal AgregadorONGhttps://www.rcaap.pt/oai/openaireopendoar:71602024-03-19T18:43:00.126706Repositório 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 Comparative pangenome analysis of capsulated Haemophilus influenzae serotype f highlights their high genomic stability
title Comparative pangenome analysis of capsulated Haemophilus influenzae serotype f highlights their high genomic stability
spellingShingle Comparative pangenome analysis of capsulated Haemophilus influenzae serotype f highlights their high genomic stability
Gonzalez-Diaz, Aida
Haemophilus influenzae
Genetic Diversity
Serotype f
Multi-locus Sequence Type
Serotyping
Whole Genome Sequencing
Infecções Respiratórias
title_short Comparative pangenome analysis of capsulated Haemophilus influenzae serotype f highlights their high genomic stability
title_full Comparative pangenome analysis of capsulated Haemophilus influenzae serotype f highlights their high genomic stability
title_fullStr Comparative pangenome analysis of capsulated Haemophilus influenzae serotype f highlights their high genomic stability
title_full_unstemmed Comparative pangenome analysis of capsulated Haemophilus influenzae serotype f highlights their high genomic stability
title_sort Comparative pangenome analysis of capsulated Haemophilus influenzae serotype f highlights their high genomic stability
author Gonzalez-Diaz, Aida
author_facet Gonzalez-Diaz, Aida
Carrera-Salinas, Anna
Pinto, Miguel
Cubero, Meritxell
van der Ende, Arie
Langereis, Jeroen D.
Domínguez, M. Ángeles
Ardanuy, Carmen
Bajanca-Lavado, Paula
Marti, Sara
author_role author
author2 Carrera-Salinas, Anna
Pinto, Miguel
Cubero, Meritxell
van der Ende, Arie
Langereis, Jeroen D.
Domínguez, M. Ángeles
Ardanuy, Carmen
Bajanca-Lavado, Paula
Marti, Sara
author2_role 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 Gonzalez-Diaz, Aida
Carrera-Salinas, Anna
Pinto, Miguel
Cubero, Meritxell
van der Ende, Arie
Langereis, Jeroen D.
Domínguez, M. Ángeles
Ardanuy, Carmen
Bajanca-Lavado, Paula
Marti, Sara
dc.subject.por.fl_str_mv Haemophilus influenzae
Genetic Diversity
Serotype f
Multi-locus Sequence Type
Serotyping
Whole Genome Sequencing
Infecções Respiratórias
topic Haemophilus influenzae
Genetic Diversity
Serotype f
Multi-locus Sequence Type
Serotyping
Whole Genome Sequencing
Infecções Respiratórias
description Comparative Study
publishDate 2022
dc.date.none.fl_str_mv 2022-12-02T15:36:18Z
2022-02-24
2022-02-24T00:00:00Z
dc.type.status.fl_str_mv info:eu-repo/semantics/publishedVersion
dc.type.driver.fl_str_mv info:eu-repo/semantics/article
format article
status_str publishedVersion
dc.identifier.uri.fl_str_mv http://hdl.handle.net/10400.18/8373
url http://hdl.handle.net/10400.18/8373
dc.language.iso.fl_str_mv eng
language eng
dc.relation.none.fl_str_mv Sci Rep. 2022 Feb 24;12(1):3189. doi: 10.1038/s41598-022-07185-5
2045-2322
10.1038/s41598-022-07185-5
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.publisher.none.fl_str_mv Nature Research
publisher.none.fl_str_mv Nature Research
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
instacron_str RCAAP
institution RCAAP
reponame_str Repositório Científico de Acesso Aberto de Portugal (Repositórios Cientìficos)
collection Repositório Científico de Acesso Aberto de Portugal (Repositórios Cientìficos)
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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