Detection of Antimicrobial Resistance Genes by Using Molecular Methods in Urinary Tract Infections (UTI) patients in the Babil Site
Keywords:
Beta-Lactamase, Bla-TEM, Bla-AMPCAbstract
Around the world, there is growing worry over beta-lactamase resistance in Enterobacteriaceae, specifically in Escherich coli (E. coli). The present study aimed to determine the frequency of the beta-lactamase-resistant bla-TEM and bla-AMPC genes in the Enterobacteriaceae family using PCR. Thirty isolates from the Babil Teaching Hospital were obtained for identification since E. coli beta-lactamase genes were discovered in certain laboratories among the 71.6 positive isolates. The current study's findings demonstrated that patients (2 to 18 years old) constituted the majority of the isolates of beta-lactamase-resistant E. coli. Across all bacterial isolates, bla-AMPC and bla-TEM were significantly more common than bla-CTX-M and bla-SHV-5 (
). bla-AMPC and bla-TEM had prevalence rates of 93.33% and 71.66%, respectively, but bla-SHV-5 and bla-AMPC had lower rates of 20% and 46.66%, respectively. In certain pathogenic bacteria, the potential relationships between virulence genes and antibiotic resistance were investigated. Considering Given that the existence of established infectious factors in clinical isolates could potentially facilitate infection and pathogen persistence, virulence factors were analyzed in relation to these genes and a few additional genes that were studied in the same lab. The current study demonstrated a statistically significant association between antibiotic resistance profile and virulence, with a person correlation of 0.957 between virulence and antibiotic determinants, according to the statistical analysis. The biofilm gene, which was found in 95% of the bacterial isolates, was the most prevalent gene according to the gene virulence data, followed by the iss gene (86.6%) and the fimH gene 85%. Therefore, the discovery of a relationship between virulence profile and resistance may contribute to the development of various bacterial infection rates and their recurrence in the clinical setting.
Downloads
References
[1] Cronan JE. Lipoic acid attachment to proteins: stimulating new developments. Microbiology and Molecular Biology Reviews 2024;88: e00005–24.
[2] Bergström S, Normark S. Beta-lactam resistance in clinical isolates of Escherichia coli caused by elevated production of the ampC-mediated chromosomal beta-lactamase. Antimicrob Agents Chemother 1979; 16:427–33.
[3] Zhuang Q, Guo H, Peng T, Ding E, Zhao H, Liu Q, et al. Advances in the detection of β-lactamase: A review. Int J Biol Macromol 2023; 251:126159.
[4] Fisher R, Piercy K. Progress to implement the National Strategy on hunger, nutrition, and health at the US Department of Health and Human Services. Nutr Today 2024; 59:211–9.
[5] Bentley R, Meganathan R. Biosynthesis of vitamin K (menaquinone) in bacteria. Microbiol Rev 1982; 46:241–80.
[6] Cissé OH, Ma L, Kovacs JA. Retracing the evolution of Pneumocystis species, with a focus on the human pathogen Pneumocystis jirovecii. Microbiology and Molecular Biology Reviews 2024;88: e00202–22.
[7] Zeynudin A, Pritsch M, Schubert S, Messerer M, Liegl G, Hoelscher M, et al. Prevalence and antibiotic susceptibility pattern of CTX-M type extended-spectrum β-lactamases among clinical isolates of gram-negative bacilli in Jimma, Ethiopia. BMC Infect Dis 2018; 18:524.
[8] Vogt RL, Dippold L. Escherichia coli O157: H7 outbreak associated with consumption of ground beef, June–July 2002. Public Health Reports 2005; 120:174–8.
[9] Darnton NC, Turner L, Rojevsky S, Berg HC. On torque and tumbling in swimming Escherichia coli. J Bacteriol 2007; 189:1756–64.
[10] Kantiani L, Farré M, Barcelo D. Analytical methodologies for the detection of β-lactam antibiotics in milk and feed samples. TrAC Trends in Analytical Chemistry 2009; 28:729–44.
[11] Pedraza-Reyes M, Abundiz-Yañez K, Rangel-Mendoza A, Mart’inez LE, Barajas-Ornelas RC, Cuéllar-Cruz M, et al. Bacillus subtilis stress-associated mutagenesis and developmental DNA repair. Microbiology and Molecular Biology Reviews 2024;88: e00158–23.
[12] Kubitschek HE. Cell volume increase in Escherichia coli after shifts to richer media. J Bacteriol 1990; 172:94–101.
[13] Tooke CL, Hinchliffe P, Bragginton EC, Colenso CK, Hirvonen VHA, Takebayashi Y, et al. β-Lactamases and β-Lactamase Inhibitors in the 21st Century. J Mol Biol 2019; 431:3472–500.
[14] Ishii S, Sadowsky MJ. Escherichia coli in the environment: implications for water quality and human health. Microbes Environ 2008; 23:101–8.
[15] Ibrahim ME, Abbas M, Al-Shahrai AM, Elamin BK. Phenotypic characterization and antibiotic resistance patterns of extended-spectrum β-Lactamase-and AmpC β-lactamase-producing Gram-negative bacteria in a referral hospital, Saudi Arabia. Canadian Journal of Infectious Diseases and Medical Microbiology 2019; 2019:6054694.
[16] Eckburg PB, Bik EM, Bernstein CN, Purdom E, Dethlefsen L, Sargent M, et al. Diversity of the human intestinal microbial flora. Science (1979) 2005; 308:1635–8.
[17] Feng P, Weagant SD, Grant MA, Burkhardt W. Enumeration of Escherichia coli and the Coliform Bacteria. Bacteriological Analytical Manual 2002; 13:1–13.
[18] Dirar MH, Bilal NE, Ibrahim ME, Hamid ME. Prevalence of extended-spectrum β-lactamase (ESBL) and molecular detection of blaTEM, blaSHV and blaCTX-M genotypes among Enterobacteriaceae isolates from patients in Khartoum, Sudan. Pan Afr Med J 2020; 37:213.
[19] Reid G, Howard J, Gan BS. Can bacterial interference prevent infection? Trends Microbiol 2001; 9:424–8.
[20] Lima LM, da Silva BNM, Barbosa G, Barreiro EJ. β-lactam antibiotics: An overview from a medicinal chemistry perspective. Eur J Med Chem 2020; 208:112829.
[21] Terlizzi ME, Gribaudo G, Maffei ME. UroPathogenic Escherichia coli (UPEC) infections: virulence factors, bladder responses, antibiotic, and non-antibiotic antimicrobial strategies. Front Microbiol 2017; 8:1566.
[22] Ujmajuridze A, Chanishvili N, Goderdzishvili M, Leitner L, Mehnert U, Chkhotua A, et al. Adapted bacteriophages for treating urinary tract infections. Front Microbiol 2018; 9:1832.
[23] Neugent ML, Hulyalkar N V, Nguyen VH, Zimmern PE, De Nisco NJ. Advances in understanding the human urinary microbiome and its potential role in urinary tract infection. MBio 2020; 11:10–1128.
[24] Schmidt K, Mwaigwisya S, Crossman LC, Doumith M, Munroe D, Pires C, et al. Identification of bacterial pathogens and antimicrobial resistance directly from clinical urines by nanopore-based metagenomic sequencing. Journal of Antimicrobial Chemotherapy 2016; 72:104–14.
[25] Finton MD, Meisal R, Porcellato D, Brandal LT, Lindstedt B-A. Whole genome sequencing and characterization of multidrug-resistant (MDR) bacterial strains isolated from a Norwegian university campus pond. Front Microbiol 2020; 11:1273.
[26] Lemon JK, Khil PP, Frank KM, Dekker JP. Rapid nanopore sequencing of plasmids and resistance gene detection in clinical isolates. J Clin Microbiol 2017; 55:3530–43.
[27] Broddrick JT, Szubin R, Norsigian CJ, Monk JM, Palsson BO, Parenteau MN. High-quality genome-scale models from error-prone, long-read assemblies. Front Microbiol 2020; 11:596626.
[28] Hendriksen RS, Bortolaia V, Tate H, Tyson GH, Aarestrup FM, McDermott PF. Using genomics to track global antimicrobial resistance. Front Public Health 2019; 7:242.
[29] Kaprou GD, Bergšpica I, Alexa EA, Alvarez-Ordonez A, Prieto M. Rapid methods for antimicrobial resistance diagnostics. Antibiotics 2021; 10:209.
[30] Chen H, Yin Y, Gao H, Guo Y, Dong Z, Wang X, et al. Clinical utility of in-house metagenomic next-generation sequencing for the diagnosis of lower respiratory tract infections and analysis of the host immune response. Clinical Infectious Diseases 2020;71: S416–S426.
[31] Geng S, Mei Q, Zhu C, Fang X, Yang T, Zhang L, et al. Metagenomic next-generation sequencing technology for detection of pathogens in blood of critically ill patients. International Journal of Infectious Diseases 2021; 103:81–7.
[32] Miao Q, Ma Y, Wang Q, Pan J, Zhang Y, Jin W, et al. Microbiological diagnostic performance of metagenomic next-generation sequencing when applied to clinical practice. Clinical Infectious Diseases 2018;67: S231–S240.
[33] Li M, Yang F, Lu Y, Huang W. Identification of Enterococcus faecalis in a patient with urinary-tract infection based on metagenomic next-generation sequencing: a case report. BMC Infect Dis 2020; 20:467.
[34] Nakagawa S, Inoue S, Kryukov K, Yamagishi J, Ohno A, Hayashida K, et al. Rapid sequencing-based diagnosis of infectious bacterial species from meningitis patients in Zambia. Clin Transl Immunology 2019;8: e01087.
[35] Charalampous T, Kay GL, Richardson H, Aydin A, Baldan R, Jeanes C, et al. Nanopore metagenomics enables rapid clinical diagnosis of bacterial lower respiratory infection. Nat Biotechnol 2019; 37:783–92.
[36] Ghenea AE, Zlatian OM, Cristea OM, Ungureanu A, Mititelu RR, Balasoiu AT, et al. TEM, CTX-M, SHV genes in ESBL-producing Escherichia coli and Klebsiella pneumoniae isolated from clinical samples in a county clinical emergency hospital Romania-predominance of CTX-M-15. Antibiotics 2022; 11:503.
[37] Woodford N, Ward E, Kaufmann ME, Turton J, Pearson A, Harry S, et al. Molecular characterisation of Escherichia coli isolates producing CTX-M-15 extended-spectrum β-lactamase (ESBL) in the United Kingdom. Health Protection Agency 2006; 4:11–9.
[38] Kirtikliene T, Mierauskaitė A, Razmienė I, Kuisiene N. Genetic characterization of multidrug-resistant E. coli isolates from bloodstream infections in Lithuania. Microorganisms 2022; 10:449.
[39] Madigan MT, Martinko JM, Parker J, others. Brock biology of microorganisms. vol. 11. Prentice hall Upper Saddle River, NJ; 1997.
[40] Hays JP, Safain KS, Almogbel MS, Habib I, Khan MA. Extended spectrum-and carbapenemase-based β-lactam resistance in the Arabian Peninsula—a descriptive review of recent years. Antibiotics 2022; 11:1354.
[41] Pishtiwan AH, Khadija KM. Prevalence of blaTEM, blaSHV, and blaCTX-M genes among ESBL-producing Klebsiella pneumoniae and Escherichia coli isolated from thalassemia patients in Erbil, Iraq. Mediterr J Hematol Infect Dis 2019;11: e2019041.
Downloads
Published
Issue
Section
Categories
License
Copyright (c) 2026 Al-Zahrawi Journal of Medical Sciences

This work is licensed under a Creative Commons Attribution 4.0 International License.







