title: COMPARISON OF FOUR GENOTYPING METHODS FOR P.AERUGINODA: IN SILICO STUDY.
abstract: Many molecular typing methods have been employed as major tools in epidemiological investigation for identifying clonal relatedness of P.aeruginosa isolates. Having own application points and principles they have certain advantages and disadvantages. The aim of this study was the estimation of discriminatory power and concordance between four different typing methods: PFGE, MLVA, MLST and wgMLST. 58 P.aeruginosa genome were analyzed in silico to determine PFGE, MLVA, MLST and wgMLST types and their cluster/clonal complexes. These data were estimated in term of discriminatory power and concordance. All four typing approaches demonstrated high resolution power (Simpson's ID): wgMLST (1.0), PFGE (0.999), MLVA (0.997) and MLST (0.983). Concordance between PFGE, MLVA, MLST was weak/moderate and was no more 74.1%. WgMLST demonstrated high concordance between wgMLST clusters and clonal complex/groups/clusters determined by MLST (AR=0.938), PFGE (AR=0.952) and MLVA (AR=0.798) typing methods after choosing appropriate cut-off value for wgMLST. wgMLST with more than 5100 target genes showed the highest index diversity and high concordance with other typing methods.
authors.affiliation: Karaganda State Medical University, Kazakhstan.
authors.forename: D
authors.initials: D
authors.lastname: Babenko
mesh_terms: D003198:Computer Simulation; D005838:Genotype; D060005:Genotyping Techniques; D011550:Pseudomonas aeruginosa / Q000235:genetics*