Genomic analysis of VIM-2-producing Enterobacter hormaechei subsp. steigerwaltii

Int J Antimicrob Agents. 2021 Mar;57(3):106285. doi: 10.1016/j.ijantimicag.2021.106285. Epub 2021 Jan 22.

Abstract

Carbapenemase-producing Enterobacterales (CPE) is a major public-health concern. Here we describe the occurrence of blaVIM-2 in three isolates of Enterobacter hormaechei subsp. steigerwaltii. The blaVIM-2 gene was part of a class II transposon Tn1332 and was embedded in a remnant of a class 1 integron. Tn1332 was carried by a large, conjugative, non-typeable plasmid. The three isolates belonged to sequence type 90 (ST90). Two isolates (90H2 and 90H3) were highly related [<10 single nucleotide polymorphisms (SNPs)], whereas isolate 104D2 exhibited more than 50 SNPs and Tn1332 was inserted in a different place in the plasmid. Another IncHI-type plasmid carrying the extended-spectrum β-lactamase (ESBL) gene blaCTX-M-15 was identified in 90H2 and 90H3. Among the three isolates, isolate 104D2 was negative for detection of carbapenemase activity using the biochemical Carba NP test, despite the presence of Tn1332 on the same plasmid. Mutants of 104D2 with higher minimum inhibitory concentrations (MICs) for carbapenems were obtained and one mutant (m104D2) was analysed. In contrast to 104D2, mutant m104D2 gave a positive Carba NP test. The mutant possessed two copies of Tn1332 per cell and a nonsense mutation in WecA, an enzyme involved in enterobacterial common antigen and peptidoglycan intermediate biosynthesis. This study describes the first occurrence of Tn1332 in Enterobacterales and the phenotypic diversity of VIM-2-producing E. hormaechei.

Keywords: CPE; Carbapenemase; Carbapenemase-producing Enterobacterales; Metallo-β-lactamase; Tn1332.

MeSH terms

  • Anti-Bacterial Agents / pharmacology*
  • Bacterial Proteins / genetics
  • Bacterial Proteins / metabolism
  • Carbapenems / pharmacology
  • DNA Transposable Elements*
  • DNA, Bacterial / genetics
  • Drug Resistance, Bacterial
  • Enterobacter / drug effects*
  • Enterobacter / genetics*
  • Enterobacteriaceae Infections / epidemiology
  • Enterobacteriaceae Infections / microbiology*
  • France / epidemiology
  • Humans
  • Integrons
  • Microbial Sensitivity Tests
  • Mutation
  • Phenotype
  • Phylogeny
  • Plasmids / genetics
  • Polymorphism, Single Nucleotide
  • beta-Lactamases / genetics*

Substances

  • Anti-Bacterial Agents
  • Bacterial Proteins
  • Carbapenems
  • DNA Transposable Elements
  • DNA, Bacterial
  • beta-lactamase bla(vim-2)
  • beta-Lactamases

Supplementary concepts

  • Enterobacter hormaechei subsp. steigerwaltii