Comparison of pulsed-field gel electrophoresis and three rep-PCR methods for evaluating the genetic relatedness of Stenotrophomonas maltophilia isolates

Lett Appl Microbiol. 2008 Nov;47(5):393-8. doi: 10.1111/j.1472-765X.2008.02443.x.


Aims: In this study, three facile repetitive-sequence PCR (rep-PCR) techniques have been compared with the pulsed-field gel electrophoresis (PFGE) method for differentiating the genetic relatedness of clinical Stenotrophomonas maltophilia isolates.

Methods and results: The dendrograms of 20 S. maltophilia isolates were constructed based on the data obtained from PFGE and three PCR-based methods, i.e. enterobacterial repetitive intergenic consensus-PCR (ERIC-PCR), BOX-PCR and repetitive extragenic palindromic-PCR (REP-PCR). When compared with PFGE, ERIC-PCR displayed a much lower discriminatory power, whereas BOX-PCR and REP-PCR had a comparable discriminatory power for close genetic-related isolates.

Conclusion: BOX-PCR and REP-PCR can be convenient and effective methods for evaluating the close genetic relatedness of clinical S. maltophilia isolates.

Significance and impact of the study: A rapid method for determining S. maltophilia's close genetic relatedness provides a convenient tool for understanding the epidemiology of S. maltophilia.

Publication types

  • Comparative Study
  • Research Support, Non-U.S. Gov't

MeSH terms

  • Bacterial Typing Techniques*
  • Cluster Analysis
  • DNA Fingerprinting*
  • DNA, Bacterial / genetics*
  • Electrophoresis, Gel, Pulsed-Field*
  • Genotype
  • Gram-Negative Bacterial Infections / microbiology
  • Humans
  • Polymerase Chain Reaction*
  • Repetitive Sequences, Nucleic Acid
  • Stenotrophomonas maltophilia / classification*
  • Stenotrophomonas maltophilia / genetics*
  • Stenotrophomonas maltophilia / isolation & purification


  • DNA, Bacterial