1. Discrimination of hospital isolates of Acinetobacter baumannii using repeated sequences and whole genome alignment differential analysis
- Author
-
Grzegorz Węgrzyn, Alicja Nowak-Zaleska, and Roman Kotłowski
- Subjects
0301 basic medicine ,Acinetobacter baumannii ,DNA polymerase ,030106 microbiology ,Single-nucleotide polymorphism ,Microbial Genetics • Original Paper ,Genetic polymorphisms ,Genome ,03 medical and health sciences ,chemistry.chemical_compound ,Antibiotics ,Drug Resistance, Multiple, Bacterial ,Genotype ,Genetics ,CRISPR ,Humans ,Assembled matrix data ,Gene ,biology ,Whole Genome Sequencing ,DNA polymerase III gene DNA polymerase III subunit gamma/tau ,General Medicine ,biology.organism_classification ,Hospitals ,Anti-Bacterial Agents ,030104 developmental biology ,Hospital infections ,chemistry ,biology.protein ,DNA ,Acinetobacter Infections - Abstract
An optimized method for bacterial strain differentiation, based on combination of Repeated Sequences and Whole Genome Alignment Differential Analysis (RS&WGADA), is presented in this report. In this analysis, 51 Acinetobacter baumannii multidrug-resistance strains from one hospital environment and patients from 14 hospital wards were classified on the basis of polymorphisms of repeated sequences located in CRISPR region, variation in the gene encoding the EmrA-homologue of E. coli, and antibiotic resistance patterns, in combination with three newly identified polymorphic regions in the genomes of A. baumannii clinical isolates. Differential analysis of two similarity matrices between different genotypes and resistance patterns allowed to distinguish three significant correlations (p A. baumannii isolates in different wards of the hospital in the time frame of several years, indicating that the optimized method may be useful in hospital epidemiological studies, particularly in identification of the source of primary infections.
- Published
- 2021