Comparative genomics to examine the endophytic potential of Pantoea agglomerans DAPP-PG 734.

Pantoea / genetics Plant Diseases / microbiology Olea / genetics Endophytes / genetics Genomics
Antibiotics biosynthesis Biocontrol Genome ICE Integrative conjugative element Olive knot disease Secretion systems

Journal

BMC genomics
ISSN: 1471-2164
Titre abrégé: BMC Genomics
Pays: England
ID NLM: 100965258

Informations de publication

Date de publication:
08 Nov 2022
Historique:
received: 11 07 2022
accepted: 25 10 2022
entrez: 7 11 2022
pubmed: 8 11 2022
medline: 10 11 2022
Statut: epublish

Résumé

Pantoea agglomerans DAPP-PG 734 was isolated as endophyte from knots (tumors) caused by Pseudomonas savastanoi pv. savastanoi DAPP-PG 722 in olive trees. To understand the plant pathogen-endophyte interaction on a genomic level, the whole genome of P. agglomerans DAPP-PG 734 was sequenced and annotated. The complete genome had a total size of 5'396'424 bp, containing one circular chromosome and four large circular plasmids. The aim of this study was to identify genomic features that could play a potential role in the interaction between P. agglomerans DAPP-PG 734 and P. savastanoi pv. savastanoi DAPP-PG 722. For this purpose, a comparative genomic analysis between the genome of P. agglomerans DAPP-PG 734 and those of related Pantoea spp. was carried out. In P. agglomerans DAPP-PG 734, gene clusters for the synthesis of the Hrp-1 type III secretion system (T3SS), type VI secretion systems (T6SS) and autoinducer, which could play an important role in a plant-pathogenic community enhancing knot formation in olive trees, were identified. Additional gene clusters for the biosynthesis of two different antibiotics, namely dapdiamide E and antibiotic B025670, which were found in regions between integrative conjugative elements (ICE), were observed. The in-depth analysis of the whole genome suggested a characterization of the P. agglomerans DAPP-PG 734 isolate as endophytic bacterium with biocontrol activity rather than as a plant pathogen.

Identifiants

DOI: 10.1186/s12864-022-08966-y PMID: 36344949 PMC: PMC9641835
pubmed: 36344949
doi: 10.1186/s12864-022-08966-y
pii: 10.1186/s12864-022-08966-y
pmc: PMC9641835
doi:

Substances chimiques

1-(diethylaminopropyl)-4-phenylpiperazine 101751-95-5

Types de publication

Journal Article

Langues

eng

Sous-ensembles de citation

IM

Pagination

742

Informations de copyright

© 2022. The Author(s).

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Auteurs

Arburon Sulja (A)

Environmental Genomics and Systems Biology Research Group, Institute of Natural Resource Sciences (IUNR), Zurich University of Applied Sciences (ZHAW), Wädenswil, Switzerland.

Joël F Pothier (JF)

Environmental Genomics and Systems Biology Research Group, Institute of Natural Resource Sciences (IUNR), Zurich University of Applied Sciences (ZHAW), Wädenswil, Switzerland.

Jochen Blom (J)

Bioinformatics and Systems Biology, Justus-Liebig-University Giessen, Giessen, Germany.

Chiaraluce Moretti (C)

Dipartimento Di Scienze Agrarie, Alimentari E Ambientali, Università Degli Studi Di Perugia, Perugia, Italy.

Roberto Buonaurio (R)

Dipartimento Di Scienze Agrarie, Alimentari E Ambientali, Università Degli Studi Di Perugia, Perugia, Italy.

Fabio Rezzonico (F)

Environmental Genomics and Systems Biology Research Group, Institute of Natural Resource Sciences (IUNR), Zurich University of Applied Sciences (ZHAW), Wädenswil, Switzerland.

Theo H M Smits (THM)

Environmental Genomics and Systems Biology Research Group, Institute of Natural Resource Sciences (IUNR), Zurich University of Applied Sciences (ZHAW), Wädenswil, Switzerland. theo.smits@zhaw.ch.

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Classifications MeSH

questionsmedicales.fr › Bactéries › Proteobacteria › Gammaproteobacteria › Enterobacteriaceae › Pantoea › Comparative genomics to examine the endophytic...
questionsmedicales.fr › Phénomènes physiologiques des plantes › Maladies des plantes › Comparative genomics to examine the endophytic...
questionsmedicales.fr › Eucaryotes › Viridiplantae › Streptophyta › Embryophyta › Tracheobionta › Magnoliopsida › Lamiales › Oleaceae › Olea › Comparative genomics to examine the endophytic...
questionsmedicales.fr › Stades d'organismes › Endophytes › Comparative genomics to examine the endophytic...
questionsmedicales.fr › Disciplines des sciences naturelles › Disciplines des sciences biologiques › Biologie › Génétique › Génomique › Comparative genomics to examine the endophytic...