29,922 results match your criteria Journal of clinical microbiology[Journal]


Development of an Enzyme-Linked Immunosorbent assay to detect antibodies targeting the recombinant envelope protein 2 of Mayaro virus.

J Clin Microbiol 2019 Feb 20. Epub 2019 Feb 20.

Virology Research Center, Ribeirão Preto Medical School of University of São Paulo, Ribeirão Preto, São Paulo, Brazil.

Mayaro virus (MAYV) is a neglected arthropod-borne virus (arbovirus) antigenically clustered into the Semliki Forest complex group of genus ( family), maintained in an unclear zoonotic cycle involving mosquitoes from genus as the main vector. The genome is constituted of a positive single-stranded RNA of 11.5kb in length, which contains two genes that encode four non-structural (nsP1 - 4) and five structural (C, E3, E2, 6K, and E1) proteins. Read More

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http://dx.doi.org/10.1128/JCM.01892-18DOI Listing
February 2019

Rapid Emergence, Subsidence, and Molecular Detection of Sequence Type 1193-64 (ST1193-64), a New Disseminated Multidrug-resistant Commensal and Extraintestinal Pathogen.

J Clin Microbiol 2019 Feb 20. Epub 2019 Feb 20.

Division of Pediatric Infectious Diseases, Vanderbilt University Medical Center, Nashville, Tennessee, USA.

sequence type ST1193 is an emerging multidrug-resistant pathogen. We performed longitudinal and cross-sectional surveillance for ST1193 among clinical and fecal isolates from Minneapolis Veterans Affairs Medical Center (VAMC) patients and their household members, other Minnesota centers, and national VAMCs, and compared these ST1193 isolates with archival human and canine ST1193 isolates from Australia (2008). We also developed and validated extensively a novel multiplex PCR assay for ST1193 and its characteristic 64 (type-1 fimbriae adhesin) allele. Read More

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http://dx.doi.org/10.1128/JCM.01664-18DOI Listing
February 2019

Emergence of Parechovirus-A4 CNS Infections among Infants in Kansas City, United States.

J Clin Microbiol 2019 Feb 20. Epub 2019 Feb 20.

Department of Pathology and Laboratory Medicine, Children's Mercy Hospital and Clinics, Kansas City, MO, USA

Among known parechovirus (PeV) types infecting humans, PeV-A3 (formerly HPeV3) and PeV-A1 (formerly HPeV1) are associated with pediatric central nervous system (CNS) infections. The prevalence of PeV-A3 among hospitalized infants with sepsis-like illness and viral CNS infection is well described; however, the contribution of PeV-A4 to infant CNS infection is relatively unexplored. We report the first 11 U. Read More

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http://dx.doi.org/10.1128/JCM.01698-18DOI Listing
February 2019

Evaluation of the ARIES® Assay for Detection and Identification of in Nasopharyngeal Swab Samples.

J Clin Microbiol 2019 Feb 20. Epub 2019 Feb 20.

Clinical Microbiology Service, Department of Laboratory Medicine, Memorial Sloan Kettering Cancer Center, NY, NY

The ARIES® Assay (ARIES BA; Luminex Corporation) has recently received FDA-clearance for the detection and differentiation of and nucleic acid in nasopharyngeal swab (NPS) samples. The objective of this study was to evaluate the performance of the ARIES BA in comparison to the BioFire FilmArray Respiratory Panel (RP). The ARIES BA was evaluated using retrospective, remnant, nasopharyngeal swabs (NPS), previously tested by FilmArray RP. Read More

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http://dx.doi.org/10.1128/JCM.01966-18DOI Listing
February 2019

Development of a multiplexed assay for the detection of protein biomarkers in the urine of patients with visceral leishmaniasis.

J Clin Microbiol 2019 Feb 20. Epub 2019 Feb 20.

DetectoGen Inc., Grafton, MA

Visceral leishmaniasis (VL) is a serious and fatal disease caused by the parasites and The gold standard diagnostic test for VL is the demonstration of parasites or their DNA from spleen, lymph node or bone marrow aspirates. Serological tests exist but cannot distinguish active VL from either prior exposure to the parasites or subsequent to disease treatment. Using mass spectroscopy, we have previously identified three protein biomarkers () in urine of VL patients and developed a sensitive and specific urine-based antigen detection assay for diagnosis of VL that occurs in Brazil (where VL is caused by ). Read More

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http://dx.doi.org/10.1128/JCM.02076-18DOI Listing
February 2019

Reagent-Free Identification of Clinical Yeasts Using Attenuated Total Reflectance Fourier Transform Infrared Spectroscopy.

J Clin Microbiol 2019 Feb 20. Epub 2019 Feb 20.

McGill IR Group, McGill University, Ste-Anne-de-Bellevue, Québec, Canada

Invasive fungal infections by opportunistic yeasts have increased concomitantly with the growth of an immunocompromised patient population. Misidentification of yeasts can lead to inappropriate antifungal treatment and complications. Attenuated total reflectance (ATR) Fourier transform infrared (FTIR) spectroscopy is a promising method for rapid and accurate identification of microorganisms. Read More

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http://dx.doi.org/10.1128/JCM.01739-18DOI Listing
February 2019

Evaluation of mass spectrometry detection of pan-fungal serum disaccharide (MS-DS) for the diagnosis of invasive fungal infections: results from a collaborative study involving six European clinical centres.

J Clin Microbiol 2019 Feb 20. Epub 2019 Feb 20.

Laboratoire de Parasitologie Mycologie, CHU Lille, Univ. Lille, Inserm U995 - LIRIC - Lille Inflammation Research International Centre, F-59000 Lille, France

A mass spectrometry (MS) method that detects a serum disaccharide (MS-DS) was recently described for the diagnosis of invasive fungal infections (IFI). We carried out a European collaborative study to evaluate this assay. Patients with IFI were selected according to the availability of sera obtained around the time that IFI was documented: invasive candidiasis (IC; n=26 patients), invasive aspergillosis (IA; n=19), mucormycosis (MM; n=23). Read More

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http://dx.doi.org/10.1128/JCM.01867-18DOI Listing
February 2019

Insights into the Unique Nature of the East Asian Clade of the Emerging Pathogenic Yeast, .

J Clin Microbiol 2019 Feb 13. Epub 2019 Feb 13.

Mycotic Diseases Branch, Division of Foodborne, Waterborne, and Environmental Diseases, National Center for Emerging and Zoonotic Infectious Diseases, Centers for Disease Control and Prevention, U.S. Department of Health and Human Services, Atlanta, Georgia, USA.

The emerging yeast can be highly drug resistant, cause invasive infections, and large outbreaks. went from an unknown pathogen a decade ago to being reported in over thirty countries on six continents. consists of four discrete clades, based on where the first isolates of the clade were reported: South Asian (Clade I), East Asian (Clade II), African (Clade III), and South American (Clade IV). Read More

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http://dx.doi.org/10.1128/JCM.00007-19DOI Listing
February 2019

Evaluation of the Aptima HCV Quant Dx Assay using Serum and Dried Blood Spots.

J Clin Microbiol 2019 Feb 13. Epub 2019 Feb 13.

Department of Pathology, Stanford University School of Medicine, Stanford, California, United States of America

HCV RNA quantitation is the primary method by which active HCV infections are identified and the response to direct acting antiviral therapy is monitored. This study describes evaluation of the Aptima HCV Quant Dx assay (Aptima HCV) performed on the Panther system. The clinical performance of Aptima HCV was compared to the COBAS AmpliPrep/COBAS TaqMan HCV Test v2. Read More

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http://dx.doi.org/10.1128/JCM.00030-19DOI Listing
February 2019

Development of a standardized Sanger-based method for partial sequencing and genotyping dengue viruses.

J Clin Microbiol 2019 Feb 13. Epub 2019 Feb 13.

Centers for Disease Control and Prevention, National Centers for Emerging and Zoonotic Infectious Diseases, Division of Vector Borne Diseases, Dengue Branch, San Juan, PR

The global expansion of dengue viruses (DENV-1-4) has contributed to the divergence, transmission, and establishment of genetic lineages of epidemiological concern; however, tracking phylogenetic relationships of these virus is not always possible due to inability of standardized sequencing procedures in resource-limited public health laboratories Consequently, public genomic data banks contain inadequate representation of geographical regions and historical periods. In order to improve detection of DENV-1-4 lineages, we report the development of a serotype-specific Sanger-based method standardized to sequence DENV-1-4 directly from clinical samples using universal primers that detect most DENV genotypes. The resulting envelope protein coding sequences are analyzed for genotyping with phylogenetic methods. Read More

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http://dx.doi.org/10.1128/JCM.01957-18DOI Listing
February 2019

strains with chromosomal deletions evade detection with molecular methods.

J Clin Microbiol 2019 Feb 13. Epub 2019 Feb 13.

Cepheid, Sunnyvale, CA.

Surveillance of circulating microbial populations is critical for monitoring the performance of a molecular diagnostic test. In this study, we characterized 31 isolates of (Group B GBS) from several geographic locations in the United States and Ireland that contain deletions in or adjacent to the region of the chromosome that encodes the hemolysin gene , the region targeted by the Xpert® GBS and GBS LB assays. PCR-negative, culture-positive isolates were recognized during verification studies of the Xpert GBS assay in 12 laboratories between 2012 and 2018. Read More

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http://dx.doi.org/10.1128/JCM.02040-18DOI Listing
February 2019

Multilocus Variable-Number Tandem-Repeat Analysis of Clusters in Ribotype 027 Isolates and Lack of Association with Clinical Outcomes.

J Clin Microbiol 2019 Feb 13. Epub 2019 Feb 13.

Department of Microbiology and Infectious Disease, Université de Sherbrooke, Sherbrooke, Quebec, Canada

The epidemiology of infection (CDI) has drastically changed since the emergence of the epidemic strain BI/NAP1/027, also known as ribotype 027 (R027). However, the relationship between the infecting strain and clinical outcomes is still debated. We hypothesized that certain subpopulations of R027 isolates could be associated with unfavorable outcomes. Read More

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http://dx.doi.org/10.1128/JCM.01724-18DOI Listing
February 2019

Implementation of semi-automated antimicrobial susceptibility interpretation hardware for nontuberculous mycobacteria may overestimate susceptibility.

J Clin Microbiol 2019 Feb 13. Epub 2019 Feb 13.

Department of Medical Microbiology, Radboud University Medical Center, Nijmegen, the Netherlands

Nontuberculous mycobacteria (NTM) cause severe opportunistic infections and have a rising incidence in most settings. Rising diagnostic need must be met by national reference laboratories, which rely on Clinical & Laboratory Standards Institute (CLSI) guideline approved manual readout of microtiter plates for antimicrobial susceptibility testing (AST) to determine antibiotic minimum inhibitory concentrations (MICs). Interpretation of these plates leads to different outcomes between laboratories. Read More

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http://dx.doi.org/10.1128/JCM.01756-18DOI Listing
February 2019
3.993 Impact Factor

SIMULTANEOUS DETECTION AND DIFFERENTIATION BETWEEN WILD-TYPE AND VACCINE MEASLES VIRUS BY A MULTIPLEX REAL-TIME RT-PCR ASSAY.

J Clin Microbiol 2019 Feb 13. Epub 2019 Feb 13.

Provincial Laboratory for Public Health, Calgary, Alberta, Canada

Measles is one of the most contagious viral respiratory infection that was declared eliminated from Canada in 1998, however measles cases and outbreaks still occur every year through re-introduction from other parts of the world. Laboratory confirmation of measles virus (MV) RNA by real-time polymerase chain reaction provides a definitive diagnosis, and molecular analysis to determine the genotype is the only way to distinguish between the wild-type and vaccine strains. This distinction is important since live attenuated vaccine strains are able to replicate in the patient and can be associated with rash and fever but are poorly transmissible if at all. Read More

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http://dx.doi.org/10.1128/JCM.01828-18DOI Listing
February 2019
3.993 Impact Factor

Separation of plasma from whole blood using the ® Plasma Separation Card: a compelling alternative to dried blood spots for the quantification of HIV-1 viral load.

J Clin Microbiol 2019 Feb 6. Epub 2019 Feb 6.

Roche Diagnostics International AG, Rotkreuz, Switzerland.

Plasma HIV viral load testing is the preferred means of monitoring antiretroviral treatment response. Dried blood spots (DBSs) hold considerable logistical advantages over ethylenediaminetetraacetic acid (EDTA) samples, but more frequently misclassify virological failure and have higher limits of detection (LoD). Plasma separation cards (PSCs) may overcome these limitations. Read More

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http://dx.doi.org/10.1128/JCM.01336-18DOI Listing
February 2019
1 Read

Susceptibility of HCV Genotype 1 through 6 Clinical Isolates to the Pan-genotypic NS3/4A Inhibitor Voxilaprevir.

J Clin Microbiol 2019 Feb 6. Epub 2019 Feb 6.

Gilead Sciences, Inc, Foster City, CA, United States.

Voxilaprevir is a direct-acting antiviral agent (DAA) that targets the NS3/4A protease of hepatitis C virus (HCV). High sequence diversity of HCV and inadequate drug exposure during unsuccessful treatment may lead to the accumulation of variants with reduced susceptibility to DAAs including NS3/4A protease inhibitors such as voxilaprevir. The voxilaprevir susceptibility of clinical and laboratory strains of HCV was assessed. Read More

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http://dx.doi.org/10.1128/JCM.01844-18DOI Listing
February 2019

Comparison of loop-mediated isothermal amplification (LAMP) and real-time polymerase chain reaction (PCR) assays for the detection of in different specimen matrices.

J Clin Microbiol 2019 Feb 6. Epub 2019 Feb 6.

Parasitology Laboratory, Centre for Infectious Diseases and Microbiology, Institute for Clinical Pathology and Medical Research - New South Wales Health Pathology, Westmead Hospital, Westmead, New South Wales, Australia.

can cause disease that ranges from asymptomatic chronic infection to fatal hyperinfection. Diagnosis from stool can be challenging because the most sensitive conventional tests require live larvae to be effective and there can be low larval output in chronic infection. Nucleic acid amplification tests (NAAT) have been developed to complement existing diagnostic methods. Read More

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http://dx.doi.org/10.1128/JCM.01173-18DOI Listing
February 2019
2 Reads

Phylogenomic pipeline validation for foodborne pathogen disease surveillance.

J Clin Microbiol 2019 Feb 6. Epub 2019 Feb 6.

Center for Food Safety & Applied Nutrition, U.S. Food & Drug Administration, 5001 Campus Dr., College, Park, Maryland, USA.

Foodborne pathogen surveillance in the United States is transitioning from strain identification using restriction digest technology (pulse field gel electrophoresis or PFGE) to shotgun sequencing of the entire genome (whole genome sequencing or WGS). WGS requires a new suite of analysis tools, some of which have long histories in academia, but are new to the field of public health and regulatory decision making. Although the general workflow is fairly standard for collecting and analyzing WGS data for disease surveillance, there are a number of differences in how the data are collected and analyzed across public health agencies, both nationally and internationally. Read More

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http://dx.doi.org/10.1128/JCM.01816-18DOI Listing
February 2019

Virulence related genes and co-enteropathogens associated with clinical outcomes of enteropathogenic infections in children from Brazilian semiarid region: a case-control study of diarrhea.

J Clin Microbiol 2019 Feb 6. Epub 2019 Feb 6.

Institute of Biomedicine for Brazilian Semiarid, Federal University of Ceará, Fortaleza, Brazil,1315 Coronel Nunes de Melo, zipcode: 60430-270.

Enteropathogenic (EPEC) is a major cause of diarrhea in children from developing countries and presents high genetic variability. We aimed to characterize EPEC virulence-related gene (VRG) distribution and copathogens associated with diarrhea and nutrition-related outcomes in children from the low-income Brazilian semiarid region. A cross-sectional case-control study of diarrhea was conducted in 1,191 children aged 2-36 months old from the Northeast Region of Brazil. Read More

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http://dx.doi.org/10.1128/JCM.01777-18DOI Listing
February 2019
2 Reads

EPIDEMIOLOGICAL TYPING OF BY WHOLE GENOME MULTI-LOCUS SEQUENCE TYPING.

J Clin Microbiol 2019 Feb 6. Epub 2019 Feb 6.

Institute for Medical Microbiology, Immunology and Hygiene, University of Cologne, Goldenfelsstrasse 19-21, 50935 Köln, Germany.

is an opportunistic bacterial pathogen. It is notorious for its increasing antimicrobial resistance and its potential to cause outbreaks of colonization and infections predominantly in neonatal intensive care units (NICUs). There, its spread requires rapid infection control response. Read More

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http://dx.doi.org/10.1128/JCM.01652-18DOI Listing
February 2019
3.993 Impact Factor

Heat-inactivation renders sputum safe and preserves RNA for downstream molecular tests.

J Clin Microbiol 2019 Feb 6. Epub 2019 Feb 6.

School of Medicine, University of St Andrews, St Andrews, UK.

The World Health Organization End tuberculosis (TB) strategy has called for development of- and increased access to- effective tools for diagnosis and treatment of TB disease. (Mtb), the causative agent of TB is categorized as highly infectious agent. Consequently, diagnostic tests that involve comprehensive manipulation of specimens from presumed tuberculosis cases must be performed in a category three laboratory. Read More

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http://dx.doi.org/10.1128/JCM.01778-18DOI Listing
February 2019
1 Read

Clinical Isolates from South Korea: Identification, Antifungal Susceptibility, and Genotyping.

J Clin Microbiol 2019 Feb 6. Epub 2019 Feb 6.

Department of Laboratory Medicine, Chonnam National University Medical School and Chonnam National University Hospital, Gwangju, Republic of Korea.

is an emerging worldwide fungal pathogen. Over the past 20 years, 61 patient isolates of (4 blood and 57 ear) have been obtained from 13 hospitals in Korea. Here, we reanalyzed those molecularly identified isolates using two matrix-assisted laser desorption ionization time-of-flight mass spectrometry (MALDI-TOF MS) systems, including Biotyper and Vitek MS, followed by antifungal susceptibility testing, sequencing of the gene, and genotyping. Read More

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http://jcm.asm.org/lookup/doi/10.1128/JCM.01624-18
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http://dx.doi.org/10.1128/JCM.01624-18DOI Listing
February 2019
2 Reads

Closing the Brief Case: Meningococcemia Leading to a Diagnosis of Complement Deficiency in a 23-Month-Old.

J Clin Microbiol 2019 Feb 30;57(2). Epub 2019 Jan 30.

Department of Pathology and Laboratory Medicine, Children's Hospital of Philadelphia, Philadelphia, Pennsylvania, USA

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http://dx.doi.org/10.1128/JCM.01516-18DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC6355547PMC
February 2019

The Brief Case: Meningococcemia Leading to a Diagnosis of Complement Deficiency in a 23-Month-Old.

J Clin Microbiol 2019 Feb 30;57(2). Epub 2019 Jan 30.

Department of Pathology and Laboratory Medicine, Children's Hospital of Philadelphia, Philadelphia, Pennsylvania, USA

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http://dx.doi.org/10.1128/JCM.01513-18DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC6355521PMC
February 2019

Answer to February 2019 Photo Quiz.

J Clin Microbiol 2019 Feb 30;57(2). Epub 2019 Jan 30.

Laboratory of Microbiology and Virology, San Raffaele Scientific Institute, Milan, Italy.

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http://dx.doi.org/10.1128/JCM.00175-18DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC6355515PMC
February 2019
1 Read
3.993 Impact Factor

Photo Quiz: Neurological Symptoms in a 74-Year-Old Diabetic Woman Admitted to the Emergency Room.

J Clin Microbiol 2019 Feb 30;57(2). Epub 2019 Jan 30.

Laboratory of Microbiology and Virology, San Raffaele Scientific Institute, Milan, Italy.

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http://dx.doi.org/10.1128/JCM.00160-18DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC6355523PMC
February 2019
1 Read
3.993 Impact Factor

Performance of a novel low-cost, instrument-free plasma separation device for HIV viral load quantification and determination of treatment failure in people living with HIV in Malaysia: a diagnostic accuracy study.

J Clin Microbiol 2019 Jan 30. Epub 2019 Jan 30.

Burnet Institute, Melbourne, Australia.

HIV viral load (VL) testing is the recommended method for monitoring the response of people living with HIV receiving antiretroviral therapy (ART). Availability of and access to standard plasma VL testing in low and middle-income countries (LMICs) is limited by the need to use fresh plasma. Good performing specimen collection methods for HIV VL, which are applicable to resource-constrained settings, are needed. Read More

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http://dx.doi.org/10.1128/JCM.01683-18DOI Listing
January 2019

Evaluation of species Azithromycin CLSI Epidemiological Cutoff Values and Macrolide Resistance Genes.

J Clin Microbiol 2019 Jan 30. Epub 2019 Jan 30.

Caritas Baby Hospital, Bethlehem Palestine.

Azithromycin has been recommended by the American Academy of Pediatrics for treatment of shigellosis in children. In this study 502 species isolated between 2004-2014 were tested for azithromycin epidemiological cutoff values (ECV) by disk diffusion. Azithromycin MIC and the presence of the macrolide resistance genes [)] were determined on all 56 (11. Read More

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http://dx.doi.org/10.1128/JCM.01422-18DOI Listing
January 2019
1 Read
3.993 Impact Factor

Direct identification of pathogens in urine using a specific MALDI-TOF spectra database.

J Clin Microbiol 2019 Jan 30. Epub 2019 Jan 30.

IHU-Méditerranée Infection, Marseille, France

Urinary tract infections are among the most common reasons for antimicrobial treatment, early diagnosis could have a significant impact by enabling rapid administration of the adapted antibiotic and preventing complications. The current delay between sample receipt and pathogen identification is about 24-48 hours, which could be significantly shortened by an accurate direct method. Matrix-assisted laser desorption/ionization time of flight mass spectrometry (MALDI-TOF MS) is already used for the identification of pathogens in clinical laboratories and constitutes a promising tool for direct diagnosis. Read More

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http://dx.doi.org/10.1128/JCM.01678-18DOI Listing
January 2019
1 Read

PCR-based method for serotyping: International Multicenter Validation.

J Clin Microbiol 2019 Jan 30. Epub 2019 Jan 30.

State Key Laboratory for Infectious Disease Prevention and Control, National Institute for Communicable Diseases Control and Prevention, Chinese Center for Disease Control and Prevention, P.O. Box 5, Changping, Beijing, China

is a leading cause of human diarrheal disease worldwide with being the most frequently isolated in developing countries. This serogroup is presently classified into 19 serotypes worldwide. We report here a Multicenter Validation of a Multiplex PCR based-strategy previously developed by Sun et al. Read More

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http://dx.doi.org/10.1128/JCM.01592-18DOI Listing
January 2019
2 Reads

Retrospective analysis of false-positive and disputed rifampin resistance Xpert MTB/RIF assay results in clinical samples from a referral hospital in Hunan, China.

J Clin Microbiol 2019 Jan 23. Epub 2019 Jan 23.

Key Laboratory of RNA Biology, Institute of Biophysics, Chinese Academy of Sciences, Beijing, China.

Concerns about specificity of the Xpert MTB/RIF (Xpert) assay have arisen as false positive errors in the determination of complex (MTBC) infection and rifampin (RIF) resistance in clinical practice have been reported. Here, we investigated 33 cases where patients were determined to be RIF susceptible using the Bactec MGIT 960 (MGIT) culture system but RIF resistant using the Xpert assay. Isolates from two of these patients were found not to have any mutations in the RRDR region of and had good treatment outcomes with first-line anti-TB drugs. Read More

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http://jcm.asm.org/lookup/doi/10.1128/JCM.01707-18
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http://dx.doi.org/10.1128/JCM.01707-18DOI Listing
January 2019
3 Reads

Fluorescent capillary electrophoresis is superior to culture in detecting species from samples of urinary catheters and ureteral stents with mono- or polyfungal biofilm growth.

J Clin Microbiol 2019 Jan 23. Epub 2019 Jan 23.

Molecular and Genetic Laboratory, Centre for Cardiovascular Surgery and Transplantation, Brno 603 00 Czech Republic

Molecular techniques in fungal detection and identification represent an efficient complementary diagnostic tool which is increasingly used to overcome limitations of routinely used culture techniques. The aim of this study was to characterize spp. representation in urine, urinary catheter and ureteral stent biofilm, using rDNA amplification followed by fluorescent capillary electrophoresis (f--PCR-CE), and compare the results with those obtained by culture. Read More

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http://dx.doi.org/10.1128/JCM.01861-18DOI Listing
January 2019

Vaccination of Icelandic children with the 10-valent pneumococcal vaccine leads to a significant herd effect among adults in Iceland.

J Clin Microbiol 2019 Jan 16. Epub 2019 Jan 16.

University of Iceland, Faculty of Medicine, Reykjavík, Iceland

The introduction of pneumococcal conjugate vaccines (PCV) into childhood vaccination programs has reduced carriage of vaccine serotypes and pneumococcal disease. The 10-valent PCV was introduced in Iceland in 2011. The aim of this study was to determine PCV impact on the prevalence of serotypes, genetic lineages and antimicrobial-resistant pneumococci isolated from the lower respiratory tract (LRT) of adults. Read More

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http://jcm.asm.org/lookup/doi/10.1128/JCM.01766-18
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http://dx.doi.org/10.1128/JCM.01766-18DOI Listing
January 2019
7 Reads

Diagnosing invasive pulmonary aspergillosis in hematology patients: a retrospective multicenter evaluation of a novel lateral flow device.

J Clin Microbiol 2019 Jan 16. Epub 2019 Jan 16.

Department of Microbiology and Immunology, KU Leuven, Leuven, Belgium.

Background: Invasive pulmonary aspergillosis (IPA) is a potentially lethal infection in patients with hematological diseases or following allogeneic stem cell transplantation. Early diagnosis is essential as delayed treatment results in increased mortality. Recently, a lateral flow device (LFD) for the diagnosis of IPA was CE-marked and commercialized by OLM Diagnostics. Read More

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http://dx.doi.org/10.1128/JCM.01913-18DOI Listing
January 2019
1 Read

A core genome multilocus sequence typing (cgMLST) scheme for .

J Clin Microbiol 2019 Jan 16. Epub 2019 Jan 16.

Robert Koch- Institute, Division of Nosocomial Pathogens and Antibiotic Resistances, Wernigerode, Germany.

Among enterococci, occurs ubiquitously, with the highest incidence of human and animal infections. The high genetic plasticity of complicates both molecular investigations and phylogenetic analyses. Whole-genome sequencing (WGS) enables unraveling of epidemiological linkages and putative transmission events between humans, animals, and food. Read More

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http://jcm.asm.org/lookup/doi/10.1128/JCM.01686-18
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http://dx.doi.org/10.1128/JCM.01686-18DOI Listing
January 2019
8 Reads

Impact of Gastrointestinal Panel Implementation on Healthcare Utilization and Outcomes.

J Clin Microbiol 2019 Jan 16. Epub 2019 Jan 16.

Department of Pathology & Cell Biology, Columbia University Medical Center, New York, New York

: Polymerase chain reaction (PCR)-based multiplex gastrointestinal (GI) pathogen panels have started to replace stool culture and ova and parasite exam as a rapid and accurate means of diagnosing acute gastroenteritis. However, there are limited data on the impact of panel testing on patient outcomes. The objective of this study was to evaluate the management and healthcare utilization of patients following GI panel compared to conventional stool testing. Read More

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http://dx.doi.org/10.1128/JCM.01775-18DOI Listing
January 2019
7 Reads

Impact of rapid molecular detection of respiratory viruses on clinical outcomes and patient management.

Authors:
Jane Kuypers

J Clin Microbiol 2019 Jan 16. Epub 2019 Jan 16.

Department of Laboratory Medicine, University of Washington, Seattle, WA USA

To determine if rapid molecular testing for respiratory viruses in patients with respiratory illnesses can provide advantages to patients and hospitals, rigorous investigations on the impacts of using these assays are required. Well-conducted studies are needed to inform decisions about implementation of new rapid assays to replace standard molecular testing or to initiate testing in laboratories that are currently not doing molecular tests for respiratory viruses due to the complex nature of standard panels. In this issue of the Journal of Clinical Microbiology, N. Read More

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http://jcm.asm.org/lookup/doi/10.1128/JCM.01890-18
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http://dx.doi.org/10.1128/JCM.01890-18DOI Listing
January 2019
4 Reads

Evaluation of the Accelerate Pheno™ System for identification of clinical isolates and minocycline susceptibility testing.

J Clin Microbiol 2019 Jan 16. Epub 2019 Jan 16.

Division of Infectious Diseases, Center for Innovative Antimicrobial Therapy, University of Pittsburgh School of Medicine, Pittsburgh, Pennsylvania, USA

Pheno™ is a rapid phenotypic bacterial identification and susceptibility testing system which is approved for use with positive blood cultures. is a nosocomial pathogen for which limited treatment options include minocycline in the case of multidrug resistance. Here, we studied the performance of identification and minocycline susceptibility testing by Pheno™ using 101 contemporary spp. Read More

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http://jcm.asm.org/lookup/doi/10.1128/JCM.01711-18
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http://dx.doi.org/10.1128/JCM.01711-18DOI Listing
January 2019
3 Reads

An Automated Immunoblot Method for Detection of IgG Antibodies to Hepatitis C Virus: a Potential Supplemental Antibody Confirmatory Assay.

J Clin Microbiol 2019 Jan 16. Epub 2019 Jan 16.

Division of Viral Hepatitis, National Center for HIV, Hepatitis, STD and Tuberculosis Prevention, Centers for Disease Control and Prevention, Atlanta, GA 30329.

An estimated 41,200 people were newly infected with hepatitis C virus (HCV) in 2016 in the United States. Screening tests for antibodies to HCV may generate up to 32% false positivity in low-risk populations. Current Centers for Disease Control and Prevention (CDC) screening recommendations do not require confirmatory testing of a screening anti-HCV positive test, however confirmation is valuable for surveillance in the absence of HCV RNA testing. Read More

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http://jcm.asm.org/lookup/doi/10.1128/JCM.01567-18
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http://dx.doi.org/10.1128/JCM.01567-18DOI Listing
January 2019
5 Reads

Evaluation of the Performance of the cobas® CT/NG Test for Use on the cobas® 6800/8800 Systems for the Detection of (CT) and e (NG) in Male and Female Urogenital Samples.

J Clin Microbiol 2019 Jan 16. Epub 2019 Jan 16.

Roche Molecular Systems, Inc., Pleasanton, CA.

The clinical performance of the cobas® CT/NG assay on the cobas 6800/8800 Systems (cobas) for the detection of (CT) and e (NG) was established in a multisite, prospective collection study using male and female urogenital specimens; supportive data from archived specimens were also included. Results with cobas were compared with a patient infected status derived from a combination of US Food and Drug Administration-approved nucleic acid amplification tests to determine the sensitivity and specificity in each sample type. The sensitivity (95% CI) of cobas for the detection of CT from female specimens was 95. Read More

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http://jcm.asm.org/lookup/doi/10.1128/JCM.01996-18
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http://dx.doi.org/10.1128/JCM.01996-18DOI Listing
January 2019
4 Reads

A real-time multiplex PCR assay for detection of species, and differentiating between and .

J Clin Microbiol 2019 Jan 16. Epub 2019 Jan 16.

Bacterial Special Pathogens Branch, Centers for Disease Control and Prevention, Atlanta, Georgia.

Nosocomial infections of species can have fatal outcomes if not identified and treated properly. The current diagnostic tools available require culture and isolation, which can extend the reporting time and delay treatment. Using comparative genomics, we developed an efficient multiplex real-time PCR for the simultaneous detection of all known species of , as well as differentiating the two most commonly reported species and . Read More

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http://jcm.asm.org/lookup/doi/10.1128/JCM.01619-18
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http://dx.doi.org/10.1128/JCM.01619-18DOI Listing
January 2019
3 Reads

Improved Performance of a Rapid Immunochromatographic Assay for the Detection of PBP2a in non- Staphylococcal Species.

J Clin Microbiol 2019 Jan 16. Epub 2019 Jan 16.

Department of Pathology and Laboratory Medicine, Weill Cornell Medicine, New York, New York, USA

Non- staphylococcal species (non-SASS) are important pathogens in both animal and human populations. The development of β-lactam resistance in non-SASS through acquisition and expression of penicillin-binding protein 2a (PBP2a) represents a significant clinical and public health threat. Here, we evaluated the diagnostic performance of two versions of a PBP2a immunochromatographic assay with non-SASS. Read More

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http://dx.doi.org/10.1128/JCM.01417-18DOI Listing
January 2019

Answer to November 2018 Photo Quiz.

J Clin Microbiol 2018 Nov 25;56(11). Epub 2018 Oct 25.

Department of Pediatrics, Centre Hospitalier Universitaire Sainte-Justine, Université de Montréal, Montréal, Québec, Canada

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http://dx.doi.org/10.1128/JCM.01294-17DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC6204679PMC
November 2018
2 Reads

Photo Quiz: A 5-Year-Old Boy with an Unusual Arthritis of the Right Knee.

J Clin Microbiol 2018 Nov 25;56(11). Epub 2018 Oct 25.

Department of Pediatrics, Centre Hospitalier Universitaire Sainte-Justine, Université de Montréal, Montréal, Québec, Canada

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http://dx.doi.org/10.1128/JCM.01262-17DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC6204687PMC
November 2018
1 Read

Blood smears have poor sensitivity for confirming disease.

J Clin Microbiol 2019 Jan 9. Epub 2019 Jan 9.

Tufts University, North Grafton, MA; Imugen, Inc., Norwood, MA.

disease (BMD) is a newly recognized borreliosis that is co-transmitted by ticks wherever Lyme disease is zoonotic. Unlike sensu lato, the agent of Lyme disease, is closely related to relapsing fever spirochetes such as Some authors have suggested that the disease caused by should be considered a hard-tick transmitted relapsing fever, and thus the main mode of confirming a diagnosis for that infection, microscopy to analyze a blood smear, may have clinical utility. To determine whether blood smears may detect in the blood of acute BMD patients, we made standard malariological thick smears from anticoagulated blood samples that were previously determined to be contain this agent (by PCR) and analyzed them for morphological evidence of spirochetes. Read More

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http://dx.doi.org/10.1128/JCM.01468-18DOI Listing
January 2019
1 Read

Detection and differentiation of two koala gammaherpesviruses using high resolution melt (HRM) analysis reveals differences in viral prevalence and clinical associations in a large study of free-ranging koalas.

J Clin Microbiol 2019 Jan 9. Epub 2019 Jan 9.

Asia-Pacific Centre for Animal Health, Melbourne Veterinary School, Faculty of Veterinary and Agricultural Sciences, The University of Melbourne, Building 400, Parkville, 3052. VIC, Australia.

The iconic koala () is host to two divergent gammaherpesviruses, phascolarctid gammaherpesviruses 1 and 2 (PhaHV-1, and -2), but the clinical significance of the individual viruses is unknown and current diagnostic methods are unsuitable for differentiating between the viruses in large-scale studies. To address this, we modified a pan-herpesvirus nested-PCR to incorporate high resolution melt analysis. We applied this assay in a molecular epidemiological study of 810 koalas from disparate populations across Victoria, Australia, including isolated island populations. Read More

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http://jcm.asm.org/lookup/doi/10.1128/JCM.01478-18
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http://dx.doi.org/10.1128/JCM.01478-18DOI Listing
January 2019
2 Reads

Utility of serum and bronchoalveolar lavage fluid galactomannan in the diagnosis of chronic pulmonary aspergillosis.

J Clin Microbiol 2019 Jan 9. Epub 2019 Jan 9.

Department of Pulmonary Medicine, Department of Medical Microbiology, Department of Radiodiagnosis and Imaging, Postgraduate Institute of Medical Education and Research (PGIMER), Chandigarh, India.

: The value of serum and bronchoalveolar lavage fluid (BALF) galactomannan (GM) in diagnosing chronic pulmonary aspergillosis (CPA) remains unclear. Herein, we study the diagnostic efficacy of GM in the diagnosis of CPA.: We included consecutive treatment-naïve subjects with CPA. Read More

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http://jcm.asm.org/lookup/doi/10.1128/JCM.01821-18
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http://dx.doi.org/10.1128/JCM.01821-18DOI Listing
January 2019
4 Reads
3.993 Impact Factor

Performance of Antigen Concentration Thresholds for Attributing Fever to Malaria among Outpatients in Angola.

J Clin Microbiol 2019 Jan 9. Epub 2019 Jan 9.

Swiss Tropical and Public Health Institute, Basel, Switzerland.

The density of malaria parasites is a key determinant in whether or not an infected individual develops fever. While the pyrogenic threshold for malaria parasite density has been well-studied, there is no analogous data on the level of antigen associated with fever during infection. Samples from 797 afebrile and 457 febrile outpatients from two provinces in Angola with known concentrations of histidine rich protein 2 (HRP2), aldolase, and lactate dehydrogenase (LDH) antigens were analyzed by Bayesian latent-class modeling to attribute malaria etiology to the fevers and to estimate the sensitivity and specificity of different antigen thresholds for detecting malaria fevers. Read More

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http://dx.doi.org/10.1128/JCM.01901-18DOI Listing
January 2019

A Simpler and More Sensitive Single Copy HIV-1 RNA Assay to Quantify Persistent HIV-1 Viremia in Individuals on Suppressive Antiretroviral Therapy.

J Clin Microbiol 2019 Jan 9. Epub 2019 Jan 9.

Division of Infectious Diseases, Department of Medicine, University of Pittsburgh, Pittsburgh, PA, USA

A real-time quantitative reverse transcriptase polymerase chain reaction assay with single-copy sensitivity targeting the integrase region of HIV-1 (integrase single copy assay version 1.0 [iSCA v1.0]) has been widely used to quantify plasma viremia in individuals on antiretroviral therapy (ART). Read More

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http://dx.doi.org/10.1128/JCM.01714-18DOI Listing
January 2019
1 Read

Answer to January 2019 Photo Quiz.

J Clin Microbiol 2019 Jan 2;57(1). Epub 2019 Jan 2.

Clinical Microbiology and Parasitology Department, Hospital Universitario La Paz, Madrid, Spain.

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http://dx.doi.org/10.1128/JCM.01844-17DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC6322458PMC
January 2019