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

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

BMC Genomics

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

Published: November 2022

AI Article Synopsis

  • Pantoea agglomerans DAPP-PG 734 was identified as an endophyte in olive trees affected by the pathogen Pseudomonas savastanoi, prompting a genomic study to explore their interaction.
  • The complete genome of P. agglomerans, totaling 5,396,424 bp, features a circular chromosome, four plasmids, and unique gene clusters related to various secretion systems and antibiotics, indicating a complex role in plant health.
  • The findings suggest that P. agglomerans functions more as a beneficial endophytic bacterium with potential biocontrol capabilities rather than acting solely as a pathogen.

Article Abstract

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.

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Source
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC9641835PMC
http://dx.doi.org/10.1186/s12864-022-08966-yDOI Listing

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