A Three-Year Look at the Phylogenetic Profile, Antimicrobial Resistance, and Associated Virulence Genes of Uropathogenic Escherichia coli

Badger-Emeka, Lorina Ineta; Kausar, Naheed; Estrella, Edric; Angeles, Glenda Belgira

doi:10.3390/pathogens11060631

Cited by 7 publications

(16 citation statements)

References 67 publications

Supporting

Mentioning

Contrasting

Order By: Relevance

“…Similarly, the highest co-existence of the gene bla CTX-M+TEM (21%) was found in the ESBL E. coli & K. pneumoniae from Qatar [59], Saudi Arabia [45, 69] and followed by the least co-existence of the genes bla TEM+SHV, bla CTX-M+SHV & bla CTX-M+TEM+SHV were detected in their same studies, but in contrast, the Moglad et al , Badger-Emeka et al and Sid Ahmed et al found that the highest co-harbored genes were bla CTX-M+TEM+SHV (50% & 24.7%), bla CTX-M+SHV (50% & 10.1%) found in the E. coli , K. pneumoniae and other Enterobacterales in their studies. [70,71] Likewise, the lowest co-expression of the genes bla TEM+NDM , bla TEM+IMP and bla CTX-M+TEM+SHV+IMP were also detected in 2.22% K. pneumoniae, 5% P. aeruginosa and 10% of each A. baumannii to each gene combination. In such a way, Elbadawi HS e t al.…”

Section: Discussionmentioning

confidence: 99%

Prevalence of class A ESBL, class B and D carbapenemase encoding genes (CTX-M, TEM, SHV, NDM, IMP, OXA-48) in gram-negative bacterial pathogens isolated from various clinical samples collected from northern region of United Arab Emirates

Ragupathi,

Khamisani,

Sadiq

et al. 2024

Preprint

View full text Add to dashboard Cite

Objective The aim of this study was to assess the prevalence of class A ESBL, class B and D carbapenemase encoding genes (blaCTX-M, blaTEM, blaSHV, blaNDM, blaIMP and blaOXA-48) in gram-negative bacterial pathogens isolated from various clinical samples collected from northern region of UAE. Methods A laboratory based experimental study was conducted from October 14, 2021, to June 30, 2022. A total of 3670 various clinical samples (urine, blood, pus, and sputum) were obtained from patients attending the in and out-patient departments of Thumbay University Hospital and various other hospitals of Northern Emirates of UAE, processed for routine bacterial culture examination and determined their antibiotic sensitivity pattern especially ESBL and carbapenem resistance using MicroScan Neg Breakpoint Combo 50 panel. Molecular detection of class A ESBL, class B and D carbapenemase encoding genes (blacTX-M, blaTEM, blaSHV blaNDM, blaIMP & blaOXA-48) were performed on the ESBL and carbapenemase producing gram negative bacteria. Partial genomic sequencing and phylogenetic tree analysis was performed on the most predominant ESBL gene blaCTX-M. Results In total, 1098 bacterial cultures were obtained, of which 833 were gram negative bacteria and among them, 209 (25.1%) were ESBL producers and 40 (4.8%) were both ESBL and carbapenemase producers. In all the 249 bacterial isolates, the ESBL and carbapenemase encoding genes (blaCTX-M, blaTEM, blaSHV, blaNDM & blaIMP) were detected except blaOXA-48. The blaCTX-M (n=72) was the predominantly harbored gene followed by blaTEM (n=56) and blaSHV (n=29), mostly detected in E. coli (n=157), then K. pneumoniae (n=41), P. aeruginosa (n=18) & A. baumannii (n=7). The blaNDM & blaIMP were detected in K. pneumoniae (n=4), A. baumannii (n=3) and P. aeruginosa (n=2) for blaIMP. The gene combinations such as blaCTX-M+TEM (n=15), blaCTX-M+SHV (n=15), blaCTX-M+TEM+SHV (n=6) were co-harbored in 36 E. coli and in the K. pneumoniae, the blaCTX-M+TEM (n=15), blaCTX-M+SHV (n=15), blaTEM+SHV (n=3), blaTEM+NDM (n=1) were detected. The blaCTX-M+TEM, blaCTX-M+SHV & blaCTX-M+TEM+SHV+IMP were detected in one P. aeruginosa and in one A. baumannii, the blaTEM+NDM, blaTEM+IMP & blaCTX-M+TEM+SHV+IMP were detected. Conclusion The highest bacterial culture positivity was detected in the urine samples. 25.1% of the Gram-ve bacteria were only ESBL producers and 4.8% were both the ESBL & carbapenemase producers. 44.5% of ESBL & carbapenemase producing bacteria harbored the blaCTX-M and mostly detected in the E. coli, then K. pneumoniae and P. mirabilis. Multiple gene combinations were detected in 5% P. aeruginosa, 10% A. baumannii and 3.82% E. coli. This finding highlights the importance of molecular detection of ESBL & carbapenemase producing genes to emphasize the monitor and control the development of multi drug resistant Gram-ve bacterial pathogens.

show abstract

Section: Discussionmentioning

confidence: 99%

Prevalence of class A ESBL, class B and D carbapenemase encoding genes (CTX-M, TEM, SHV, NDM, IMP, OXA-48) in gram-negative bacterial pathogens isolated from various clinical samples collected from northern region of United Arab Emirates

Ragupathi,

Khamisani,

Sadiq

et al. 2024

Preprint

View full text Add to dashboard Cite

show abstract

“…While the percentage of isolation of Escherichia coli in the current study was not consistent with the results obtained by the researcher (18) and it may be the cause of urinary tract infections in children under the age of two, as this indicates the presence of congenital defects in the urinary system or kidneys (19) . which reached the percentage of isolation from children and both sexes (64%), from females (80%) and from males (20) . The results of the current study were inconsistent with the results of the researcher (20) as the percentage of the presence of the papE gene was (14%).…”

Section: Molecular Diagnosis Of E Coli Using the Pape Genementioning

confidence: 89%

“…which reached the percentage of isolation from children and both sexes (64%), from females (80%) and from males (20) . The results of the current study were inconsistent with the results of the researcher (20) as the percentage of the presence of the papE gene was (14%). The results reached by (18) the percentage of the presence of the papE gene (37.5%), ie 15 isolates out of a total of 40 isolates.…”

Section: Molecular Diagnosis Of E Coli Using the Pape Genementioning

confidence: 89%

Molecular Detection of Some Efflux Pumps Genes in Escherichia Coli Isolated from Patients with Urinary Tract Infections in Baqubah City, Iraq

Ibrahim¹,

Al-Zubaidi²

2023

The Egyptian Journal of Hospital Medicine

View full text Add to dashboard Cite

Background: Antibiotic resistance is among the major threats to health systems worldwide. Antibiotic resistance is often associated with efflux pumps, that distinguish many antibiotics are called Multidrug Resistance (MDR) efflux pumps. Aim: investigate the prevalence of Escherichia coli bacteria that cause urinary tract infection by identifying the gene (papE) and identifying the efflux pump genes (acrB, TolC , mdfA ) using the polymerase chain reaction. Methods: 200 samples were obtained from the urine of patients with urinary tract infections from Baquba Teaching Hospital and from Al-Batoul Maternity Hospital in Diyala Governorate / Iraq during the period from January to April 2022. The nucleic acid DNA of the bacterial isolates under study was extracted and then the polymerase chain reaction (PCR) was performed through the use of specialized primers the gene (acrB, mdfA, TolC) . Results: The results of antibiotic sensitivity showed that all isolates were 100% resistant to each of Ampicillin and Augmentin, 98% Amikacin, 96% Tetracycline, 82% to Cefepime, and 50% to the results of the study showed that all bacterial isolates (20) isolates contain the gene (mdfA) 100%, and 19 isolates out of a total of 20 isolate targeting 95% contain both gene TolC and acrB. Conclusion: Most of the isolates of Escherichia coli bacteria under study, isolated from patients with urinary tract infections (UTIs) with multiple antibiotic resistance (MDR), and all bacterial isolates possessed the gene (mdfA) in a percentage of (100%), while the genes (TolC, acrB ) were found in a percentage(95%).

show abstract

“…Twenty-four Saudi studies were identified in the literature that evaluated the susceptibility of members of Enterobacterales to β-lactam antimicrobials, particularly extended-spectrum cephalosporins [ 28 , 29 , 33 , 39 , 47 , 52 , 54 , 55 , 56 , 57 , 58 , 59 , 60 , 61 , 62 , 63 , 64 , 65 , 66 , 67 , 68 , 69 , 70 , 71 ]. Seventeen studies provided detailed antimicrobial susceptibility results for each tested organism [ 28 , 33 , 52 , 54 , 55 , 56 , 57 , 58 , 59 , 60 , 61 , 62 , 63 , 64 , 65 , 66 , 67 ]. Eight studies evaluated urine samples, whereas the rest of the studies assessed samples from different sites [ 33 , 52 , 55 , 58 , 61 ...…”

Section: Resistant Gram-negative Pathogensmentioning

confidence: 99%

An Overview of Antimicrobial Resistance in Saudi Arabia (2013–2023) and the Need for National Surveillance

Thabit,

Alabbasi,

Alnezary

et al. 2023

Microorganisms

View full text Add to dashboard Cite

Antimicrobial resistance (AMR) is a well-recognized global threat. The World Health Organization (WHO) issued a report ranking the critical types of bacterial resistance that need to be monitored. Several studies from individual institutions in Saudi Arabia have reported rates of antimicrobial resistance using automated methods. However, no national surveillance study has been conducted to date using gold standard methods for antimicrobial susceptibility testing. This review summarizes AMR rates for major bacterial pathogens in Saudi Arabia and provides a justification for the need for a national surveillance project. In Saudi Arabia, AMR rates for both Gram-positive and Gram-negative bacteria are on the rise. Surveillance studies help identify AMR trends and emergence of outbreaks. The WHO has started a program, the Global Antimicrobial Resistance Surveillance System (GLASS), encouraging its member states, including Saudi Arabia, to conduct antimicrobial surveillance studies to estimate AMR rates worldwide. Of the microbiological methods used to test antimicrobial susceptibility, only broth microdilution (BMD) is considered the “gold standard.” As AMR studies in Saudi Arabia are sparse, mostly limited to single centers and were conducted using automated methods, a national AMR surveillance project is needed to evaluate the current status and to inform stewardship decisions.

show abstract

A Three-Year Look at the Phylogenetic Profile, Antimicrobial Resistance, and Associated Virulence Genes of Uropathogenic Escherichia coli

Cited by 7 publications

References 67 publications

Prevalence of class A ESBL, class B and D carbapenemase encoding genes (CTX-M, TEM, SHV, NDM, IMP, OXA-48) in gram-negative bacterial pathogens isolated from various clinical samples collected from northern region of United Arab Emirates

Prevalence of class A ESBL, class B and D carbapenemase encoding genes (CTX-M, TEM, SHV, NDM, IMP, OXA-48) in gram-negative bacterial pathogens isolated from various clinical samples collected from northern region of United Arab Emirates

Molecular Detection of Some Efflux Pumps Genes in Escherichia Coli Isolated from Patients with Urinary Tract Infections in Baqubah City, Iraq

An Overview of Antimicrobial Resistance in Saudi Arabia (2013–2023) and the Need for National Surveillance

Contact Info

Product

Resources

About