Dormancy within Staphylococcus epidermidis biofilms : a transcriptomic analysis by RNA-seq
Autor(a) principal: | |
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Data de Publicação: | 2014 |
Outros Autores: | , , , , , |
Tipo de documento: | Artigo |
Idioma: | eng |
Título da fonte: | Repositório Científico de Acesso Aberto de Portugal (Repositórios Cientìficos) |
Texto Completo: | http://hdl.handle.net/1822/32050 |
Resumo: | The proportion of dormant bacteria within Staphylococcus epidermidis biofilms may determine its inflammatory profile. Previously, we have shown that S. epidermidis biofilms with higher proportions of dormant bacteria have reduced activation of murine macrophages. RNA-sequencing was used to identify the major transcriptomic differences between S. epidermidis biofilms with different proportions of dormant bacteria. To accomplish this goal, we used an in vitro model where magnesium allowed modulation of the proportion of dormant bacteria within S. epidermidis biofilms. Significant differences were found in the expression of 147 genes. A detailed analysis of the results was performed based on direct and functional gene interactions. Biological processes among the differentially expressed genes were mainly related to oxidation-reduction processes and acetyl-CoA metabolic processes. Gene set enrichment revealed that the translation process is related to the proportion of dormant bacteria. Transcription of mRNAs involved in oxidation-reduction processes was associated with higher proportions of dormant bacteria within S. epidermidis biofilm. Moreover, the pH of the culture medium did not change after the addition of magnesium, and genes related to magnesium transport did not seem to impact entrance of bacterial cells into dormancy. |
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Dormancy within Staphylococcus epidermidis biofilms : a transcriptomic analysis by RNA-seqCytoscapeDormancyGene ontologyMagnesiumRNA-seqS. epidermidis biofilmTranscriptomeScience & TechnologyThe proportion of dormant bacteria within Staphylococcus epidermidis biofilms may determine its inflammatory profile. Previously, we have shown that S. epidermidis biofilms with higher proportions of dormant bacteria have reduced activation of murine macrophages. RNA-sequencing was used to identify the major transcriptomic differences between S. epidermidis biofilms with different proportions of dormant bacteria. To accomplish this goal, we used an in vitro model where magnesium allowed modulation of the proportion of dormant bacteria within S. epidermidis biofilms. Significant differences were found in the expression of 147 genes. A detailed analysis of the results was performed based on direct and functional gene interactions. Biological processes among the differentially expressed genes were mainly related to oxidation-reduction processes and acetyl-CoA metabolic processes. Gene set enrichment revealed that the translation process is related to the proportion of dormant bacteria. Transcription of mRNAs involved in oxidation-reduction processes was associated with higher proportions of dormant bacteria within S. epidermidis biofilm. Moreover, the pH of the culture medium did not change after the addition of magnesium, and genes related to magnesium transport did not seem to impact entrance of bacterial cells into dormancy.The authors thank Stephen Lorry at Harvard Medical School for providing CLC Genomics software. This work was funded by Fundacao para a Ciencia e a Tecnologia (FCT) and COMPETE grants PTDC/BIA-MIC/113450/2009, FCOMP-01-0124-FEDER-014309, FCOMP-01-0124-FEDER-022718 (FCT PEst-C/SAU/LA0002/2011), QOPNA research unit (project PEst-C/QUI/UI0062/2011), and CENTRO-07-ST24-FEDER-002034. The following authors had an individual FCT fellowship: VC (SFRH/BD/78235/2011) and AF (2SFRH/BD/62359/2009).SpringerUniversidade do MinhoCarvalhais, Virgínia Maria DinisFrança, ÂngelaCerca, FilipeVitorino, RuiPier, Gerald B.Vilanova, ManuelCerca, Nuno2014-02-072014-02-07T00:00:00Zinfo:eu-repo/semantics/publishedVersioninfo:eu-repo/semantics/articleapplication/pdfhttp://hdl.handle.net/1822/32050engCarvalhais, V.; França, Ângela; Cerca, F.; Vitorino, R.; Pier, G. B.; Vilanova, M.; Cerca, Nuno, Dormancy within Staphylococcus epidermidis biofilms: a transcriptomic analysis by RNA-seq. Applied Microbiology and Biotechnology, 98(6), 2585-2596, 20140175-75981432-061410.1007/s00253-014-5548-324504458http://www.springer.com/chemistry/biotechnology/journal/253info: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:RCAAP2023-07-21T11:56:50Zoai:repositorium.sdum.uminho.pt:1822/32050Portal AgregadorONGhttps://www.rcaap.pt/oai/openaireopendoar:71602024-03-19T18:46:31.164454Repositório 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 |
Dormancy within Staphylococcus epidermidis biofilms : a transcriptomic analysis by RNA-seq |
title |
Dormancy within Staphylococcus epidermidis biofilms : a transcriptomic analysis by RNA-seq |
spellingShingle |
Dormancy within Staphylococcus epidermidis biofilms : a transcriptomic analysis by RNA-seq Carvalhais, Virgínia Maria Dinis Cytoscape Dormancy Gene ontology Magnesium RNA-seq S. epidermidis biofilm Transcriptome Science & Technology |
title_short |
Dormancy within Staphylococcus epidermidis biofilms : a transcriptomic analysis by RNA-seq |
title_full |
Dormancy within Staphylococcus epidermidis biofilms : a transcriptomic analysis by RNA-seq |
title_fullStr |
Dormancy within Staphylococcus epidermidis biofilms : a transcriptomic analysis by RNA-seq |
title_full_unstemmed |
Dormancy within Staphylococcus epidermidis biofilms : a transcriptomic analysis by RNA-seq |
title_sort |
Dormancy within Staphylococcus epidermidis biofilms : a transcriptomic analysis by RNA-seq |
author |
Carvalhais, Virgínia Maria Dinis |
author_facet |
Carvalhais, Virgínia Maria Dinis França, Ângela Cerca, Filipe Vitorino, Rui Pier, Gerald B. Vilanova, Manuel Cerca, Nuno |
author_role |
author |
author2 |
França, Ângela Cerca, Filipe Vitorino, Rui Pier, Gerald B. Vilanova, Manuel Cerca, Nuno |
author2_role |
author author author author author author |
dc.contributor.none.fl_str_mv |
Universidade do Minho |
dc.contributor.author.fl_str_mv |
Carvalhais, Virgínia Maria Dinis França, Ângela Cerca, Filipe Vitorino, Rui Pier, Gerald B. Vilanova, Manuel Cerca, Nuno |
dc.subject.por.fl_str_mv |
Cytoscape Dormancy Gene ontology Magnesium RNA-seq S. epidermidis biofilm Transcriptome Science & Technology |
topic |
Cytoscape Dormancy Gene ontology Magnesium RNA-seq S. epidermidis biofilm Transcriptome Science & Technology |
description |
The proportion of dormant bacteria within Staphylococcus epidermidis biofilms may determine its inflammatory profile. Previously, we have shown that S. epidermidis biofilms with higher proportions of dormant bacteria have reduced activation of murine macrophages. RNA-sequencing was used to identify the major transcriptomic differences between S. epidermidis biofilms with different proportions of dormant bacteria. To accomplish this goal, we used an in vitro model where magnesium allowed modulation of the proportion of dormant bacteria within S. epidermidis biofilms. Significant differences were found in the expression of 147 genes. A detailed analysis of the results was performed based on direct and functional gene interactions. Biological processes among the differentially expressed genes were mainly related to oxidation-reduction processes and acetyl-CoA metabolic processes. Gene set enrichment revealed that the translation process is related to the proportion of dormant bacteria. Transcription of mRNAs involved in oxidation-reduction processes was associated with higher proportions of dormant bacteria within S. epidermidis biofilm. Moreover, the pH of the culture medium did not change after the addition of magnesium, and genes related to magnesium transport did not seem to impact entrance of bacterial cells into dormancy. |
publishDate |
2014 |
dc.date.none.fl_str_mv |
2014-02-07 2014-02-07T00:00:00Z |
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/1822/32050 |
url |
http://hdl.handle.net/1822/32050 |
dc.language.iso.fl_str_mv |
eng |
language |
eng |
dc.relation.none.fl_str_mv |
Carvalhais, V.; França, Ângela; Cerca, F.; Vitorino, R.; Pier, G. B.; Vilanova, M.; Cerca, Nuno, Dormancy within Staphylococcus epidermidis biofilms: a transcriptomic analysis by RNA-seq. Applied Microbiology and Biotechnology, 98(6), 2585-2596, 2014 0175-7598 1432-0614 10.1007/s00253-014-5548-3 24504458 http://www.springer.com/chemistry/biotechnology/journal/253 |
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 |
Springer |
publisher.none.fl_str_mv |
Springer |
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 |
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Agência para a Sociedade do Conhecimento (UMIC) - FCT - Sociedade da Informação |
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RCAAP |
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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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