Genome mining approaches to unveil the full potential of the PGPR isolate Methylobacterium sp. 2A

Autores
Grossi, Cecilia Eugenia María; Gitman, Iván Federico Berco; Serral, Federico; Ulloa, Rita Maria
Año de publicación
2020
Idioma
inglés
Tipo de recurso
documento de conferencia
Estado
versión publicada
Descripción
Genomic analysis has become an established tool in the characterization of plant-beneficialmicrobes since it offers the opportunity to study the full arsenal of a strain. Methylobacteriumsp. 2A is a plant growth-promoting rhizobacteria (PGPR) isolated from roots of potato plantsthat has important biotechnological features such as plant growth promotion and biocontrolactivities. Its genome sequence was previously obtained and, briefly, it has 6.39 Mbcomprising 6,142 coding DNA sequences. A comparative genomic analysis was performedto explore unique features in the 2A genome and its similarity with four related members ofthe genus; a core-genome of 3,650 genes was identified, while 937 genes were exclusive ofthis isolate. In the Methylobacterium sp. 2A assembly, 28 genomic islands were detected(560,218 bp) representing 8.75% of the entire genome. Among the 482 protein-coding geneslocated in the genomic islands, 182 genes encode proteins of unassigned function and 48genes encode transposon-related proteins. Interestingly, the Methylobacterium sp. 2Agenome harbours a horizontally-transferred genomic island that codifies the nodulationprotein nolO which has high similarity to Phaselicystis flava MSr931. We also detectedgenes potentially associated with mercury, arsenic, chromate, and copper/silver resistancethat could be involved in the environmental adaptability of Methylobacterium sp. 2A.Furthermore, we integrated this list with the pan-genome data. The data presented in thiswork provides further valuable information of the Methylobacterium sp. 2A genome to unveilits full potential.
Fil: Grossi, Cecilia Eugenia María. Consejo Nacional de Investigaciones Científicas y Técnicas. Instituto de Investigaciones en Ingeniería Genética y Biología Molecular "Dr. Héctor N. Torres"; Argentina
Fil: Gitman, Iván Federico Berco. Consejo Nacional de Investigaciones Científicas y Técnicas. Instituto de Investigaciones en Ingeniería Genética y Biología Molecular "Dr. Héctor N. Torres"; Argentina
Fil: Serral, Federico. Universidad de Buenos Aires. Facultad de Ciencias Exactas y Naturales. Instituto de Calculo. - Consejo Nacional de Investigaciones Científicas y Técnicas. Oficina de Coordinación Administrativa Ciudad Universitaria. Instituto de Calculo; Argentina
Fil: Ulloa, Rita Maria. Universidad de Buenos Aires. Facultad de Ciencias Exactas y Naturales. Departamento de Química Biológica; Argentina. Consejo Nacional de Investigaciones Científicas y Técnicas. Instituto de Investigaciones en Ingeniería Genética y Biología Molecular "Dr. Héctor N. Torres"; Argentina
1st Congress of Women in Bioinformatics and Data Science Latin America
Ciudad Autónoma de Buenos Aires
Argentina
Women in Bioinformatics & Data Science LA
Materia
Methylobacterium sp. 2A
Plant growth-promoting rhizobacteria (PGPR)
Genomic islands
Comparative genomics
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:11336/155022
Acceder
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network_name_str CONICET Digital (CONICET)
spelling Genome mining approaches to unveil the full potential of the PGPR isolate Methylobacterium sp. 2AGrossi, Cecilia Eugenia MaríaGitman, Iván Federico BercoSerral, FedericoUlloa, Rita MariaMethylobacterium sp. 2APlant growth-promoting rhizobacteria (PGPR)Genomic islandsComparative genomicshttps://purl.org/becyt/ford/1.2https://purl.org/becyt/ford/1Genomic analysis has become an established tool in the characterization of plant-beneficialmicrobes since it offers the opportunity to study the full arsenal of a strain. Methylobacteriumsp. 2A is a plant growth-promoting rhizobacteria (PGPR) isolated from roots of potato plantsthat has important biotechnological features such as plant growth promotion and biocontrolactivities. Its genome sequence was previously obtained and, briefly, it has 6.39 Mbcomprising 6,142 coding DNA sequences. A comparative genomic analysis was performedto explore unique features in the 2A genome and its similarity with four related members ofthe genus; a core-genome of 3,650 genes was identified, while 937 genes were exclusive ofthis isolate. In the Methylobacterium sp. 2A assembly, 28 genomic islands were detected(560,218 bp) representing 8.75% of the entire genome. Among the 482 protein-coding geneslocated in the genomic islands, 182 genes encode proteins of unassigned function and 48genes encode transposon-related proteins. Interestingly, the Methylobacterium sp. 2Agenome harbours a horizontally-transferred genomic island that codifies the nodulationprotein nolO which has high similarity to Phaselicystis flava MSr931. We also detectedgenes potentially associated with mercury, arsenic, chromate, and copper/silver resistancethat could be involved in the environmental adaptability of Methylobacterium sp. 2A.Furthermore, we integrated this list with the pan-genome data. The data presented in thiswork provides further valuable information of the Methylobacterium sp. 2A genome to unveilits full potential.Fil: Grossi, Cecilia Eugenia María. Consejo Nacional de Investigaciones Científicas y Técnicas. Instituto de Investigaciones en Ingeniería Genética y Biología Molecular "Dr. Héctor N. Torres"; ArgentinaFil: Gitman, Iván Federico Berco. Consejo Nacional de Investigaciones Científicas y Técnicas. Instituto de Investigaciones en Ingeniería Genética y Biología Molecular "Dr. Héctor N. Torres"; ArgentinaFil: Serral, Federico. Universidad de Buenos Aires. Facultad de Ciencias Exactas y Naturales. Instituto de Calculo. - Consejo Nacional de Investigaciones Científicas y Técnicas. Oficina de Coordinación Administrativa Ciudad Universitaria. Instituto de Calculo; ArgentinaFil: Ulloa, Rita Maria. Universidad de Buenos Aires. Facultad de Ciencias Exactas y Naturales. Departamento de Química Biológica; Argentina. Consejo Nacional de Investigaciones Científicas y Técnicas. Instituto de Investigaciones en Ingeniería Genética y Biología Molecular "Dr. Héctor N. Torres"; Argentina1st Congress of Women in Bioinformatics and Data Science Latin AmericaCiudad Autónoma de Buenos AiresArgentinaWomen in Bioinformatics & Data Science LAWomen in Bioinformatics & Data Science LA2020info:eu-repo/semantics/publishedVersioninfo:eu-repo/semantics/conferenceObjectCongresoBookhttp://purl.org/coar/resource_type/c_5794info:ar-repo/semantics/documentoDeConferenciaapplication/pdfapplication/pdfapplication/pdfhttp://hdl.handle.net/11336/155022Genome mining approaches to unveil the full potential of the PGPR isolate Methylobacterium sp. 2A; 1st Congress of Women in Bioinformatics and Data Science Latin America; Ciudad Autónoma de Buenos Aires; Argentina; 2020; 53-53CONICET DigitalCONICETengInternacionalinfo:eu-repo/semantics/openAccesshttps://creativecommons.org/licenses/by-nc-sa/2.5/ar/reponame:CONICET Digital (CONICET)instname:Consejo Nacional de Investigaciones Científicas y Técnicas2025-09-03T10:04:00Zoai:ri.conicet.gov.ar:11336/155022instacron: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:34982025-09-03 10:04:01.238CONICET Digital (CONICET) - Consejo Nacional de Investigaciones Científicas y Técnicasfalse
dc.title.none.fl_str_mv Genome mining approaches to unveil the full potential of the PGPR isolate Methylobacterium sp. 2A
title Genome mining approaches to unveil the full potential of the PGPR isolate Methylobacterium sp. 2A
spellingShingle Genome mining approaches to unveil the full potential of the PGPR isolate Methylobacterium sp. 2A
Grossi, Cecilia Eugenia María
Methylobacterium sp. 2A
Plant growth-promoting rhizobacteria (PGPR)
Genomic islands
Comparative genomics
title_short Genome mining approaches to unveil the full potential of the PGPR isolate Methylobacterium sp. 2A
title_full Genome mining approaches to unveil the full potential of the PGPR isolate Methylobacterium sp. 2A
title_fullStr Genome mining approaches to unveil the full potential of the PGPR isolate Methylobacterium sp. 2A
title_full_unstemmed Genome mining approaches to unveil the full potential of the PGPR isolate Methylobacterium sp. 2A
title_sort Genome mining approaches to unveil the full potential of the PGPR isolate Methylobacterium sp. 2A
dc.creator.none.fl_str_mv Grossi, Cecilia Eugenia María
Gitman, Iván Federico Berco
Serral, Federico
Ulloa, Rita Maria
author Grossi, Cecilia Eugenia María
author_facet Grossi, Cecilia Eugenia María
Gitman, Iván Federico Berco
Serral, Federico
Ulloa, Rita Maria
author_role author
author2 Gitman, Iván Federico Berco
Serral, Federico
Ulloa, Rita Maria
author2_role author
author
author
dc.subject.none.fl_str_mv Methylobacterium sp. 2A
Plant growth-promoting rhizobacteria (PGPR)
Genomic islands
Comparative genomics
topic Methylobacterium sp. 2A
Plant growth-promoting rhizobacteria (PGPR)
Genomic islands
Comparative genomics
purl_subject.fl_str_mv https://purl.org/becyt/ford/1.2
https://purl.org/becyt/ford/1
dc.description.none.fl_txt_mv Genomic analysis has become an established tool in the characterization of plant-beneficialmicrobes since it offers the opportunity to study the full arsenal of a strain. Methylobacteriumsp. 2A is a plant growth-promoting rhizobacteria (PGPR) isolated from roots of potato plantsthat has important biotechnological features such as plant growth promotion and biocontrolactivities. Its genome sequence was previously obtained and, briefly, it has 6.39 Mbcomprising 6,142 coding DNA sequences. A comparative genomic analysis was performedto explore unique features in the 2A genome and its similarity with four related members ofthe genus; a core-genome of 3,650 genes was identified, while 937 genes were exclusive ofthis isolate. In the Methylobacterium sp. 2A assembly, 28 genomic islands were detected(560,218 bp) representing 8.75% of the entire genome. Among the 482 protein-coding geneslocated in the genomic islands, 182 genes encode proteins of unassigned function and 48genes encode transposon-related proteins. Interestingly, the Methylobacterium sp. 2Agenome harbours a horizontally-transferred genomic island that codifies the nodulationprotein nolO which has high similarity to Phaselicystis flava MSr931. We also detectedgenes potentially associated with mercury, arsenic, chromate, and copper/silver resistancethat could be involved in the environmental adaptability of Methylobacterium sp. 2A.Furthermore, we integrated this list with the pan-genome data. The data presented in thiswork provides further valuable information of the Methylobacterium sp. 2A genome to unveilits full potential.
Fil: Grossi, Cecilia Eugenia María. Consejo Nacional de Investigaciones Científicas y Técnicas. Instituto de Investigaciones en Ingeniería Genética y Biología Molecular "Dr. Héctor N. Torres"; Argentina
Fil: Gitman, Iván Federico Berco. Consejo Nacional de Investigaciones Científicas y Técnicas. Instituto de Investigaciones en Ingeniería Genética y Biología Molecular "Dr. Héctor N. Torres"; Argentina
Fil: Serral, Federico. Universidad de Buenos Aires. Facultad de Ciencias Exactas y Naturales. Instituto de Calculo. - Consejo Nacional de Investigaciones Científicas y Técnicas. Oficina de Coordinación Administrativa Ciudad Universitaria. Instituto de Calculo; Argentina
Fil: Ulloa, Rita Maria. Universidad de Buenos Aires. Facultad de Ciencias Exactas y Naturales. Departamento de Química Biológica; Argentina. Consejo Nacional de Investigaciones Científicas y Técnicas. Instituto de Investigaciones en Ingeniería Genética y Biología Molecular "Dr. Héctor N. Torres"; Argentina
1st Congress of Women in Bioinformatics and Data Science Latin America
Ciudad Autónoma de Buenos Aires
Argentina
Women in Bioinformatics & Data Science LA
description Genomic analysis has become an established tool in the characterization of plant-beneficialmicrobes since it offers the opportunity to study the full arsenal of a strain. Methylobacteriumsp. 2A is a plant growth-promoting rhizobacteria (PGPR) isolated from roots of potato plantsthat has important biotechnological features such as plant growth promotion and biocontrolactivities. Its genome sequence was previously obtained and, briefly, it has 6.39 Mbcomprising 6,142 coding DNA sequences. A comparative genomic analysis was performedto explore unique features in the 2A genome and its similarity with four related members ofthe genus; a core-genome of 3,650 genes was identified, while 937 genes were exclusive ofthis isolate. In the Methylobacterium sp. 2A assembly, 28 genomic islands were detected(560,218 bp) representing 8.75% of the entire genome. Among the 482 protein-coding geneslocated in the genomic islands, 182 genes encode proteins of unassigned function and 48genes encode transposon-related proteins. Interestingly, the Methylobacterium sp. 2Agenome harbours a horizontally-transferred genomic island that codifies the nodulationprotein nolO which has high similarity to Phaselicystis flava MSr931. We also detectedgenes potentially associated with mercury, arsenic, chromate, and copper/silver resistancethat could be involved in the environmental adaptability of Methylobacterium sp. 2A.Furthermore, we integrated this list with the pan-genome data. The data presented in thiswork provides further valuable information of the Methylobacterium sp. 2A genome to unveilits full potential.
publishDate 2020
dc.date.none.fl_str_mv 2020
dc.type.none.fl_str_mv info:eu-repo/semantics/publishedVersion
info:eu-repo/semantics/conferenceObject
Congreso
Book
http://purl.org/coar/resource_type/c_5794
info:ar-repo/semantics/documentoDeConferencia
status_str publishedVersion
format conferenceObject
dc.identifier.none.fl_str_mv http://hdl.handle.net/11336/155022
Genome mining approaches to unveil the full potential of the PGPR isolate Methylobacterium sp. 2A; 1st Congress of Women in Bioinformatics and Data Science Latin America; Ciudad Autónoma de Buenos Aires; Argentina; 2020; 53-53
CONICET Digital
CONICET
url http://hdl.handle.net/11336/155022
identifier_str_mv Genome mining approaches to unveil the full potential of the PGPR isolate Methylobacterium sp. 2A; 1st Congress of Women in Bioinformatics and Data Science Latin America; Ciudad Autónoma de Buenos Aires; Argentina; 2020; 53-53
CONICET Digital
CONICET
dc.language.none.fl_str_mv eng
language eng
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https://creativecommons.org/licenses/by-nc-sa/2.5/ar/
eu_rights_str_mv openAccess
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dc.format.none.fl_str_mv application/pdf
application/pdf
application/pdf
dc.coverage.none.fl_str_mv Internacional
dc.publisher.none.fl_str_mv Women in Bioinformatics & Data Science LA
publisher.none.fl_str_mv Women in Bioinformatics & Data Science LA
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instname:Consejo Nacional de Investigaciones Científicas y Técnicas
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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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