Sequencing of pT5282-CTXM, p13190-KPC and p30860-NR, and comparative genomics analysis of IncX8 plasmids

Int J Antimicrob Agents. 2018 Aug;52(2):210-217. doi: 10.1016/j.ijantimicag.2018.04.012. Epub 2018 Apr 19.

Abstract

This study proposes a replicon-based scheme for typing IncX plasmids into nine separately clustering subgroups, including IncX1α, IncX1β and IncX2-8. The complete nucleotide sequences of three IncX8 plasmids, namely pT5282-CTXM and p30860-NR from Enterobacter cloacae and p13190-KPC from Klebsiella pneumoniae, were determined and were compared with two other previously sequenced IncX8 plasmids (pCAV1043-58 and pCAV1741-16). These five plasmids possessed conserved IncX8 backbones with limited genetic variation with respect to gene content and organisation, and each of them carried one or three accessory modules that harboured resistance markers and metabolic gene clusters as well as transposons, insertion sequence (IS)-based transposition units and miniature inverted repeat transposable elements (MITEs), indicating that the relatively small IncX8 backbones were able to integrate various foreign genetic contents. The resistance genes blaCTX-M-3 and blaTEM-1 (β-lactam resistance), blaKPC-2 (carbapenem resistance) and ΔblaTEM-1, and tet(A) (tetracycline resistance) and mph(E) (macrolide resistance) were found in pT5282-CTXM, p13190-KPC and pCAV1741-16, respectively, whilst p30860-NR and pCAV1043-58 carried no resistance genes. The data presented here provide an insight into the diversification and evolution history of IncX8 plasmids.

Keywords: Drug resistance; Enterobacter cloacae; IncX8; Klebsiella pneumoniae; Plasmids.

Publication types

  • Comparative Study

MeSH terms

  • Aminoglycosides / pharmacology
  • Anti-Bacterial Agents / pharmacology*
  • Base Sequence
  • Carbapenems / pharmacology
  • Cephalosporins / pharmacology
  • DNA Transposable Elements
  • Drug Resistance, Multiple, Bacterial / genetics*
  • Enterobacter cloacae / drug effects
  • Enterobacter cloacae / genetics*
  • Enterobacter cloacae / growth & development
  • Enterobacter cloacae / isolation & purification
  • Enterobacteriaceae Infections / drug therapy
  • Enterobacteriaceae Infections / microbiology
  • Evolution, Molecular
  • Fluoroquinolones / pharmacology
  • Gene Expression
  • Genetic Variation
  • Genomics / methods
  • High-Throughput Nucleotide Sequencing
  • Humans
  • Klebsiella Infections / drug therapy
  • Klebsiella Infections / microbiology
  • Klebsiella pneumoniae / drug effects
  • Klebsiella pneumoniae / genetics*
  • Klebsiella pneumoniae / growth & development
  • Klebsiella pneumoniae / isolation & purification
  • Multigene Family
  • Penicillins / pharmacology
  • Phylogeny
  • Plasmids / chemistry*
  • Plasmids / metabolism
  • Replicon
  • beta-Lactamases / genetics*
  • beta-Lactamases / metabolism

Substances

  • Aminoglycosides
  • Anti-Bacterial Agents
  • Carbapenems
  • Cephalosporins
  • DNA Transposable Elements
  • Fluoroquinolones
  • Penicillins
  • beta-Lactamases