Revisitingmolecular serotyping of Streptococcus pneumonia

Fundação Oswaldo Cruz. Centro de Pesquisa Rene Rachou. Belo Horizonte, MG, Brasil / Fundação Ezequiel Dias. Serviço de Bactérias e Doenças de Fungos. Belo Horizonte, MG, Brasil.

Detalles Bibliográficos
Autores: Camargo, Dhian Renato Almeida, Pais, Fabiano Sviatopolk Mirsky, Volpini, Ângela Cristina, Oliveira, Marluce Aa, Coimbra, Roney Santos
Tipo de recurso: artículo
Estado:Versión publicada
Fecha de publicación:2015
País:Brasil
Institución:Fundação Oswaldo Cruz (FIOCRUZ)
Repositorio:Repositório Institucional da FIOCRUZ (ARCA)
Idioma:inglés
OAI Identifier:oai:arca.fiocruz.br:icict/14922
Acceso en línea:https://arca.fiocruz.br/handle/icict/14922
Access Level:acceso abierto
Palabra clave:Streptococcus pneumoniae
cps gene cluster
Molecular serotyping
Typing methods
cps-RFLP
Bioinformatics
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dc.title.none.fl_str_mv Revisitingmolecular serotyping of Streptococcus pneumonia
title Revisitingmolecular serotyping of Streptococcus pneumonia
spellingShingle Revisitingmolecular serotyping of Streptococcus pneumonia
Camargo, Dhian Renato Almeida
Streptococcus pneumoniae
cps gene cluster
Molecular serotyping
Typing methods
cps-RFLP
Bioinformatics
title_short Revisitingmolecular serotyping of Streptococcus pneumonia
title_full Revisitingmolecular serotyping of Streptococcus pneumonia
title_fullStr Revisitingmolecular serotyping of Streptococcus pneumonia
title_full_unstemmed Revisitingmolecular serotyping of Streptococcus pneumonia
title_sort Revisitingmolecular serotyping of Streptococcus pneumonia
dc.creator.none.fl_str_mv Camargo, Dhian Renato Almeida
Pais, Fabiano Sviatopolk Mirsky
Volpini, Ângela Cristina
Oliveira, Marluce Aa
Coimbra, Roney Santos
author Camargo, Dhian Renato Almeida
author_facet Camargo, Dhian Renato Almeida
Pais, Fabiano Sviatopolk Mirsky
Volpini, Ângela Cristina
Oliveira, Marluce Aa
Coimbra, Roney Santos
author_role author
author2 Pais, Fabiano Sviatopolk Mirsky
Volpini, Ângela Cristina
Oliveira, Marluce Aa
Coimbra, Roney Santos
author2_role author
author
author
author
dc.subject.en.none.fl_str_mv Streptococcus pneumoniae
cps gene cluster
Molecular serotyping
Typing methods
cps-RFLP
Bioinformatics
topic Streptococcus pneumoniae
cps gene cluster
Molecular serotyping
Typing methods
cps-RFLP
Bioinformatics
description Fundação Oswaldo Cruz. Centro de Pesquisa Rene Rachou. Belo Horizonte, MG, Brasil / Fundação Ezequiel Dias. Serviço de Bactérias e Doenças de Fungos. Belo Horizonte, MG, Brasil.
publishDate 2015
dc.date.issued.fl_str_mv 2015
dc.date.accessioned.fl_str_mv 2016-07-14T19:10:31Z
dc.date.available.fl_str_mv 2016-07-06T12:05:18Z
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.citation.fl_str_mv CAMARGO, Dhian Renato Almeida et al. Revisitingmolecular serotyping of Streptococcus pneumonia. BMC Genomics. v. 16, Suppl 5, p. 1-10, 2015.
dc.identifier.uri.fl_str_mv https://arca.fiocruz.br/handle/icict/14922
dc.identifier.issn.none.fl_str_mv 1471-2164
dc.identifier.doi.none.fl_str_mv 10.1186/1471-2164-16-S5-S1
identifier_str_mv CAMARGO, Dhian Renato Almeida et al. Revisitingmolecular serotyping of Streptococcus pneumonia. BMC Genomics. v. 16, Suppl 5, p. 1-10, 2015.
1471-2164
10.1186/1471-2164-16-S5-S1
url https://arca.fiocruz.br/handle/icict/14922
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.publisher.none.fl_str_mv BioMed Central
publisher.none.fl_str_mv BioMed Central
dc.source.none.fl_str_mv reponame:Repositório Institucional da FIOCRUZ (ARCA)
instname:Fundação Oswaldo Cruz (FIOCRUZ)
instacron:FIOCRUZ
instname_str Fundação Oswaldo Cruz (FIOCRUZ)
instacron_str FIOCRUZ
institution FIOCRUZ
reponame_str Repositório Institucional da FIOCRUZ (ARCA)
collection Repositório Institucional da FIOCRUZ (ARCA)
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spelling 2016-07-14T19:10:31Z2016-07-06T12:05:18Z2015CAMARGO, Dhian Renato Almeida et al. Revisitingmolecular serotyping of Streptococcus pneumonia. BMC Genomics. v. 16, Suppl 5, p. 1-10, 2015.1471-2164https://arca.fiocruz.br/handle/icict/1492210.1186/1471-2164-16-S5-S1engBioMed CentralRevisitingmolecular serotyping of Streptococcus pneumoniainfo:eu-repo/semantics/publishedVersioninfo:eu-repo/semantics/articleFundação Oswaldo Cruz. Centro de Pesquisa Rene Rachou. Belo Horizonte, MG, Brasil / Fundação Ezequiel Dias. Serviço de Bactérias e Doenças de Fungos. Belo Horizonte, MG, Brasil.Fundação Oswaldo Cruz. Centro de Pesquisa Rene Rachou. Grupo de Biologia e Genômica Computacional. Belo Horizonte, MG, Brasil / Fundação Oswaldo Cruz. Centro de Pesquisa Rene Rachou. Centro de Excelência em Bioinformática. Belo Horizonte, MG, Brasil.Fundação Oswaldo Cruz. Centro de Pesquisa Rene Rachou. Grupo de Biologia e Genômica Computacional. Belo Horizonte, MG, Brasil / Fundação Oswaldo Cruz. Centro de Pesquisa Rene Rachou. Centro de Excelência em Bioinformática. Belo Horizonte, MG, Brasil.Fundação Ezequiel Dias. Serviço de Bactérias e Doenças de Fungos. Belo Horizonte, MG, Brasil.Fundação Oswaldo Cruz. Centro de Pesquisa Rene Rachou. Belo Horizonte, MG, Brasil.Background: Ninety-two Streptococcus pneumoniae serotypes have been described so far, but the pneumococcal conjugate vaccine introduced in the Brazilian basic vaccination schedule in 2010 covers only the ten most prevalent in the country. Pneumococcal serotype-shifting after massive immunization is a major concern and monitoring this phenomenon requires efficient and accessible serotyping methods. Pneumococcal serotyping based on antisera produced in animals is laborious and restricted to a few reference laboratories. Alternatively, molecular serotyping methods assess polymorphisms in the cps gene cluster, which encodes key enzymes for capsular polysaccharides synthesis in pneumococci. In one such approach, cps-RFLP, the PCR amplified cps loci are digested with an endonuclease, generating serotype-specific fingerprints on agarose gel electrophoresis. Methods: In this work, in silico and in vitro approaches were combined to demonstrate that XhoII is the most discriminating endonuclease for cps-RFLP, and to build a database of serotype-specific fingerprints that accommodates the genetic diversity within the cps locus of 92 known pneumococci serotypes. Results: The expected specificity of cps-RFLP using XhoII was 76% for serotyping and 100% for serogrouping. The database of cps-RFLP fingerprints was integrated to Molecular Serotyping Tool (MST), a previously published web-based software for molecular serotyping. In addition, 43 isolates representing 29 serotypes prevalent in the state of Minas Gerais, Brazil, from 2007 to 2013, were examined in vitro; 11 serotypes (nine serogroups) matched the respective in silico patterns calculated for reference strains. The remaining experimental patterns, despite their resemblance to their expected in silico patterns, did not reach the threshold of similarity score to be considered a match and were then added to the database. Conclusion: The cps-RFLP method with XhoII outperformed the antisera-based and other molecular serotyping methods in regard of the expected specificity. In order to accommodate the genetic variability of the pneumococci cps loci, the database of cps-RFLP patterns will be progressively expanded to include new variant in vitro patterns. The cps-RFLP method with endonuclease XhoII coupled with MST for computer-assisted interpretation of results may represent a relevant contribution to the real time detection of changes in regional pneumococci population diversity in response to mass immunization programs.Streptococcus pneumoniaecps gene clusterMolecular serotypingTyping methodscps-RFLPBioinformaticsinfo:eu-repo/semantics/openAccessreponame:Repositório Institucional da FIOCRUZ (ARCA)instname:Fundação Oswaldo Cruz (FIOCRUZ)instacron:FIOCRUZCamargo, Dhian Renato AlmeidaPais, Fabiano Sviatopolk MirskyVolpini, Ângela CristinaOliveira, Marluce AaCoimbra, Roney SantosTEXTve_Dhian_Camargo_ Revisitingmolecular_CPqRR_2015.pdf.txtve_Dhian_Camargo_ Revisitingmolecular_CPqRR_2015.pdf.txtExtracted texttext/plain56156https://arca.fiocruz.br/bitstreams/6c11ab22-1900-4a4b-817d-4f061da634f8/download7e8d6f8383baa035811e73dbb7a03d18MD512falseAnonymousREADORIGINALve_Dhian_Camargo_ Revisitingmolecular_CPqRR_2015.pdfapplication/pdf1647355https://arca.fiocruz.br/bitstreams/0061de0c-deab-4f9a-b0a3-8436ee46f3cf/downloadd446af4ae8ae1cdd1b0e0853582ff5ecMD52trueAnonymousREADLICENSElicense.txttext/plain2991https://arca.fiocruz.br/bitstreams/4d080b3f-456f-41d2-9bbe-a7097e9d8c3c/download5a560609d32a3863062d77ff32785d58MD53falseAnonymousREADTHUMBNAILve_Dhian_Camargo_ Revisitingmolecular_CPqRR_2015.pdf.jpgve_Dhian_Camargo_ Revisitingmolecular_CPqRR_2015.pdf.jpgGenerated Thumbnailimage/jpeg36256https://arca.fiocruz.br/bitstreams/7b5fc1bd-8ab8-4b2a-b640-85ce9f80374c/download4745b014d3becf30b08b166e14c514b5MD513falseAnonymousREADicict/149222025-12-10 14:03:42.862open.accessoai:arca.fiocruz.br:icict/14922https://arca.fiocruz.brRepositório InstitucionalPUBhttps://www.arca.fiocruz.br/oai/requestrepositorio.arca@fiocruz.bropendoar:21352025-12-10T17:03:42Repositório Institucional da FIOCRUZ (ARCA) - 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