Genetic characterization and virulence of a carbapenem-resistant Raoultella ornithinolytica isolated from well water carrying a novel megaplasmid containing blaNDM-1

Zou, Huiyun; Berglund, Björn; Xu, Hao; Chi, Xiaohui; Zhao, Qian; Zhou, Ziyu; Xia, Huiyu; Li, Xuewen; Zheng, Beiwen

doi:10.1016/j.envpol.2020.114041

Cited by 21 publications

(13 citation statements)

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“…These species pose a risk both as emerging pathogens [45], but also as a potential reservoir for resistance determinants that can be readily transferred between species [51]. There are numerous reports of species of the Raoultella group harbouring carbapenemase genes, including those encoding OXA-48-like, VIM-, KPC-and NDM-type enzymes in healthcare, community and environmental settings [52][53][54]. Moreover, bla OXA-48 specifically has been recognized as an increasing problem in the UK [55] and a major cause of hospital outbreaks [56,57].…”

Section: Discussionmentioning

confidence: 99%

A high prevalence of bla OXA-48 in Klebsiella (Raoultella) ornithinolytica and related species in hospital wastewater in South West England

et al. 2021

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Klebsiella species occupy a wide range of environmental and animal niches, and occasionally cause opportunistic infections that are resistant to multiple antibiotics. In particular, Klebsiella pneumoniae (Kpne) has gained notoriety as a major nosocomial pathogen, due principally to the rise in non-susceptibility to carbapenems and other beta-lactam antibiotics. Whilst it has been proposed that the urban water cycle facilitates transmission of pathogens between clinical settings and the environment, the level of risk posed by resistant Klebsiella strains in hospital wastewater remains unclear. We used whole genome sequencing (WGS) to compare Klebsiella species in contemporaneous samples of wastewater from an English hospital and influent to the associated wastewater treatment plant (WWTP). As we aimed to characterize representative samples of Klebsiella communities, we did not actively select for antibiotic resistance (other than for ampicillin), nor for specific Klebsiella species. Two species, Kpne and K. ( Raoultella ) ornithinolytica (Korn), were of equal dominance in the hospital wastewater, and four other Klebsiella species were present in low abundance in this sample. In contrast, despite being the species most closely associated with healthcare settings, Kpne was the dominant species within the WWTP influent. In total, 29 % of all isolates harboured the bla OXA-48 gene on a pOXA-48-like plasmid, and these isolates were almost exclusively recovered from the hospital wastewater. This gene was far more common in Korn (68 % of isolates) than in Kpne (3.4 % of isolates). In general plasmid-borne, but not chromosomal, resistance genes were significantly enriched in the hospital wastewater sample. These data implicate hospital wastewater as an important reservoir for antibiotic-resistant Klebsiella , and point to an unsuspected role of species within the Raoultella group in the maintenance and dissemination of plasmid-borne bla OXA-48. This article contains data hosted by Microreact.

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Section: Discussionmentioning

confidence: 99%

A high prevalence of bla OXA-48 in Klebsiella (Raoultella) ornithinolytica and related species in hospital wastewater in South West England

et al. 2021

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“…Moreover, bla NDM-1 has been previously identified in a megaplasmid (ca. 350 kb) in Raoultella ornithinicola collected from water samples in rural China [ 11 ]. This plasmid (accession number CP041388) contained the bla NDM-1 in a different genetic environment in comparison to pNDM-1_UCO361 since it was bracketed by two copies of IS 91 , conforming to an unusual integron class 1 [ 11 ].…”

Section: Resultsmentioning

confidence: 99%

“…In this sense, bla NDM gene is contained in plasmids of different replicon types, where IncX3 and IncC (IncA/C2) have been identified as the most prevalent type of plasmids carrying these genes in Enterobacterales worldwide [ 5 , 8 ]. Recently, diverse megaplasmids have been associated with the dissemination of multidrug resistance in clinically relevant pathogens [ 9 , 10 , 11 , 12 ]. Megaplasmids are referred to large plasmids of more than 100-kp that are characterized by their mosaic structure containing regions from diverse origins, including metals- and/or antibiotic-resistance genes (ARGs) [ 12 , 13 ].…”

Section: Introductionmentioning

confidence: 99%

Novel Megaplasmid Driving NDM-1-Mediated Carbapenem Resistance in Klebsiella pneumoniae ST1588 in South America

et al. 2022

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Carbapenem-resistant Enterobacterales (CRE) is a critical public health problem in South America, where the prevalence of NDM metallo-betalactamases has increased substantially in recent years. In this study, we used whole genome sequencing to characterize a multidrug-resistant (MDR) Klebsiella pneumoniae (UCO-361 strain) clinical isolate from a teaching hospital in Chile. Using long-read (Nanopore) and short-read (Illumina) sequence data, we identified a novel un-typeable megaplasmid (314,976 kb, pNDM-1_UCO-361) carrying the blaNDM-1 carbapenem resistance gene within a Tn3000 transposon. Strikingly, conjugal transfer of pNDM-1_UCO-361 plasmid only occurs at low temperatures with a high frequency of 4.3 × 10−6 transconjugants/receptors at 27 °C. UCO-361 belonged to the ST1588 clone, previously identified in Latin America, and harbored aminoglycoside, extended-spectrum β-lactamases (ESBLs), carbapenem, and quinolone-resistance determinants. These findings suggest that blaNDM-1-bearing megaplasmids can be adapted to carriage by some K. pneumoniae lineages, whereas its conjugation at low temperatures could contribute to rapid dissemination at the human–environmental interface.

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“…Increasing AMR in R. ornithinolytica poses a potential threat to public health, as R. ornithinolytica has commonly been reported to be associated with multidrug resistance 5,10 . It is intrinsically resistant to aminopenicillins because of the production of chromosomally encoded β‐lactamases 11 .…”

Section: Introductionmentioning

confidence: 99%

Genomic insights into evolution of pathogenicity and resistance of multidrug‐resistant Raoultella ornithinolytica WM1

Wang

Fan

Liu

et al. 2021

Annals of the New York Academy of Sciences

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Raoultella ornithinolytica is a poorly understood opportunistic pathogen, and the underlying mechanisms of its multidrug resistance and pathogenicity have not yet been comprehensively investigated. The multidrug‐resistant (MDR) strain WM1 was isolated from the blood of a male patient in Tianjin, China, in 2018. Here, we describe the complete genome and provide a genomic analysis of R. ornithinolytica WM1. The isolate was resistant to all tested antimicrobials except amikacin, tobramycin, and tigecycline. Two plasmids, pWM1‐1 (IncHI5) and pWM1‐2 (IncR), carried multidrug‐resistance regions. A large antimicrobial resistance island region resided on pWM1‐1 and exhibited mosaic structures resulting from the acquisition of complex integrations of variable regions, including genes conferring resistance to multiple classes of antimicrobials. Moreover, WM1 possessed virulence‐related elements that encode several virulence factors, including type I fimbriae, Escherichia coli common pilus, type II and VI secretion systems, yersiniabactin, enterobactin, and surface polysaccharide, indicating pathogenic potential. Furthermore, the core genome phylogeny and pan‐genome analyses revealed extensive genetic diversity. Our analysis indicates the need for stringent infection control, antimicrobial stewardship, periodic resistance monitoring, and rational medication to address potential threats posed by MDR R. ornithinolytica strains.

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Genetic characterization and virulence of a carbapenem-resistant Raoultella ornithinolytica isolated from well water carrying a novel megaplasmid containing blaNDM-1

Cited by 21 publications

References 47 publications

A high prevalence of bla OXA-48 in Klebsiella (Raoultella) ornithinolytica and related species in hospital wastewater in South West England

A high prevalence of bla OXA-48 in Klebsiella (Raoultella) ornithinolytica and related species in hospital wastewater in South West England

Novel Megaplasmid Driving NDM-1-Mediated Carbapenem Resistance in Klebsiella pneumoniae ST1588 in South America

Genomic insights into evolution of pathogenicity and resistance of multidrug‐resistant Raoultella ornithinolytica WM1

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