Diagnostic microbiology and infectious disease最新文献

{"title":"Establishing quality assurance for COVID-19 antigen tests in the Indo Pacific Region: A multi-site implementation study","authors":"Jacqueline Prestedge ,&nbsp;Marilyn Ninan ,&nbsp;Chan Leakhena Phoeung ,&nbsp;Kennarey Seang ,&nbsp;Garrett Young ,&nbsp;Bouaphanh Khamphaphongphane ,&nbsp;Boualay Norchaleun ,&nbsp;Pamela J Toliman ,&nbsp;Liza Cabuang ,&nbsp;Vonthanak Saphonn ,&nbsp;Jessica Markby ,&nbsp;Kirsten Ridley ,&nbsp;Andrew Vallely ,&nbsp;Philip Cunningham ,&nbsp;Deborah A Williamson","doi":"10.1016/j.diagmicrobio.2024.116677","DOIUrl":"10.1016/j.diagmicrobio.2024.116677","url":null,"abstract":"<div><h3>Background</h3><div>Quality assurance programs (QAPs) are used to evaluate the analytical quality of a diagnostic test and provide feedback to improve quality processes in testing. Rapid diagnostic tests were used in both laboratory and non-laboratory settings to diagnose COVID-19, although varied in reported performance. We aimed to design and implement a QAP for antigen rapid diagnostic tests (Ag-RDTs) for COVID-19 in Cambodia, Lao PDR, and Papua New Guinea.</div></div><div><h3>Methods</h3><div>Inactivated SARS-CoV-2 material derived from cell culture of Wildtype, Delta, and Omicron isolates were used to manufacture 435 quality control (QC) panels (consisting of a single positive and negative sample) and 36 external quality assessment (EQA) panels for use across 15 sites in accordance with provided training and protocols.</div></div><div><h3>Results</h3><div>In total, 369 QC results and 112 EQA results were submitted by electronic reporting or paper forms by two countries. 19·3 % (34/176) positive and 99·5 % (192/193) negative samples were correctly reported in the QC, and 37·5 % (30/80) positive and 97·5 % (39/40) negative samples were correctly reported in the EQA.</div></div><div><h3>Conclusion</h3><div>This QAP demonstrates the importance of operator training and the design of QAP materials, which may have contributed to the high rate of false-negative interpretations in known COVID-19 positive samples. The implementation of this project, to our knowledge the first of its kind in the region and one of only a few globally, emphasised the importance of quality assurance principles, including non-laboratory community testing sites, to promote diagnostic quality for COVID-19 testing.</div></div>","PeriodicalId":11329,"journal":{"name":"Diagnostic microbiology and infectious disease","volume":"111 3","pages":"Article 116677"},"PeriodicalIF":2.1,"publicationDate":"2024-12-30","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"143001939","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":4,"RegionCategory":"医学","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"OA","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}

{"title":"Spontaneous rupture of aortic aneurysm due to Listeria monocytogenes in an immunocompetent patient and review of the literature","authors":"Manon ROBERT ,&nbsp;Marion LETERRIER-PLONG ,&nbsp;Leslie BOUARD ,&nbsp;Boris POSTAIRE ,&nbsp;Marine MORRIER ,&nbsp;Dominique MERRIEN ,&nbsp;Sophie LEAUTEZ-NAINVILLE ,&nbsp;Thomas GUIMARD ,&nbsp;Clémentine COUDON ,&nbsp;Eve-Marie TAKOUDJU","doi":"10.1016/j.diagmicrobio.2024.116673","DOIUrl":"10.1016/j.diagmicrobio.2024.116673","url":null,"abstract":"<div><div>Infectious aneurysms represent &lt;5 % of cases [<span><span>1</span></span>] with a crucial and challenging diagnosis. <em>Staphylococcus, Streptococcus, Enterobacteria</em> are mostly involved but unusual pathogens like <em>Listeria monocytogenes</em> can be responsible. Collecting data of these rare situations allows to improve diagnosis. We report a case of <em>L. monocytogenes</em> aortic aneurysm, at a departmental hospital, in a 77-year-old immunocompetent patient without endovascular material, with an antecedent of colorectal carcinoma in remission and alcoholism, and compared it with literature data. Blood cultures were negative but culture of aortic tissues was positive. Only 19 similarly cases were identified since 1965. Infectious aneurysm represents a serious condition with a difficult diagnosis needing multiple approaches. When an infection is suspected, collection of blood culture and tissue of the aortic wall are needed as well as biomolecular and serological tools for exigent pathogens.</div></div>","PeriodicalId":11329,"journal":{"name":"Diagnostic microbiology and infectious disease","volume":"111 3","pages":"Article 116673"},"PeriodicalIF":2.1,"publicationDate":"2024-12-29","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"142946508","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":4,"RegionCategory":"医学","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}

{"title":"Targeting Pseudomonas aeruginosa PAO1 pathogenicity: The role of Glycyrrhiza glabra in inhibiting virulence factors and biofilms","authors":"Soundhariya G ,&nbsp;Naji Naseef Pathoor ,&nbsp;Karthikeyan Murthykumar ,&nbsp;Pitchaipillai Sankar Ganesh","doi":"10.1016/j.diagmicrobio.2024.116674","DOIUrl":"10.1016/j.diagmicrobio.2024.116674","url":null,"abstract":"<div><div><em>Pseudomonas aeruginosa</em> (<em>P. aeruginosa</em>) is a Gram-negative opportunistic pathogen posing serious risks to immunocompromised individuals due to its virulence factors and biofilm formation. This study evaluated the efficacy of methanol extract of <em>Glycyrrhiza glabra</em> (<em>G. glabra</em>) in mitigating <em>P. aeruginosa</em> PAO1 pathogenesis through in-vitro assays, including Minimum Inhibitory Concentration (MIC), biofilm assay, growth curve analysis, pyocyanin quantification, and molecular docking. The extract inhibited PAO1 growth at 5 mg/mL and demonstrated significant antibiofilm activity at sub-MIC levels, reducing biofilm formation by 50.22 %, 22.13 %, and 11.53 % at concentrations of 1.25 mg/mL, 0.625 mg/mL, and 0.312 mg/mL, respectively. Pyocyanin production was also significantly suppressed. Molecular docking revealed that 4-(4-Trifluoromethyl-benzoylamino)-benzoic acid and betulinic acid, identified in the extract, exhibited strong binding affinities (−6.4 kcal/mol and −6.9 kcal/mol) to the QS regulator 7XNJ. These findings underscore the potential of <em>G. glabra</em> as an antipathogenic agent against <em>P. aeruginosa</em>, warranting further investigation into its clinical applications.</div></div>","PeriodicalId":11329,"journal":{"name":"Diagnostic microbiology and infectious disease","volume":"111 3","pages":"Article 116674"},"PeriodicalIF":2.1,"publicationDate":"2024-12-28","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"142926693","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":4,"RegionCategory":"医学","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}

{"title":"Spontaneous reactivation of resolved HBV infection in the absence of immunosuppression: case report and literature review","authors":"Hatun Ozturk Cerik ,&nbsp;Ozlem Aldemir","doi":"10.1016/j.diagmicrobio.2024.116675","DOIUrl":"10.1016/j.diagmicrobio.2024.116675","url":null,"abstract":"<div><div>It is estimated that two billion people worldwide are infected with hepatitis B. In such cases, patients exposed to the virus may experience HBV-reactivation(HBVr), which is usually due to immunosuppression. It is not anticipated that spontaneous-HBVr will occur in the absence of immunosuppression in resolved HBV. In the literature, only 3 cases with spontaneous-HBVr have been reported in this setting. Our case is an 81-year-old female patient who was hospitalized for intracranial hemorrhage and spontaneous-HBVr was detected on the 24th day of hospitalization. Initially, HBsAg:(-) and anti-HBs were 77.5IU/L. Subsequent follow-up, liver function tests were increased, HBsAg:(+), anti-HBs:(-), and HBV-DNA:2513IU/ml were detected. The patient had several comorbidities such as diabetes-mellitus, hypertension, and chronic-obstructive-pulmonary-disease, but no history of immunosuppressive treatment. Following the diagnosis of spontaneous-HBVr, entecavir was initiated, resulting in the achievement of HBV-DNA negativity. It should be kept in mind that comorbidities like aging, surgery, or diabetes may trigger spontaneous-HBVr.</div></div>","PeriodicalId":11329,"journal":{"name":"Diagnostic microbiology and infectious disease","volume":"111 3","pages":"Article 116675"},"PeriodicalIF":2.1,"publicationDate":"2024-12-28","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"142926564","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":4,"RegionCategory":"医学","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}

{"title":"In vitro activity of omadacycline against geographically diverse rapidly growing nontuberculous mycobacteria (NTM) clinical isolates","authors":"Eva Terschlüsen ,&nbsp;Akio Aono ,&nbsp;Diane M. Anastasiou ,&nbsp;Alisa W. Serio ,&nbsp;Satoshi Mitarai ,&nbsp;Jakko van Ingen","doi":"10.1016/j.diagmicrobio.2024.116663","DOIUrl":"10.1016/j.diagmicrobio.2024.116663","url":null,"abstract":"<div><div>Nontuberculous mycobacteria (NTM) are emerging opportunistic pathogens with limited treatment options due to resistance to multiple antibiotic classes. This study aimed to evaluate the <em>in vitro</em> activity of omadacycline and comparator antibiotics against rapidly growing mycobacteria (RGM) clinical isolates. Minimum inhibitory concentration (MIC) evaluation of RGM clinical isolates was performed by two independent laboratories (EU and Japan). A total of 383 isolates (211 EU, 172 Japan) were evaluated. Omadacycline was active against all RGM species tested. For <em>Mycobacterium abscessus</em> subsp. <em>abscessus</em>, MIC₅₀ and MIC₉₀ values (read at 100 % inhibition) were 1 and 4 µg/mL (EU) and 0.5 and 1 µg/mL (Japan), respectively. <em>Mycobacterium fortuitum</em> and <em>Mycobacterium chelonae</em> both had MIC₉₀ values of 0.5 µg/mL (Japan). Omadacycline has consistent, potent <em>in vitro</em> activity against RGM clinical isolates from 15 geographically diverse countries, and thus warrants additional studies and continued development of omadacycline as a potential treatment option for NTM-related disease.</div></div>","PeriodicalId":11329,"journal":{"name":"Diagnostic microbiology and infectious disease","volume":"111 3","pages":"Article 116663"},"PeriodicalIF":2.1,"publicationDate":"2024-12-27","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"142983070","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":4,"RegionCategory":"医学","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"OA","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}

{"title":"Diagnostic value of SAT-TB in stool and urine samples for intestinal and urinary tuberculosis","authors":"Zhao Wei ,&nbsp;Muhammad Tahir Khan ,&nbsp;Feng Zhiyu ,&nbsp;Wang Min ,&nbsp;Zhang Hong ,&nbsp;Yuan Yuan ,&nbsp;Wu Di ,&nbsp;Chen Zeying ,&nbsp;Huang Xianlin ,&nbsp;Tan Yaoju ,&nbsp;Kuang Haobin","doi":"10.1016/j.diagmicrobio.2024.116672","DOIUrl":"10.1016/j.diagmicrobio.2024.116672","url":null,"abstract":"<div><h3>Background</h3><div>The simultaneous amplification/testing for tuberculosis (SAT-TB) targets specific 16s rRNA for detecting Mycobacterium tuberculosis in real-time.</div></div><div><h3>Objective</h3><div>To evaluate SAT-TB's performance in detecting intestinal and urinary TB using stool and urine samples.</div></div><div><h3>Methods</h3><div>Stool (94) and urine samples (69) (From 2021 to 2022), were collected from pulmonary combined with suspected intestinal or urinary tuberculosis. Simultaneous detection of Mycobacterium tuberculosis was performed using the SAT-TB method, Xpert MTB/RIF assay, and MGIT960 culture.</div></div><div><h3>Results</h3><div>For stool samples, the sensitivity, specificity, and area under the curve (AUC) were 53.33 %, 93.88 %, and 0.736 for SAT-TB; 60 %, 81.63 %, and 0.708 for Xpert; and 40 %, 95.92 %, and 0.680 for MGIT960. For urine samples, the sensitivity, specificity, and AUC for SAT-TB, Xpert, and MGIT960 were 27.27 %, 98.28 %, 0.628; 54.55 %, 96.35 %, 0.755; and 45.45 %, 100 %, 0.727, respectively.</div></div><div><h3>Conclusion</h3><div>ROC analysis indicated that SAT-TB had the highest diagnostic efficacy for stool samples when tested individually.</div></div>","PeriodicalId":11329,"journal":{"name":"Diagnostic microbiology and infectious disease","volume":"111 3","pages":"Article 116672"},"PeriodicalIF":2.1,"publicationDate":"2024-12-26","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"142913885","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":4,"RegionCategory":"医学","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"OA","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}

{"title":"Mycobacterium tuberculosis in hepatic hilum as a cause of erythema induratum of Bazin","authors":"María de las Huertas García Atienza ,&nbsp;Helena Gil Campesino ,&nbsp;Diego García-Martínez de Artola ,&nbsp;Fernando García Machado ,&nbsp;Julia Alcoba Flórez","doi":"10.1016/j.diagmicrobio.2024.116671","DOIUrl":"10.1016/j.diagmicrobio.2024.116671","url":null,"abstract":"<div><div>Erythema induratum of Bazin (EIB) is a rare manifestation of cutaneous tuberculosis, typically associated with active tuberculosis infections. We present the case of a 75-year-old immunocompetent Spanish woman who developed nodular lesions on her lower limbs. Initial differential diagnoses included sporotrichosis, erythema nodosum, Sweet's syndrome, sarcoidosis, and tuberculosis. The cutaneous and hepatic hilum biopsy revealed necrotizing granulomatous lymphadenitis but only the last one tested positive for M<em>. tuberculosis</em>; no evidence of the pathogen was detected in the other clinical samples. The patient was diagnosed with EIB associated with tuberculosis in the hepatic hilum and successfully treated with a standard anti-tuberculosis regimen. This case underscores the importance of considering hepatic involvement in extrapulmonary tuberculosis and the diagnostic challenges it may pose in immunocompetent patients.</div></div>","PeriodicalId":11329,"journal":{"name":"Diagnostic microbiology and infectious disease","volume":"111 3","pages":"Article 116671"},"PeriodicalIF":2.1,"publicationDate":"2024-12-26","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"142913891","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":4,"RegionCategory":"医学","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}

{"title":"Blueprint of a pandemic: Insights from SARS-CoV-2 genomics surveillance in Meghalaya, India","authors":"Phibangipan Warjri,&nbsp;Olisha Sumer,&nbsp;Leader Langbang,&nbsp;Aesukwanmi Kynta,&nbsp;Daminot Pyngrope","doi":"10.1016/j.diagmicrobio.2024.116670","DOIUrl":"10.1016/j.diagmicrobio.2024.116670","url":null,"abstract":"<div><div>The Covid-19 pandemic uncovered several lacunae in healthcare systems exposing global unpreparedness and triggering unprecedented challenges worldwide- necessitating a shift towards mitigation and robust surveillance strategies. Here, we report the use of Whole Genome Sequencing (WGS) to detect SARS-CoV-2 variants in clinical samples of Meghalaya, India, using Oxford Nanopore Technology. SARS-CoV-2 positive samples collected from various districts of Meghalaya from August 2021 to May 2023 were subjected to WGS. Out of a total of 965 samples, Alpha (0.1 %), Delta (47.2 %) and Omicron (52.7 %) variants were detected. The Delta variant affected 53 % of individuals under the age of 18 years, while the Omicron sub variant BA.2 affected all age groups in a similar manner. The study underscores the efficacy of using a user-friendly sequencing device coupled with simplified bioinformatics, enabling remote regions to effectively combat Covid-19. This approach, characterized by rapidity, simplicity and accuracy, holds promise in confronting future health crises.</div></div>","PeriodicalId":11329,"journal":{"name":"Diagnostic microbiology and infectious disease","volume":"111 3","pages":"Article 116670"},"PeriodicalIF":2.1,"publicationDate":"2024-12-26","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"142913884","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":4,"RegionCategory":"医学","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}

{"title":"Pilot study evaluation of the eQUANT™ system for accelerated antimicrobial susceptibility testing of gram-negative organisms directly from positive blood cultures","authors":"Ayman M. Abdelhamed ,&nbsp;Brenda R. Alkins ,&nbsp;Eszter Deak ,&nbsp;Nitin Rajan ,&nbsp;Caryn E. Good ,&nbsp;Adrian Hoyos-Urias ,&nbsp;Simon R. Kimball ,&nbsp;Suzanne Putney ,&nbsp;Angel Moreno ,&nbsp;Oren Knopfmacher ,&nbsp;Niaz Banaei ,&nbsp;Meike Herget ,&nbsp;Paul A. Granato ,&nbsp;Michael R. Jacobs","doi":"10.1016/j.diagmicrobio.2024.116665","DOIUrl":"10.1016/j.diagmicrobio.2024.116665","url":null,"abstract":"<div><div>We describe results from a multicenter pilot study evaluating the eQUANT^TM system for rapid generation of a standardized inoculum (0.5 McFarland equivalent) directly from blood cultures positive for target gram-negative bloodstream pathogens for same-day antimicrobial susceptibility testing (AST) by disk diffusion, MicroScan and Vitek2 methods. Out of 167 blood cultures that met study criteria (monomicrobial with one of 9 target gram-negative species), colony counts from eQUANT suspensions of 164 (98.2 %) were within the acceptable range of 1-2e8 ± 0.6 log₁₀ CFU/mL (2.51×10⁷ to 7.96×10⁸ CFU/mL). Average eQUANT testing time was 72 min and AST results were available an average of 22.3 h earlier compared to next day testing. Overall performance of direct versus next day AST was excellent, with categorical agreement of 97.5 %, 96.9 % and 96.7 %, respectively, by disk diffusion, MicroScan and Vitek methods. For clinical application this could facilitate antibiotic stewardship and provide targeted antibiotic therapy recommendations earlier.</div></div>","PeriodicalId":11329,"journal":{"name":"Diagnostic microbiology and infectious disease","volume":"111 3","pages":"Article 116665"},"PeriodicalIF":2.1,"publicationDate":"2024-12-24","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"142892913","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":4,"RegionCategory":"医学","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"OA","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}

{"title":"First case of Streptococcus suis bacteremia caused by a serotype 14 strain without pig or pork contact in the Netherlands: A case report","authors":"Jaime Brizuela ,&nbsp;Koos Korsten ,&nbsp;Tessel M. van Rossen ,&nbsp;Constance Schultsz","doi":"10.1016/j.diagmicrobio.2024.116669","DOIUrl":"10.1016/j.diagmicrobio.2024.116669","url":null,"abstract":"<div><div><em>Streptococcus suis</em> is a porcine pathogen that causes severe zoonotic infections in humans resulting in meningitis and sepsis. The main risk factors for <em>S. suis</em> zoonotic infections are consumption of raw pork products and direct contact with live pigs or pork, in particular in the presence of skin injuries. Most human infections are caused by clonal complex 1 (CC1) serotype 2 isolates. We describe an unusual case of <em>S. suis</em> bacteraemia caused by a CC1 strain carrying a serotype 14 capsule in a patient without a history of consumption of raw pork products or contact with either pig or pork. The isolate formed a serotype 14 clade with three German serotype 14 strains that has diverged from the main CC1 serotype 2 lineage. This is the first report of a human infection caused by a serotype 14 <em>S. suis</em> in the Netherlands, which in combination with its unknown transmission route and severity of the disease, calls for its notification.</div></div>","PeriodicalId":11329,"journal":{"name":"Diagnostic microbiology and infectious disease","volume":"111 3","pages":"Article 116669"},"PeriodicalIF":2.1,"publicationDate":"2024-12-24","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"142902741","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":4,"RegionCategory":"医学","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"OA","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}