Phylogenomic characterization and pangenomic insights into the surfactin-producing bacteria Bacillus subtilis strain RI4914

Detalhes bibliográficos
Autor(a) principal: Ferreira, Julie Kennya de Lima
Data de Publicação: 2022
Outros Autores: Varani, Alessandro de Mello [UNESP], Totola, Marcos Rogerio, Almeida, Michelle Fernandes, Melo, Dirceu de Sousa, Batista, Cristina Ferreira Silva e, Chalfun-Junior, Antonio, Oliveira, Kellen Kauanne Pimenta de, Roesch, Luiz Fernando Wurdig, Pylro, Victor Satler
Tipo de documento: Artigo
Idioma: eng
Título da fonte: Repositório Institucional da UNESP
Texto Completo: http://dx.doi.org/10.1007/s42770-022-00815-0
http://hdl.handle.net/11449/237851
Resumo: Bacillus subtilis is a versatile bacterial species able to produce surfactin, a lipopeptide biosurfactant. We carried out the phylogenomic characterization and pangenomic analyses using available B. subtilis complete genomes. Also, we report the whole genome of the biosurfactant-producing B. subtilis strain RI4914 that was isolated from effluent water from an oil exploration field. We applied a hybrid sequencing approach using both long- and short-read sequencing technologies to generate a highly accurate, single-chromosome genome. The pangenomics analysis of 153 complete genomes classified as B. subtilis retrieved from the NCBI shows an open pangenome composed of 28,511 accessory genes, which agrees with the high genetic plasticity of the species. Also, this analysis suggests that surfactin production is a common trait shared by members of this species since the srfA operon is highly conserved among the B. subtilis strains found in most of the assemblies available. Finally, increased surfactin production corroborates the higher srfAA gene expression in B. subtilis strain RI4914.
id UNSP_2be5867cc1960e04779a0848138c9739
oai_identifier_str oai:repositorio.unesp.br:11449/237851
network_acronym_str UNSP
network_name_str Repositório Institucional da UNESP
repository_id_str 2946
spelling Phylogenomic characterization and pangenomic insights into the surfactin-producing bacteria Bacillus subtilis strain RI4914BiosurfactantNanopore sequencingPGM IonTorrentWhole genome sequencingHybrid assemblyGridIonBacillus subtilis is a versatile bacterial species able to produce surfactin, a lipopeptide biosurfactant. We carried out the phylogenomic characterization and pangenomic analyses using available B. subtilis complete genomes. Also, we report the whole genome of the biosurfactant-producing B. subtilis strain RI4914 that was isolated from effluent water from an oil exploration field. We applied a hybrid sequencing approach using both long- and short-read sequencing technologies to generate a highly accurate, single-chromosome genome. The pangenomics analysis of 153 complete genomes classified as B. subtilis retrieved from the NCBI shows an open pangenome composed of 28,511 accessory genes, which agrees with the high genetic plasticity of the species. Also, this analysis suggests that surfactin production is a common trait shared by members of this species since the srfA operon is highly conserved among the B. subtilis strains found in most of the assemblies available. Finally, increased surfactin production corroborates the higher srfAA gene expression in B. subtilis strain RI4914.Conselho Nacional de Desenvolvimento Científico e Tecnológico (CNPq)Coordenação de Aperfeiçoamento de Pessoal de Nível Superior (CAPES)Brazilian Microbiome ProjectFed Univ Lavras UFLA, Dept Biol, Lavras, MG, BrazilUniv Estadual Paulista, Unesp, Fac Ciencias Agr & Vet, Dept Tecnol, Jaboticabal, SP, BrazilUniv Fed Vicosa, Dept Microbiol, Lab Biotecnol & Biodiversidade Meio Ambiente, Vicosa, MG, BrazilUniv Florida, Dept Microbiol & Cell Sci, Gainesville, FL 32611 USAUniv Estadual Paulista, Unesp, Fac Ciencias Agr & Vet, Dept Tecnol, Jaboticabal, SP, BrazilCNPq: 404651/2018-6CNPq: 133550/2019-2CNPq: 303061/2019-7CAPES: 001SpringerUniversidade Federal de Lavras (UFLA)Universidade Estadual Paulista (UNESP)Universidade Federal de Viçosa (UFV)Univ FloridaFerreira, Julie Kennya de LimaVarani, Alessandro de Mello [UNESP]Totola, Marcos RogerioAlmeida, Michelle FernandesMelo, Dirceu de SousaBatista, Cristina Ferreira Silva eChalfun-Junior, AntonioOliveira, Kellen Kauanne Pimenta deRoesch, Luiz Fernando WurdigPylro, Victor Satler2022-11-30T13:46:40Z2022-11-30T13:46:40Z2022-09-09info:eu-repo/semantics/publishedVersioninfo:eu-repo/semantics/article13http://dx.doi.org/10.1007/s42770-022-00815-0Brazilian Journal Of Microbiology. New York: Springer, 13 p., 2022.1517-8382http://hdl.handle.net/11449/23785110.1007/s42770-022-00815-0WOS:000852097400001Web of Sciencereponame:Repositório Institucional da UNESPinstname:Universidade Estadual Paulista (UNESP)instacron:UNESPengBrazilian Journal Of Microbiologyinfo:eu-repo/semantics/openAccess2024-06-07T15:31:46Zoai:repositorio.unesp.br:11449/237851Repositório InstitucionalPUBhttp://repositorio.unesp.br/oai/requestopendoar:29462024-08-05T16:56:29.943064Repositório Institucional da UNESP - Universidade Estadual Paulista (UNESP)false
dc.title.none.fl_str_mv Phylogenomic characterization and pangenomic insights into the surfactin-producing bacteria Bacillus subtilis strain RI4914
title Phylogenomic characterization and pangenomic insights into the surfactin-producing bacteria Bacillus subtilis strain RI4914
spellingShingle Phylogenomic characterization and pangenomic insights into the surfactin-producing bacteria Bacillus subtilis strain RI4914
Ferreira, Julie Kennya de Lima
Biosurfactant
Nanopore sequencing
PGM IonTorrent
Whole genome sequencing
Hybrid assembly
GridIon
title_short Phylogenomic characterization and pangenomic insights into the surfactin-producing bacteria Bacillus subtilis strain RI4914
title_full Phylogenomic characterization and pangenomic insights into the surfactin-producing bacteria Bacillus subtilis strain RI4914
title_fullStr Phylogenomic characterization and pangenomic insights into the surfactin-producing bacteria Bacillus subtilis strain RI4914
title_full_unstemmed Phylogenomic characterization and pangenomic insights into the surfactin-producing bacteria Bacillus subtilis strain RI4914
title_sort Phylogenomic characterization and pangenomic insights into the surfactin-producing bacteria Bacillus subtilis strain RI4914
author Ferreira, Julie Kennya de Lima
author_facet Ferreira, Julie Kennya de Lima
Varani, Alessandro de Mello [UNESP]
Totola, Marcos Rogerio
Almeida, Michelle Fernandes
Melo, Dirceu de Sousa
Batista, Cristina Ferreira Silva e
Chalfun-Junior, Antonio
Oliveira, Kellen Kauanne Pimenta de
Roesch, Luiz Fernando Wurdig
Pylro, Victor Satler
author_role author
author2 Varani, Alessandro de Mello [UNESP]
Totola, Marcos Rogerio
Almeida, Michelle Fernandes
Melo, Dirceu de Sousa
Batista, Cristina Ferreira Silva e
Chalfun-Junior, Antonio
Oliveira, Kellen Kauanne Pimenta de
Roesch, Luiz Fernando Wurdig
Pylro, Victor Satler
author2_role author
author
author
author
author
author
author
author
author
dc.contributor.none.fl_str_mv Universidade Federal de Lavras (UFLA)
Universidade Estadual Paulista (UNESP)
Universidade Federal de Viçosa (UFV)
Univ Florida
dc.contributor.author.fl_str_mv Ferreira, Julie Kennya de Lima
Varani, Alessandro de Mello [UNESP]
Totola, Marcos Rogerio
Almeida, Michelle Fernandes
Melo, Dirceu de Sousa
Batista, Cristina Ferreira Silva e
Chalfun-Junior, Antonio
Oliveira, Kellen Kauanne Pimenta de
Roesch, Luiz Fernando Wurdig
Pylro, Victor Satler
dc.subject.por.fl_str_mv Biosurfactant
Nanopore sequencing
PGM IonTorrent
Whole genome sequencing
Hybrid assembly
GridIon
topic Biosurfactant
Nanopore sequencing
PGM IonTorrent
Whole genome sequencing
Hybrid assembly
GridIon
description Bacillus subtilis is a versatile bacterial species able to produce surfactin, a lipopeptide biosurfactant. We carried out the phylogenomic characterization and pangenomic analyses using available B. subtilis complete genomes. Also, we report the whole genome of the biosurfactant-producing B. subtilis strain RI4914 that was isolated from effluent water from an oil exploration field. We applied a hybrid sequencing approach using both long- and short-read sequencing technologies to generate a highly accurate, single-chromosome genome. The pangenomics analysis of 153 complete genomes classified as B. subtilis retrieved from the NCBI shows an open pangenome composed of 28,511 accessory genes, which agrees with the high genetic plasticity of the species. Also, this analysis suggests that surfactin production is a common trait shared by members of this species since the srfA operon is highly conserved among the B. subtilis strains found in most of the assemblies available. Finally, increased surfactin production corroborates the higher srfAA gene expression in B. subtilis strain RI4914.
publishDate 2022
dc.date.none.fl_str_mv 2022-11-30T13:46:40Z
2022-11-30T13:46:40Z
2022-09-09
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/10.1007/s42770-022-00815-0
Brazilian Journal Of Microbiology. New York: Springer, 13 p., 2022.
1517-8382
http://hdl.handle.net/11449/237851
10.1007/s42770-022-00815-0
WOS:000852097400001
url http://dx.doi.org/10.1007/s42770-022-00815-0
http://hdl.handle.net/11449/237851
identifier_str_mv Brazilian Journal Of Microbiology. New York: Springer, 13 p., 2022.
1517-8382
10.1007/s42770-022-00815-0
WOS:000852097400001
dc.language.iso.fl_str_mv eng
language eng
dc.relation.none.fl_str_mv Brazilian Journal Of Microbiology
dc.rights.driver.fl_str_mv info:eu-repo/semantics/openAccess
eu_rights_str_mv openAccess
dc.format.none.fl_str_mv 13
dc.publisher.none.fl_str_mv Springer
publisher.none.fl_str_mv Springer
dc.source.none.fl_str_mv Web of Science
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_ 1808128724215791616