A comparative pan-genomic analysis of 53 C. pseudotuberculosis strains based on functional domains
Autor(a) principal: | |
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Data de Publicação: | 2020 |
Outros Autores: | , , |
Tipo de documento: | Artigo |
Idioma: | eng |
Título da fonte: | Repositório Institucional da UNESP |
Texto Completo: | http://dx.doi.org/10.1080/07391102.2020.1805017 http://hdl.handle.net/11449/200882 |
Resumo: | Corynebacterium pseudotuberculosis is a pathogenic bacterium with great veterinary and economic importance. It is classified into two biovars: ovis, nitrate-negative, that causes lymphadenitis in small ruminants and equi, nitrate-positive, causing ulcerative lymphangitis in equines. With the explosive growth of available genomes of several strains, pan-genome analysis has opened new opportunities for understanding the dynamics and evolution of C. pseudotuberculosis. However, few pan-genomic studies have compared biovars equi and ovis. Such studies have considered a reduced number of strains and compared entire genomes. Here we conducted an original pan-genome analysis based on protein sequences and their functional domains. We considered 53 C. pseudotuberculosis strains from both biovars isolated from different hosts and countries. We have analysed conserved domains, common domains more frequently found in each biovar and biovar-specific (unique) domains. Our results demonstrated that biovar equi is more variable; there is a significant difference in the number of proteins per strains, probably indicating the occurrence of more gene loss/gain events. Moreover, strains of biovar equi presented a higher number of biovar-specific domains, 77 against only eight in biovar ovis, most of them are associated with virulence mechanisms. With this domain analysis, we have identified functional differences among strains of biovars ovis and equi that could be related to niche-adaptation and probably help to better understanding mechanisms of virulence and pathogenesis. The distribution patterns of functional domains identified in this work might have impacts on bacterial physiology and lifestyle, encouraging the development of new diagnoses, vaccines, and treatments for C. pseudotuberculosis diseases. Communicated by Ramaswamy H. Sarma. |
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A comparative pan-genomic analysis of 53 C. pseudotuberculosis strains based on functional domainsbiovar equibiovar ovisC. pseudotuberculosisfunctional domains and pan-genomic analysesCorynebacterium pseudotuberculosis is a pathogenic bacterium with great veterinary and economic importance. It is classified into two biovars: ovis, nitrate-negative, that causes lymphadenitis in small ruminants and equi, nitrate-positive, causing ulcerative lymphangitis in equines. With the explosive growth of available genomes of several strains, pan-genome analysis has opened new opportunities for understanding the dynamics and evolution of C. pseudotuberculosis. However, few pan-genomic studies have compared biovars equi and ovis. Such studies have considered a reduced number of strains and compared entire genomes. Here we conducted an original pan-genome analysis based on protein sequences and their functional domains. We considered 53 C. pseudotuberculosis strains from both biovars isolated from different hosts and countries. We have analysed conserved domains, common domains more frequently found in each biovar and biovar-specific (unique) domains. Our results demonstrated that biovar equi is more variable; there is a significant difference in the number of proteins per strains, probably indicating the occurrence of more gene loss/gain events. Moreover, strains of biovar equi presented a higher number of biovar-specific domains, 77 against only eight in biovar ovis, most of them are associated with virulence mechanisms. With this domain analysis, we have identified functional differences among strains of biovars ovis and equi that could be related to niche-adaptation and probably help to better understanding mechanisms of virulence and pathogenesis. The distribution patterns of functional domains identified in this work might have impacts on bacterial physiology and lifestyle, encouraging the development of new diagnoses, vaccines, and treatments for C. pseudotuberculosis diseases. Communicated by Ramaswamy H. Sarma.Laboratoire de Biologie Computationelle et Quantitative UMR 7238 CNRS Sorbonne UniversitéMultiuser Center for Biomolecular Innovation Department of Physics Instituto de Biociências Letras e Ciências Exatas (Ibilce) Universidade Estadual Paulista (UNESP)Institut de Biologie de l’École Normale Supérieure (IBENS)Institute of Biological Information Processing (IBI-7: Strucutral Biochemistry) Forschungszentrum JuelichMultiuser Center for Biomolecular Innovation Department of Physics Instituto de Biociências Letras e Ciências Exatas (Ibilce) Universidade Estadual Paulista (UNESP)Sorbonne UniversitéUniversidade Estadual Paulista (Unesp)Institut de Biologie de l’École Normale Supérieure (IBENS)Forschungszentrum JuelichBernardes, Juliana S.Eberle, Raphael J. [UNESP]Vieira, Fabio R. J.Coronado, Mônika A. [UNESP]2020-12-12T02:18:34Z2020-12-12T02:18:34Z2020-01-01info:eu-repo/semantics/publishedVersioninfo:eu-repo/semantics/articlehttp://dx.doi.org/10.1080/07391102.2020.1805017Journal of Biomolecular Structure and Dynamics.1538-02540739-1102http://hdl.handle.net/11449/20088210.1080/07391102.2020.18050172-s2.0-85089256282Scopusreponame:Repositório Institucional da UNESPinstname:Universidade Estadual Paulista (UNESP)instacron:UNESPengJournal of Biomolecular Structure and Dynamicsinfo:eu-repo/semantics/openAccess2021-10-23T15:33:31Zoai:repositorio.unesp.br:11449/200882Repositório InstitucionalPUBhttp://repositorio.unesp.br/oai/requestopendoar:29462024-08-05T23:50:18.977199Repositório Institucional da UNESP - Universidade Estadual Paulista (UNESP)false |
dc.title.none.fl_str_mv |
A comparative pan-genomic analysis of 53 C. pseudotuberculosis strains based on functional domains |
title |
A comparative pan-genomic analysis of 53 C. pseudotuberculosis strains based on functional domains |
spellingShingle |
A comparative pan-genomic analysis of 53 C. pseudotuberculosis strains based on functional domains Bernardes, Juliana S. biovar equi biovar ovis C. pseudotuberculosis functional domains and pan-genomic analyses |
title_short |
A comparative pan-genomic analysis of 53 C. pseudotuberculosis strains based on functional domains |
title_full |
A comparative pan-genomic analysis of 53 C. pseudotuberculosis strains based on functional domains |
title_fullStr |
A comparative pan-genomic analysis of 53 C. pseudotuberculosis strains based on functional domains |
title_full_unstemmed |
A comparative pan-genomic analysis of 53 C. pseudotuberculosis strains based on functional domains |
title_sort |
A comparative pan-genomic analysis of 53 C. pseudotuberculosis strains based on functional domains |
author |
Bernardes, Juliana S. |
author_facet |
Bernardes, Juliana S. Eberle, Raphael J. [UNESP] Vieira, Fabio R. J. Coronado, Mônika A. [UNESP] |
author_role |
author |
author2 |
Eberle, Raphael J. [UNESP] Vieira, Fabio R. J. Coronado, Mônika A. [UNESP] |
author2_role |
author author author |
dc.contributor.none.fl_str_mv |
Sorbonne Université Universidade Estadual Paulista (Unesp) Institut de Biologie de l’École Normale Supérieure (IBENS) Forschungszentrum Juelich |
dc.contributor.author.fl_str_mv |
Bernardes, Juliana S. Eberle, Raphael J. [UNESP] Vieira, Fabio R. J. Coronado, Mônika A. [UNESP] |
dc.subject.por.fl_str_mv |
biovar equi biovar ovis C. pseudotuberculosis functional domains and pan-genomic analyses |
topic |
biovar equi biovar ovis C. pseudotuberculosis functional domains and pan-genomic analyses |
description |
Corynebacterium pseudotuberculosis is a pathogenic bacterium with great veterinary and economic importance. It is classified into two biovars: ovis, nitrate-negative, that causes lymphadenitis in small ruminants and equi, nitrate-positive, causing ulcerative lymphangitis in equines. With the explosive growth of available genomes of several strains, pan-genome analysis has opened new opportunities for understanding the dynamics and evolution of C. pseudotuberculosis. However, few pan-genomic studies have compared biovars equi and ovis. Such studies have considered a reduced number of strains and compared entire genomes. Here we conducted an original pan-genome analysis based on protein sequences and their functional domains. We considered 53 C. pseudotuberculosis strains from both biovars isolated from different hosts and countries. We have analysed conserved domains, common domains more frequently found in each biovar and biovar-specific (unique) domains. Our results demonstrated that biovar equi is more variable; there is a significant difference in the number of proteins per strains, probably indicating the occurrence of more gene loss/gain events. Moreover, strains of biovar equi presented a higher number of biovar-specific domains, 77 against only eight in biovar ovis, most of them are associated with virulence mechanisms. With this domain analysis, we have identified functional differences among strains of biovars ovis and equi that could be related to niche-adaptation and probably help to better understanding mechanisms of virulence and pathogenesis. The distribution patterns of functional domains identified in this work might have impacts on bacterial physiology and lifestyle, encouraging the development of new diagnoses, vaccines, and treatments for C. pseudotuberculosis diseases. Communicated by Ramaswamy H. Sarma. |
publishDate |
2020 |
dc.date.none.fl_str_mv |
2020-12-12T02:18:34Z 2020-12-12T02:18:34Z 2020-01-01 |
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://dx.doi.org/10.1080/07391102.2020.1805017 Journal of Biomolecular Structure and Dynamics. 1538-0254 0739-1102 http://hdl.handle.net/11449/200882 10.1080/07391102.2020.1805017 2-s2.0-85089256282 |
url |
http://dx.doi.org/10.1080/07391102.2020.1805017 http://hdl.handle.net/11449/200882 |
identifier_str_mv |
Journal of Biomolecular Structure and Dynamics. 1538-0254 0739-1102 10.1080/07391102.2020.1805017 2-s2.0-85089256282 |
dc.language.iso.fl_str_mv |
eng |
language |
eng |
dc.relation.none.fl_str_mv |
Journal of Biomolecular Structure and Dynamics |
dc.rights.driver.fl_str_mv |
info:eu-repo/semantics/openAccess |
eu_rights_str_mv |
openAccess |
dc.source.none.fl_str_mv |
Scopus reponame:Repositório Institucional da UNESP instname:Universidade Estadual Paulista (UNESP) instacron:UNESP |
instname_str |
Universidade Estadual Paulista (UNESP) |
instacron_str |
UNESP |
institution |
UNESP |
reponame_str |
Repositório Institucional da UNESP |
collection |
Repositório Institucional da UNESP |
repository.name.fl_str_mv |
Repositório Institucional da UNESP - Universidade Estadual Paulista (UNESP) |
repository.mail.fl_str_mv |
|
_version_ |
1808129557907111936 |