IJID regions最新文献

{"title":"Epidemiological trends in serotypes distribution and antimicrobial resistance in Salmonella from humans in Taiwan, 2004-2022","authors":"Ying-Shu Liao ,&nbsp;Tsai-Ling Lauderdale ,&nbsp;Jui-Hsien Chang ,&nbsp;Shiu-Yun Liang ,&nbsp;Chi-Sen Tsao ,&nbsp;Hsiao Lun Wei ,&nbsp;You-Wun Wang ,&nbsp;Ru-Hsiou Teng ,&nbsp;Yu-Ping Hong ,&nbsp;Bo-Han Chen ,&nbsp;Chien-Shun Chiou","doi":"10.1016/j.ijregi.2024.100372","DOIUrl":"https://doi.org/10.1016/j.ijregi.2024.100372","url":null,"abstract":"<div><h3>Objectives</h3><p><em>Salmonella</em>, a zoonotic pathogen, significantly impacts global human health. Understanding its serotype distribution and antimicrobial resistance is crucial for effective control measures and medical interventions.</p></div><div><h3>Methods</h3><p>We collected <em>Salmonella</em> isolates and demographic data from Taiwanese hospitals between 2004 and 2022, analyzing their serotypes and antimicrobial susceptibility.</p></div><div><h3>Results</h3><p>Among 40,595 isolates, salmonellosis predominated in children aged 0-4 (61.2%) years and among males (55.2%). Males also showed higher rates of extraintestinal infections (18.1% vs 16.0%, <em>P</em> &lt;0.001), particularly, in the ≥65 years age group (52.4%). The top five serovars were <em>S.</em> Enteritidis (32.8%), <em>S.</em> Typhimurium (21.7%), <em>S.</em> Newport (6.2%), <em>S.</em> Stanley (4.7%), and <em>S.</em> Anatum (4.0%). Notably, <em>S</em>. Enteritidis prevalence increased from 23.9% (2004-2005) to 43.6% (2021-2022). Antimicrobial resistance was high, with a 51.6% multidrug resistance (MDR) rate. Disturbingly, MDR rates exceeded 90% in serovars Albany, Schwarzengrund, Choleraesuis, and Goldcoast. Resistance to key therapeutic agents, azithromycin, cefotaxime, and ciprofloxacin, exhibited concerning upward trends, and the surge in cefotaxime and ciprofloxacin resistance was closely linked to the emergence and spread of MDR <em>S.</em> Anatum and <em>S.</em> Goldcoast clones.</p></div><div><h3>Conclusions</h3><p>Prioritizing control measures against <em>S</em>. Enteritidis and closely monitoring the prevalence and spread of MDR clones are imperative to mitigate <em>Salmonella</em> infections in Taiwan.</p></div>","PeriodicalId":73335,"journal":{"name":"IJID regions","volume":null,"pages":null},"PeriodicalIF":0.0,"publicationDate":"2024-05-01","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"https://www.sciencedirect.com/science/article/pii/S2772707624000432/pdfft?md5=2122a611279035093580883d57ea169a&pid=1-s2.0-S2772707624000432-main.pdf","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"140951674","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":0,"RegionCategory":"","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"OA","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}

{"title":"Estimating the cost due to resistance against antiretroviral therapies in individuals with HIV: Perspective of the Kingdom of Saudi Arabia","authors":"Wali Ghassan ,&nbsp;Alraddadi Basem ,&nbsp;Albayat Hawra ,&nbsp;Alharbi Ahmad ,&nbsp;Abdulrahman Ahmed Hasan Muaddi ,&nbsp;Asma Mestouri ,&nbsp;Rezk Elaraby ,&nbsp;James Mahon","doi":"10.1016/j.ijregi.2024.100371","DOIUrl":"10.1016/j.ijregi.2024.100371","url":null,"abstract":"<div><h3>Objectives</h3><p>The emergence of resistance to antiretroviral therapy (ART) has an impact on the cost of HIV care. This study aimed to estimate the direct and indirect costs associated with the first episode of drug resistance in individuals with HIV receiving first-line ART.</p></div><div><h3>Methods</h3><p>We developed a cost calculator to estimate the cost of drug resistance over a period of 12 months in the Kingdom of Saudi Arabia. The model inputs (estimated using expert opinion and publicly available sources) included costs associated with testing for resistance, adverse events of a new regimen, and indirect costs.</p></div><div><h3>Results</h3><p>The direct and indirect medical expenses for the year resistance developed were 6980 Saudi Arabian riyal (SAR) and SAR 2862, respectively. The addition of the cost of new ARTs would increase the total annual costs (between SAR 5174 and SAR 34,265 per patient). One-way sensitivity analysis also reported significant impact of initial and switching therapies used after resistance develops on the total costs of resistance per year.</p></div><div><h3>Conclusions</h3><p>There is a significant cost burden associated with drug resistance, which emphasizes the need to select an appropriate initial ART regimen that has a strong genetic barrier and conduct pre-treatment resistance tests (if possible).</p></div>","PeriodicalId":73335,"journal":{"name":"IJID regions","volume":null,"pages":null},"PeriodicalIF":0.0,"publicationDate":"2024-04-25","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"https://www.sciencedirect.com/science/article/pii/S2772707624000420/pdfft?md5=3df1fe992fedadb63ef424e3431f8c6b&pid=1-s2.0-S2772707624000420-main.pdf","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"140776898","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":0,"RegionCategory":"","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"OA","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}

{"title":"Regional variations in antimicrobial susceptibility of community-acquired uropathogenic Escherichia coli in India: Findings of a multicentric study highlighting the importance of local antibiograms","authors":"Meher Rizvi ,&nbsp;Shalini Malhotra ,&nbsp;Jyotsna Agarwal ,&nbsp;Areena H. Siddiqui ,&nbsp;Sheela Devi ,&nbsp;Aruna Poojary ,&nbsp;Bhaskar Thakuria ,&nbsp;Isabella Princess ,&nbsp;Hiba Sami ,&nbsp;Aarti Gupta ,&nbsp;Asfia Sultan ,&nbsp;Ashish Jitendranath ,&nbsp;Balvinder Mohan ,&nbsp;Gunjiganur Shankarappa Banashankari ,&nbsp;Fatima Khan ,&nbsp;Juri Bharat Kalita ,&nbsp;Mannu Jain ,&nbsp;Narendra Pal Singh ,&nbsp;Renu Gur ,&nbsp;Sarita Mohapatra ,&nbsp;David M. Livermore","doi":"10.1016/j.ijregi.2024.100370","DOIUrl":"10.1016/j.ijregi.2024.100370","url":null,"abstract":"<div><h3>Objectives</h3><p>Evidence-based prescribing is essential to optimize patient outcomes in cystitis. This requires knowledge of local antibiotic resistance rates. Diagnostic and Antimicrobial Stewardship (DASH) to Protect Antibiotics (<span>https://dashuti.com/</span><svg><path></path></svg>) is a multicentric mentorship program guiding centers in preparing, analyzing and disseminating local antibiograms to promote antimicrobial stewardship in community urinary tract infection. Here, we mapped the susceptibility profile of <em>Escherichia coli</em> from 22 Indian centers.</p></div><div><h3>Methods</h3><p>These centers spanned 10 Indian states and three union territories. Antibiograms for urinary <em>E. coli</em> from the outpatient departments were collated. Standardization was achieved by regional online training; anomalies were resolved via consultation with study experts. Data were collated and analyzed.</p></div><div><h3>Results</h3><p>Nationally, fosfomycin, with 94% susceptibility (inter-center range 83-97%), and nitrofurantoin, with 85% susceptibility (61-97%), retained the widest activity. The susceptibility rates were lower for co-trimoxazole (49%), fluoroquinolones (31%), and oral cephalosporins (26%). The rates for third- and fourth-generation cephalosporins were 46% and 52%, respectively, with 54% (33-58%) extended-spectrum β-lactamase prevalence. Piperacillin-tazobactam (81%), amikacin (88%), and meropenem (88%) retained better activity; however, one center in Delhi recorded only 42% meropenem susceptibility. Susceptibility rates were mostly higher in South, West, and Northeast India; centers in the heavily populated Gangetic plains, across north and northwest India, had greater resistance. These findings highlight the importance of local antibiograms in guiding appropriate antimicrobial choices.</p></div><div><h3>Conclusions</h3><p>Fosfomycin and nitrofurantoin are the preferred oral empirical choices for uncomplicated <em>E. coli</em> cystitis in India, although elevated resistance in some areas is concerning. Empiric use of fluoroquinolones and third-generation cephalosporins is discouraged, whereas piperacillin/tazobactam and aminoglycosides remain carbapenem-sparing parenteral agents.</p></div>","PeriodicalId":73335,"journal":{"name":"IJID regions","volume":null,"pages":null},"PeriodicalIF":0.0,"publicationDate":"2024-04-25","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"https://www.sciencedirect.com/science/article/pii/S2772707624000419/pdfft?md5=d408d56255d5a172acaf3623fde4ea00&pid=1-s2.0-S2772707624000419-main.pdf","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"140778139","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":0,"RegionCategory":"","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"OA","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}

{"title":"Biofilm-producing and specific antibiotic resistance genes in Pseudomonas aeruginosa isolated from patients admitted to a tertiary care hospital, Bangladesh","authors":"Rubaiya Binte Kabir ,&nbsp;Tasnim Ahsan ,&nbsp;Md. Faizur Rahman ,&nbsp;Mohammad Jobayer ,&nbsp;SM Shamsuzzaman","doi":"10.1016/j.ijregi.2024.100369","DOIUrl":"10.1016/j.ijregi.2024.100369","url":null,"abstract":"<div><h3>Objectives</h3><p>Biofilms are responsible for persistent infections and antimicrobial resistance<em>. Pseudomonas aeruginosa</em> was investigated with its ability to form biofilm by detecting genes responsible for producing biofilms and biofilm-specific antimicrobial resistance. The association between antibiotic resistance and biofilm was investigated.</p></div><div><h3>Methods</h3><p>This cross-sectional study was conducted from July 2017 to December 2018. A total of 446 samples (infected burn, surgical wounds, and endotracheal aspirate) were collected from admitted patients of Dhaka Medical College and Hospital, Bangladesh. <em>P. aeruginosa</em> was isolated and identified by biochemical tests and polymerase chain reaction. Biofilm production by tissue culture plate method followed by detection of biofilm-producing genes (<em>pqsA, pslA, pslD, pslH, pelA, lasR</em>) and biofilm-specific antibiotic resistance genes (<em>ndvB</em>, PA1874, PA1876, PA1877) by polymerase chain reaction were done. Antibiotic susceptibility test was carried out by disk diffusion method; for colistin agar dilution method of minimal inhibitory concentration was followed.</p></div><div><h3>Results</h3><p>Among 232 (52.02%) positive strains of <em>P. aeruginosa</em>, 24 (10.30%) produced biofilms in tissue culture plate. Among biofilm-producing genes, <em>pqsA</em> was the highest (79.17%). <em>pslA</em> and <em>pelA</em> were 70.83%<em>, pslD</em> 45.83%, <em>pslH</em> and <em>lasR</em> 37.5%. Among biofilm-specific antibiotic resistance genes, 16.67% were <em>ndvB</em>, and 8.33% were PA1874 and PA1877. Biofilm-forming strains were significantly resistant to colistin.</p></div><div><h3>Conclusions</h3><p>Detection of biofilm-forming genes may be a good tool for the evaluation of biofilm production, which will help in prompt and better management of chronic or device-associated infections.</p></div>","PeriodicalId":73335,"journal":{"name":"IJID regions","volume":null,"pages":null},"PeriodicalIF":0.0,"publicationDate":"2024-04-25","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"https://www.sciencedirect.com/science/article/pii/S2772707624000407/pdfft?md5=2047b17b95f79ae5bf420e32de614b78&pid=1-s2.0-S2772707624000407-main.pdf","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"140793978","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":0,"RegionCategory":"","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"OA","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}

{"title":"Clinical, phenotypic, and genotypic characteristics of ESBL-producing Salmonella enterica bloodstream infections from Qatar","authors":"Wael Goravey ,&nbsp;Clement K.M. Tsui ,&nbsp;Gawahir A. Ali ,&nbsp;Mostafa Suhail Najim ,&nbsp;Khalid Shunnar ,&nbsp;Emad B. Ibrahim ,&nbsp;Mazen A. Sid Ahmed ,&nbsp;Muna Al Maslamani ,&nbsp;Ali Sultan ,&nbsp;Sini Skariah ,&nbsp;Hamad Abdel Hadi","doi":"10.1016/j.ijregi.2024.100368","DOIUrl":"10.1016/j.ijregi.2024.100368","url":null,"abstract":"<div><h3>Background</h3><p>Resistant <em>Salmonella</em> infections are a major global public health challenge particularly for multidrug-resistant (MDR) isolates manifesting as bloodstream infections (BSIs).</p></div><div><h3>Objectives</h3><p>To evaluate clinical, phenotypic, and genotypic characteristics of extended-spectrum beta-lactamase (ESBL) producing <em>Salmonella enterica</em> BSIs from Qatar.</p></div><div><h3>Methods</h3><p>Phenotypic ESBL <em>Salmonella enterica</em> from adult patients presenting with positive BSIs were collected between January 2019 to May 2020. Microbiological identification and characterization were performed using standard methods while genetic characteristics were examined through whole genome sequencing studies.</p></div><div><h3>Results</h3><p>Of 151 episodes of <em>Salmonella enterica</em> BSI, 15 (10%) phenotypic ESBL isolates were collected. Recent travel was recorded in most cases (80%) with recent exposure to antimicrobials (27%). High-level resistance to quinolines, aminoglycosides, and cephalosporins was recorded (80-100%) while meropenem, tigecycline and colistin demonstrated universal susceptibility. Genomic evaluation demonstrated dominance of serotype <em>Salmonella</em> Typhi sequence type 1 (93%) while antimicrobial resistance genes revealed dominance of aminoglycoside resistance (100%)<em>, qnr</em>S1 quinolones resistance (80%), <em>bla</em>_CTX-M-15 ESBLs (86.7%), and paucity of AmpC resistance genes (6.7%).</p></div><div><h3>Conclusions</h3><p>Invasive MDR <em>Salmonella enterica</em> is mainly imported, connected to patients from high prevalent regions with recent travel and antimicrobial use caused by specific resistant clones. In suspected cases of multidrug resistance, carbapenem therapy is recommended.</p></div>","PeriodicalId":73335,"journal":{"name":"IJID regions","volume":null,"pages":null},"PeriodicalIF":0.0,"publicationDate":"2024-04-20","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"https://www.sciencedirect.com/science/article/pii/S2772707624000390/pdfft?md5=4df17b4b6882595ba3e092f216dcf713&pid=1-s2.0-S2772707624000390-main.pdf","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"140792266","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":0,"RegionCategory":"","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"OA","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}

{"title":"Exploring the dynamics of COVID-19 in a Greenlandic cohort: Mild acute illness and moderate risk of long COVID","authors":"Mie Møller ,&nbsp;Trine Abelsen ,&nbsp;Anna Irene Vedel Sørensen ,&nbsp;Mikael Andersson ,&nbsp;Lennart Friis Hansen ,&nbsp;Christine Dilling-Hansen ,&nbsp;Nikolai Kirkby ,&nbsp;Peter Vedsted ,&nbsp;Kåre Mølbak ,&nbsp;Anders Koch","doi":"10.1016/j.ijregi.2024.100366","DOIUrl":"10.1016/j.ijregi.2024.100366","url":null,"abstract":"<div><h3>Objectives</h3><p>This study aimed to explore how the Greenlandic population experienced the course of both acute and long-term COVID-19. It was motivated by the unique epidemiologic situation in Greenland, with delayed community transmission of SARS-CoV-2 relative to the rest of the world.</p></div><div><h3>Methods</h3><p>In a survey among 310 Greenlandic adults, we assessed the association between previous SARS-CoV-2 infection and overall health outcomes by administering three repeated questionnaires over 12 months after infection, with a response rate of 41% at the 12-month follow-up. The study included 128 individuals with confirmed SARS-CoV-2 infection from January/February 2022 and 182 test-negative controls. Participants were recruited through personal approaches, phone calls, and social media platforms.</p></div><div><h3>Results</h3><p>A total of 53.7% of 162 participants who were test-positive recovered within 4 weeks and 2.5% were hospitalized due to SARS-CoV-2. The most common symptoms were fatigue and signs of mild upper respiratory tract infection. Less than 5% reported sick leave above 2 weeks after infection. Compared with participants who were test-negative, there was an increased risk of reporting fatigue (risk differences 25.4%, 95% confidence interval 8.8-44.0) and mental exhaustion (risk differences 23.4%, 95% confidence interval 4.8-42.2) up to 12 months after a positive test.</p></div><div><h3>Conclusions</h3><p>Our results indicate that during a period dominated by the Omicron variant, Greenlanders experienced a mild acute course of COVID-19, with quick recovery, minimizing the impact on sick leave. Long COVID may be present in Greenlanders, with symptoms persisting up to 12 months after infection. However, it is important to consider the small sample size and modest response rate as limitations when interpreting the results.</p></div>","PeriodicalId":73335,"journal":{"name":"IJID regions","volume":null,"pages":null},"PeriodicalIF":0.0,"publicationDate":"2024-04-14","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"https://www.sciencedirect.com/science/article/pii/S2772707624000377/pdfft?md5=cf1593aefabceb69006c24726cae0c1f&pid=1-s2.0-S2772707624000377-main.pdf","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"140793184","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":0,"RegionCategory":"","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"OA","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}

{"title":"Pakistan's HIV high-risk populations: Critical appraisal of failure to curtail spread beyond key populations","authors":"Hussain Ahmed Raza ,&nbsp;Mohummad Hassan Raza Raja ,&nbsp;Muhammad Mussab Khakwani ,&nbsp;Bushra Jamil","doi":"10.1016/j.ijregi.2024.100364","DOIUrl":"https://doi.org/10.1016/j.ijregi.2024.100364","url":null,"abstract":"<div><p>Pakistan has been a hub of several HIV outbreaks over the last 2 decades, with four major outbreaks being registered since 2018. There has been a recent rise in HIV infections, especially in high-risk populations, mainly consisting of people who inject drugs, men who have sex with men, prisoners, the transgender women community, and female sex workers. Consistently poor infection control practices, unregulated unsafe blood transfusion, questionable ethical practices by healthcare providers, and a general lack of awareness are the main drivers of recent HIV outbreaks, with these issues exacerbated by the presence of untrained health care providers. To stop the spread of HIV systemically and sustainably, aggressive measures need to be taken at all levels by all concerned stakeholders that not only deal with building up testing, tracing, and treatment capabilities but also address underlying grassroots problems that have largely been ignored to date.</p></div>","PeriodicalId":73335,"journal":{"name":"IJID regions","volume":null,"pages":null},"PeriodicalIF":0.0,"publicationDate":"2024-04-07","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"https://www.sciencedirect.com/science/article/pii/S2772707624000353/pdfft?md5=945d8e1d2a15faa345ecd85b499eed7c&pid=1-s2.0-S2772707624000353-main.pdf","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"140605354","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":0,"RegionCategory":"","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"OA","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}

{"title":"Prevalence of Sarcoptes scabiei infestation and its associated factors among primary school children: A school-based cross-sectional survey in the Rufiji district, Tanzania","authors":"Mary Joseph ,&nbsp;Vivian Mushi ,&nbsp;Hoseenu Palilo ,&nbsp;Valeria Silvestri ,&nbsp;Clemence Kinabo ,&nbsp;Irene Mshana ,&nbsp;Suleiman Chombo ,&nbsp;Ismail Ndaile ,&nbsp;Donath Tarimo","doi":"10.1016/j.ijregi.2024.100365","DOIUrl":"https://doi.org/10.1016/j.ijregi.2024.100365","url":null,"abstract":"<div><h3>Objectives</h3><p>This study aimed to investigate the prevalence of <em>Sarcoptes scabiei</em> infestation and its associated factors among primary school children (PSC) in the Rufiji district.</p></div><div><h3>Methods</h3><p>A quantitative school-based cross-sectional study was conducted among 447 PSC in the Rufiji district. The prevalence of scabies among PSC was determined by clinical examination and by microscopic examination of skin samples for the presence of <em>S. scabiei</em>. A structured questionnaire was used to gather data on factors associated with <em>S. scabiei</em> infestation. Descriptive analysis, Fisher's exact, chi-square tests, and logistic regression analysis were used to analyze the data.</p></div><div><h3>Results</h3><p>The prevalence of scabies was 2.0%. Of the assessed factors, only physical contact with a person having itchy skin lesions (Adjusted Odds Ratio [AOR]=4.04, 95%CI 4.39-12.50) and infrequency of changing clothes before laundry (AOR=2.99, 95%CI 1.35-4.94) were significantly associated with scabies. The majority of participants demonstrated low levels of knowledge, with half exhibiting poor attitudes and inappropriate healthcare–seeking behaviors.</p></div><div><h3>Conclusions</h3><p>There was an ongoing transmission of scabies among PSC in the Rufiji district, with the factors associated with the transmission being physical contact with a person who had an itchy skin lesion and the infrequency of changing clothes before laundry. Therefore, there is a need for regular clinical screening and treatment of positive cases with preventive measures on contact and provision of health education.</p></div>","PeriodicalId":73335,"journal":{"name":"IJID regions","volume":null,"pages":null},"PeriodicalIF":0.0,"publicationDate":"2024-04-06","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"https://www.sciencedirect.com/science/article/pii/S2772707624000365/pdfft?md5=a140e5cdb00f80054e239f0aab580765&pid=1-s2.0-S2772707624000365-main.pdf","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"140618352","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":0,"RegionCategory":"","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"OA","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}

{"title":"SARS-CoV-2 variant typing using real-time reverse transcription-polymerase chain reaction–based assays in Addis Ababa, Ethiopia","authors":"Wodneh G/meskel ,&nbsp;Kassu Desta ,&nbsp;Regasa Diriba ,&nbsp;Mahlet Belachew ,&nbsp;Martin Evans ,&nbsp;Vlademir Cantarelli ,&nbsp;Maritza Urrego ,&nbsp;Abay Sisay ,&nbsp;Atsbeha Gebreegziabxier ,&nbsp;Adugna Abera","doi":"10.1016/j.ijregi.2024.100363","DOIUrl":"10.1016/j.ijregi.2024.100363","url":null,"abstract":"<div><h3>Objectives</h3><p>This study aimed to determine the SARS-CoV-2 variants in the first four COVID-19 waves using polymerase chain reaction (PCR)–based variant detection in Addis Ababa, Ethiopia.</p></div><div><h3>Methods</h3><p>A cross-sectional study was conducted using repository nasopharyngeal samples stored at the Ethiopian Public Health Institute COVID-19 testing laboratory. Stored positive samples were randomly selected from the first four waves based on their sample collection date. A total of 641 nasopharyngeal samples were selected and re-tested for SARS-CoV-2. RNA was extracted using nucleic acid purification instrument. Then, SARS-CoV-2 detection was carried out using 10 μl RNA and 20 μl reverse transcription-PCR fluorescent mix. Cycle threshold values &lt;38 were considered positive.</p></div><div><h3>Results</h3><p>A total of 374 samples qualified for B.1.617 Lineage and six spike gene mutation variant typing kits. The variant typing kits identified 267 (71.4%) from the total qualifying samples. Alpha, Beta, Delta, and Omicron were dominantly identified variants from waves I, II, III, and IV, respectively. From the total identified positive study samples, 243 of 267 (91%) of variants identified from samples had cycle threshold values &lt;30.</p></div><div><h3>Conclusions</h3><p>The study data demonstrated that reverse transcription-PCR–based variant typing can provide additional screening opportunities where sequencing opportunity is inaccessible. The assays could be implemented in laboratories performing SARS-CoV-2 molecular testing.</p></div>","PeriodicalId":73335,"journal":{"name":"IJID regions","volume":null,"pages":null},"PeriodicalIF":0.0,"publicationDate":"2024-03-30","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"https://www.sciencedirect.com/science/article/pii/S2772707624000341/pdfft?md5=ade831902fc7cd79a9a262e56bdad848&pid=1-s2.0-S2772707624000341-main.pdf","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"140399305","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":0,"RegionCategory":"","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"OA","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}

{"title":"Risk factors for colonization with extended-spectrum cephalosporin-resistant and carbapenem-resistant Enterobacterales among hospitalized patients in Guatemala: An Antibiotic Resistance in Communities and Hospitals (ARCH) study","authors":"Mark A. Caudell ,&nbsp;Carmen Castillo ,&nbsp;Lucas F. Santos ,&nbsp;Laura Grajeda ,&nbsp;Juan Carlos Romero ,&nbsp;Maria Renee Lopez ,&nbsp;Sylvia Omulo ,&nbsp;Mariangeli Freitas Ning ,&nbsp;Guy H. Palmer ,&nbsp;Douglas R. Call ,&nbsp;Celia Cordon-Rosales ,&nbsp;Rachel M. Smith ,&nbsp;Carolyn T.A. Herzig ,&nbsp;Ashley Styczynski ,&nbsp;Brooke M. Ramay","doi":"10.1016/j.ijregi.2024.100361","DOIUrl":"10.1016/j.ijregi.2024.100361","url":null,"abstract":"<div><h3>Objectives</h3><p>The spread of extended-spectrum cephalosporin-resistant Enterobacterales (ESCrE) and carbapenem-resistant Enterobacterales (CRE) has resulted in increased morbidity, mortality, and health care costs worldwide. To identify the factors associated with ESCrE and CRE colonization within hospitals, we enrolled hospitalized patients at a regional hospital located in Guatemala.</p></div><div><h3>Methods</h3><p>Stool samples were collected from randomly selected patients using a cross-sectional study design (March-September, 2021), and samples were tested for the presence of ESCrE and CRE. Hospital-based and household variables were examined for associations with ESCrE and CRE colonization using lasso regression models, clustered by ward (n = 21).</p></div><div><h3>Results</h3><p>A total of 641 patients were enrolled, of whom complete data sets were available for 593. Colonization with ESCrE (72.3%, n = 429/593) was negatively associated with carbapenem administration (odds ratio [OR] 0.21, 95% confidence interval [CI] 0.11-0.42) and positively associated with ceftriaxone administration (OR 1.61, 95% CI 1.02-2.53), as was reported hospital admission within 30 days of the current hospitalization (OR 2.84, 95% CI 1.19-6.80). Colonization with CRE (34.6%, n = 205 of 593) was associated with carbapenem administration (OR 2.62, 95% CI 1.39-4.97), reported previous hospital admission within 30 days of current hospitalization (OR 2.58, 95% CI 1.17-5.72), hospitalization in wards with more patients (OR 1.05, 95% CI 1.02-1.08), hospitalization for ≥4 days (OR 3.07, 95% CI 1.72-5.46), and intubation (OR 2.51, 95% CI 1.13-5.59). No household-based variables were associated with ESCrE or CRE colonization in hospitalized patients.</p></div><div><h3>Conclusion</h3><p>The hospital-based risk factors identified in this study are similar to what has been reported for risk of health care–associated infections, consistent with colonization being driven by hospital settings rather than community factors. This also suggests that colonization with ESCrE and CRE could be a useful metric to evaluate the efficacy of infection and prevention control programs in clinics and hospitals.</p></div>","PeriodicalId":73335,"journal":{"name":"IJID regions","volume":null,"pages":null},"PeriodicalIF":0.0,"publicationDate":"2024-03-30","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"https://www.sciencedirect.com/science/article/pii/S2772707624000328/pdfft?md5=64b828b11ec8b4ce4735642b53b44768&pid=1-s2.0-S2772707624000328-main.pdf","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"140404805","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":0,"RegionCategory":"","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"OA","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}