Analysis of Whole-Genome Sequences of Pathogenic Gram-Positive and Gram-Negative Isolates from the Same Hospital Environment to Investigate Common Evolutionary Trends Associated with Horizontal Gene Exchange, Mutations and DNA Methylation Patterning
Korotetskiy I.S. Shilov S.V. Kuznetsova T. Kerimzhanova B. Korotetskaya N. Ivanova L. Zubenko N. Parenova R. Reva O.N.
February 2023MDPI
Microorganisms
2023#11Issue 2
Hospital-acquired infections are a generally recognized problem for healthcare professionals. Clinical variants of Gram-negative and Gram-positive pathogens are characterized with enhanced antibiotic resistance and virulence due to mutations and the horizontal acquisition of respective genetic determinants. In this study, two Escherichia coli, two Klebsiella pneumoniae, three Pseudomonas aeruginosa, two Staphylococcus aureus, one Staphylococcus epidermidis and one Streptococcus pneumoniae showing broad spectra of antibiotic resistance were isolated from patients suffering from nosocomial infections in a local hospital in Almaty, Kazakhstan. The aim of the study was to compare general and species-specific pathways of the development of virulence and antibiotic resistance through opportunistic pathogens causing hospital-acquired infections. The whole-genome PacBio sequencing of the isolates allowed for the genotyping and identification of antibiotic resistance and virulence genetic determinants located in the chromosomes, plasmids and genomic islands. It was concluded that long-read sequencing is a useful tool for monitoring the epidemiological situation in hospitals. Marker antibiotic resistance mutations common for different microorganisms were identified, which were acquired due to antibiotic-selective pressure in the same clinical environment. The genotyping and identification of strain-specific DNA methylation motifs were found to be promising in estimating the risks associated with hospital infection outbreaks and monitoring the distribution and evolution of nosocomial pathogens.
bacterial pathogen , genotyping , hospital infection , methylomics , MLST , PacBio sequencing , virulence factor
Text of the article Перейти на текст статьи
Scientific Center for Anti-Infectious Drugs, Almaty, 050060, Kazakhstan
Centre for Bioinformatics and Computational Biology, Department of Biochemistry, Genetics, and Microbiology, University of Pretoria, Pretoria, 0002, South Africa
Scientific Center for Anti-Infectious Drugs
Centre for Bioinformatics and Computational Biology
10 лет помогаем публиковать статьи Международный издатель
Книга Публикация научной статьи Волощук 2026 Book Publication of a scientific article 2026