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Infectious Disorders - Drug Targets

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ISSN (Print): 1871-5265
ISSN (Online): 2212-3989

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Research Article

Identification of Virulence Markers and Phylogenetic Groups’ Association, and Antimicrobial Susceptibility of Uropathogenic Escherichia coli Isolates

Author(s): Dahbia Yasmina Meziani*, Nicolas Barnich, Anouar Boucheham, Mohamed larbi Rezgoune, Kaddour Benlabed, Michael Rodrigues and Dalila Satta

Volume 23, Issue 2, 2023

Published on: 04 October, 2022

Article ID: e080922208695 Pages: 11

DOI: 10.2174/1871526522666220908161529

Price: $65

Abstract

Background: Urinary tract infections represent a world public health problem, which is caused mainly by Uropathogenic Escherichia coli. Although they are originally found in the intestinal microbiota in the majority of the cases, urinary tract infections can also be caused by intra-intestinal pathogenic E. coli.

Objective: The main objective of our research is to identify the virulence factors generally associated with different pathotypes across phylogenetic groups.

Methods: E. coli were isolated from patients with urinary tract infections. Antimicrobial susceptibility tests, virulence genes and phylogroups were prospected. The data analysis were performed using the chi-square and Fisher exact test.

Results: In total, 72.2% of isolates showed multidrug resistant. We have also depicted an important association between E. coli from inpatients with UTIs and pap and hlyA genes (p-0.041 and p-0.019 respectively). The predominant phylogenetic group in our isolates is B2 (45.4%) followed by D (12.4%). Our results showed that 9.3% of isolates have an unknown phylogroup which shows a significant association with astA gene (p-0.008). We have as well found a significant association between B2 and three virulence genes namely pap, hlyA and invE (p-0.002, p-0.001, p-0.025 respectively); B1 and pap, hlyA genes (p-0.049 and p-0.021 respectively); E and afa gene (p-0.024).

Conclusion: Certain virulence factors have been shown to be potential targets for drug design and therapeutic pathways in order to deal with the antimicrobial resistance problem enhanced by antibiotic therapy.

Keywords: Urinary tract infections, Escherichia coli, virulence factors, phylogenetic groups, antibiotic sensitivity test, Antimicrobial susceptibility.

Graphical Abstract

[1]
Desvaux M, Dalmasso G, Beyrouthy R, Barnich N, Delmas J, Bonnet R. Pathogenicity factors of genomic islands in intestinal and ex-traintestinal Escherichia coli. Front Microbiol 2020; 11: 2065.
[http://dx.doi.org/10.3389/fmicb.2020.02065] [PMID: 33101219]
[2]
Denamur E, Clermont O, Bonacorsi S, Gordon D. The population genetics of pathogenic Escherichia coli. Nat Rev Microbiol 2021; 19(1): 37-54.
[http://dx.doi.org/10.1038/s41579-020-0416-x] [PMID: 32826992]
[3]
Rojas-Lopez M, Monterio R, Pizza M, Desvaux M, Rosini R. Intestinal pathogenic Escherichia coli: Insights for vaccine development. Front Microbiol 2018; 9: 440.
[http://dx.doi.org/10.3389/fmicb.2018.00440] [PMID: 29615989]
[4]
Ulett GC, Totsika M, Schaale K, Carey AJ, Sweet MJ, Schembri MA. Uropathogenic Escherichia coli virulence and innate immune respons-es during urinary tract infection. Curr Opin Microbiol 2013; 16(1): 100-7.
[http://dx.doi.org/10.1016/j.mib.2013.01.005] [PMID: 23403118]
[5]
Subashchandrabose S, Mobley HLT. Virulence and fitness determinants of uropathogenic Escherichia coli. Microbiol Spectr 2015; 3(4): 10-1128.
[http://dx.doi.org/10.1128/microbiolspec.UTI-0015-2012] [PMID: 26350328]
[6]
Tarchouna M, Ferjani A, Ben-Selma W, Boukadida J. Distribution of uropathogenic virulence genes in Escherichia coli isolated from pa-tients with urinary tract infection. Int J Infect Dis 2013; 17(6): e450-3.
[http://dx.doi.org/10.1016/j.ijid.2013.01.025] [PMID: 23510539]
[7]
Clermont O, Bonacorsi S, Bingen E. Rapid and simple determination of the Escherichia coli phylogenetic group. Appl Environ Microbiol 2000; 66(10): 4555-8.
[http://dx.doi.org/10.1128/AEM.66.10.4555-4558.2000] [PMID: 11010916]
[8]
Clinical and Laboratory Standards Institute (CLSI). Performance standards for antimicrobial susceptibility testing. CLSI supplement M100. (29th ed.), Wayne, PA: CLSI 2019.
[9]
International Standards Organization. Clinical laboratory testing and in vitro diagnostic test systems d Susceptibility testing of infectious agents and evaluation of performance of antimicrobial susceptibility test devices Part 1: Reference method for testing the in vitro activity of antimicrobial agents against rapidly growing aerobic bacteria involved in infectious diseases 2006; 20776e1.
[10]
Clermont O, Christenson JK, Denamur E, Gordon DM. The Clermont Escherichia coli phylo-typing method revisited: Improvement of specificity and detection of new phylo-groups. Environ Microbiol Rep 2013; 5(1): 58-65.
[http://dx.doi.org/10.1111/1758-2229.12019] [PMID: 23757131]
[11]
Wang Y, Zhao S, Han L, et al. Drug resistance and virulence of uropathogenic Escherichia coli from Shanghai, China. J Antibiot 2014; 67(12): 799-805.
[http://dx.doi.org/10.1038/ja.2014.72] [PMID: 24984795]
[12]
Tewawong N, Kowaboot S, Pimainog Y, Watanagul N, Thongmee T, Poovorawan Y. Distribution of phylogenetic groups, adhesin genes, biofilm formation, and antimicrobial resistance of uropathogenic Escherichia coli isolated from hospitalized patients in Thailand. PeerJ 2020; 8: e10453.
[http://dx.doi.org/10.7717/peerj.10453] [PMID: 33344087]
[13]
Cristea VC, Gheorghe I, Czobor Barbu I, et al. Snapshot of phylogenetic groups, virulence, and resistance markers in Escherichia coli uropathogenic strains isolated from outpatients with urinary tract infections in Bucharest, Romania. BioMed Res Int 2019; 2019: 5712371.
[http://dx.doi.org/10.1155/2019/5712371] [PMID: 31236408]
[14]
Düzgün AÖ, Okumuş F, Saral A, Çiçek AÇ, Cinemre S. Determination of antibiotic resistance genes and virulence factors in Escherichia coli isolated from Turkish patients with urinary tract infection. Rev Soc Bras Med Trop 2019; 52: e20180499.
[http://dx.doi.org/10.1590/0037-8682-0499-2018] [PMID: 31271618]
[15]
Dadi BR, Abebe T, Zhang L, Mihret A, Abebe W, Amogne W. Distribution of virulence genes and phylogenetics of uropathogenic Esche-richia coli among urinary tract infection patients in Addis Ababa, Ethiopia. BMC Infect Dis 2020; 20(1): 108.
[http://dx.doi.org/10.1186/s12879-020-4844-z] [PMID: 32033541]
[16]
Montini G, Tullus K, Hewitt I. Febrile urinary tract infections in children. N Engl J Med 2011; 365(3): 239-50.
[http://dx.doi.org/10.1056/NEJMra1007755] [PMID: 21774712]
[17]
Chang SL, Shortliffe LD. Pediatric urinary tract infections. Pediatr Clin North Am 2006; 53(3): 379-400.
[http://dx.doi.org/10.1016/j.pcl.2006.02.011] [PMID: 16716786]
[18]
Toval F, Köhler CD, Vogel U, et al. Characterization of Escherichia coli isolates from hospital inpatients or outpatients with urinary tract infection. J Clin Microbiol 2014; 52(2): 407-18.
[http://dx.doi.org/10.1128/JCM.02069-13] [PMID: 24478469]
[19]
Parker V, Giles M, Graham L, et al. Avoiding inappropriate urinary catheter use and catheter-associated urinary tract infection (CAUTI): A pre-post control intervention study. BMC Health Serv Res 2017; 17(1): 314.
[http://dx.doi.org/10.1186/s12913-017-2268-2] [PMID: 28464815]
[20]
Rowe TA, Juthani-Mehta M. Urinary tract infection in older adults. Aging Health 2013; 9(5): 519-28.
[http://dx.doi.org/10.2217/ahe.13.38] [PMID: 24391677]
[21]
Ibrahim MS, Khalid HM, Mero WMS. Molecular characterization of some virulence genes and antibiotic susceptibility pattern among uro-pathogenic Escherichia coli isolated from patient in Zakho City/Iraq. Zanco J Pure Appl Sci 2020; 32(2): 167-77.
[22]
El-Mahdy R, Mahmoud R, Shrief R. Characterization of E. coli phylogroups causing catheter-associated urinary tract infection. Infect Drug Resist 2021; 14(14): 3183-93.
[http://dx.doi.org/10.2147/IDR.S325770] [PMID: 34429618]
[23]
Paniagua-Contreras GL, Monroy-Pérez E, Rodríguez-Moctezuma JR, Domínguez-Trejo P, Vaca-Paniagua F, Vaca S. Virulence factors, anti-biotic resistance phenotypes and O-serogroups of Escherichia coli strains isolated from community-acquired urinary tract infection patients in Mexico. J Microbiol Immunol Infect 2017; 50(4): 478-85.
[http://dx.doi.org/10.1016/j.jmii.2015.08.005] [PMID: 26433755]
[24]
Momtaz H, Karimian A, Madani M, et al. Uropathogenic Escherichia coli in Iran: Serogroup distributions, virulence factors and antimicro-bial resistance properties. Ann Clin Microbiol Antimicrob 2013; 12(1): 8.
[http://dx.doi.org/10.1186/1476-0711-12-8] [PMID: 23627669]
[25]
Herzog K, Engeler Dusel J, Hugentobler M, et al. Diarrheagenic enteroaggregative Escherichia coli causing urinary tract infection and bacte-remia leading to sepsis. Infection 2014; 42(2): 441-4.
[http://dx.doi.org/10.1007/s15010-013-0569-x] [PMID: 24323785]
[26]
Boll EJ, Struve C, Boisen N, Olesen B, Stahlhut SG, Krogfelt KA. Role of enteroaggregative Escherichia coli virulence factors in uropatho-genesis. Infect Immun 2013; 81(4): 1164-71.
[http://dx.doi.org/10.1128/IAI.01376-12] [PMID: 23357383]
[27]
Bashir S, Haque A, Sarwar Y, Ali A, Anwar M. Virulence profile of different phylogenetic groups of locally isolated community acquired uropathogenic E. coli from Faisalabad region of Pakistan. Ann Clin Microbiol Antimicrob 2012; 11(1): 23.
[http://dx.doi.org/10.1186/1476-0711-11-23] [PMID: 22867028]
[28]
Grude N, Potaturkina-Nesterova NI, Jenkins A, et al. A comparison of phylogenetic group, virulence factors and antibiotic resistance in Russian and Norwegian isolates of Escherichia coli from urinary tract infection. Clin Microbiol Infect 2007; 13(2): 208-11.
[http://dx.doi.org/10.1111/j.1469-0691.2006.01584.x] [PMID: 17328737]
[29]
Nagamatsu K, Hannan TJ, Guest RL, et al. Dysregulation of Escherichia coli α-hemolysin expression alters the course of acute and persis-tent urinary tract infection. Proc Natl Acad Sci USA 2015; 112(8): E871-80.
[http://dx.doi.org/10.1073/pnas.1500374112] [PMID: 25675528]
[30]
Munkhdelger Y, Gunregjav N, Dorjpurev A, Juniichiro N, Sarantuya J. Detection of virulence genes, phylogenetic group and antibiotic re-sistance of uropathogenic Escherichia coli in Mongolia. J Infect Dev Ctries 2017; 11(1): 51-7.
[http://dx.doi.org/10.3855/jidc.7903] [PMID: 28141590]
[31]
Pourzare M, Derakhshan S, Roshani D. Distribution of uropathogenic virulence genes in Escherichia coli isolated from children with uri-nary tract infection in Sanandaj, Iran. Arch Pediatr Infect Dis 2017; 5: e41995.
[http://dx.doi.org/10.5812/pedinfect.41995]
[32]
Khairy RM, Mohamed ES, Abdel Ghany HM, Abdelrahim SS. Phylogenic classification and virulence genes profiles of uropathogenic E. coli and diarrhegenic E. coli strains isolated from community acquired infections. PLoS One 2019; 14(9): e0222441.
[http://dx.doi.org/10.1371/journal.pone.0222441] [PMID: 31513642]
[33]
Kot B, Wicha J, Grużewska A, Piechota M, Wolska K, Obrębska M. Virulence factors, biofilm-forming ability, and antimicrobial resistance of urinary Escherichia coli strains isolated from hospitalized patients. Turk J Med Sci 2016; 46(6): 1908-14.
[http://dx.doi.org/10.3906/sag-1508-105] [PMID: 28081347]
[34]
Usein CR, Damian M, Tatu-Chitoiu D, et al. Prevalence of virulence genes in Escherichia coli strains isolated from Romanian adult urinary tract infection cases. J Cell Mol Med 2001; 5(3): 303-10.
[http://dx.doi.org/10.1111/j.1582-4934.2001.tb00164.x] [PMID: 12067489]
[35]
Yılmaz EŞ, Aslantaş Ö. Phylogenetic group/subgroups distributions, virulence factors, and antimicrobial susceptibility of Escherichia coli Strains from urinary tract infections in Hatay. Rev Soc Bras Med Trop 2020; 53: e20190429.
[http://dx.doi.org/10.1590/0037-8682-0429-2019] [PMID: 32049204]
[36]
Rezatofighi SE, Mirzarazi M, Salehi M. Virulence genes and phylogenetic groups of uropathogenic Escherichia coli isolates from patients with urinary tract infection and uninfected control subjects: A case-control study. BMC Infect Dis 2021; 21(1): 361.
[http://dx.doi.org/10.1186/s12879-021-06036-4] [PMID: 33865334]
[37]
Lee JH, Subhadra B, Son YJ, et al. Phylogenetic group distributions, virulence factors and antimicrobial resistance properties of uropatho-genic Escherichia coli strains isolated from patients with urinary tract infections in South Korea. Lett Appl Microbiol 2016; 62(1): 84-90.
[http://dx.doi.org/10.1111/lam.12517] [PMID: 26518617]
[38]
Santo E, Macedo C, Marin JM. Virulence factors of uropathogenic Escherichia coli from a University Hospital in Ribeirão Preto, São Paulo, Brazil. Rev Inst Med Trop São Paulo 2006; 48(4): 185-8.
[http://dx.doi.org/10.1590/S0036-46652006000400002] [PMID: 17119672]
[39]
Servin AL. Pathogenesis of human diffusely adhering Escherichia coli expressing Afa/Dr adhesins (Afa/Dr DAEC): Current insights and future challenges. Clin Microbiol Rev 2014; 27(4): 823-69.
[http://dx.doi.org/10.1128/CMR.00036-14] [PMID: 25278576]
[40]
Picard B, Garcia JS, Gouriou S, et al. The link between phylogeny and virulence in Escherichia coli extraintestinal infection. Infect Immun 1999; 67(2): 546-53.
[http://dx.doi.org/10.1128/IAI.67.2.546-553.1999] [PMID: 991605]
[41]
Ejrnæs K, Stegger M, Reisner A, et al. Characteristics of Escherichia coli causing persistence or relapse of urinary tract infections: Phylogenetic groups, virulence factors and biofilm formation. Virulence 2011; 2(6): 528-37.
[http://dx.doi.org/10.4161/viru.2.6.18189] [PMID: 22030858]
[42]
Themphachanal M, Kongpheng S, Rattanachuay P, Khianngam S, Singkhamanan K, Sukhumungoon P. Molecular characterization of virulence and antimicrobial susceptibility profiles of uropathogenic Escherichia coli from patients in a tertiary, hospital, southern Thailand. Southeast Asian J Trop Med Public Health 2015; 46(6): 1021-30.
[43]
Robino L, García-Fulgueiras V, Araujo L, Algorta G, Pírez MC, Vignoli R. Urinary tract infection in Uruguayan children: Aetiology, antimicrobial resistance and uropathogenic Escherichia coli virulotyping. J Glob Antimicrob Resist 2014; 2(4): 293-8.
[http://dx.doi.org/10.1016/j.jgar.2014.08.003] [PMID: 27873690]
[44]
Gao Q, Zhang D, Ye Z, et al. Virulence traits and pathogenicity of uropathogenic Escherichia coli isolates with common and uncommon O serotypes. Microb Pathog 2017; 104: 217-24.
[http://dx.doi.org/10.1016/j.micpath.2017.01.027] [PMID: 28104383]
[45]
Sheikh FA, Goodarzi H, Yadyad MJ, et al. Virulence-associated genes and drug susceptibility patterns of uropathogenic Escherichia coli isolated from patients with urinary tract infection. Infect Drug Resist 2019; 12: 2039-47.
[http://dx.doi.org/10.2147/IDR.S199764] [PMID: 31410031]
[46]
Iranpour D, Hassanpour M, Ansari H, Tajbakhsh S, Khamisipour G, Najafi A. Phylogenetic groups of Escherichia coli strains from patients with urinary tract infection in Iran based on the new Clermont phylotyping method. BioMed Res Int 2015; 2015: 1-7.
[http://dx.doi.org/10.1155/2015/846219] [PMID: 25692147]
[47]
Boroumand M, Naghmachi M, Ghatee MA. Detection of phylogenetic groups and drug resistance genes of Escherichia coli causing urinary tract infection in Southwest Iran. Jundishapur J Microbiol 2021; 14(2): e112547.
[http://dx.doi.org/10.5812/jjm.112547]

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