Novel small IncX3 plasmid carrying the blaKPC-2 gene in high-risk Klebsiella pneumoniae ST11/CG258

Fuga, Bruna; Ferreira, Melina Lorraine; Cerdeira, Louise; Campos, Paola Amaral de; Dias, Vinícius Lopes; Rossi, Iara; Machado, Luiz Gustavo; Lincopán, Nilton; Gontijo-Filho, Paulo Pinto; Ribas, Rosineide Marques

doi:10.1016/j.diagmicrobio.2019.114900

Cited by 11 publications

(6 citation statements)

References 15 publications

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“…Unfortunately, bla KPC– 2 has also been identified in environmental samples [urban rivers ( Xu et al, 2015 ), drinking water ( Mahmoud et al, 2020 ), and vegetables ( Wang et al, 2018 )], indicating its presence in the environment. In addition, bla KPC– 2 was further disseminated through plasmids of different sizes and replicon types ( Mathers et al, 2017 ), such as the pKpQIL-like plasmid ( Chen et al, 2014b ), the IncFIA plasmid ( Chen et al, 2014a ), the IncI2 plasmid ( Chen et al, 2013 ), the IncX3 plasmid ( Fuga et al, 2020 ), the IncP-6 plasmid ( Hu et al, 2019 ) and the IncN plasmid ( Schweizer et al, 2019 ). The movement of bla KPC plasmids into E. coli strains that are known pathogens of urinary tract and intra-abdominal infections raises clinical concerns ( Bratu et al, 2007 ).…”

Section: Introductionmentioning

confidence: 99%

Complete Genome Sequences of Two Novel KPC-2-Producing IncU Multidrug-Resistant Plasmids From International High-Risk Clones of Escherichia coli in China

Lu²,

Fan

et al. 2021

Front. Microbiol.

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The rapidly increasing prevalence of Klebsiella pneumoniae carbapenemase 2 (KPC-2)-producing bacteria has become a serious challenge to public health. Currently, the blaKPC–2 gene is mainly disseminated through plasmids of different sizes and replicon types. However, the plasmids carrying the blaKPC–2 gene have not been fully characterized. In this study, we report the complete genome sequences of two novel blaKPC–2-harboring incompatibility group U (IncU) plasmids, pEC2341-KPC and pEC2547-KPC, from international high-risk clones of Escherichia coli isolated from Zhejiang, China. Two KPC-2-producing E. coli isolates (EC2341 and EC2547) were collected from clinical samples. Whole-genome sequencing (WGS) analysis indicated that EC2341 and EC2547 belonged to the ST410 and ST131 clones, respectively. S1-nuclease pulsed-field gel electrophoresis (S1-PFGE), Southern blot and conjugation experiments confirmed the presence of the blaKPC–2 gene on the pEC2341-KPC plasmid and that this was a conjugative plasmid, while the blaKPC–2 gene on the pEC2547-KPC plasmid was a non-conjugative plasmid. In addition, plasmid analysis further revealed that the two blaKPC–2-harboring plasmids have a close evolutionary relationship. To the best of our knowledge, this is the first report of E. coli strains carrying the blaKPC–2 gene on IncU plasmids. The emergence of the IncU-type blaKPC–2-positive plasmid highlights further dissemination of blaKPC–2 in Enterobacteriaceae. Therefore, effective measures should be taken immediately to prevent the spread of these blaKPC–2–positive plasmids.

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Section: Introductionmentioning

confidence: 99%

Complete Genome Sequences of Two Novel KPC-2-Producing IncU Multidrug-Resistant Plasmids From International High-Risk Clones of Escherichia coli in China

Lu²,

Fan

et al. 2021

Front. Microbiol.

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“…Additionally, pKP98M3N42 shares 100-99.9% sequence identity with IncX3 plasmids of these seven strains that have been previously related to play an important function in mediating horizontal transmission of bla KPC-2 genes among hospital-associated members of the Enterobacteriaceae family (39, 40). Moreover, IncX3 plasmids carrying bla KPC-2 genes were also reported in countries very distant geographically, such as United States (41), Brazil (42, 43), Australia (44), Italy (45), France (46), South Korea (47, 48), China (49), Israel and Greece (39), to cite some. Interestingly, although IncX3 self-transmissible plasmids are widespread globally, the evident diversification of plasmids in the first separated branch of the tree ( Fig.…”

Section: Resultsmentioning

confidence: 99%

Combining functional and structural genomics to track antibiotic resistance genes in mobile elements in clinical bacterial strains

Aft

et al. 2020

Preprint

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The rise of multi-antibiotics resistant bacteria represents an emergent threat to human health. Here, we investigate antibiotic resistance mechanisms in bacteria of several species isolated from an intensive care unit in Brazil. We used whole-genome analysis to identify antibiotic resistance genes (ARGs) and plasmids in 35 strains of Gram-negative and Gram-positive bacteria, including the first genomic description of Morganella morganii and Ralstonia mannitolilytica clinical isolates from South America. We identify a high abundance of beta-lactamase genes in highly resistant organisms, including seven extended-spectrum β-lactamases shared between organisms from different species. Additionally, we identify several ARGs-carrying plasmids indicating the potential for fast transmission of resistance mechanism between bacterial strains, comprising a novel IncFII plasmid recently introduced in Brazil from Asia. Through comparative genomic analysis, we demonstrate that some pathogens identified here are very distantly related to other bacteria isolated worldwide, demonstrating the potential existence of endemic bacterial pathogens in Brazil. Also, we uncovered at least two couples of (near)-identical plasmids exhibiting multi-drug resistance, suggesting that plasmids were transmitted between bacteria of the same or different species in the hospital studied. Finally, since many highly resistant strains carry several different ARGs, we used functional genomics to investigate which of them were indeed functional. In this sense, for three bacterial strains (Escherichia coli, Klebsiella pneumoniae, and M. morganii), we identify six beta-lactamase genes out of 15 predicted in silico as the main responsible for the resistance mechanisms observed, corroborating the existence of redundant resistance mechanisms in these organisms.

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“…Carbapenemase-producing clones are mostly associated with CC258, including STs 11, 101, 258, 340, 437, 512, 874, and 1264. ST11 and ST340/CC258 are globally distributed and have been detected harboring carbapenemases regardless of their type, and in Brazil, they are mostly associated with KPC-producing strains in almost all Brazilian regions [ 7 , 13 , 14 , 17 , 52 , 53 , 54 , 55 ]. ST1264 has emerged (and probably highly restricted) in China, causing bloodstream infection, and recently associated with ESBL-producing isolates [ 56 , 57 ].…”

Section: Discussionmentioning

confidence: 99%

The Spread of NDM-1 and NDM-7-Producing Klebsiella pneumoniae Is Driven by Multiclonal Expansion of High-Risk Clones in Healthcare Institutions in the State of Pará, Brazilian Amazon Region

et al. 2021

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Carbapenem resistance among Klebsiella pneumoniae isolates is often related to carbapenemase genes, located in genetic transmissible elements, particularly the blaKPC gene, which variants are spread in several countries. Recently, reports of K. pneumoniae isolates harboring the blaNDM gene have increased dramatically along with the dissemination of epidemic high-risk clones (HRCs). In the present study, we report the multiclonal spread of New Delhi metallo-beta-lactamase (NDM)-producing K. pneumoniae in different healthcare institutions in the state of Pará, Northern Brazil. A total of 23 NDM-producing isolates were tested regarding antimicrobial susceptibility testing features, screening of carbapenemase genes, and genotyping by multilocus sequencing typing (MLST). All K. pneumoniae isolates were determined as multidrug-resistant (MDR), being mainly resistant to carbapenems, cephalosporins, and fluoroquinolones. The blaNDM-7 (60.9%—14/23) and blaNDM-1 (34.8%—8/23) variants were detected. MLST genotyping revealed the predomination of HRCs, including ST11/CC258, ST340/CC258, ST15/CC15, ST392/CC147, among others. To conclude, the present study reveals the contribution of HRCs and non-HRCs in the spread of NDM-1 and NDM-7-producing K. pneumoniae isolates in Northern (Amazon region) Brazil, along with the first detection of NDM-7 variant in Latin America and Brazil, highlighting the need for surveillance and control of strains that may negatively impact healthcare and antimicrobial resistance.

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Novel small IncX3 plasmid carrying the blaKPC-2 gene in high-risk Klebsiella pneumoniae ST11/CG258

Cited by 11 publications

References 15 publications

Complete Genome Sequences of Two Novel KPC-2-Producing IncU Multidrug-Resistant Plasmids From International High-Risk Clones of Escherichia coli in China

Complete Genome Sequences of Two Novel KPC-2-Producing IncU Multidrug-Resistant Plasmids From International High-Risk Clones of Escherichia coli in China

Combining functional and structural genomics to track antibiotic resistance genes in mobile elements in clinical bacterial strains

The Spread of NDM-1 and NDM-7-Producing Klebsiella pneumoniae Is Driven by Multiclonal Expansion of High-Risk Clones in Healthcare Institutions in the State of Pará, Brazilian Amazon Region

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