Journal of Microbiology and Biotechnology
The Korean Society for Microbiology and Biotechnology publishes the Journal of Microbiology and Biotechnology.

2015 ; Vol.25-10: 1714~1727

AuthorLiliana Torcoroma Garcia, Laura Maritza Cristancho, Erika Patricia Vera, Oscar Begambre
Place of dutyProgram of Bacteriology and Clinical Laboratory, Universidad de Santander - UDES, 680003 Bucaramanga, Colombia
TitleA New Multiplex-PCR for Urinary Tract Pathogen Detection Using Primer Design Based on an Evolutionary Computation Method
PublicationInfo J. Microbiol. Biotechnol.2015 ; Vol.25-10
AbstractThis work describes a new strategy for optimal design of Multiplex-PCR primer sequences. The process is based on the Particle Swarm Optimization-Simplex algorithm (Mult-PSOS). Diverging from previous solutions centered on heuristic tools, the Mult-PSOS is selfconfigured because it does not require the definition of the algorithm’s initial search parameters. The successful performance of this method was validated in vitro using Multiplex- PCR assays. For this validation, seven gene sequences of the most prevalent bacteria implicated in urinary tract infections were taken as DNA targets. The in vitro tests confirmed the good performance of the Mult-PSOS, with respect to infectious disease diagnosis, in the rapid and efficient selection of the optimal oligonucleotide sequences for Multiplex-PCRs. The predicted sequences allowed the adequate amplification of all amplicons in a single step (with the correct amount of DNA template and primers), reducing significantly the need for trial and error experiments. In addition, owing to its independence from the initial selection of the heuristic constants, the Mult-PSOS can be employed by non-expert users in computational techniques or in primer design problems.
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Key_wordPrimer Design, Multiplex-PCR, Urinary Tract Infections, Uropathogens, Hybrid Particle Swarm Optimization



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