Muhammad Yasir1, Muhammad Farman2, Muhammad W Shah2, Asif A Jiman-Fatani3, Norah A Othman4, Saad B Almasaudi2, Maha Alawi5, Shazi Shakil6, Nabeela Al-Abdullah7, Nashat A Ismaeel8, Esam I Azhar9. 1. Special Infectious Agents Unit, King Fahd Medical Research Center, King Abdulaziz University, Jeddah, Saudi Arabia; Department of Medical Laboratory Technology, Faculty of Applied Medical Sciences, King Abdulaziz University, Jeddah, Saudi Arabia. Electronic address: yasirkhattak.mrl@gmail.com. 2. Biology Department, Faculty of Science, King Abdulaziz University, Jeddah, Saudi Arabia. 3. Department of Medical Microbiology and Parasitology, Faculty of Medicine, King Abdulaziz University, Jeddah, Saudi Arabia; Clinical and Molecular Microbiology Laboratories, King Abdulaziz University Hospital, Jeddah, Saudi Arabia. 4. Special Infectious Agents Unit, King Fahd Medical Research Center, King Abdulaziz University, Jeddah, Saudi Arabia. 5. Department of Medical Microbiology and Parasitology, Faculty of Medicine, King Abdulaziz University, Jeddah, Saudi Arabia; Infection Control & Environmental Health Unit, King Abdulaziz University Hospital, King Abdulaziz University, Jeddah, Saudi Arabia. 6. Department of Medical Laboratory Technology, Faculty of Applied Medical Sciences, King Abdulaziz University, Jeddah, Saudi Arabia. 7. Infection Control & Environmental Health Unit, King Abdulaziz University Hospital, King Abdulaziz University, Jeddah, Saudi Arabia. 8. Department of Medical Microbiology and Parasitology, Faculty of Medicine, King Abdulaziz University, Jeddah, Saudi Arabia. 9. Special Infectious Agents Unit, King Fahd Medical Research Center, King Abdulaziz University, Jeddah, Saudi Arabia; Department of Medical Laboratory Technology, Faculty of Applied Medical Sciences, King Abdulaziz University, Jeddah, Saudi Arabia.
Abstract
BACKGROUND: Whole genome sequencing has revolutionized epidemiological investigations of multidrug-resistant pathogenic bacteria worldwide. Aim of this study was to perform comprehensive characterization of ESBL-positive isolates of Escherichia coli obtained from clinical samples at the King Abdulaziz University Hospital utilizing whole genome sequencing. METHODS: Isolates were identified by MALDI-TOF mass spectrometry. Genome sequencing was performed using a paired-end strategy on the MiSeq platform. RESULTS: Nineteen isolates were clustered into different clades in a phylogenetic tree based on single nucleotide polymorphisms in core genomes. Seventeen sequence types were identified in the extended-spectrum β-lactamase (ESBL)-positive isolates, and 11 subtypes were identified based on distinct types of fimH alleles. Forty-one acquired resistance genes were found in the 19 genomes. The blaCTX-M-15 gene, which encodes ESBL, was found in 15 isolates and was the most predominant resistance gene. Other antimicrobial resistance genes (ARGs) found in the isolates were associated with resistance to tetracycline (tetA), aminoglycoside [aph(3″)-Ib, and aph(6)-Id], and sulfonamide (sul1, and sul2). Nonsynonymous chromosomal mutations in the housekeeping genes parC and gyrA were commonly found in several genomes. CONCLUSION: Several other ARGs were found in CTX-M-positive E. coli isolates confer resistance to clinically important antibiotics used to treat infections caused by Gram-negative bacteria.
BACKGROUND: Whole genome sequencing has revolutionized epidemiological investigations of multidrug-resistant pathogenic bacteria worldwide. Aim of this study was to perform comprehensive characterization of ESBL-positive isolates of Escherichia coli obtained from clinical samples at the King Abdulaziz University Hospital utilizing whole genome sequencing. METHODS: Isolates were identified by MALDI-TOF mass spectrometry. Genome sequencing was performed using a paired-end strategy on the MiSeq platform. RESULTS: Nineteen isolates were clustered into different clades in a phylogenetic tree based on single nucleotide polymorphisms in core genomes. Seventeen sequence types were identified in the extended-spectrum β-lactamase (ESBL)-positive isolates, and 11 subtypes were identified based on distinct types of fimH alleles. Forty-one acquired resistance genes were found in the 19 genomes. The blaCTX-M-15 gene, which encodes ESBL, was found in 15 isolates and was the most predominant resistance gene. Other antimicrobial resistance genes (ARGs) found in the isolates were associated with resistance to tetracycline (tetA), aminoglycoside [aph(3″)-Ib, and aph(6)-Id], and sulfonamide (sul1, and sul2). Nonsynonymous chromosomal mutations in the housekeeping genes parC and gyrA were commonly found in several genomes. CONCLUSION: Several other ARGs were found in CTX-M-positive E. coli isolates confer resistance to clinically important antibiotics used to treat infections caused by Gram-negative bacteria.
Authors: Muhammad Yasir; Abdullah Mohammad Subahi; Hani A Shukri; Fehmida Bibi; Sayed Sartaj Sohrab; Maha Alawi; Anees A Sindi; Asif A Jiman-Fatani; Esam I Azhar Journal: Pharmaceuticals (Basel) Date: 2022-05-16
Authors: Andrew Cameron; Rupinder Mangat; Heba H Mostafa; Samantha Taffner; Jun Wang; Ghinwa Dumyati; Richard A Stanton; Jonathan B Daniels; Davina Campbell; Joseph D Lutgring; Nicole D Pecora Journal: Antimicrob Agents Chemother Date: 2021-06-17 Impact factor: 5.191
Authors: J Francis Borgio; Alia Saeed Rasdan; Bayan Sonbol; Galyah Alhamid; Noor B Almandil; Sayed AbdulAzeez Journal: Biology (Basel) Date: 2021-11-06
Authors: Joaquim Viñes; Anna Cuscó; Sebastian Napp; Julio Alvarez; Jose Luis Saez-Llorente; Montserrat Rosàs-Rodoreda; Olga Francino; Lourdes Migura-Garcia Journal: Antibiotics (Basel) Date: 2021-03-17
Authors: Lorena Patrícia Gaviria; Lourdes Montsant; Carlos Azuaje; Aida González-Díaz; Juan P Horcajada; Enric Limón; Miguel Viñas; Paula Espinal; Ester Fusté Journal: Microorganisms Date: 2022-02-22