Draft Genome Sequence of NDM-5-Producing Escherichia coli Sequence Type 648 and Genetic Context of
 bla
 NDM-5
 in Australia

Wailan, Alexander M.; Paterson, David L.; Caffery, Michael; Sowden, David; Sidjabat, Hanna E.

doi:10.1128/genomea.00194-15

Cited by 49 publications

(43 citation statements)

References 8 publications

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“…In K. pneumoniae plasmid pJEG027 (20), an IS5 family transposase truncates the ISAba125 and IS26 is found 2.189 kb downstream from the bla NDM-4 gene. A similar genetic structure is present in GenBank deposits KP826705 (unpublished) and KP178355 (21), containing, respectively, the bla NDM-7 and bla NDM-5 genes.…”

mentioning

confidence: 78%

Characterization of Tn 3000 , a Transposon Responsible for bla _NDM-1 Dissemination among Enterobacteriaceae in Brazil, Nepal, Morocco, and India

Campos

Silva

Santos³

et al. 2015

Antimicrob Agents Chemother

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kIn Enterobacteriaceae, the bla NDM genes have been found in many different genetic contexts, and a wide diversity of plasmid scaffolds bearing those genes has been found. In August 2013, we identified NDM-1-producing Escherichia coli and Enterobacter hormaechei strains from a single rectal swab sample from a patient hospitalized in Rio de Janeiro, Brazil, who had no history of travel abroad. Complete DNA sequencing using the Illumina platform and annotation of the two plasmids harboring the bla NDM-1 gene, one from each strain, showed that they belonged to incompatibility groups IncFII K and IncX3 and harbored a novel transposon named Tn3000. Similar genetic structures have been identified among other isolates in Brazil but also on plasmids from other continents. Our findings suggest that the bla NDM-1 gene may be transmitted by Tn3000 in different parts of the world.

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mentioning

confidence: 78%

Characterization of Tn 3000 , a Transposon Responsible for bla _NDM-1 Dissemination among Enterobacteriaceae in Brazil, Nepal, Morocco, and India

Campos

Silva

Santos³

et al. 2015

Antimicrob Agents Chemother

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“…To date, several studies showed that bla NDM-5 was carried by IncX3 plasmids in China, 46,47 India, 48 Denmark 49 and Australia. 50 The fact that IncX-type plasmids have been shown to be conjugatable in most studies could explain the rapid spread of bla NDM-5 -carrying isolates. Therefore, it is imperative that feasible and effective measures are taken immediately.…”

Section: Discussionmentioning

confidence: 99%

Molecular Mechanisms and Epidemiology of Carbapenem-Resistant Escherichia coli Isolated from Chinese Patients During 2002–2017

Tian¹,

Zheng²,

Sun³

et al. 2020

IDR

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Background: The emergence and spread of carbapenem-resistant Escherichia coli (E. coli) pose a serious threat to human health worldwide. This study aimed to investigate the molecular mechanisms underlying carbapenem resistance and their prevalence among E. coli in China. Methods: A collection of 5796 E. coli clinical isolates were collected from the First Affiliated Hospital of Wenzhou Medical University from 2002 to 2017. Sensitivity to antibiotics was determined using the agar dilution method. The detection of carbapenemases production and the prevalence of resistance-associated genes were investigated through modified carbapenem inactivation method (mCIM), PCR and sequencing. The mutations in outer membrane porins genes (ompC and ompF) were also analyzed by PCR and sequencing assays. The effect of efflux pump mechanism on carbapenem resistance was also tested. E. coli were typed by pulsed-field gel electrophoresis (PFGE) and multilocus sequence typing (MLST). Results: A total of 58 strains (1.0%) of carbapenem-resistant E. coli were identified. The strains carrying bla KPC-2 and bla NDM accounted for 22.4% (13/58) and 51.7% (30/58), respectively. Among bla NDM -positive strains, 27 bla NDM genes were assigned to bla NDM-5 , while the remaining three strains were bla NDM-1 , whereas bla VIM , bla IMP , bla OXA-48 , and bla SHV were not found. The CTX-M-type β-lactamase genes accounted for 96.6% (56/58). In addition, bla TEM-1 genes were identified in 58.6% of tested strains. In carbapenem-resistant isolates, mutations in OmpC (the majority of mutated sites were D192G and Q104_F141del, accounting for 54.5%) and OmpF (large deletions S75_V127del, W83_D135del and Q88_D135del) were detected. Of note, the antibiotic resistance was not associated with overexpression of efflux pump. Moreover, MLST categorized the 58 carbapenem-resistant isolates into 19 different sequence types. PFGE analysis revealed that homology among the carbapenem-resistant isolates was low and sporadic. Conclusion: The bla NDM was the principal resistance mechanism of carbapenem-resistant E. coli in the hospital. bla NDM-5 is becoming a new threat to public health and the alteration of outer membrane porins might help further increase the MIC of carbapenem.

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“…Their association with β-lactamases, such as the bla NDM , has described in K. pneumoniae, E. coli, and Providencia stuartii isolates from countries as diverse as India, Canada, Kenya, New Zealand, Australia, and the United States. [35][36][37] Although the contig bearing the A/C 2 replicase gene did not harbor the class 1 integrase and associated gene cassettes, we would not be surprised if further genomic sequencing proves this to be the case.…”

Section: Genomic Locationmentioning

confidence: 93%

Genomic analysis of a multidrug‐resistant clinical Providencia rettgeri (PR002) strain with the novel integron ln1483 and an A/C plasmid replicon

Mbelle

Sekyere

Amoako

et al. 2019

Annals of the New York Academy of Sciences

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Whole‐genome sequence analysis was performed on a multidrug‐resistant Providencia rettgeri PR002 clinical strain isolated from the urine of a hospitalized patient in Pretoria, South Africa, in 2013. The resistome, mobilome, pathogenicity island(s), as well as virulence and heavy‐metal resistance genes of the isolate, were characterized using whole‐genome sequencing and bioinformatic analysis. PR002 had a genome assembly size of 4,832,624 bp with a GC content of 40.7%, an A/C2 plasmid replicase gene, four integrons/gene cassettes, 17 resistance genes, and several virulence and heavy metal resistance genes, confirming PR002 as a human pathogen. A novel integron, In1483, harboring the gene blaOXA‐2, was identified, with other uncharacterized class 1 integrons harboring aacA4cr and dfrA1. Aac(3′)‐IIa and blaSCO‐1, as well as blaPER‐7, sul2, and tet(B), were found bracketed by composite Tn3 transposons, and IS91, IS91, and IS4 family insertion sequences, respectively. PR002 was resistant to all antibiotics tested except amikacin, carbapenems, cefotaxime‐clavulanate, ceftazidime‐clavulanate, cefoxitin, and fosfomycin. PR002 was closely related to PR1 (USA), PRET_2032 (SPAIN), DSM_1131, and NCTC7477 clinical P. rettgeri strains, but not close enough to suggest it was imported into South Africa from other countries. Multidrug resistance in P. rettgeri is rare, particularly in clinical settings, making this case an important incident requiring urgent attention. This is also the first report of an A/C plasmid in P. rettgeri. The array, multiplicity, and diversity of resistance and virulence genes in this strain are concerning, necessitating stringent infection control, antibiotic stewardship, and periodic resistance surveillance/monitoring policies to preempt further horizontal and vertical spread of these resistance genes.

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Draft Genome Sequence of NDM-5-Producing Escherichia coli Sequence Type 648 and Genetic Context of bla _NDM-5 in Australia

Cited by 49 publications

References 8 publications

Characterization of Tn 3000 , a Transposon Responsible for bla _NDM-1 Dissemination among Enterobacteriaceae in Brazil, Nepal, Morocco, and India

Characterization of Tn 3000 , a Transposon Responsible for bla _NDM-1 Dissemination among Enterobacteriaceae in Brazil, Nepal, Morocco, and India

<p>Molecular Mechanisms and Epidemiology of Carbapenem-Resistant <em>Escherichia coli</em> Isolated from Chinese Patients During 2002–2017</p>

Genomic analysis of a multidrug‐resistant clinical Providencia rettgeri (PR002) strain with the novel integron ln1483 and an A/C plasmid replicon

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Draft Genome Sequence of NDM-5-Producing Escherichia coli Sequence Type 648 and Genetic Context of bla NDM-5 in Australia

Cited by 49 publications

References 8 publications

Characterization of Tn 3000 , a Transposon Responsible for bla NDM-1 Dissemination among Enterobacteriaceae in Brazil, Nepal, Morocco, and India

Characterization of Tn 3000 , a Transposon Responsible for bla NDM-1 Dissemination among Enterobacteriaceae in Brazil, Nepal, Morocco, and India

<p>Molecular Mechanisms and Epidemiology of Carbapenem-Resistant <em>Escherichia coli</em> Isolated from Chinese Patients During 2002–2017</p>

Genomic analysis of a multidrug‐resistant clinical Providencia rettgeri (PR002) strain with the novel integron ln1483 and an A/C plasmid replicon

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Resources

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Draft Genome Sequence of NDM-5-Producing Escherichia coli Sequence Type 648 and Genetic Context of bla _NDM-5 in Australia

Characterization of Tn 3000 , a Transposon Responsible for bla _NDM-1 Dissemination among Enterobacteriaceae in Brazil, Nepal, Morocco, and India

Characterization of Tn 3000 , a Transposon Responsible for bla _NDM-1 Dissemination among Enterobacteriaceae in Brazil, Nepal, Morocco, and India