Characterization of a Novel Carbapenem-Resistant Klebsiella michiganensis Strain Coharboring the blaSIM-1, blaOXA-1, blaCTX-M-14, qnrS, and aac(6′)-Ib-cr Genes

Xu, Jianfen; Ding, Hui; Zhao, Yunan; Chen, Jiaoli; Zhao, Zhigang; Huang, Jiansheng; Wu, Rongzhen

doi:10.1007/s00284-022-02920-7

Cited by 3 publications

(1 citation statement)

References 26 publications

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“…Carbapenemase production is the common carbapenemase resistance mechanism in clinical infections, such as Acinetobacter baumannii ( Oinuma et al, 2021 ), K. pneumoniae ( Pitout et al, 2015 ) and Pseudomonas aeruginosa ( Nordmann et al, 2011 ; Doi and Paterson, 2015 ; Iovleva and Doi, 2017 ). The main carbapenemase genes carried by K. michiganensis include bla KPC-2 , bla VIM-1 ( Campos-Madueno et al, 2021 ), bla NDM-1 ( Li et al, 2021 )， bla NDM-5 ( Zheng et al, 2018 ), bla KPC-3 ( Seiffert et al, 2019 ), bla IMP-4 ( Li et al, 2021 ; Zhang et al, 2021 ), bla OXA-181 ( Founou et al, 2018 )， bla SIM-1 , bla OXA-1 , bla CTX-M-14 ( Xu et al, 2022 ), etc.…”

Section: Introductionmentioning

confidence: 99%

A clinical KPC-producing Klebsiella michiganensis strain carrying IncFII/IncFIA (HI1)/IncFIB (K) multiple replicon plasmid

Zhang

Liu²,

Qi³

et al. 2023

Front. Microbiol.

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Klebsiella michiganensis is an increasingly important bacterial pathogen causing nosocomial infections in clinical patients. In this study, we described the molecular and genomic characteristics of a carbapenem-resistant K. michiganensis strain KM166 cultured from a one-month premature baby’s blood sample. KM166 showed lower biofilm forming ability in optical density (OD) than K. pneumoniae NTUH-K2044 (0.271 ± 0.027 vs. 0.595 ± 0.054, p = 0.001), and the median lethal dose (0.684 lg CFU/mL) was lower than K. pneumoniae strain NTUH-K2044 (6.679 lg CFU/mL). A IncFII/IncFIA(HI1)/IncFIB(K) multiple replicon plasmid in KM166 was identified carrying three replicon types. It has low homology to Escherichia coli pMRY09-581ECO_1 and the highest homology similarity to the INcFIA/INcFII(p14)-type plasmid in K. michiganensis strain fxq plasmid pB_KPC, suggesting that this multiple replicon plasmid was unlikely to have been transmitted from E. coli and probably a transfer of repFIB replicon genes from other K. michiganensis strains into the INcFIA/INcFII(p14)-type plasmid of KM166 had occurred. Mapping of the gene environment revealed that blaKPC-2 in KM166 plasmid 3 had high identity and same Tn3-tnpR-IS481-blaKPC-2-klcA_1 genomic context structure with K. pneumoniae strain JKP55, plasmid pKPC-J5501, and blaKPC-2-carrying plasmid proved to be autonomously transferred under the help of mobile genetic elements into Escherichia coli 600 by plasmid conjugation experiment. In conclusion, we have characterized a K. michiganensis strain carrying multi-replicon IncFII/IncFIA(HI1)/IncFIB(K) plasmid and blaKPC-2-carrying IncFII(p14)/IncFIA plasmid in this study, which provided insights about the evolutionary diversity of plasmids carried by K. michiganensis.

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Section: Introductionmentioning

confidence: 99%

A clinical KPC-producing Klebsiella michiganensis strain carrying IncFII/IncFIA (HI1)/IncFIB (K) multiple replicon plasmid

Zhang

Liu²,

Qi³

et al. 2023

Front. Microbiol.

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Genomic and functional analysis of high-level tigecycline resistant Klebsiella michiganensis co-carrying tet(X4) and tmexCD2-toprJ2 from pork

et al. 2023

International Journal of Food Microbiology

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Genomically-supported Redefinition of an Outbreak in a Pediatric Unit Caused by bla VIM-harboring Klebsiella michiganensis

López-Camacho,

Aguilera-Alonso,

Buenestado-Serrano

et al. 2024

Pediatric Infectious Disease Journal

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Background: Klebsiella michiganensis, a member of the Klebsiella oxytoca complex, is an emerging nosocomial pathogen known to frequently carry plasmids with antibiotic-resistance genes, including carbapenemases. Using genomics, this study redefined an outbreak alert of K. michiganensis carrying a blaVIM carbapenemase in a pediatric ward in a Spanish hospital. Methods: A total of 31 isolates of Verona integron-encoded metallo-β-lactamase (VIM)-carbapenemase K. oxytoca from suspected outbreak cases and unrelated controls from 2015 to 2022 were analyzed. Whole-genome sequencing (both short and long reads) was applied to determine phylogenetic relationships based on single-nucleotide polymorphisms (SNPs) and identify plasmids and antimicrobial resistance genes. Results: Twelve K. michiganensis-VIM cases identified in 2021 showed pairwise SNP distances ranging from 0 to 16 SNPs, confirming the outbreak. Examination of isolates before and after the study period revealed 7 additional cases, 2 in 2020 and 5 in 2022. The outbreak comprised 18 isolates from 17 patients in 3 different pediatric wards, together with 1 environmental sample. In all outbreak isolates, the bla VIM-1 gene was located within a gene cassette carried by a class 1 integron on an IncFIB(pQil) plasmid. A genomic network based on SNPs revealed 5 unsampled intermediate nodes, suggesting additional subclones that may have involved healthcare staff, patient relatives or environmental reservoirs. Blood and rectal isolates obtained from the same patient were positioned on separate branches of the network, making a direct evolutionary pathway between them unlikely. Conclusions: Our study redefined the full extent of this K. michiganensis-VIM outbreak and highlights the critical importance of genomic analysis in accurately understanding outbreaks in healthcare settings.

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Characterization of a Novel Carbapenem-Resistant Klebsiella michiganensis Strain Coharboring the blaSIM-1, blaOXA-1, blaCTX-M-14, qnrS, and aac(6′)-Ib-cr Genes

Cited by 3 publications

References 26 publications

A clinical KPC-producing Klebsiella michiganensis strain carrying IncFII/IncFIA (HI1)/IncFIB (K) multiple replicon plasmid

A clinical KPC-producing Klebsiella michiganensis strain carrying IncFII/IncFIA (HI1)/IncFIB (K) multiple replicon plasmid

Genomic and functional analysis of high-level tigecycline resistant Klebsiella michiganensis co-carrying tet(X4) and tmexCD2-toprJ2 from pork

Genomically-supported Redefinition of an Outbreak in a Pediatric Unit Caused by bla VIM-harboring Klebsiella michiganensis

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