dc.contributor.author	Redondo-Nieto, Miguel
dc.contributor.author	Barret, Matthieu
dc.contributor.author	Morrissey, John P.
dc.contributor.author	Germaine, Kieran
dc.contributor.author	Martínez-Granero, Francisco
dc.contributor.author	Barahona, Emma
dc.contributor.author	Navazo, Ana
dc.contributor.author	Sánchez-Contreras, María
dc.contributor.author	Moynihan, Jennifer A.
dc.contributor.author	Muriel, Candela
dc.contributor.author	Dowling, David
dc.contributor.author	O'Gara, Fergal
dc.contributor.author	Martín, Marta
dc.contributor.author	Rivilla, Rafael
dc.contributor.funder	Health Research Board	en
dc.contributor.funder	Irish Research Council for Science Engineering and Technology	en
dc.contributor.funder	Marine Institute	en
dc.contributor.funder	Science Foundation Ireland	en
dc.contributor.funder	Comunidad de Madrid, Spain
dc.contributor.funder	Ministerio de Educación, Cultura y Deporte, Spain
dc.contributor.funder	Department of Agriculture, Fisheries and Food, Ireland
dc.contributor.funder	European Commission
dc.contributor.funder	Environmental Protection Agency
dc.contributor.funder	Department of Education and Skills, Ireland
dc.date.accessioned	2016-02-25T17:01:28Z
dc.date.available	2016-02-25T17:01:28Z
dc.date.issued	2013-01-25
dc.description.abstract	Background: Pseudomonas fluorescens F113 is a plant growth-promoting rhizobacterium (PGPR) isolated from the sugar-beet rhizosphere. This bacterium has been extensively studied as a model strain for genetic regulation of secondary metabolite production in P. fluorescens, as a candidate biocontrol agent against phytopathogens, and as a heterologous host for expression of genes with biotechnological application. The F113 genome sequence and annotation has been recently reported. Results: Comparative analysis of 50 genome sequences of strains belonging to the P. fluorescens group has revealed the existence of five distinct subgroups. F113 belongs to subgroup I, which is mostly composed of strains classified as P. brassicacearum. The core genome of these five strains is highly conserved and represents approximately 76% of the protein-coding genes in any given genome. Despite this strong conservation, F113 also contains a large number of unique protein-coding genes that encode traits potentially involved in the rhizocompetence of this strain. These features include protein coding genes required for denitrification, diterpenoids catabolism, motility and chemotaxis, protein secretion and production of antimicrobial compounds and insect toxins. Conclusions: The genome of P. fluorescens F113 is composed of numerous protein-coding genes, not usually found together in previously sequenced genomes, which are potentially decisive during the colonisation of the rhizosphere and/or interaction with other soil organisms. This includes genes encoding proteins involved in the production of a second flagellar apparatus, the use of abietic acid as a growth substrate, the complete denitrification pathway, the possible production of a macrolide antibiotic and the assembly of multiple protein secretion systems.	en
dc.description.sponsorship	Comunidad de Madrid (MICROAMBIENTE-CM grant to Rafael Rivilla); Ministerio de Educación, Cultura y Deporte, Spain (BIO2009-08254 grant to Marta Martín); Science Foundation Ireland (SFI Grants 07IN.1/B948, 08/RFP/GEN1295, 08/RFP/GEN1319, SFI09/RFP/BMT2350 to Fergal O'Gara); Department of Agriculture, Fisheries and Food, Ireland (RSF grants 06–321 and 06–377; FIRM grants 06RDC459 06RDC506 and 08RDC629); European Commission (MTKD-CT-2006-042062; Marie Curie TOK:TRAMWAYS; EU256596; MicroB3-287589-OCEAN2012; MACUMBA-CP-TP 311975; PharmaSea-CP-TP 312184; Marie Curie MIGENOF113 to María Sánchez-Contreras and Rafael Rivilla); Irish Research Council for Science Engineering and Technology (05/EDIV/FP107/INTERPAM, EMBARK);Marine Institute (Beaufort Award C&CRA 2007/082); Environmental Protection Agency (EPA 2006-PhD-S-21, EPA 2008-PhD-S-2); Health Research Board (RP/2006/271, RP/2007/290, HRA/2009/146); Science Foundation Ireland (Tida Award); Department of Education and Skills, Ireland (TSR III Agribiotics Project)	en
dc.description.status	Peer reviewed	en
dc.description.version	Published Version	en
dc.format.mimetype	application/pdf	en
dc.identifier.articleid	54
dc.identifier.citation	REDONDO-NIETO, M., BARRET, M., MORRISSEY, J., GERMAINE, K., MARTÍNEZ-GRANERO, F., BARAHONA, E., NAVAZO, A., SÁNCHEZ-CONTRERAS, M., MOYNIHAN, J. A., MURIEL, C., DOWLING, D., O’GARA, F., MARTÍN, M. & RIVILLA, R. 2013. Genome sequence reveals that Pseudomonas fluorescens F113 possesses a large and diverse array of systems for rhizosphere function and host interaction. BMC Genomics, 14:54, 1-17.	en
dc.identifier.doi	10.1186/1471-2164-14-54
dc.identifier.endpage	17	en
dc.identifier.issn	1471-2164
dc.identifier.journaltitle	BMC Genomics	en
dc.identifier.startpage	1	en
dc.identifier.uri	https://hdl.handle.net/10468/2399
dc.identifier.volume	14	en
dc.language.iso	en	en
dc.publisher	BioMed Central Ltd.	en
dc.rights	© Redondo-Nieto et al.; licensee BioMed Central Ltd. 2013. This article is published under license to BioMed Central Ltd. This is an Open Access article distributed under the terms of the Creative Commons Attribution License (http://creativecommons.org/licenses/by/2.0), which permits unrestricted use, distribution, and reproduction in any medium, provided the original work is properly cited.	en
dc.rights.uri	http://creativecommons.org/licenses/by/2.0	en
dc.subject	VI secretion system	en
dc.subject	Competitive colonization ability	en
dc.subject	III secretion	en
dc.subject	Streptomyces rochei	en
dc.subject	Maximum likelihood	en
dc.subject	Plant growth	en
dc.subject	Evolutionary history	en
dc.subject	Azospirillum brasilense	en
dc.subject	Sinorhizobium meliloti	en
dc.title	Genome sequence reveals that Pseudomonas fluorescens F113 possesses a large and diverse array of systems for rhizosphere function and host interaction	en
dc.type	Article (peer-reviewed)	en

Genome sequence reveals that Pseudomonas fluorescens F113 possesses a large and diverse array of systems for rhizosphere function and host interaction

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