Comparative analysis of Ralstonia solanacearum methylomes

Ralstonia solanacearum is an important soil-borne plant pathogen with broad geographical distribution and the ability to cause wilt disease in many agriculturally important crops. Genome sequencing of multiple R. solanacearum strains has identified both unique and shared genetic traits influencing t...

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Autores: Erill, I., Puigvert Sànchez, Marina, Legrand, L., Guarischi-Sousa, R., Vandecasteele, C., Setubal, Joao C., Genin, S., Guidot, Alice, Valls i Matheu, Marc
Tipo de recurso: artículo
Estado:Versión publicada
Fecha de publicación:2017
País:España
Institución:Universidad de Barcelona
Repositorio:Dipòsit Digital de la UB
OAI Identifier:oai:diposit.ub.edu:2445/119386
Acceso en línea:https://hdl.handle.net/2445/119386
Access Level:acceso abierto
Palabra clave:Bacteris fitopatògens
Phytopatogenic bacteria
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spelling Comparative analysis of Ralstonia solanacearum methylomesErill, I.Puigvert Sànchez, MarinaLegrand, L.Guarischi-Sousa, R.Vandecasteele, C.Setubal, Joao C.Genin, S.Guidot, AliceValls i Matheu, MarcBacteris fitopatògensPhytopatogenic bacteriaRalstonia solanacearum is an important soil-borne plant pathogen with broad geographical distribution and the ability to cause wilt disease in many agriculturally important crops. Genome sequencing of multiple R. solanacearum strains has identified both unique and shared genetic traits influencing their evolution and ability to colonize plant hosts. Previous research has shown that DNA methylation can drive speciation and modulate virulence in bacteria, but the impact of epigenetic modifications on the diversification and pathogenesis of R. solanacearum is unknown. Sequencing of R. solanacearum strains GMI1000 and UY031 using Single Molecule Real-Time technology allowed us to perform a comparative analysis of R. solanacearum methylomes. Our analysis identified a novel methylation motif associated with a DNA methylase that is conserved in all complete Ralstonia spp. genomes and across the Burkholderiaceae, as well as a methylation motif associated to a phage-borne methylase unique to R. solanacearum UY031. Comparative analysis of the conserved methylation motif revealed that it is most prevalent in gene promoter regions, where it displays a high degree of conservation detectable through phylogenetic footprinting. Analysis of hyper- and hypo-methylated loci identified several genes involved in global and virulence regulatory functions whose expression may be modulated by DNA methylation. Analysis of genome-wide modification patterns identified a significant correlation between DNA modification and transposase genes in R. solanacearum UY031, driven by the presence of a high copy number of ISrso3 insertion sequences in this genome and pointing to a novel mechanism for regulation of transposition. These results set a firm foundation for experimental investigations into the role of DNA methylation in R. solanacearum evolution and its adaptation to different plants.Frontiers Media2017info:eu-repo/semantics/articleinfo:eu-repo/semantics/publishedVersionapplication/pdfhttps://hdl.handle.net/2445/119386Articles publicats en revistes (Genètica, Microbiologia i Estadística)reponame:Dipòsit Digital de la UBinstname:Universidad de BarcelonaInglésReproducció del document publicat a: https://doi.org/10.3389/fpls.2017.00504Frontiers in Plant Science, 2017, vol. 8, p. 504https://doi.org/10.3389/fpls.2017.00504cc-by (c) Erill, I. et al., 2017http://creativecommons.org/licenses/by/3.0/esinfo:eu-repo/semantics/openAccessoai:diposit.ub.edu:2445/1193862026-05-27T06:46:51Z
dc.title.none.fl_str_mv Comparative analysis of Ralstonia solanacearum methylomes
title Comparative analysis of Ralstonia solanacearum methylomes
spellingShingle Comparative analysis of Ralstonia solanacearum methylomes
Erill, I.
Bacteris fitopatògens
Phytopatogenic bacteria
title_short Comparative analysis of Ralstonia solanacearum methylomes
title_full Comparative analysis of Ralstonia solanacearum methylomes
title_fullStr Comparative analysis of Ralstonia solanacearum methylomes
title_full_unstemmed Comparative analysis of Ralstonia solanacearum methylomes
title_sort Comparative analysis of Ralstonia solanacearum methylomes
dc.creator.none.fl_str_mv Erill, I.
Puigvert Sànchez, Marina
Legrand, L.
Guarischi-Sousa, R.
Vandecasteele, C.
Setubal, Joao C.
Genin, S.
Guidot, Alice
Valls i Matheu, Marc
author Erill, I.
author_facet Erill, I.
Puigvert Sànchez, Marina
Legrand, L.
Guarischi-Sousa, R.
Vandecasteele, C.
Setubal, Joao C.
Genin, S.
Guidot, Alice
Valls i Matheu, Marc
author_role author
author2 Puigvert Sànchez, Marina
Legrand, L.
Guarischi-Sousa, R.
Vandecasteele, C.
Setubal, Joao C.
Genin, S.
Guidot, Alice
Valls i Matheu, Marc
author2_role author
author
author
author
author
author
author
author
dc.subject.none.fl_str_mv Bacteris fitopatògens
Phytopatogenic bacteria
topic Bacteris fitopatògens
Phytopatogenic bacteria
description Ralstonia solanacearum is an important soil-borne plant pathogen with broad geographical distribution and the ability to cause wilt disease in many agriculturally important crops. Genome sequencing of multiple R. solanacearum strains has identified both unique and shared genetic traits influencing their evolution and ability to colonize plant hosts. Previous research has shown that DNA methylation can drive speciation and modulate virulence in bacteria, but the impact of epigenetic modifications on the diversification and pathogenesis of R. solanacearum is unknown. Sequencing of R. solanacearum strains GMI1000 and UY031 using Single Molecule Real-Time technology allowed us to perform a comparative analysis of R. solanacearum methylomes. Our analysis identified a novel methylation motif associated with a DNA methylase that is conserved in all complete Ralstonia spp. genomes and across the Burkholderiaceae, as well as a methylation motif associated to a phage-borne methylase unique to R. solanacearum UY031. Comparative analysis of the conserved methylation motif revealed that it is most prevalent in gene promoter regions, where it displays a high degree of conservation detectable through phylogenetic footprinting. Analysis of hyper- and hypo-methylated loci identified several genes involved in global and virulence regulatory functions whose expression may be modulated by DNA methylation. Analysis of genome-wide modification patterns identified a significant correlation between DNA modification and transposase genes in R. solanacearum UY031, driven by the presence of a high copy number of ISrso3 insertion sequences in this genome and pointing to a novel mechanism for regulation of transposition. These results set a firm foundation for experimental investigations into the role of DNA methylation in R. solanacearum evolution and its adaptation to different plants.
publishDate 2017
dc.date.none.fl_str_mv 2017
dc.type.none.fl_str_mv info:eu-repo/semantics/article
info:eu-repo/semantics/publishedVersion
format article
status_str publishedVersion
dc.identifier.none.fl_str_mv https://hdl.handle.net/2445/119386
url https://hdl.handle.net/2445/119386
dc.language.none.fl_str_mv Inglés
language_invalid_str_mv Inglés
dc.relation.none.fl_str_mv Reproducció del document publicat a: https://doi.org/10.3389/fpls.2017.00504
Frontiers in Plant Science, 2017, vol. 8, p. 504
https://doi.org/10.3389/fpls.2017.00504
dc.rights.none.fl_str_mv cc-by (c) Erill, I. et al., 2017
http://creativecommons.org/licenses/by/3.0/es
info:eu-repo/semantics/openAccess
rights_invalid_str_mv cc-by (c) Erill, I. et al., 2017
http://creativecommons.org/licenses/by/3.0/es
eu_rights_str_mv openAccess
dc.format.none.fl_str_mv application/pdf
dc.publisher.none.fl_str_mv Frontiers Media
publisher.none.fl_str_mv Frontiers Media
dc.source.none.fl_str_mv Articles publicats en revistes (Genètica, Microbiologia i Estadística)
reponame:Dipòsit Digital de la UB
instname:Universidad de Barcelona
instname_str Universidad de Barcelona
reponame_str Dipòsit Digital de la UB
collection Dipòsit Digital de la UB
repository.name.fl_str_mv
repository.mail.fl_str_mv
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