Molecular Analysis of
 bla
 KPC-2
 -Harboring Plasmids: Tn
 4401a
 Interplasmid Transposition and Tn
 4401a
 -Carrying ColRNAI Plasmid Mobilization from Klebsiella pneumoniae to Citrobacter europaeus and Morganella morganii in a Single Patient

Sugita, Kayoko; Aoki, Kotaro; Komori, Kohji; Nagasawa, Tatsuya; Ishii, Yoshikazu; Iwata, Satoshi; Tateda, Kazuhiro

doi:10.1128/msphere.00850-21

“…Resistance genes for cotrimoxazole (sul or dfrA) were found in all isolates except one. The Inc-type plasmids detected in all isolates and the Col-type plasmids detected in 15 isolates have been reported in other studies [21,59].…”

Section: Discussionsupporting

confidence: 85%

Genetic Characterization of Carbapenem-Resistant Klebsiella pneumoniae Clinical Isolates in a Tertiary Hospital in Greece, 2018–2022

Zarras

¹

,

Κarampatakis

²

,

Pappa

³

et al. 2023

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Background: Carbapenem-resistant Klebsiella pneumoniae (CRKP) is a serious public health issue. The study aimed to identify the antimicrobial resistance and accessory genes, the clonal relatedness, and the evolutionary dynamics of selected CRKP isolates recovered in an adult and pediatric intensive care unit of a tertiary hospital in Greece. Methods: Twenty-four CRKP isolates recovered during 2018–2022 were included in the study. Next-generation sequencing was performed using the Ion Torrent PGM Platform. The identification of the plasmid content, MLST, and antimicrobial resistance genes, as well as the comparison of multiple genome alignments and the identification of core genome single-nucleotide polymorphism sites, were performed using various bioinformatics software. Results: The isolates belonged to eight sequence types: 11, 15, 30, 35, 39, 307, 323, and 512. A variety of carbapenemases (KPC, VIM, NDM, and OXA-48) and resistance genes were detected. CRKP strains shared visually common genomic regions with the reference strain (NTUH-K2044). ST15, ST323, ST39, and ST11 CRKP isolates presented on average 17, 6, 16, and 866 recombined SNPs, respectively. All isolates belonging to ST15, ST323, and ST39 were classified into distinct phylogenetic branches, while ST11 isolates were assigned to a two-subclade branch. For large CRKP sets, the phylogeny seems to change approximately every seven SNPs. Conclusions: The current study provides insight into the genetic characterization of CRKP isolates in the ICUs of a tertiary hospital. Our results indicate clonal dispersion of ST15, ST323, and ST39 and highly diverged ST11 isolates.

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“…These plasmids contained a wide range of transposable elements that enabled them to undergo frequent genetic transposition ( 24 ). Kayoko Sugita elaborated on the interplasmid transposition of bla KPC-2 -containing Tn4401a from an IncN+R plasmid to a ColRNAI plasmid in Klebsiella pneumoniae ( 25 ). In this study, while the detection rate of the carbapenemase genes in M. morganii was relatively low, we found that most of these genes were harbored within plasmids.…”

Section: Discussionmentioning

confidence: 99%

Tracing the possible evolutionary trends of Morganella morganii : insights from molecular epidemiology and phylogenetic analysis

Chen,

Wu,

Zhang

et al. 2024

mSystems

2

0

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Morganella morganii , encompassing two subspecies, subsp. morganii and subsp. sibonii , is a common opportunistic pathogen, notable for intrinsic resistance to multiple antimicrobial agents. Despite its clinical significance, research into the potential evolutionary dynamics of M. morganii remains limited. This study involved the analysis of genome sequences from 431 M . morganii isolates, comprising 206 isolates that cause host infections, obtained from this study and 225 from the NCBI genome data sets. A diverse array of antimicrobial resistance genes (ARGs) was identified in M. morganii isolates, including mcr-1 , tet (X4), tmexCD-toprJ , and various carbapenemase genes. In addition, a novel bla KPC-2 -bearing plasmid with demonstrated conjugative capability was discovered in M. morganii . The majority of virulence-related genes (VRGs), except for the hlyCABD gene cluster, were found in almost all M. morganii . Three novel genospecies of M. morganii were identified, designated as M. chanii , M. variant1 , and M. variant2 . Compared to M. sibonii , M. chanii genospecies possessed a greater number of flagellar-related genes, typically located within mobile genetic elements (MGEs), suggesting potential for better environmental adaptability. Phylogenetic analysis further disclosed that M. morganii was divided into 12 sequence clusters (SCs). Particularly, SC9 harbored an elevated abundance of ARGs and VRGs, mainly toxin-related genes, and was associated with a higher presence of MGEs compared to non-SC9 strains. The collective findings suggest that M. morganii undergoes evolution driven by the influence of MGEs, thereby significantly enhancing its adaptability to selective pressures of environmental changes and clinical antimicrobial agents. IMPORTANCE The growing clinical significance of Morganella morganii arises from its abundant virulence factors and antimicrobial resistance genes, resulting in elevated infection rates and increased clinical scrutiny. However, research on the molecular epidemiology and evolutionary trends of M. morganii has been scarce. Our study established a list of virulence-related genes (VRGs) for M. morganii and conducted a large-scale epidemiological investigation into these VRGs. Based on genomic classification, three novel genotypes of M. morganii were identified, representing evolutionary adaptations and responses to environmental challenges. Furthermore, we discovered the emergence of a sequence cluster enriched with antimicrobial resistance genes, VRGs, and mobile genetic elements, attributed to the selective pressure of antimicrobial agents. In addition, we identified a novel conjugative plasmid harboring the bla KPC-2 gene. These findings hold significance in monitoring and comprehending the epidemiology of M. morganii .

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“…These plasmids can be important vectors for transferring antimicrobial resistance genes between isolates, including the transfer of bla KPC -type carbapenemases ( 19 , 31 , 62 ). Experimentally, ColRNAI plasmids encoding bla KPC and Tn 4401 could mobilize between strains and participate in Tn 4401 transposition events within a patient ( 63 ). About half the plasmids we sequenced in this primary cluster do not encode a relaxase but they could be mobilized by the relaxase of a co-resident plasmid if the oriT sequence has enough similarity as shown in a previous study ( 64 ).…”

Section: Discussionmentioning

confidence: 99%

Plasmid genomic epidemiology of bla _KPC carbapenemase-producing Enterobacterales in Canada, 2010–2021

Lerminiaux,

Mitchell,

Bartoszko

et al. 2023

Antimicrob Agents Chemother

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Carbapenems are considered last-resort antibiotics for the treatment of infections caused by multidrug-resistant Enterobacterales , but carbapenem resistance due to acquisition of carbapenemase genes is a growing threat that has been reported worldwide. Klebsiella pneumoniae carbapenemase ( bla KPC ) is the most common type of carbapenemase in Canada and elsewhere; it can hydrolyze penicillins, cephalosporins, aztreonam, and carbapenems and is frequently found on mobile plasmids in the Tn 4401 transposon. This means that alongside clonal expansion, bla KPC can disseminate through plasmid- and transposon-mediated horizontal gene transfer. We applied whole genome sequencing to characterize the molecular epidemiology of 829 bla KPC carbapenemase-producing isolates collected by the Canadian Nosocomial Infection Surveillance Program from 2010 to 2021. Using a combination of short-read and long-read sequencing, we obtained 202 complete and circular bla KPC -encoding plasmids. Using MOB-suite, 10 major plasmid clusters were identified from this data set which represented 87% (175/202) of the Canadian bla KPC -encoding plasmids. We further estimated the genomic location of incomplete bla KPC -encoding contigs and predicted a plasmid cluster for 95% (603/635) of these. We identified different patterns of carbapenemase mobilization across Canada related to different plasmid clusters, including clonal transmission of IncF-type plasmids (108/829, 13%) in K. pneumoniae clonal complex 258 and novel repE(pEh60-7) plasmids (44/829, 5%) in Enterobacter hormaechei ST316, and horizontal transmission of IncL/M (142/829, 17%) and IncN-type plasmids (149/829, 18%) across multiple genera. Our findings highlight the diversity of bla KPC genomic loci and indicate that multiple, distinct plasmid clusters have contributed to bla KPC spread and persistence in Canada.

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Molecular Analysis of bla _KPC-2 -Harboring Plasmids: Tn 4401a Interplasmid Transposition and Tn 4401a -Carrying ColRNAI Plasmid Mobilization from Klebsiella pneumoniae to Citrobacter europaeus and Morganella morganii in a Single Patient

Cited by 9 publications

References 47 publications

Genetic Characterization of Carbapenem-Resistant Klebsiella pneumoniae Clinical Isolates in a Tertiary Hospital in Greece, 2018–2022

Genetic Characterization of Carbapenem-Resistant Klebsiella pneumoniae Clinical Isolates in a Tertiary Hospital in Greece, 2018–2022

Tracing the possible evolutionary trends of Morganella morganii : insights from molecular epidemiology and phylogenetic analysis

Plasmid genomic epidemiology of bla _KPC carbapenemase-producing Enterobacterales in Canada, 2010–2021

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Molecular Analysis of bla KPC-2 -Harboring Plasmids: Tn 4401a Interplasmid Transposition and Tn 4401a -Carrying ColRNAI Plasmid Mobilization from Klebsiella pneumoniae to Citrobacter europaeus and Morganella morganii in a Single Patient

Cited by 9 publications

References 47 publications

Genetic Characterization of Carbapenem-Resistant Klebsiella pneumoniae Clinical Isolates in a Tertiary Hospital in Greece, 2018–2022

Genetic Characterization of Carbapenem-Resistant Klebsiella pneumoniae Clinical Isolates in a Tertiary Hospital in Greece, 2018–2022

Tracing the possible evolutionary trends of Morganella morganii : insights from molecular epidemiology and phylogenetic analysis

Plasmid genomic epidemiology of bla KPC carbapenemase-producing Enterobacterales in Canada, 2010–2021

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Product

Resources

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Molecular Analysis of bla _KPC-2 -Harboring Plasmids: Tn 4401a Interplasmid Transposition and Tn 4401a -Carrying ColRNAI Plasmid Mobilization from Klebsiella pneumoniae to Citrobacter europaeus and Morganella morganii in a Single Patient

Plasmid genomic epidemiology of bla _KPC carbapenemase-producing Enterobacterales in Canada, 2010–2021