Draft Genome Sequence of Pantoea agglomerans JM1, a Strain Isolated from Soil Polluted by Industrial Production of Beta-Lactam Antibiotics That Exhibits Valacyclovir-Like Hydrolase Activity

Zahradník, Jiří; Plačková, Martina; Palyzová, Andrea; Marešová, Helena; Kyslíková, Eva; Kyslı́k, Pavel

doi:10.1128/genomea.00921-17

Cited by 1 publication

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References 26 publications

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“…This was followed by P. agglomerans C410P1 (98.66%), a biocontrol agent isolated from lettuce in China (GenBank accession number CP016889), P. agglomerans Tx10 (97.44%), isolated from the sputum of cystic fibrosis patient [52], P. agglomerans JM1 (97.41%), isolated from soil polluted by beta-lactam antibiotics [53], P. agglomerans IG1 isolate (97.39%), an immunopotentiator producer [54] and P. agglomerans P5 (97.38%), a plant growth-promoting rhizobacterium [17]. Furthermore, the KM1 strain is 90.80% similar to that of Pantoea vagans C9-1, which is a biocontrol agent used against fire blight of apple and pear trees [55], and 90.92% similar to that of Pantoea vagans MP7, which was isolated from fungus-growing termites in South Africa [9].…”

Section: Phylogenetic Analysis and Comparative Genomicsmentioning

confidence: 99%

Comprehensive genomic analysis reveals virulence factors and antibiotic resistance genes inPantoea agglomeransKM1, a potential opportunistic pathogen

Guevarra

Magez

Peeters

et al. 2020

Preprint

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Pantoea agglomerans is a Gram-negative aerobic bacillus causing a wide range of opportunistic infections in humans including septicemia, pneumonia, septic arthritis, wound infections and meningitis. To date, the determinants of virulence, antibiotic resistance, metabolic features conferring survival and host-associated pathogenic potential of this bacterium remain largely underexplored. In this study, we sequenced and assembled the whole-genome of P. agglomerans KM1 isolated from kimchi in South Korea. The genome contained one circular chromosome of 4,039,945 bp, 3 mega plasmids, and 2 prophages. The phage-derived genes encoded integrase, lysozyme and terminase. Six CRISPR loci were identified within the bacterial chromosome. Further in-depth analysis showed that the genome contained 13 antibiotic resistance genes conferring resistance to clinically important antibiotics such as penicillin G, bacitracin, rifampicin, vancomycin, and fosfomycin. Genes involved in adaptations to environmental stress were also identified which included factors providing resistance to osmotic lysis, oxidative stress, as well as heat and cold shock. The genomic analysis of virulence factors led to identification of a type VI secretion system, hemolysin, filamentous hemagglutinin, and genes involved in iron uptake and sequestration. Finally, the data provided here show that, the KM1 isolate exerted strong immunostimulatory properties on RAW 264.7 macrophages in vitro. Stimulated cells produced Nitric Oxide (NO) and pro-inflammatory cytokines TNF-α, IL-6 and the anti-inflammatory cytokine IL-10. The upstream signaling for production of TNF-α, IL-6, IL-10, and NO depended on TLR4 and TLR1/2. While production of TNF-α, IL-6 and NO involved solely activation of the NF-κB, IL-10 secretion was largely dependent on NF-κB and to a lesser extent on MAPK Kinases. Taken together, the analysis of the whole-genome and immunostimulatory properties provided in-depth characterization of the P. agglomerans KM1 isolate shedding a new light on determinants of virulence that drive its interactions with the environment, other microorganisms and eukaryotic hosts.

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