Literature DB >> 35243393

Multidrug-resistant Uro-associated Escherichia coli Populations and Recurrent Urinary Tract Infections in Patients Performing Clean Intermittent Self-catheterisation.

Catherine Mowbray1, Aaron Tan1, Maxime Vallée1,2, Holly Fisher3, Thomas Chadwick3, Catherine Brennand4, Katherine E Walton5, Robert S Pickard6, Christopher Harding6,7, Phillip D Aldridge1, Judith Hall1.   

Abstract

BACKGROUND: The AnTIC trial linked continuous low-dose antibiotic prophylaxis treatments to a lower incidence of symptomatic urinary tract infections (UTIs) among individuals performing clean intermittent self-catheterisation (CISC).
OBJECTIVE: To explore potential mechanisms underlying the protective effects of low-dose antibiotic prophylaxis treatments, blood and urine samples and uro-associated Escherichia coli isolates from AnTIC participants were analysed. DESIGN SETTING AND PARTICIPANTS: Blood samples (n = 204) were analysed for TLR gene polymorphisms associated with UTI susceptibility and multiple urine samples (n = 558) were analysed for host urogenital responses. E.coli sequence data for 45 temporal isolates recovered from the urine samples of 16 trial participants in the prophylaxis (n = 9) and no-prophylaxis (n = 7) study arms, and characterised by multidrug resistance (MDR), were used to classify individual strains. OUTCOME MEASUREMENTS AND STATISTICAL ANALYSIS: TLR polymorphism data were analysed using Poisson regression. Concentrations of urine host defence markers were analysed using linear mixed-effects models, which accounted for repeated urine samples. RESULTS AND LIMITATIONS: Urine samples from CISC users, irrespective of antibiotic treatment regimens, were associated with robust urothelial innate responses. No links were identified between TLR genotype and CISC user susceptibility to recurrent UTIs. Microbiological study data were limited to the predominant MDR E. coli population; participants prescribed low-dose prophylactic antibiotics were predominantly colonised by a single uro-associated E. coli strain, while participants given acute antibiotic treatments were each colonised by more than one E. coli strain.
CONCLUSIONS: Antibiotic treatments did not impact urogenital responses to infection in CISC users. Host genetics in terms of TLR polymorphisms played no role in determining CISC user susceptibility to or protection from recurrent UTIs. Prophylactic antibiotic treatments associated with MDR E. coli were associated with colonisation by stable uro-associated E. coli genotypes. PATIENT
SUMMARY: Our findings show that the natural urogenital defences of clean intermittent self-catheterisation (CISC) users were not impacted by antibiotic treatments. For some CISC users, prophylaxis with low-dose antibiotics selected for a stable, predominantly, Esherichia coli rich uromicrobiota.
© 2022 The Authors.

Entities:  

Keywords:  Antibiotics; Continuous intermittent single-use catheterisation; Escherichia coli; Innate immunity; Lower urinary tract infection; Multidrug resistance; Prophylaxis; TLR genotype; TLR genotype, Toll-like Receptor genotype

Year:  2022        PMID: 35243393      PMCID: PMC8883198          DOI: 10.1016/j.euros.2021.12.015

Source DB:  PubMed          Journal:  Eur Urol Open Sci        ISSN: 2666-1683


Introduction

Clean intermittent self-catheterisation (CISC) is an important management option for individuals, including those in a home setting, who are unable to empty their bladder naturally and involves inserting a sterile urethral catheter using an aseptic technique. Clinically, CISC is used for bladder emptying in patients with a range of pathologies, including spinal cord injury, multiple sclerosis, non-neurogenic bladder dysfunction, and incomplete bladder emptying due to infravesical obstruction [1]. Although CISC allows for regular complete bladder emptying, recurrent urinary tract infections (rUTIs) are common [2]. Despite strategies to reduce UTI risk, including single-use hydrophilic catheters and antiseptic washes, recurrent infections remain a key clinical and health economics problem. One approach to reduce UTI incidence involves prescribing low-dose prophylactic antibiotics [3], with data from the recent randomised open-label AnTIC trial reporting that prophylaxis reduced UTI frequency by 48% [4]. The anatomy of the urogenital tract means that the bladder is particularly vulnerable to microbial contamination, particularly in females, for whom colonisation of the periurethral mucosa with gut microbes is common, and catheter use further increases the risk of bacterial inoculation [5], [6]. Constitutive and induced innate defence systems play a role in protecting the urinary tract and reducing the risk of infection [7], [8]. Induced mechanisms include the urothelial synthesis and rapid release of host innate defence molecules, including cytokines and antimicrobial agents such as IL-8 (CXCL8), neutrophil gelatinase-associated lipocalin (NGAL), human β-defensin-2 (BD2) and secretory leukocyte peptidase inhibitor (SLPI), that work collectively to restrict and clear potential infections. Underpinning these defence mechanisms are collections of microbial sensors, including the Toll-like receptors (TLRs), located on host urothelial and antigen-presenting cells [9]. UTIs can be described as uncomplicated or complicated; the latter are usually associated with either structural or functional urinary tract abnormalities [10]. UTIs in CISC users are, by definition, complicated. Uropathogenic Eschericha coli is the most frequent pathogen [11] and current diagnostics involve documenting symptoms and obtaining a urine specimen for microbiological culture. CISC users often exhibit positive urine cultures, which in the absence of symptoms are classified as asymptomatic bacteriuria (ASB) and do not support antibiotic treatments [12]. When UTI symptoms are associated with significant positive urine cultures, acute antibiotic treatment is usually recommended. However, the frequent use of antibiotics to treat those with persistent or recurrent episodes can facilitate the emergence of antibiotic resistance among uropathogens, including uropathogenic E. coli [13]. Population study data suggest that polymorphisms in the genes encoding TLRs 1, 2, 4, and 5 are involved in the susceptibility of individuals to uncomplicated recurrent (r)UTIs. The genotypes TLR1_G1805T (S602I) and TLR4_A896G (D299G) are associated with greater protection from rUTIs, while TLR5_C1174T (R392STOP) is associated with greater vulnerability and TLR2_G2285A (R753Q) is linked to a higher risk of bladder colonisation with Gram-positive organisms [14]. In the case of TLR5_C1174T, UTI susceptibility is associated with lower urothelial innate responses, including IL-8 and BD2 expression [15]. To date, the roles of host genetics in the susceptibility of catheterised patients to complicated UTIs have largely been ignored, presumably because of assumptions that problems related to the use of indwelling catheters, including biofilms, over-ride any advantages or disadvantages associated with host genetics. CISC involves the use of sterile catheters that are present in the patient’s bladder only transiently, but despite the lack of an indwelling catheter these patients still present as a high-risk patient cohort susceptible to recurrent symptomatic infections [2]. AnTIC trial data indicated that this figure can be reduced by using continuous low-dose antibiotic prophylaxis treatments [4], but the actual mechanisms that reduce UTI incidence remain unknown. Suggestions include the possibility that low-dose antibiotics preferentially target uropathogens and/or induce changes in the patient’s urogenital defences that promote tolerance of nonpathogenic colonising bacteria. The aim of this study was to explore potential factors underpinning the effectiveness of continuous low-dose antibiotic treatments in protecting CISC patients from rUTIs. To this end, blood, urine, and uro-associated E. coli samples banked from participants of the randomised open-label AnTIC trial were analysed to obtain a retrospective picture of their TLR genetics, urothelial host responses, and microbial colonisation/infection profiles. In addition, to provide a further understanding of the lower number of UTIs associated with a prophylaxis strategy, the microbial colonisation profiles of participants, specifically characterised by multidrug-resistant (MDR) uro-associated E. coli isolates, were also investigated.

Patients and methods

Study design

The study protocol was approved by the North of Scotland Research Ethics Service (reference REC-19/NS/0024; protocol number 09020; IRAS project ID 243903) and used blood and urine samples and clinical data from CISC patients who participated in the AnTIC trial. In accordance with the original trial protocol, blood donation was optional. While all uro-associated MDR isolates were recorded clinically, only E. coli isolates recovered from participants’ urine samples were banked [16].

TLR single-nucleotide polymorphism analyses

Genomic DNA was extracted from whole blood using the Reliaprep Blood gDNA Miniprep System (Promega, Madison, WI, USA). A polymerase chain reaction (PCR) fragment spanning the targeted single-nucleotide polymorphism (SNP) region was generated using PCR primers and cycling followed by melt curve analysis (Supplementary Table 1). SNPs were analysed using LightCycler 480 software and confirmed by sequencing a random selection of samples (Eurofins, Hamburg, Germany).

Urine analyses

Urine samples stored previously at −80°C were analysed via enzyme-linked immunosorbent assay for host defence agents (Supplementary material).

Microbiological analyses and genotyping of E. coli

All urine specimens associated with asymptomatic and symptomatic infections were analysed microbiologically by the central trial laboratory [4]. Bacterial isolates recovered from urine during UTIs and asymptomatic periods were assessed for antimicrobial resistance in accordance with the standards set by Public Health England and the European Committee on Antimicrobial Susceptibility Testing [4]. Only the single predominant E. coli isolate was banked and stored. Genomic DNA samples extracted from E. coli isolates were sequenced on an Illumina NextSeq500 platform at the Genomic Core Facility, Newcastle University. Assembled genomes and raw data can be accessed using the European Nucleotide Archive (https://www.ebi.ac.uk/ena/browser/home, accession number PRJEB39670). Core genome multilocus sequence typing (MLST) of E. coli isolates was performed using chewBBACA [17] and consisted of 404 loci. The Achtman MLST scheme was used to type the sequenced AnTIC E. coli isolates [18]. PCR-based typing of strains was performed as previously described [19].

Statistical analyses

TLR SNPs

For each SNP, Poisson regression was performed with the number of UTIs as the outcome variable and genotype, coded according to the relevant model of genetic association, as a covariate. Models were adjusted for arm (prophylaxis/no prophylaxis) and coefficients from the regression model are reported along with 95% confidence intervals and p values.

Urine samples

Analyses of urine measurements were performed using the lme package in R v3.6.0. Linear mixed-effects models were fitted for each host agent with a random effect included to account for repeated samples among participants. Each model included the following fixed effects: infection status (level of bacterial growth, dichotomised as <104 or ≥104 colony-forming units [CFU]/ml urine), sex, trial arm (prophylaxis/no prophylaxis), and genotype (for each of TLR1, TLR2, TLR4, and TLR5). Owing to the skewed distributions for the urine measurements, models were fitted to log-transformed data.

Results

Analyses of urinary bacteria

Semi-quantitative urine cultures were carried out for 2075 urine samples from AnTIC participants, of which 1098 were from the no-prophylaxis cohort and 977 were from the prophylaxis cohort. Laboratory records indicated that 51% of the no-prophylaxis urine samples were culture-negative or had no significant bacterial growth (<104 CFU/ml urine), compared to 65% of the prophylaxis samples. Positive urine samples (≥104CFU/ml urine) from both study arms contained a mix of species, with E. coli the most common bacterium identified (Fig. 1A). While the bacterial profiles of individual participants varied, E. coli was less prevalent among participants receiving prophylaxis treatment (48% of isolates) than among those treated with no prophylaxis (63% of isolates). Treatment data (Fig. 1A) also suggested that prophylaxis involving β-lactam antibiotics and nitrofurantoin selected against E. coli infections.
Fig. 1

Bacterial species isolated from the urogenital tracts of AnTIC participants using clean intermittent self-catheterisation. (A) AnTIC participants submitted urine samples at baseline and 3, 6, 9, and 12 months, and if they sought antibiotic treatment for a suspected urinary tract infection. Microbiological data were extracted from the clinical records of 361 AnTIC participants [4] and stratified according to trial arm (no prophylaxis vs prophylaxis antibiotic treatment), with the prophylaxis group information further stratified to show the impact of cefalexin, nitrofurantoin, and trimethoprim treatments. CIT = Citrobacter sp.; ENB = Enterobacter sp.; KLE = Klebsiella sp.; PSE = Pseudomonas sp.; STR = Streptococcus sp.; ENT = Enterococcus sp.; ESC = Escherichia coli; PRO = Proteus sp.; STA = Staphylococcus sp. (B). Number of sequence types identified in the prophylaxis (blue) and no-prophylaxis (orange) patients carrying multidrug-resistant E. coli.

Bacterial species isolated from the urogenital tracts of AnTIC participants using clean intermittent self-catheterisation. (A) AnTIC participants submitted urine samples at baseline and 3, 6, 9, and 12 months, and if they sought antibiotic treatment for a suspected urinary tract infection. Microbiological data were extracted from the clinical records of 361 AnTIC participants [4] and stratified according to trial arm (no prophylaxis vs prophylaxis antibiotic treatment), with the prophylaxis group information further stratified to show the impact of cefalexin, nitrofurantoin, and trimethoprim treatments. CIT = Citrobacter sp.; ENB = Enterobacter sp.; KLE = Klebsiella sp.; PSE = Pseudomonas sp.; STR = Streptococcus sp.; ENT = Enterococcus sp.; ESC = Escherichia coli; PRO = Proteus sp.; STA = Staphylococcus sp. (B). Number of sequence types identified in the prophylaxis (blue) and no-prophylaxis (orange) patients carrying multidrug-resistant E. coli. The AnTIC trial banked approximately 500 urine-associated E. coli single-colony isolates, 25% of which were randomly chosen and genotyped. The results revealed a mix of sequence types, with ST131 being the most frequently isolated (Supplementary Table 2). Most isolates aligned phylogenetically to clade B2, although clade A, B1, D, E, and F members were also identified.

Antibiotic therapy and emergence of MDR E. coli

Continuous low-dose antibiotic prophylaxis was associated with greater antibiotic resistance and the emergence of MDR uro-associated bacteria. TTo explore this further, a sub-group of 50 participants (13.8% of the patient cohort) and from whom isolates were defined as acquiring MDR [20] were selected for further study (Fig. 2A). These participants were from both the prophylaxis (n = 27) and no-prophylaxis (n = 23) study arms and were identified via retrospective analyses of urine microbiology reports (Fig. 2B). Sets of temporal E. coli isolates (45 samples in total) were available for 16 participants (Fig. 2B, green dots) and these were used to explore urogenital colonisation patterns of the predominant E. coli microflora. Nine of these 16 participants received prophylactic antibiotic treatments including nitrofurantoin (1 patient), trimethoprim (7 patients), and cefalexin (1 patient), while the seven participants in the no-prophylaxis cohort were treated intermittently for acute UTIs with a range of antibiotics. Core genome MLST analyses showed that over the trial period, participants suffering E. coli infections in the no-prophylaxis study arm were generally colonised by more than one predominant E. coli strain; for example, patient 2433 (no prophylaxis) was infected chronologically by strains ST569, ST131, ST1629, ST131, and ST59 (Fig. 1B and Fig. 3). By contrast, participants receiving prophylaxis harboured a single predominant E. coli strain, although these strains differed between individual patients. For example, participants 2470 and 1260 were predominantly colonised by strains ST95 and ST90, respectively.
Fig. 2

Selection of multidrug-resistant (MDR) Escherichia coli isolates for sequencing. (A) Flow chart showing selection of MDR E. coli isolates for DNA sequencing. Microbiological records for AnTIC trial participants were screened for E. coli antibiotic sensitivity profiles. Fifty participants who showed MDR+E. coli after 0–3 months were selected for further study. There were data available for 338 urine samples from these participants, of which 230 were excluded as they were negative for microbiology, the isolates identified were not E. coli, the E. coli isolates identified had not been banked, and/or only one E. coli sample was available, preventing temporal analyses. This resulted in 108 urine samples from 16 patients and 45 E. coli isolates; these isolates were subjected to whole-genome sequencing. (B) Urine microbial profiles for the participants. Each column represents a single patient (50 patients in total) with trial participants grouped according to their respective treatment. Each square within a column represents a urine sample and microbes, if any, identified. White boxes indicate no bacteria detected. Urine samples are arranged in chronological order starting at baseline. The background colour of each column indicates whether patients carried no E. coli or a single isolate (blue), were infrequently colonised with E. coli (purple), or were persistently colonised with E. coli (red). Columns identified by green dots (16 in total) represent patients with sequenced E. coli isolates.

Fig. 3

Timeline analysis of antibiotic therapy and emergence of multidrug-resistant Escherichia coli. Antibiotic therapies, colonisation and infection timelines of 17 patients in no-prophylaxis and prophylaxis treatment arms. Urine sampling is defined by solid vertical lines at baseline (BASE) and 3, 6, 9, 12, and 18 months (MTH). Open circles denote no microbiological record in clinical database. Closed circles denote positive microbiological results recorded as not E. coli or E. coli not available for analysis. Squares denote the time points for antibiotic treatment for symptomatic episodes, with colours representing the antibiotic prescribed (black = cephalosporin; red = co-amoxiclav or amoxicillin; light blue = ciprofloxacin; green = nitrofurantoin; orange = trimethoprim; white = no infection). Two acute infections (participant 2433) are indicated by arrows. For the horizontal timelines for the prophylaxis group, grey denotes cefalexin, orange denotes trimethoprim, and green denotes nitrofurantoin. All E. coli isolates sequenced are identified by their sequence type (ST) using the Achtman multilocus sequence typing scheme. Numbers denote the total number of samples available for each participant and the number of symptomatic infections registered clinically and requiring antibiotics.

Selection of multidrug-resistant (MDR) Escherichia coli isolates for sequencing. (A) Flow chart showing selection of MDR E. coli isolates for DNA sequencing. Microbiological records for AnTIC trial participants were screened for E. coli antibiotic sensitivity profiles. Fifty participants who showed MDR+E. coli after 0–3 months were selected for further study. There were data available for 338 urine samples from these participants, of which 230 were excluded as they were negative for microbiology, the isolates identified were not E. coli, the E. coli isolates identified had not been banked, and/or only one E. coli sample was available, preventing temporal analyses. This resulted in 108 urine samples from 16 patients and 45 E. coli isolates; these isolates were subjected to whole-genome sequencing. (B) Urine microbial profiles for the participants. Each column represents a single patient (50 patients in total) with trial participants grouped according to their respective treatment. Each square within a column represents a urine sample and microbes, if any, identified. White boxes indicate no bacteria detected. Urine samples are arranged in chronological order starting at baseline. The background colour of each column indicates whether patients carried no E. coli or a single isolate (blue), were infrequently colonised with E. coli (purple), or were persistently colonised with E. coli (red). Columns identified by green dots (16 in total) represent patients with sequenced E. coli isolates. Timeline analysis of antibiotic therapy and emergence of multidrug-resistant Escherichia coli. Antibiotic therapies, colonisation and infection timelines of 17 patients in no-prophylaxis and prophylaxis treatment arms. Urine sampling is defined by solid vertical lines at baseline (BASE) and 3, 6, 9, 12, and 18 months (MTH). Open circles denote no microbiological record in clinical database. Closed circles denote positive microbiological results recorded as not E. coli or E. coli not available for analysis. Squares denote the time points for antibiotic treatment for symptomatic episodes, with colours representing the antibiotic prescribed (black = cephalosporin; red = co-amoxiclav or amoxicillin; light blue = ciprofloxacin; green = nitrofurantoin; orange = trimethoprim; white = no infection). Two acute infections (participant 2433) are indicated by arrows. For the horizontal timelines for the prophylaxis group, grey denotes cefalexin, orange denotes trimethoprim, and green denotes nitrofurantoin. All E. coli isolates sequenced are identified by their sequence type (ST) using the Achtman multilocus sequence typing scheme. Numbers denote the total number of samples available for each participant and the number of symptomatic infections registered clinically and requiring antibiotics.

Host responses in CISC patients

In total, 558 urine samples from 144 trial participants were available for analyses, although variable volumes meant that not all samples could be analysed for multiple markers. The results (Fig. 4) suggest that urine concentrations of IL-8 (β =1.233; p < 0.001), NGAL (β = 1.717; p < 0.001), and BD2 (β = 0.258; p = 0.022) were significantly higher in samples characterised by bacterial infection (≥104 CFU/ml) than in samples with no infection (negative culture), but SLPI was significantly lower (β = −0.461; p < 0.001). Statistical analysis revealed no evidence that other variables in the model including sex, age, and antibiotic treatment regimen were significantly associated with alterations in the urinary innate defences except for age (NGAL: β = 0.023; p = 0.014) and sex (male; BD2: β = −0.341; p = 0.044; Supplementary Table 3).
Fig. 4

Urogenital responses in trial participants using clean intermittent self-catheterisation (CISC). IL-8, NGAL, HBD2 and SLPI concentrations in urine samples from CISC users (log scale; bars denote the median values). * p < 0·05; *** p < 0·001. Urine samples: no infection (<104 CFU/ml urine), n = 274; infection (≥104 CFU/ml urine), n = 284.

Urogenital responses in trial participants using clean intermittent self-catheterisation (CISC). IL-8, NGAL, HBD2 and SLPI concentrations in urine samples from CISC users (log scale; bars denote the median values). * p < 0·05; *** p < 0·001. Urine samples: no infection (<104 CFU/ml urine), n = 274; infection (≥104 CFU/ml urine), n = 284.

TLR genotypes, host innate responses, and UTI incidence

Blood samples were collated from 204/361 (56.5%) of the AnTIC participants. Those genotyped for TLR polymorphisms comprised 104 of the 181 participants (57.5%) in the prophylaxis arm and 100 of the 180 participants (55.6%) in the no-prophylaxis arm. TLR allele frequencies (Table 1) were comparable to those reported for a European population [21]. The incidence rates of symptomatic antibiotic-treated UTIs (per person per year) were comparable across the different genotypes for TLR1, TLR2, TLR4, and TLR5 SNPs. Statistical analysis revealed no significant links between TLR genotype and participants’ host responses (Supplementary Fig. 1 and Supplementary Table 3).
Table 1

Incidence rates and incidence rate ratios of symptomatic antibiotic-treated UTIs compared between TLR genotypes (n = 204)a

SNPGenotypeCases, n (%)satUTI incidence rate, per person-year (95% CI)Incidence rate ratio b (95% CI)
TLR1 G1805TGG141 (69)2.0 (1.8–2.3)0.94 (0.69–1.3)
GT/TT63 (31)1.9 (1.6–2.2)
TLR2 G2258AAG193 (95)2.0 (1.8–2.2)1.1 (0.78–1.7)
GG11 (5)2.2 (1.4–3.7)
TLR4 A896GAA175 (86)2.0 (1.8–2.2)0.98 (0.66–1.5)
AG/GG29 (14)2.1 (1.4–3.1)
TLR5 C1174TCC179 (88)2.0 (1.8–2.2)1.0 (0.66–1.5)
CT25 (12)2.1 (1.4–3.1)

SNP = single-nucleotide polymorphism; UTI = urinary tract infection; satUTI = symptomatic antibiotic-treated UTI; CI = confidence interval.

All AnTIC population data were in Hardy-Weinberg equilibrium, as determined via a χ2 test (TLR1, χ2 = 0.001; TLR2, χ2 = 0.160; TLR4, χ2 = 0.270; TLR5, χ2 = 0.864).

Adjusted for arm (prophylaxis vs no prophylaxis).

Incidence rates and incidence rate ratios of symptomatic antibiotic-treated UTIs compared between TLR genotypes (n = 204)a SNP = single-nucleotide polymorphism; UTI = urinary tract infection; satUTI = symptomatic antibiotic-treated UTI; CI = confidence interval. All AnTIC population data were in Hardy-Weinberg equilibrium, as determined via a χ2 test (TLR1, χ2 = 0.001; TLR2, χ2 = 0.160; TLR4, χ2 = 0.270; TLR5, χ2 = 0.864). Adjusted for arm (prophylaxis vs no prophylaxis).

Discussion

CISC provides patients with the independence to periodically fully empty their bladders to mimic normal bladder function, but users often suffer from rUTIs that are debilitating. To try and reduce the incidence of infections, prophylactic antibiotic treatments have been trialled [3] with success [4], although the concomitant increase in antimicrobial resistance remains a concern. The mechanism by which prophylaxis benefits patients has not been explored, although suggestions from the AnTIC trial were that prophylaxis is linked to either the selection and/or host tolerance of less pathogenic bacterial strains. Despite the urogenital microbial diversity shown by AnTIC participants, the trial protocol meant that only E. coli isolates were curated. E. coli genotyping identified multiple lineages that clustered into six phylogenetic groups (A, B1, B2, D, E, and F) that support previous bacterial characterisation studies [10], and MDR uro-associated E. coli were identified from each lineage (Fig. 3 and Supplementary Table 2). Focussing specifically on participants from whom MDR isolates were obtained, results indicate that those receiving prophylactic antibiotics generally harboured the same E. coli MDR strain, while those receiving intermittent antibiotics in response to acute infections were, over time, colonised by different E. coli genotypes (Fig. 1B). Although counterintuitive, harbouring one MDR E. coli strain appeared to be beneficial, as it was associated with a lower number of symptomatic infections (Fig. 3), in agreement with the AnTIC trial outcome [4]. These new observations, although limited to a small subset of participants carrying MDR E. coli (n = 9), suggest that continuous prophylaxis antibiotic treatment can stabilise a patient’s E. coli uromicrobiota, creating a defensive barrier that protects against other uropathogens. While not directly comparable to the deliberate inoculation of UTI-prone individuals with E. coli 83972 to protect against symptomatic infections with more virulent strains [22], the outcome of stable microbial colonisation and a reduction in acute UTI episodes appears very similar. In contrast, uro-associated E. coli MDR isolates recovered from the no-prophylaxis cohort (n = 7) were genetically different, suggesting that these patients were being infected or colonised by different E. coli strains, possibly as a result of their intermittent antibiotic treatment regimens. Therefore, discrete acute antibiotic treatment courses in these CISC patients appeared to select for an unstable E.coli uromicrobiota resulting in the lack of a protective microbial barrier and greater susceptibility to UTIs, with the latter observation again reflective of the AnTIC trial outcome.. Although the study was limited to E. coli and small subsets of preselected CISC users (ie, those carrying MDR E. coli), the colonisation patterns observed help to explain the reduction in UTIs in a subset of participants receiving antibiotic prophylaxis. However, future studies monitoring the uromicrobiota diversity of such patients for periods longer than 12–18 months are needed to consolidate these observations. AnTIC also provided a unique platform to examine the impact of antibiotic treatments on urogenital innate responses to potential infections among CISC patients. Urine analyses for host defence agents showed that the host urothelial responses were robust, regardless of treatment regimen, suggesting that continuous low-dose antibiotic prophylaxis did not have any dampening effects. It has been reported that greater susceptibility to and/or protection from uncomplicated rUTIs is linked to TLR SNPs [14], [23] and data from 204 CISC participants allowed us to examine whether such relationships also exist in those suffering from complicated UTIs. Stratification for TLR genetics and infection status did not support any trends, and no significant associations between TLR polymorphisms and susceptibility to UTIs were detected. This observation suggests that any advantages or disadvantages associated with host TLR genetics were abolished by either structural and/or functional urinary tract abnormalities and/or the introduction of a catheter, albeit for short period of time, into the urinary tract. One suggestion is that the catheters function as conduits that allow direct access to the bladder for bacteria colonising the periurethral regions [24], [25], which immunologically allows uropathogens such as E. coli to circumvent the urothelial TLR defences and facilitates bladder infection. It has also been proposed that uropathogenic E. coli reside in specific bladder niches from which they can seed reinfections. Studies using animal models have reported the presence of such intracellular bacterial communities (IBCs) within urothelial cells [26]. There is some evidence to support these IBC structures in the human bladder of patients with uncomplicated UTIs [27], although this has not been corroborated in CISC patients. If IBCs do exist, then physical tissue damage linked to catheter use could promote the release of these bacteria to facilitate UTI development. However, the strain switching observed in the no-prophylaxis cohort does not lend support to this infection model. More recently, E. coli L-forms have been identified in urine samples from older patients suffering from uncomplicated rUTIs [28], suggesting a novel E. coli reinfection mechanism that potentially warrants further investigation.

Conclusions

In conclusion, these data showed that antibiotic treatments did not impact urogenital responses to infection in AnTIC participants. In addition, host genetics, linked to TLR polymorphisms, played no role in determining either CISC user susceptibility to or protection from recurrent UTIs. However, low-dose prophylactic antibiotic treatments associated with a predominant MDR E. coli population were associated with stable colonisation of the urogenital tract among study participants. : Judith Hall had full access to all the data in the study and takes responsibility for the integrity of the data and the accuracy of the data analysis. Study concept and design: Hall, Pickard, Aldridge. Acquisition of data: Chadwick, Mowbray, Tan, Vallée, Fisher, Walton, Brennand. Analysis and interpretation of data: Aldridge and Tan, Chadwick, Brennand, Mowbray, Fisher, Harding, Hall, Walton. Drafting of the manuscript: Hall, Aldridge, Harding, Walton, Mowbray. Critical revision of the manuscript for important intellectual content: Walton, Harding, Chadwick. Statistical analysis: Chadwick, Fisher, Mowbray, Aldridge, Tan. Obtaining funding: Hall, Pickard. Administrative, technical, or material support: None. Supervision: Hall, Aldridge, Harding, Pickard, Walton. Other: None. Judith Hall certifies that all conflicts of interest, including specific financial interests and relationships and affiliations relevant to the subject matter or materials discussed in the manuscript (eg, employment/affiliation, grants or funding, consultancies, honoraria, stock ownership or options, expert testimony, royalties, or patents filed, received, or pending), are the following: Catherine Mowbray, Aaron Tan, and Phillip D. Aldridge have nothing to disclose. Maxime Vallée is a consultant to GSK outside the submitted work. Christopher Harding has received speaker fees from Astellas, Pfizer, Ferring, Allergan, and Medtronic outside the submitted work; advisory board/consultancy fees from AMS/Boston, Astellas, and Teleflex Medical; and grants from Medtronic, the UK NIHR, and the Urology Foundation. Judith Hall has received funding from the Urology Foundation outside the submitted work. Holly Fisher, Thomas Chadwick, and Catherine Brennand report funding from NIHR/HTA programmes either during the study or outside the submitted work. Holly Fisher reports grants from Intercept Pharmaceuticals outside the submitted work. Katherine E. Walton reports grants from UKNHS/NIHR either during the study or outside the submitted work. The AnTIC trial was funded by NIHR HTA (grant no. 11/72/01). Catherine Mowbray was supported by funding from Newcastle upon Tyne Hospitals NHS Charity (BH161013) and The Rosetrees Trust (A1398/M642) awarded to Judith Hall and Robert S. Pickard, and in part through NIHR grant number 11/72/01. Aaron Tan is a self-funded PhD student aided by Newcastle University ORS funding. Maxime Vallée was supported by EAU and AFU Funding (ESUP Scholarship S-02-2018) and Association Française D’Urologie (Bourse AFU 2017). The study sponsors approved the study design and sample analyses, but had no role in collection of samples, analysis and interpretation of the data, or preparation and review of the manuscript. A portion of this work will be presented in February 2021 at the ASCO GU Symposium.
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5.  Multidrug-resistant, extensively drug-resistant and pandrug-resistant bacteria: an international expert proposal for interim standard definitions for acquired resistance.

Authors:  A-P Magiorakos; A Srinivasan; R B Carey; Y Carmeli; M E Falagas; C G Giske; S Harbarth; J F Hindler; G Kahlmeter; B Olsson-Liljequist; D L Paterson; L B Rice; J Stelling; M J Struelens; A Vatopoulos; J T Weber; D L Monnet
Journal:  Clin Microbiol Infect       Date:  2011-07-27       Impact factor: 8.067

6.  Antibacterial perineal washing for prevention of recurrent urinary tract infections.

Authors:  A S Cass; G W Ireland
Journal:  Urology       Date:  1985-05       Impact factor: 2.649

7.  A prospective study of risk factors for symptomatic urinary tract infection in young women.

Authors:  T M Hooton; D Scholes; J P Hughes; C Winter; P L Roberts; A E Stapleton; A Stergachis; W E Stamm
Journal:  N Engl J Med       Date:  1996-08-15       Impact factor: 91.245

8.  Association of TLR2 gene Arg753Gln polymorphism with urinary tract infection in children.

Authors:  Y Tabel; A Berdeli; S Mir
Journal:  Int J Immunogenet       Date:  2007-12       Impact factor: 1.466

Review 9.  Epidemiology of urinary tract infections: incidence, morbidity, and economic costs.

Authors:  Betsy Foxman
Journal:  Am J Med       Date:  2002-07-08       Impact factor: 4.965

10.  Toll-like receptor polymorphisms and susceptibility to urinary tract infections in adult women.

Authors:  Thomas R Hawn; Delia Scholes; Shuying S Li; Hongwei Wang; Yin Yang; Pacita L Roberts; Ann E Stapleton; Marta Janer; Alan Aderem; Walter E Stamm; Lue Ping Zhao; Thomas M Hooton
Journal:  PLoS One       Date:  2009-06-22       Impact factor: 3.240

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