Emergence of blaNDM-1, blaNDM-5, blaKPC-2 and blaIMP-4 carrying plasmids in Raoultella spp. in the environment

Zou, Huiyun; Berglund, Björn; Wang, Shuang; Zhou, Ziyu; Gu, Congcong; Zhao, Ling; Chen, Meng; Li, Xuewen

doi:10.1016/j.envpol.2022.119437

Cited by 15 publications

(10 citation statements)

References 55 publications

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“…Nevertheless, the global detection of carbapenemase and ESBL-co-producing R. planticola strains highlights the need for heightened attention. 7 , 8 , 12 Besides the ESBLs, the presence of additional resistance genes in R. planticola strain RP_3045 enabled it to endure the onslaught of antimicrobials used to treat infections. Fortunately, colistin was still efficacious in vitro and could serve as an effective anti-infective option.…”

Section: Resultsmentioning

confidence: 99%

“… 6 Raoultella were previously regarded as environmental organisms that were mostly found in water and soil. 7 , 8 However, in recent years, they have emerged as virulent pathogens causing human and animal infections worldwide, with R. planticola being the most common species. 9 , 10 Carbapenems are highly effective against R. planticola , but reduced susceptibility has been observed due to the acquisition of carbapenemase genes, such as bla KPC-2 , bla OXA-48 , and bla NDM-1 .…”

Section: Introductionmentioning

confidence: 99%

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Genomic Characterization of a Carbapenem-Resistant Raoultella planticola Strain Co-Harboring blaIMP-4 and blaSHV-12 Genes

Zhu,

Zhuang,

et al. 2024

IDR

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Raoultella planticola is an emerging bacterial pathogen responsible for causing infections in both humans and animals. Unfortunately, sporadic reports of carbapenem-resistant R. planticola (CRRP) have been documented worldwide. Here we first reported the complete genome sequence of a CRRP isolate RP_3045 co-carrying bla IMP-4 and bla SHV-12 , recovered from a patient in China, and its genetic relatedness to 82 R. planticola strains deposited in the NCBI GenBank database, sourced from humans, animals, and the environment. Whole-genome sequencing was performed using the Illumina NovaSeq 6000 and Oxford Nanopore MinION platforms. Phylogenetic analysis was also performed and visualized using a single nucleotide polymorphism (SNP)-based strategy. The complete genome of R. planticola strain RP_3045 was determined to be 6,312,961 bp in length, comprising five contigs that included one chromosome and four plasmids. RP_3045 was found to be multidrug-resistant and harbored several antimicrobial resistance genes, including both bla IMP-4 and bla SHV-12 genes located on a single plasmid. The most closely related strain was hkcpe63, recovered from humans in Hong Kong, China, in 2014, with 506 SNP differences. R. planticola strains were distributed globally and exhibited strong associations among isolates obtained from different sectors. This study provides evidence for the potential of R. planticola to disseminate carbapenem resistance across different sectors, highlighting the critical need for active and continuous surveillance of CRRP.

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Section: Resultsmentioning

confidence: 99%

Section: Introductionmentioning

confidence: 99%

Genomic Characterization of a Carbapenem-Resistant Raoultella planticola Strain Co-Harboring blaIMP-4 and blaSHV-12 Genes

Zhu,

Zhuang,

et al. 2024

IDR

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“…Hence, this gene can be included in qPCR panels for surveillance to monitor its epidemiological dynamics. Furthermore, clinically relevant resistance genes detected in wastewater are likely of exogenous origin, possibly derived from human antibiotic usage [ 76 ]. Thus, the usage reduction of aminoglycosides would help to control the potential spread of rmtE4 -carrying bacteria, informing human and animal clinicians about other antibiotics that will be most effective at population-specific scales [ 74 ].…”

Section: Resultsmentioning

confidence: 99%

“…Thus, the usage reduction of aminoglycosides would help to control the potential spread of rmtE4 -carrying bacteria, informing human and animal clinicians about other antibiotics that will be most effective at population-specific scales [ 74 ]. This control measure is especially relevant, since this gene is encoded in a conjugative plasmid, which increases the risk of transfer to pathogenic bacteria and emphasizes the need for further monitoring in order to prevent further spread of this gene in the environment [ 76 ]. The early detection of a resistant bacteria in wastewater could indicate towards potential dissemination within the community, allowing valuable time for appropriate preparation and response to be put into place.…”

Section: Resultsmentioning

confidence: 99%

Global scenario of the RmtE pan-aminoglycoside-resistance mechanism: emergence of the rmtE4 gene in South America associated with a hospital-related IncL plasmid

Delgado-Blas

Ovejero

David³

et al. 2023

Microbial Genomics

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Antimicrobial resistance (AMR) mechanisms, especially those conferring resistance to critically important antibiotics, are a great concern for public health. 16S rRNA methyltransferases (16S-RMTases) abolish the effectiveness of most clinically used aminoglycosides, but some of them are considered sporadic, such as RmtE. The main goals of this work were the genomic analysis of bacteria producing 16S-RMTases from a ‘One Health’ perspective in Venezuela, and the study of the epidemiological and evolutionary scenario of RmtE variants and their related mobile genetic elements (MGEs) worldwide. A total of 21 samples were collected in 2014 from different animal and environmental sources in the Cumaná region (Venezuela). Highly aminoglycoside-resistant Enterobacteriaceae isolates were selected, identified and screened for 16S-RMTase genes. Illumina and Nanopore whole-genome sequencing data were combined to obtain hybrid assemblies and analyse their sequence type, resistome, plasmidome and pan-genome. Genomic collections of rmtE variants and their associated MGEs were generated to perform epidemiological and phylogenetic analyses. A single 16S-RMTase, the novel RmtE4, was identified in five Klebsiella isolates from wastewater samples of Cumaná. This variant possessed three amino acid modifications with respect to RmtE1–3 (Asn152Asp, Val216Ile and Lys267Ile), representing the most genetic distant among all known and novel variants described in this work, and the second most prevalent. rmtE variants were globally spread, and their geographical distribution was determined by the associated MGEs and the carrying bacterial species. Thus, rmtE4 was found to be confined to Klebsiella isolates from South America, where it was closely related to ISVsa3 and an uncommon IncL plasmid related with hospital environments. This work uncovered the global scenario of RmtE and the existence of RmtE4, which could potentially emerge from South America. Surveillance and control measures should be developed based on these findings in order to prevent the dissemination of this AMR mechanism and preserve public health worldwide.

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“…The downstream elements of the bla NDM-5 gene ( bleMBL, trpF and dsbD ) often appeared in various plasmids, and a large number of drug resistance genes were found to coexist upstream and downstream of NDM-5. 44 , 45 The drug resistance genes included dfrA12, aadA2, qacEΔ1 and sul . The ISCR1 element was first reported by the Australian scholar Stokes.…”

Section: Discussionmentioning

confidence: 99%

The First Report of Escherichia coli and Klebsiella pneumoniae Strains That Produce Both NDM-5 and OXA-181 in Jiangsu Province, China

Tao¹,

Tan²,

Chen³

2023

IDR

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Objective The aim of this study was to analyze the genetic characteristics of three Enterobacteriaceae strains (one strain of Escherichia coli and two strains of Klebsiella pneumoniae ) that produce both the NDM-5 and OXA-181 carbapenemases in pediatric patients. Methods Carbapenem-resistant Enterobacteriaceae (CRE) strains were collected from the Children’s Hospital Affiliated to Nanjing Medical University in 2022. Resistance genes were detected by PCR. CRE strains that produced both the bla NDM-5 and bla OXA-181 genes were further characterized by antimicrobial susceptibility testing, multilocus sequence typing (MLST), plasmid conjugation assay, S1 nuclease-PFGE, Southern blotting and whole-genome sequencing. Results Three Enterobacteriaceae strains carrying both the bla NDM-5 and bla OXA-181 resistance genes were screened. MLST results showed that the strain of Escherichia coli carrying both bla NDM-5 and bla OXA-181 was ST410; the two strains of Klebsiella pneumoniae with both bla NDM-5 and bla OXA-181 were ST2601 and ST759. Conjugation assays showed that the plasmids harboring the bla NDM-5 and bla OXA-181 genes were self-transmissible. S1-PFGE and Southern blotting showed that the bla NDM-5 and bla OXA-181 genes were located on the plasmid with the size of about 60kb~. The genotyping results showed that the plasmid types were ColKP3 and IncX3. Conclusion This is the first report of Enterobacteriaceae strains that produce both NDM-5 and OXA-181 isolated from pediatric patients in China. Active infection control measures are urgently needed to prevent the spread of bacteria in children.

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Emergence of blaNDM-1, blaNDM-5, blaKPC-2 and blaIMP-4 carrying plasmids in Raoultella spp. in the environment

Cited by 15 publications

References 55 publications

Genomic Characterization of a Carbapenem-Resistant Raoultella planticola Strain Co-Harboring blaIMP-4 and blaSHV-12 Genes

Genomic Characterization of a Carbapenem-Resistant Raoultella planticola Strain Co-Harboring blaIMP-4 and blaSHV-12 Genes

Global scenario of the RmtE pan-aminoglycoside-resistance mechanism: emergence of the rmtE4 gene in South America associated with a hospital-related IncL plasmid

The First Report of Escherichia coli and Klebsiella pneumoniae Strains That Produce Both NDM-5 and OXA-181 in Jiangsu Province, China

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