Phylogenomic characterization and pangenomic insights into the surfactin-producing bacteria Bacillus subtilis strain RI4914
Autor(a) principal: | |
---|---|
Data de Publicação: | 2022 |
Outros Autores: | , , , , , , , , |
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 |