Comparative genomics of bacterial and plant folate synthesis and salvage: predictions and validations

Hdl Handle:
http://hdl.handle.net/11285/613679
Title:
Comparative genomics of bacterial and plant folate synthesis and salvage: predictions and validations
Authors:
de Crécy Lagard, Valérie; El Yacoubi, Basma; de la Garza, Rocío D; Noiriel, Alexandre; Hanson, Andrew D
Issue Date:
23/07/2007
Publisher:
Open Access Publisher
Discipline:
Ciencias de la Salud / Health Sciences
Abstract:
Abstract Background Folate synthesis and salvage pathways are relatively well known from classical biochemistry and genetics but they have not been subjected to comparative genomic analysis. The availability of genome sequences from hundreds of diverse bacteria, and from Arabidopsis thaliana, enabled such an analysis using the SEED database and its tools. This study reports the results of the analysis and integrates them with new and existing experimental data. Results Based on sequence similarity and the clustering, fusion, and phylogenetic distribution of genes, several functional predictions emerged from this analysis. For bacteria, these included the existence of novel GTP cyclohydrolase I and folylpolyglutamate synthase gene families, and of a trifunctional p-aminobenzoate synthesis gene. For plants and bacteria, the predictions comprised the identities of a 'missing' folate synthesis gene (folQ) and of a folate transporter, and the absence from plants of a folate salvage enzyme. Genetic and biochemical tests bore out these predictions. Conclusion For bacteria, these results demonstrate that much can be learnt from comparative genomics, even for well-explored primary metabolic pathways. For plants, the findings particularly illustrate the potential for rapid functional assignment of unknown genes that have prokaryotic homologs, by analyzing which genes are associated with the latter. More generally, our data indicate how combined genomic analysis of both plants and prokaryotes can be more powerful than isolated examination of either group alone.
Additional Links:
http://bmcgenomics.biomedcentral.com/articles/10.1186/1471-2164-8-245
Type:
Artículo / Article
Appears in Collections:
Artículos de Revistas

Full metadata record

DC FieldValue Language
dc.contributor.authorde Crécy Lagard, Valérieen
dc.contributor.authorEl Yacoubi, Basmaen
dc.contributor.authorde la Garza, Rocío Den
dc.contributor.authorNoiriel, Alexandreen
dc.contributor.authorHanson, Andrew Den
dc.date.accessioned2016-06-20T03:23:30Z-
dc.date.available2016-06-20T03:23:30Z-
dc.date.issued23/07/2007-
dc.identifier.otherBMC Genomics. 2007 Jul 23;8(1):245-
dc.identifier.urihttp://dx.doi.org/10.1186/1471-2164-8-245-
dc.identifier.urihttp://hdl.handle.net/11285/613679-
dc.description.abstractAbstract Background Folate synthesis and salvage pathways are relatively well known from classical biochemistry and genetics but they have not been subjected to comparative genomic analysis. The availability of genome sequences from hundreds of diverse bacteria, and from Arabidopsis thaliana, enabled such an analysis using the SEED database and its tools. This study reports the results of the analysis and integrates them with new and existing experimental data. Results Based on sequence similarity and the clustering, fusion, and phylogenetic distribution of genes, several functional predictions emerged from this analysis. For bacteria, these included the existence of novel GTP cyclohydrolase I and folylpolyglutamate synthase gene families, and of a trifunctional p-aminobenzoate synthesis gene. For plants and bacteria, the predictions comprised the identities of a 'missing' folate synthesis gene (folQ) and of a folate transporter, and the absence from plants of a folate salvage enzyme. Genetic and biochemical tests bore out these predictions. Conclusion For bacteria, these results demonstrate that much can be learnt from comparative genomics, even for well-explored primary metabolic pathways. For plants, the findings particularly illustrate the potential for rapid functional assignment of unknown genes that have prokaryotic homologs, by analyzing which genes are associated with the latter. More generally, our data indicate how combined genomic analysis of both plants and prokaryotes can be more powerful than isolated examination of either group alone.en
dc.language.isoenen
dc.publisherOpen Access Publisheren
dc.relation.urlhttp://bmcgenomics.biomedcentral.com/articles/10.1186/1471-2164-8-245en
dc.rightsOpen Access-
dc.rights.urihttp://creativecommons.org/licenses/by-nc-nd/4.0/*
dc.titleComparative genomics of bacterial and plant folate synthesis and salvage: predictions and validationsen
dc.typeArtículo / Articleen
dc.contributor.departmentTecnologico de Monterreyen
dc.rights.holderde Crécy-Lagard et al; licensee BioMed Central Ltd.-
dc.date.updated2016-06-01T12:18:30Z-
dc.subject.disciplineCiencias de la Salud / Health Sciences-
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