A genomic view of food-related and probiotic Enterococcus strains

Autores
Bonacina, Julieta; Suárez, Nadia Elina; Hormigo, Daniel Ricardo; Fadda, Silvina G.; Lechner, Marcus; Saavedra, Maria Lucila
Año de publicación
2017
Idioma
inglés
Tipo de recurso
artículo
Estado
versión publicada
Descripción
The study of enterococcal genomes has grown considerably in recent years. While special attentionis paid to comparative genomic analysis among clinical relevant isolates, in this study we performedan exhaustive comparative analysis of enterococcal genomes of food origin and/or with potential tobe used as probiotics. Beyond common genetic features, we especially aimed to identify those thatare specific to enterococcal strains isolated from a certain food-related source as well as features presentin a species-specific manner. Thus, the genome sequences of 25 Enterococcus strains, from 7different species, were examined and compared. Their phylogenetic relationship was reconstructedbased on orthologous proteins and whole genomes. Likewise, markers associated with a successfulcolonization (bacteriocin genes and genomic islands) and genome plasticity (phages and clusteredregularly interspaced short palindromic repeats) were investigated for lifestyle specific genetic features.At the same time, a search for antibiotic resistance genes was carried out, since they are of bigconcern in the food industry. Finally, it was possible to locate 1617 FIGfam families as a core proteomeuniversally present among the genera and to determine that most of the accessory genes codefor hypothetical proteins, providing reasonable hints to support their functional characterization.
Fil: Bonacina, Julieta. Consejo Nacional de Investigaciones Científicas y Técnicas. Centro Científico Tecnológico Conicet - Tucuman. Centro de Referencia Para Lactobacilos; Argentina
Fil: Suárez, Nadia Elina. Consejo Nacional de Investigaciones Científicas y Técnicas. Centro Científico Tecnológico Conicet - Tucuman. Centro de Referencia Para Lactobacilos; Argentina
Fil: Hormigo, Daniel Ricardo. Consejo Nacional de Investigaciones Científicas y Técnicas. Centro Científico Tecnológico Conicet - Tucuman. Centro de Referencia Para Lactobacilos; Argentina
Fil: Fadda, Silvina G.. Consejo Nacional de Investigaciones Científicas y Técnicas. Centro Científico Tecnológico Conicet - Tucuman. Centro de Referencia Para Lactobacilos; Argentina
Fil: Lechner, Marcus. University Marburg; Alemania
Fil: Saavedra, Maria Lucila. Consejo Nacional de Investigaciones Científicas y Técnicas. Centro Científico Tecnológico Conicet - Tucuman. Centro de Referencia Para Lactobacilos; Argentina
Materia
ENTEROCOCCUS
FOOD
GENOMICS
NICHE
PROBIOTICS
Nivel de accesibilidad
acceso abierto
Condiciones de uso
https://creativecommons.org/licenses/by-nc-sa/2.5/ar/
Repositorio
CONICET Digital (CONICET)
Institución
Consejo Nacional de Investigaciones Científicas y Técnicas
OAI Identificador
oai:ri.conicet.gov.ar:11336/30415
Acceder
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oai_identifier_str oai:ri.conicet.gov.ar:11336/30415
network_acronym_str CONICETDig
repository_id_str 3498
network_name_str CONICET Digital (CONICET)
spelling A genomic view of food-related and probiotic Enterococcus strainsBonacina, JulietaSuárez, Nadia ElinaHormigo, Daniel RicardoFadda, Silvina G.Lechner, MarcusSaavedra, Maria LucilaENTEROCOCCUSFOODGENOMICSNICHEPROBIOTICShttps://purl.org/becyt/ford/1.6https://purl.org/becyt/ford/1The study of enterococcal genomes has grown considerably in recent years. While special attentionis paid to comparative genomic analysis among clinical relevant isolates, in this study we performedan exhaustive comparative analysis of enterococcal genomes of food origin and/or with potential tobe used as probiotics. Beyond common genetic features, we especially aimed to identify those thatare specific to enterococcal strains isolated from a certain food-related source as well as features presentin a species-specific manner. Thus, the genome sequences of 25 Enterococcus strains, from 7different species, were examined and compared. Their phylogenetic relationship was reconstructedbased on orthologous proteins and whole genomes. Likewise, markers associated with a successfulcolonization (bacteriocin genes and genomic islands) and genome plasticity (phages and clusteredregularly interspaced short palindromic repeats) were investigated for lifestyle specific genetic features.At the same time, a search for antibiotic resistance genes was carried out, since they are of bigconcern in the food industry. Finally, it was possible to locate 1617 FIGfam families as a core proteomeuniversally present among the genera and to determine that most of the accessory genes codefor hypothetical proteins, providing reasonable hints to support their functional characterization.Fil: Bonacina, Julieta. Consejo Nacional de Investigaciones Científicas y Técnicas. Centro Científico Tecnológico Conicet - Tucuman. Centro de Referencia Para Lactobacilos; ArgentinaFil: Suárez, Nadia Elina. Consejo Nacional de Investigaciones Científicas y Técnicas. Centro Científico Tecnológico Conicet - Tucuman. Centro de Referencia Para Lactobacilos; ArgentinaFil: Hormigo, Daniel Ricardo. Consejo Nacional de Investigaciones Científicas y Técnicas. Centro Científico Tecnológico Conicet - Tucuman. Centro de Referencia Para Lactobacilos; ArgentinaFil: Fadda, Silvina G.. Consejo Nacional de Investigaciones Científicas y Técnicas. Centro Científico Tecnológico Conicet - Tucuman. Centro de Referencia Para Lactobacilos; ArgentinaFil: Lechner, Marcus. University Marburg; AlemaniaFil: Saavedra, Maria Lucila. Consejo Nacional de Investigaciones Científicas y Técnicas. Centro Científico Tecnológico Conicet - Tucuman. Centro de Referencia Para Lactobacilos; ArgentinaOxford University Press2017-02-01info:eu-repo/semantics/articleinfo:eu-repo/semantics/publishedVersionhttp://purl.org/coar/resource_type/c_6501info:ar-repo/semantics/articuloapplication/pdfapplication/pdfapplication/pdfapplication/pdfhttp://hdl.handle.net/11336/30415Bonacina, Julieta; Suárez, Nadia Elina; Hormigo, Daniel Ricardo; Fadda, Silvina G.; Lechner, Marcus; et al.; A genomic view of food-related and probiotic Enterococcus strains; Oxford University Press; Dna Research; 24; 1; 1-2-2017; 11-241340-28381756-1663CONICET DigitalCONICETenginfo:eu-repo/semantics/altIdentifier/url/https://academic.oup.com/dnaresearch/issueinfo:eu-repo/semantics/altIdentifier/doi/10.1093/dnares/dsw043info:eu-repo/semantics/altIdentifier/url/https://academic.oup.com/dnaresearch/article/24/1/11/2670108info:eu-repo/semantics/openAccesshttps://creativecommons.org/licenses/by-nc-sa/2.5/ar/reponame:CONICET Digital (CONICET)instname:Consejo Nacional de Investigaciones Científicas y Técnicas2025-09-29T10:17:40Zoai:ri.conicet.gov.ar:11336/30415instacron:CONICETInstitucionalhttp://ri.conicet.gov.ar/Organismo científico-tecnológicoNo correspondehttp://ri.conicet.gov.ar/oai/requestdasensio@conicet.gov.ar; lcarlino@conicet.gov.arArgentinaNo correspondeNo correspondeNo correspondeopendoar:34982025-09-29 10:17:41.403CONICET Digital (CONICET) - Consejo Nacional de Investigaciones Científicas y Técnicasfalse
dc.title.none.fl_str_mv A genomic view of food-related and probiotic Enterococcus strains
title A genomic view of food-related and probiotic Enterococcus strains
spellingShingle A genomic view of food-related and probiotic Enterococcus strains
Bonacina, Julieta
ENTEROCOCCUS
FOOD
GENOMICS
NICHE
PROBIOTICS
title_short A genomic view of food-related and probiotic Enterococcus strains
title_full A genomic view of food-related and probiotic Enterococcus strains
title_fullStr A genomic view of food-related and probiotic Enterococcus strains
title_full_unstemmed A genomic view of food-related and probiotic Enterococcus strains
title_sort A genomic view of food-related and probiotic Enterococcus strains
dc.creator.none.fl_str_mv Bonacina, Julieta
Suárez, Nadia Elina
Hormigo, Daniel Ricardo
Fadda, Silvina G.
Lechner, Marcus
Saavedra, Maria Lucila
author Bonacina, Julieta
author_facet Bonacina, Julieta
Suárez, Nadia Elina
Hormigo, Daniel Ricardo
Fadda, Silvina G.
Lechner, Marcus
Saavedra, Maria Lucila
author_role author
author2 Suárez, Nadia Elina
Hormigo, Daniel Ricardo
Fadda, Silvina G.
Lechner, Marcus
Saavedra, Maria Lucila
author2_role author
author
author
author
author
dc.subject.none.fl_str_mv ENTEROCOCCUS
FOOD
GENOMICS
NICHE
PROBIOTICS
topic ENTEROCOCCUS
FOOD
GENOMICS
NICHE
PROBIOTICS
purl_subject.fl_str_mv https://purl.org/becyt/ford/1.6
https://purl.org/becyt/ford/1
dc.description.none.fl_txt_mv The study of enterococcal genomes has grown considerably in recent years. While special attentionis paid to comparative genomic analysis among clinical relevant isolates, in this study we performedan exhaustive comparative analysis of enterococcal genomes of food origin and/or with potential tobe used as probiotics. Beyond common genetic features, we especially aimed to identify those thatare specific to enterococcal strains isolated from a certain food-related source as well as features presentin a species-specific manner. Thus, the genome sequences of 25 Enterococcus strains, from 7different species, were examined and compared. Their phylogenetic relationship was reconstructedbased on orthologous proteins and whole genomes. Likewise, markers associated with a successfulcolonization (bacteriocin genes and genomic islands) and genome plasticity (phages and clusteredregularly interspaced short palindromic repeats) were investigated for lifestyle specific genetic features.At the same time, a search for antibiotic resistance genes was carried out, since they are of bigconcern in the food industry. Finally, it was possible to locate 1617 FIGfam families as a core proteomeuniversally present among the genera and to determine that most of the accessory genes codefor hypothetical proteins, providing reasonable hints to support their functional characterization.
Fil: Bonacina, Julieta. Consejo Nacional de Investigaciones Científicas y Técnicas. Centro Científico Tecnológico Conicet - Tucuman. Centro de Referencia Para Lactobacilos; Argentina
Fil: Suárez, Nadia Elina. Consejo Nacional de Investigaciones Científicas y Técnicas. Centro Científico Tecnológico Conicet - Tucuman. Centro de Referencia Para Lactobacilos; Argentina
Fil: Hormigo, Daniel Ricardo. Consejo Nacional de Investigaciones Científicas y Técnicas. Centro Científico Tecnológico Conicet - Tucuman. Centro de Referencia Para Lactobacilos; Argentina
Fil: Fadda, Silvina G.. Consejo Nacional de Investigaciones Científicas y Técnicas. Centro Científico Tecnológico Conicet - Tucuman. Centro de Referencia Para Lactobacilos; Argentina
Fil: Lechner, Marcus. University Marburg; Alemania
Fil: Saavedra, Maria Lucila. Consejo Nacional de Investigaciones Científicas y Técnicas. Centro Científico Tecnológico Conicet - Tucuman. Centro de Referencia Para Lactobacilos; Argentina
description The study of enterococcal genomes has grown considerably in recent years. While special attentionis paid to comparative genomic analysis among clinical relevant isolates, in this study we performedan exhaustive comparative analysis of enterococcal genomes of food origin and/or with potential tobe used as probiotics. Beyond common genetic features, we especially aimed to identify those thatare specific to enterococcal strains isolated from a certain food-related source as well as features presentin a species-specific manner. Thus, the genome sequences of 25 Enterococcus strains, from 7different species, were examined and compared. Their phylogenetic relationship was reconstructedbased on orthologous proteins and whole genomes. Likewise, markers associated with a successfulcolonization (bacteriocin genes and genomic islands) and genome plasticity (phages and clusteredregularly interspaced short palindromic repeats) were investigated for lifestyle specific genetic features.At the same time, a search for antibiotic resistance genes was carried out, since they are of bigconcern in the food industry. Finally, it was possible to locate 1617 FIGfam families as a core proteomeuniversally present among the genera and to determine that most of the accessory genes codefor hypothetical proteins, providing reasonable hints to support their functional characterization.
publishDate 2017
dc.date.none.fl_str_mv 2017-02-01
dc.type.none.fl_str_mv info:eu-repo/semantics/article
info:eu-repo/semantics/publishedVersion
http://purl.org/coar/resource_type/c_6501
info:ar-repo/semantics/articulo
format article
status_str publishedVersion
dc.identifier.none.fl_str_mv http://hdl.handle.net/11336/30415
Bonacina, Julieta; Suárez, Nadia Elina; Hormigo, Daniel Ricardo; Fadda, Silvina G.; Lechner, Marcus; et al.; A genomic view of food-related and probiotic Enterococcus strains; Oxford University Press; Dna Research; 24; 1; 1-2-2017; 11-24
1340-2838
1756-1663
CONICET Digital
CONICET
url http://hdl.handle.net/11336/30415
identifier_str_mv Bonacina, Julieta; Suárez, Nadia Elina; Hormigo, Daniel Ricardo; Fadda, Silvina G.; Lechner, Marcus; et al.; A genomic view of food-related and probiotic Enterococcus strains; Oxford University Press; Dna Research; 24; 1; 1-2-2017; 11-24
1340-2838
1756-1663
CONICET Digital
CONICET
dc.language.none.fl_str_mv eng
language eng
dc.relation.none.fl_str_mv info:eu-repo/semantics/altIdentifier/url/https://academic.oup.com/dnaresearch/issue
info:eu-repo/semantics/altIdentifier/doi/10.1093/dnares/dsw043
info:eu-repo/semantics/altIdentifier/url/https://academic.oup.com/dnaresearch/article/24/1/11/2670108
dc.rights.none.fl_str_mv info:eu-repo/semantics/openAccess
https://creativecommons.org/licenses/by-nc-sa/2.5/ar/
eu_rights_str_mv openAccess
rights_invalid_str_mv https://creativecommons.org/licenses/by-nc-sa/2.5/ar/
dc.format.none.fl_str_mv application/pdf
application/pdf
application/pdf
application/pdf
dc.publisher.none.fl_str_mv Oxford University Press
publisher.none.fl_str_mv Oxford University Press
dc.source.none.fl_str_mv reponame:CONICET Digital (CONICET)
instname:Consejo Nacional de Investigaciones Científicas y Técnicas
reponame_str CONICET Digital (CONICET)
collection CONICET Digital (CONICET)
instname_str Consejo Nacional de Investigaciones Científicas y Técnicas
repository.name.fl_str_mv CONICET Digital (CONICET) - Consejo Nacional de Investigaciones Científicas y Técnicas
repository.mail.fl_str_mv dasensio@conicet.gov.ar; lcarlino@conicet.gov.ar
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score 13.070432

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