Comparative genomics of a novel clade shed light on the evolution of the genus Erysipelothrix and characterise an emerging species

Abstract Erysipelothrix sp. isolates obtained from a deadly outbreak in farmed turkeys were sequenced and compared to representatives of the genus. Phylogenetic trees—supported by digital DNA:DNA hybridization and Average Nucleotide Identity—revealed a novel monophyletic clade comprising isolates fr...

Descripción completa

Guardado en:

Detalles Bibliográficos
Autores principales:	Ana Laura Grazziotin, Newton M. Vidal, Patricia Giovana Hoepers, Thais F. M. Reis, Dany Mesa, Luiz Felipe Caron, Max Ingberman, Breno C. B. Beirão, João Paulo Zuffo, Belchiolina Beatriz Fonseca
Formato:	article
Lenguaje:	EN
Publicado:	Nature Portfolio 2021
Materias:	Medicine R Science Q
Acceso en línea:	https://doaj.org/article/c2a932fa7d3041b09f7265eeb530b736
Etiquetas:	Agregar Etiqueta Sin Etiquetas, Sea el primero en etiquetar este registro!

id	oai:doaj.org-article:c2a932fa7d3041b09f7265eeb530b736
record_format	dspace
spelling	oai:doaj.org-article:c2a932fa7d3041b09f7265eeb530b7362021-12-02T13:30:17ZComparative genomics of a novel clade shed light on the evolution of the genus Erysipelothrix and characterise an emerging species10.1038/s41598-021-82959-x2045-2322https://doaj.org/article/c2a932fa7d3041b09f7265eeb530b7362021-02-01T00:00:00Zhttps://doi.org/10.1038/s41598-021-82959-xhttps://doaj.org/toc/2045-2322Abstract Erysipelothrix sp. isolates obtained from a deadly outbreak in farmed turkeys were sequenced and compared to representatives of the genus. Phylogenetic trees—supported by digital DNA:DNA hybridization and Average Nucleotide Identity—revealed a novel monophyletic clade comprising isolates from pigs, turkeys, and fish, including isolates previously described as E. sp. Strain 2. Genes coding for the SpaC protein, typically found in E. sp. Strain 2, were detected in all isolates of the clade. Therefore, we confirm E. sp. Strain 2 represents a unique species that may be isolated from a broad host range, and the name “Erysipelothrix takahashiae” is suggested. Core genome analysis showed that the pathogenic species of this genus, E. rhusiopathiae and the clade E. sp. Strain 2, are enriched in core functionalities related to nutrient uptake and transport, but not necessarily homologous pathways. For instance, whereas the aerobic DctA transporter may uptake C4-dicarboxylates in both species, the anaerobic DcuC transporter is exclusive of the E. sp. Strain 2. Remarkably, the pan-genome analysis uncovered that genes related to transport and metabolism, recombination and repair, translation and transcription in the fish isolate, within the novel clade, have undergone a genomic reduction through pseudogenization. This reflects distinct selective pressures shaping the genome of species and strains within the genus Erysipelothrix while adapting to their respective niches.Ana Laura GrazziotinNewton M. VidalPatricia Giovana HoepersThais F. M. ReisDany MesaLuiz Felipe CaronMax IngbermanBreno C. B. BeirãoJoão Paulo ZuffoBelchiolina Beatriz FonsecaNature PortfolioarticleMedicineRScienceQENScientific Reports, Vol 11, Iss 1, Pp 1-12 (2021)
institution	DOAJ
collection	DOAJ
language	EN
topic	Medicine R Science Q
spellingShingle	Medicine R Science Q Ana Laura Grazziotin Newton M. Vidal Patricia Giovana Hoepers Thais F. M. Reis Dany Mesa Luiz Felipe Caron Max Ingberman Breno C. B. Beirão João Paulo Zuffo Belchiolina Beatriz Fonseca Comparative genomics of a novel clade shed light on the evolution of the genus Erysipelothrix and characterise an emerging species
description	Abstract Erysipelothrix sp. isolates obtained from a deadly outbreak in farmed turkeys were sequenced and compared to representatives of the genus. Phylogenetic trees—supported by digital DNA:DNA hybridization and Average Nucleotide Identity—revealed a novel monophyletic clade comprising isolates from pigs, turkeys, and fish, including isolates previously described as E. sp. Strain 2. Genes coding for the SpaC protein, typically found in E. sp. Strain 2, were detected in all isolates of the clade. Therefore, we confirm E. sp. Strain 2 represents a unique species that may be isolated from a broad host range, and the name “Erysipelothrix takahashiae” is suggested. Core genome analysis showed that the pathogenic species of this genus, E. rhusiopathiae and the clade E. sp. Strain 2, are enriched in core functionalities related to nutrient uptake and transport, but not necessarily homologous pathways. For instance, whereas the aerobic DctA transporter may uptake C4-dicarboxylates in both species, the anaerobic DcuC transporter is exclusive of the E. sp. Strain 2. Remarkably, the pan-genome analysis uncovered that genes related to transport and metabolism, recombination and repair, translation and transcription in the fish isolate, within the novel clade, have undergone a genomic reduction through pseudogenization. This reflects distinct selective pressures shaping the genome of species and strains within the genus Erysipelothrix while adapting to their respective niches.
format	article
author	Ana Laura Grazziotin Newton M. Vidal Patricia Giovana Hoepers Thais F. M. Reis Dany Mesa Luiz Felipe Caron Max Ingberman Breno C. B. Beirão João Paulo Zuffo Belchiolina Beatriz Fonseca
author_facet	Ana Laura Grazziotin Newton M. Vidal Patricia Giovana Hoepers Thais F. M. Reis Dany Mesa Luiz Felipe Caron Max Ingberman Breno C. B. Beirão João Paulo Zuffo Belchiolina Beatriz Fonseca
author_sort	Ana Laura Grazziotin
title	Comparative genomics of a novel clade shed light on the evolution of the genus Erysipelothrix and characterise an emerging species
title_short	Comparative genomics of a novel clade shed light on the evolution of the genus Erysipelothrix and characterise an emerging species
title_full	Comparative genomics of a novel clade shed light on the evolution of the genus Erysipelothrix and characterise an emerging species
title_fullStr	Comparative genomics of a novel clade shed light on the evolution of the genus Erysipelothrix and characterise an emerging species
title_full_unstemmed	Comparative genomics of a novel clade shed light on the evolution of the genus Erysipelothrix and characterise an emerging species
title_sort	comparative genomics of a novel clade shed light on the evolution of the genus erysipelothrix and characterise an emerging species
publisher	Nature Portfolio
publishDate	2021
url	https://doaj.org/article/c2a932fa7d3041b09f7265eeb530b736
work_keys_str_mv	AT analauragrazziotin comparativegenomicsofanovelcladeshedlightontheevolutionofthegenuserysipelothrixandcharacteriseanemergingspecies AT newtonmvidal comparativegenomicsofanovelcladeshedlightontheevolutionofthegenuserysipelothrixandcharacteriseanemergingspecies AT patriciagiovanahoepers comparativegenomicsofanovelcladeshedlightontheevolutionofthegenuserysipelothrixandcharacteriseanemergingspecies AT thaisfmreis comparativegenomicsofanovelcladeshedlightontheevolutionofthegenuserysipelothrixandcharacteriseanemergingspecies AT danymesa comparativegenomicsofanovelcladeshedlightontheevolutionofthegenuserysipelothrixandcharacteriseanemergingspecies AT luizfelipecaron comparativegenomicsofanovelcladeshedlightontheevolutionofthegenuserysipelothrixandcharacteriseanemergingspecies AT maxingberman comparativegenomicsofanovelcladeshedlightontheevolutionofthegenuserysipelothrixandcharacteriseanemergingspecies AT brenocbbeirao comparativegenomicsofanovelcladeshedlightontheevolutionofthegenuserysipelothrixandcharacteriseanemergingspecies AT joaopaulozuffo comparativegenomicsofanovelcladeshedlightontheevolutionofthegenuserysipelothrixandcharacteriseanemergingspecies AT belchiolinabeatrizfonseca comparativegenomicsofanovelcladeshedlightontheevolutionofthegenuserysipelothrixandcharacteriseanemergingspecies
_version_	1718392939441291264

Comparative genomics of a novel clade shed light on the evolution of the genus Erysipelothrix and characterise an emerging species

Ejemplares similares