Sensitivity Pattern Research Articles

Antibiotic sensitivity pattern of deep skin and soft tissue infections in Pakistan.

Objective: To determine the antibiotic spectrum of deep skin and soft tissue infections in Pakistan. Study Design: Cross-sectional study. Setting: Department of Dermatology at Madinah Teaching Hospital, Faisalabad. Period: June, 2023 to December 2023. Methods: Inclusion criteria covered consenting patients aged 15-60, excluding those with specific conditions. The study aimed to ascertain antibiotic sensitivity patterns in deep skin and soft tissue infections. Ethical approval was obtained, and subjects meeting criteria were enrolled after informed consent, contributing valuable insights into healthcare-associated infections. Results: Examining 60 patients, the age distribution indicates a prevalent cohort up to 50 years (61.7%), highlighting potential health concerns in earlier years. Those above 50 constitute 38.3%, signifying distinct challenges in older age. With 61.7% males, Gram stain analysis reveals microbial diversity. Notably, Ciprofloxacin (90%) and Cefipime (98.3%) exhibit high resistance, while Cephradine (48.3%) and Cefoxitin (20%) show sensitivity. Meropenem and Vancomycin display moderate resistance (28.3% and 25%), while Tigecycline (10%) and Teicoplanin (1.7%) exhibit lower resistance, offering insights for effective treatment strategies. Conclusion: Our study reveals notable antibiotic resistance, with Ciprofloxacin (90%) and Cefipime (98.3%) exhibiting high resistance. Conversely, Cephradine (48.3%) and Cefoxitin (20%) show sensitivity, guiding tailored treatment strategies for deep skin and soft tissue infections.

Trends and antibiotic susceptibility patterns of diarrhoeal pathogens - experience over 14 years in southern India.

Introduction. Enteric pathogens contribute significantly to morbidity in a developing country such as India. Early and prompt diagnosis of diarrhoeal diseases can reduce the mortality rate, particularly in children. The pattern of sensitivity to antimicrobials for the common pathogens can vary from time to time. The present study was conducted to study the pathogen distribution and antimicrobial susceptibility pattern during the study period (January 2010 to December 2023). Hypothesis/gap statement. Studying the changing trend in the antimicrobial sensitivity pattern of diarrhoeal pathogens over a decade can help to plan future treatment options. Aim. This study was undertaken to provide insights into the changing pattern of pathogen distribution and antimicrobial susceptibility for enteric pathogens over 14 years. Methods. A retrospective observational cohort analysis was conducted on all the stool pathogens isolated from the samples received in the microbiology department of a tertiary care hospital from 2010 to 2023. The demographic details, stool microscopy, culture reports, and antimicrobial susceptibility patterns were noted. Results. A total of 18 336 stool specimens were received in the microbiology laboratory between January 2010 and December 2023, of which 1354 specimens had diarrhoeal pathogens grown in culture. Out of these 1354 specimens, 591 (44%) had Salmonella, 471 (35%) Shigella, 181 (13%) Vibrio cholerae, and 80 (6%) Aeromonas species. Among these pathogens, susceptibility to ceftriaxone was seen in 93% (552 isolates) of Salmonella species, 89% (420 isolates) of Shigella species, and 95% (171 isolates) of Vibrio cholerae; 91% (73 isolates) of Aeromonas species were susceptible to chloramphenicol. Some major parasites were also observed on microscopy. Conclusion. Timely diagnosis of diarrhoeal pathogens can be life-saving for patients at the extremes of age, i.e. in children and the elderly. Pathogens can exhibit a changing susceptibility pattern to antibiotics, which should be regularly observed to plan future therapy.

Bacteriological profile and antibiotic sensitivity pattern of bloodstream infections from a teaching institution in Eastern Uttar Pradesh, North India.

Bloodstream infections (BSIs), encompassing both self-limiting bacteremia and potentially fatal septicaemia, make up the majority of healthcare-associated ailments worldwide. The organisms encountered are mostly multidrug-resistant (MDROs), leading to increased hospital stays. Our study aims to collect data about blood culture isolates from a medical college in eastern Uttar Pradesh, India. A retrospective analysis of blood culture isolates obtained at our laboratory for ten months from patients with clinical suspicion of sepsis or infection with the possibility of haematogenous spread was done. We only considered consecutive and patient-specific, non-duplicate isolates. Blood samples were initially incubated in BacT/ALERT® and then manually processed once they flagged positive. A total of 1,033 blood samples were received, of which 217 (21%) showed the growth of a pathogenic organism. The positivity rate varied significantly across different age groups, locations, and departments (P value < 0.001). It was higher among in-patients, those with central venous access, and patients with diabetes mellitus (DM). Staphylococcus aureus [n = 105, 48.38%] was isolated most commonly, with a high prevalence of methicillin resistance (83%). Enterococcus demonstrated a high degree of resistance. MDROs accounted for 68% of the detected Gram-negatives. This study comprehensively analyses blood culture results from a diverse group of patients and emphasizes the association between risk factors and positive blood cultures. Gram-positive and Gram-negative isolates demonstrated low sensitivity to common antibiotics, urging vigilant monitoring and specific therapy. Our study reveals important insights guiding clinical practices, antimicrobial stewardship, and infection control strategies.

Detection of Antibiotic Resistance Genes in Escherichia coli Isolated from Chicken Eggs

Total 150 chicken eggs were randomly collected from farms, households, and markets of Rajshahi and Naogaon districts. Isolation and identification of E. coli was done by using cultural and staining characteristics, and biochemical properties. Antibiotic sensitivity assay was also performed for the isolated E. coli by using disc diffusion method. Characterization and detection of antibiotic resistance genes in E. coli isolates were done through PCR analysis. Prevalence of E. coli was 30.00% in chicken eggs in Rajshahi and Naogaon districts. Results of antibiotic sensitivity patterns of the isolated E. coli showed 57.78%, 33.33%, 31.11%, 28.89%, 26.67%, 17.78%, 15.56%, 13.33%, 13.33%, and 11.11% resistance to ciprofloxacin, doxycycline, oxytetracycline, ceftriaxone, amoxycillin, erythromycin, levofloxacin, enrofloxacin, gentamycin, and neomycin, respectively. The isolates also showed 94.44%, 82.22%, 80.00%, 77.78%, 66.67%, 60.00%, 55.56%, 48.89%, 46.67%, and 33.33% sensitive to neomycin, enrofloxacin, erythromycin, levofloxacin, gentamycin, ceftriaxone, oxytetracycline, doxycycline, amoxicillin, and ciprofloxacin, respectively. All 45 phenotypic identified isolates were confirmed as E. coli by PCR analysis. Genotypic identified isolates of E. coli were further characterized by PCR to detect antibiotic resistance genes. Out of 45 E. coli isolates 37 (82.22%) showed tetracycline resistance (tetA) gene, 32 (71.11%) showed tetracycline resistance (tetB) gene, and interestingly all 45 (100%) isolates showed quinolone group resistance (gyrA) gene by PCR analysis. J. of Sci. and Tech. Res. 5(1): 135-142, 2023

Cost-consequence analysis of computer vision-based skin prick tests: implications for cost containment in Switzerland

BackgroundSkin prick tests (SPTs), or intraepidermal tests, are often the first diagnostic approach for people with a suspected allergy. Together with the clinical history, SPTs allow doctors to draw conclusions on allergies based on the sensitization pattern. The purpose of this study is to investigate the potential cost consequences that would accrue to a Swiss University hospital after the adoption of computer vision-based SPTs.MethodsWe conducted a cost-consequence analysis from a hospital’s perspective to evaluate the potential cost consequences of using a computer vision-based system to read SPT results. The patient population consisted of individuals who were referred to the allergology department of one of the five university hospitals in Switzerland, Inselspital, whose allergology department averages 100 SPTs a week. We developed an early cost-consequence model comparing two SPT techniques; computer vision-based SPTs conducted with the aid of Nexkin DSPT and standard fully manual SPTs. Probabilistic sensitivity analysis and additional univariate sensitivity analyses were used to account for uncertainty.ResultsThe difference in average cost between the two alternatives from a hospital’s perspective was estimated to be CHF 7 per SPT, in favour of the computer vison-based SPTs. Monte Carlo probabilistic simulation also indicated that SPTs conducted using the computer vision-based system were cost saving compared to standard fully manual SPTs. Sensitivity analyses additionally demonstrated the robustness of the base case result subject to plausible changes in all the input parameters, with parameters representing the costs associated with both SPT techniques having the largest influence on the incremental cost. However, higher sensitization prevalence rates seemed to favour the more accurate standard fully manual SPTs.ConclusionAgainst the backdrop of rising healthcare costs especially in Switzerland, using computer-aided or (semi) automated diagnostic systems could play an important role in healthcare cost containment efforts. However, results should be taken with caution because of the uncertainty associated with the early nature of our analysis and the specific Swiss context adopted in this study.

Expanding the repertoire of Antibody Drug Conjugate (ADC) targets with improved tumor selectivity and range of potent payloads through in-silico analysis.

Antibody-Drug Conjugates (ADCs) have emerged as a promising class of targeted cancer therapeutics. Further refinements are essential to unlock their full potential, which is currently limited by a lack of validated targets and payloads. Essential aspects of developing effective ADCs involve the identification of surface antigens, ideally distinguishing target tumor cells from healthy types, uniformly expressed, accompanied by a high potency payload capable of selective targeting. In this study, we integrated transcriptomics, proteomics, immunohistochemistry and cell surface membrane datasets from Human Protein Atlas, Xenabrowser and Gene Expression Omnibus utilizing Lantern Pharma's proprietary AI platform Response Algorithm for Drug positioning and Rescue (RADR®). We used this in combination with evidence based filtering to identify ADC targets with improved tumor selectivity. Our analysis identified a set of 82 targets and a total of 290 target indication combinations for effective tumor targeting. We evaluated the impact of tumor mutations on target expression levels by querying 416 genes in the TCGA mutation database against 22 tumor subtypes. Additionally, we assembled a catalog of compounds to identify potential payloads using the NCI-Developmental Therapeutics Program. Our payload mining strategy classified 729 compounds into three subclasses based on GI50 values spanning from pM to 10 nM range, in combination with sensitivity patterns across 9 different cancer indications. Our results identified a diverse range of both targets and payloads, that can serve to facilitate multiple choices for precise ADC targeting. We propose an initial approach to identify suitable target-indication-payload combinations, serving as a valuable starting point for development of future ADC candidates.

Microbial Colonization Pattern of Indwelling Double J Stents in Children.

Indwelling double-J-stent (DJ stent) kept post-urological procedures may cause urinary tract infections (UTIs) due to polymicrobial biofilm formation and colonisation. To determine the incidence and microbiological characteristics of DJ stent related UTIs in a paediatric population. Patients under the age of 18 admitted for DJ stent removal following pediatric urological procedures were enrolled into the study. Prior to surgical removal of the DJ stent, a urine sample was collected and the stent was cystoscopically removed under anesthesia. The ends of the stent were inoculated into culture media and incubated up to 48 hours. When growth was observed, an antibiogram was obtained using a panel of anti-microbial agents. The study group consisted of 27 patients (M: F = 23:4) with a mean age of 4.3 years (1 month - 13 years). The commonest indication for stent placement was Pyeloplasty, 19 (70%). Stent colonisation was found in 8 out of 27 patients (29.6%; CI 12-51%) and E.Coli (33%) was the commonest organism. Polymicrobial growth was noted in 4 patients. Organisms were sensitive to Cephaerazone/ Sulbactam and Amikacin, and resistant to other Cephalosporins. All 8 culture positive patients were asymptomatic and a repeat urine culture revealed no growth. Colonisation did not lead to active UTI and post stent removal the urine became sterile. Microbial colonisation was noted in 30% of patients with indwelling DJ stents. Prior knowledge of culture & sensitivity pattern helps to cover the patients with appropriate antibiotic on the day of stent removal.

Epidemiological characteristics and clinical antibiotic resistance analysis of Ureaplasma urealyticum infection among women and children in southwest China

BackgroundThe aim of this study was to investigate the epidemiological characteristics and antibiotic resistance patterns of Ureaplasma urealyticum (UU) infection among women and children in southwest China.MethodsA total of 8,934 specimens, including urogenital swabs and throat swabs were analyzed in this study. All samples were tested using RNA-based Simultaneous Amplification and Testing (SAT) methods. Culture and drug susceptibility tests were performed on UU positive patients.ResultsAmong the 8,934 patients, the overall positive rate for UU was 47.92%, with a higher prevalence observed among women of reproductive age and neonates. The majority of UU positive outpatients were women of reproductive age (88.03%), while the majority of UU positive inpatients were neonates (93.99%). Overall, hospitalization rates due to UU infection were significantly higher in neonates than in women. Further analysis among neonatal inpatients revealed a higher incidence of preterm birth and low birth weight in UU positive inpatients (52.75% and 3.65%, respectively) than in UU negative inpatients (44.64% and 2.89%, respectively), especially in very preterm and extremely preterm neonates. Moreover, the incidence rate of bronchopulmonary dysplasia (BPD) among hospitalized neonatal patients was significantly higher in the UU positive group (6.89%) than in the UU negative group (4.18%). The drug susceptibility tests of UU in the neonatology, gynecology and obstetrics departments exhibited consistent sensitivity patterns to antibiotics, with high sensitivity to tetracyclines and macrolides, and low sensitivity to fluoroquinolones. Notably, UU samples collected from the neonatology department exhibited significantly higher sensitivity to azithromycin and erythromycin (93.8% and 92.9%, respectively) than those collected from the gynecology and obstetrics departments.ConclusionsThis study enhances our understanding of the current epidemiological characteristics and antibiotic resistance patterns of UU infection among women and children in southwest China. These findings can aid in the development of more effective intervention, prevention and treatment strategies for UU infection.

Epidemiological studies and antifungal sensitivity pattern of clinical isolates of dermatophytes from localized cases of canine dermatophytosis

Epidemiological studies and antifungal sensitivity pattern of clinical isolates of dermatophytes from localized cases of canine dermatophytosis

Precision medicine in practice: unravelling the prevalence and antibiograms of urine cultures for informed decision making in federal tertiary care- a guide to empirical antibiotics therapy.

Urinary tract infections (UTIs), one of the most prevalent bacterial infections, are facing limited treatment options due to escalating concern of antibiotic resistance. Urine cultures significantly help in identification of etiological agents responsible for these infections. Assessment of antibiotic susceptibility patterns of these bacteria aids in tackling the emerging concern of antibiotic resistance and establishment of empirical therapy guidelines. Our aim was to determine various agents responsible for urinary tract infections and to assess their antibiotic susceptibility patterns. This cross-sectional study was performed over a period of six months from January 2023 to July 2023 in Department of Microbiology of Pakistan Institute of Medical Sciences (PIMS). Out of 2957 positive samples, Gram negative bacteria were the most prevalent in 1939 (65.6%) samples followed by Gram positive bacteria in 418 (14.1%) and Candida spp. in 269 (9.1%) samples. In gram negative bacteria, Escherichia coli (E. coli) was the most prevalent bacteria isolated from 1070 samples (55.2%) followed by Klebsiella pneumoniae in 397 samples (20.5%). In Gram positive bacteria, Enterococcus spp. was the most common bacteria in 213 samples (51%) followed by Staphylococcus aureus in 120 samples (28.7%). Amikacin was the most sensitive drug (91%) for Gram negative bacteria. Gram positive bacteria were most susceptible to linezolid (97%-100%). The generation of a hospital tailored antibiogram is essential for the effective management of infections and countering antibiotic resistance. By adopting antimicrobial stewardship strategies by deeper understanding of sensitivity patterns, we can effectively combat antibiotic resistance.

Antibiotic Sensitivity Patterns of Bacteria Isolated from Urinary Tract Infections of Pregnant Women in Sabratha City

Antibiotic Sensitivity Patterns of Bacteria Isolated from Urinary Tract Infections of Pregnant Women in Sabratha City

Impact of Toners on Face Microbiota: A Pilot Study

Consciousness of facial care among all age groups has become a global demand. In this scenario Toner becomes a game-changer adding formula to remove impurities, prepares the skin for next skincare steps, balances the pH levels, and restores moisture which is essential for maintaining a healthy and vibrant complexion. As our face harbours a diverse microflora regularly, such products should be tested for their antimicrobial efficacies to establish a scientific bridge. Hence, our study aimed to evaluate the antimicrobial effects of some popular toners against face isolates. For this study, bacteria were isolated from the face of ten persons and identified partially through cultural, microscopic and biochemical observations. Also the antibiotic sensitivity pattern of those face microflora was studied against different antibiotics. The isolates were resistant towards Chloramphenicol, Ampicillin, Amoxicillin, Penicillin and Cefixime, however they were found sensitive towards Kanamycin, Gentamycin, Ciprofloxacin, Tetracycline, and Azithromycin. For the key work nine numbers of most accepted toners were selected to check their antimicrobial activities against those isolates. Biotique toner showed excellent antimicrobial activity against all the isolates. Hence it is recommended to add toners to every day practices to prevail over microbial accumulation on face leading to various discomforts.

Airborne organic pollutants impact microbial communities in temperate and Antarctic seawaters

Airborne Organic Pollutants (AOPs) reach remote oceanic regions after long range atmospheric transport and deposition, incorporating into natural microbial communities. This study investigated the effects of AOPs on natural microbial communities of the Mediterranean Sea, the Atlantic Ocean and the Bellingshausen Sea, by assessing the impact of both non-polar and polar AOPs on cell abundances, chlorophyll a concentrations and cell viabilities of different microbial groups. Our results indicate that almost all groups, except flagellates in the Bellingshausen Sea, were significantly affected by AOPs. While no significant differences in chlorophyll a concentrations were observed between non-polar and polar AOPs, significant variations in cell abundances were noted. Cell death occurred at AOP concentrations as low as five times the oceanic field levels, likely due to their high chemical activity. Cyanobacteria in temperate waters exhibited the highest sensitivity to AOPs, whereas medium and larger diatoms in the Bellingshausen Sea were more affected than smaller diatoms or flagellates, contrary to the expected size-related sensitivity trend. Additionally, microorganisms in temperate waters were more sensitive to the polar fraction of AOPs compared to the non-polar fraction, which showed an inverse sensitivity pattern. This differential sensitivity is attributed to variations in the ratio of polar to non-polar AOPs in the respective environments. Our findings underscore the varying impacts of AOPs on marine microbial communities across different oceanic regions.

Kidney Paired Donation-European Transnational Experience in Adults and Opportunities for Pediatric Kidney Transplantation.

Live donor kidney transplantation is considered the optimal choice for renal replacement therapy, providing established benefits, such as superior patient survival and improved quality of life. However, immunological challenges, including ABO blood group incompatibility and, particularly, donor-specific HLA antibodies, may impact long-term outcomes considerably or even prevent safe direct transplantation with the intended donor. In this review, the authors discuss kidney paired donation (KPD) as a viable strategy to overcome immunological barriers to living donation through organ exchanges. We thereby lay special focus on the Czech-Austrian transnational KPD program. While the benefits of KPD programs are well established for adult recipients, recent data suggest that this may hold true also for pediatric patients. Complex algorithms, considering factors like the intricate patterns of HLA sensitization, play a pivotal role in predicting suitable matches, but for pediatric patients also non-immunological factors including age and weight match may play a role. As pool size proves crucial for program efficacy, several countries in Europe have now initiated transnational collaborations to maximize match rates. Among those, the Czech-Austrian transnational joint program, established in 2015 and now expanded to a cooperation with the Israel transplant program to further increase transplant rates, represents a successful example. KPD programs, with their innovative approaches and international partnerships, hold promise for enhancing outcomes and addressing the increasing demand for kidney transplantation.

Antibiotic Sensitivity and Resistance Patterns of Uropathogens in Peshawar, Pakistan

Antibiotic Sensitivity and Resistance Patterns of Uropathogens in Peshawar, Pakistan

Assessment of future drought sensitivity shift associated with crop yield loss risk in the Anthropocene

ABSTRACT This study proposed a framework using artificial neural networks (ANNs), the designed residual regression method, and probabilistic indexing, for drought sensitivity shift analysis, associated with future yield loss risk in Anthropocene. The temporal assessment of the drought index (standardized precipitation evapotranspiration index, SPEI) illustrated prevalent occurrence of mild to moderate drought with a fluctuating trend. Furthermore, the optimal ANN model, with R2 = 0.86 for training and 0.7 for testing, was used to project yield for future analysis. The projected spatial changes in drought sensitivity patterns suggest most of the area will experience an increased sensitivity to drought in the far future (2036–2050). The estimated probability loss under the different risk levels defined by the yield reduction rate was 6.2–55.5%. Furthermore, the spatial distribution of the designed risk index (IR) revealed the districts with the highest probability of vulnerability and showed a probable increase in future vulnerability.

Rapid Learning of Temporal Dependencies at Multiple Timescales.

Our environment contains temporal information unfolding simultaneously at multiple timescales. How do we learn and represent these dynamic and overlapping information streams? We investigated these processes in a statistical learning paradigm with simultaneous short and long timescale contingencies. Human participants (n = 96) played a game where they learned to quickly click on a target image when it appeared in one of nine locations, in eight different contexts. Across contexts, we manipulated the order of target locations: at a short timescale, the order of pairs of sequential locations in which the target appeared; at a longer timescale, the set of locations that appeared in the first versus the second half of the game. Participants periodically predicted the upcoming target location, and later performed similarity judgments comparing the games based on their order properties. Participants showed context-dependent sensitivity to order information at both short and long timescales, with evidence of stronger learning for short timescales. We modeled the learning paradigm using a gated recurrent network trained to make immediate predictions, which demonstrated multilevel learning timecourses and patterns of sensitivity to the similarity structure of the games that mirrored human participants. The model grouped games with matching rule structure and dissociated games based on low-level order information more so than high-level order information. The work shows how humans and models can rapidly and concurrently acquire order information at different timescales.

Trajectories of egg sensitization in childhood: Two birth cohorts in Asia and Europe.

Hen's egg exposure through impaired skin barrier is considered a major mechanism of sensitization to eggs. However, the impact of filaggrin (FLG) gene loss-of-function mutations on the natural history of egg sensitization lacks consensus among studies. To evaluate the association between the natural course of egg sensitization and FLG mutations. We used Japanese and the UK birth cohorts (CHIBA and MAAS) to identify the longitudinal patterns of egg sensitization until mid-school age and examined the relationship between the identified patterns and FLG mutations. Sensitization was assessed using egg white-specific IgE levels or skin prick tests (SPTs). Egg allergy was confirmed by parental reports and sensitization. Latent class growth analysis identified longitudinal patterns. Three similar patterns of egg sensitization (persistent, early-onset remitting, and no/low grade classes) were identified in both cohorts, with differing prevalence estimates. The proportion of children with egg allergy in the persistent class at 7 or 8 years of age was 23% (CHIBA) and 20% (MAAS). Consistently in both cohorts, FLG mutations were significantly associated only with the persistent class. Children with FLG mutations had an approximately four-fold increased risk of being in the persistent sensitization class (RRRs: 4.3, 95%C.I. (1.2-16.0), p = .03 in CHIBA; 4.3 (1.3-14.7), p = .02 in MAAS). FLG loss-of-function mutations are associated with persistent egg sensitization in both Japanese and European ethnicities, and the mutations might be a potential biomarker for identifying the risk of persistent egg sensitization/allergy in early infancy. Future studies should incorporate oral food challenges to confirm this relationship.

Modernizing the NCI60 Cell Line Screen for Phenotypic Drug Discovery in the 21st Century.

Over the past three decades, high-throughput phenotypic cancer cell line screens have revealed unanticipated small-molecule activities and illuminated connections between tumor genotypes and anticancer efficacy. Founded in 1984, the National Cancer Institute's "NCI60" screen laid the conceptual groundwork for the contemporary landscape of phenotypic drug discovery. NCI60 first operated as a primary bioactivity screen, but molecular characterization of the NCI60 cell line panel and development of a small-molecule sensitivity pattern recognition algorithm (called "COMPARE") have enabled subsequent studies into drug mechanisms of action and biomarker identification. In this issue of Cancer Research, Kunkel and colleagues report an updated version of the NCI60 screen, dubbed "HTS384" NCI60, that better aligns with current cell proliferation assay standards and has higher throughput. Changes include the use of a 384-well plate format, automated laboratory equipment, 3 days of compound exposure, and a CellTiter-Glo luminescent endpoint. To confirm that data from the HTS384 and classic NCI60 screen are comparable, the authors tested a library of 1,003 anticancer agents using both protocols and applied COMPARE to analyze patterns of cell line sensitivities. More than three dozen groups of targeted therapies showed high comparability between screens. Modernization of NCI60, and closer integration with other large-scale pharmacogenomic screens and molecular feature sets, will help this public screening service remain pertinent for cancer drug discovery efforts for years to come. See related article by Kunkel et al., p. 2403.

Escherichia coli novel sequence type 11873 harbours a new CTX-M-15–carrying multidrug resistance type 1/2 hybrid IncC plasmid

ObjectiveThe aim of the current study was to determine the genomic map of the resistance genes of two CTX-M-15–carrying Escherichia coli strains belonging to novel sequence type (ST) 11873. Complete, closed genome sequences of the E. coli strains were obtained by applying a combination of short-read Illumina and long-read Oxford Nanopore-based sequencing. MethodsIsolation of E. coli was performed using ECC CHROMagar and antibiotic sensitivity patterns were determined using Sensititre EUVSEC plates. Whole-genome sequencing was performed for two E. coli strains (3–338 and 5–325) using Illumina MiSeq- and Oxford Nanopore MinION-based sequencing. ResultsThe complete genome of strain 3–338 (GenBank accession no. CP130007–17) was assembled into a circular chromosome of 4.65 Mb and 10 plasmids (between 2 and 148 kb). Strain 5–325 (CP130018–27) exhibited a circular chromosome of 4.7 Mb and 9 plasmids (between 2 and 148 kb). Both strains carried an identical type 1/2 hybrid IncC plasmid (∼148 kb) harbouring multiple antibiotic resistance genes (ARGs), including blaCTX−M-15, blaOXA-1, blaTEM-1, qnrS1, sul2, aphA1, aacC2, mph(A) and floR. This plasmid also carried heavy metal resistance genes, such as chrA and arsR. Strain 5–325 carried an additional IncFIB plasmid (∼78 kb) harbouring additional ARGs, including blaTEM-1, qnrS1, tet(A), dfrA14, sul2, strA and strB. ConclusionsOur study shows the emergence of a CTX-M-15–carrying type 1/2 hybrid IncC plasmid in novel E. coli ST11873. These findings emphasise the need for population-based sewage surveillance for understanding the prevalence of antibiotic resistance in pathogens in order to mitigate the further spread of such resistance factors.