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Longitudinal Mycobacterium tuberculosis specific interferon-γ responses in Ethiopian HIV-negative women during pregnancy and post-partum.

Fregenet Tesfaye, John Walles, Erik Sturegård, Niclas Winqvist, Taye Tolera Balcha, Mestawet Kefeni, Marianne Jansson, Per Björkman,

<b>Background:</b> Pregnancy may influence cellular immune responses to <i>Mycobacterium tuberculosis</i> (Mtb). We investigated Mtb-specific interferon-γ responses in women followed longitudinally during pregnancy and post-partum. <b>Methods:</b> Interferon-γ levels (stimulated by Mtb antigens [TB1 and TB2] and mitogen included in the QuantiFERON-TB Gold Plus assay) were measured in blood from pregnant HIV-negative ... Read more >>

J Clin Microbiol (Journal of clinical microbiology)
[2021, :JCM0086821]

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Trichomonas vaginalis detection in urogenital specimens from symptomatic and asymptomatic men and women using the cobas TV/MG test.

Barbara Van Der Pol, Arundhati Rao, Melinda B Nye, Steven Chavoustie, Aaron Ermel, Clair Kaplan, David Eisenberg, Philip A Chan, Leandro Mena, Sixto Pacheco, Ken B Waites, Li Xiao, Smitha Krishnamurthy, Ruchika Mohan, Rasa Bertuzis, Chris L McGowin, Rodney Arcenas, Elizabeth M Marlowe, Stephanie N Taylor,

<i>Trichomonas vaginalis</i> is a prevalent sexually transmitted infection (STI). Diagnosis has historically relied on either microscopic analysis or culture, the latter being the previous gold standard. However, these tests are not readily available for male diagnosis, generally only perform well for symptomatic women, and are not as sensitive as nucleic ... Read more >>

J Clin Microbiol (Journal of clinical microbiology)
[2021, :JCM0026421]

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Simultaneous determination of Mycobacterium leprae drug resistance and single nucleotide polymorphism genotype using nested multiplex PCR with amplicon sequencing.

Yasuhisa Iwao, Shuichi Mori, Manabu Ato, Noboru Nakata,

<i>Mycobacterium leprae</i> is the predominant cause of leprosy worldwide, and its genotypes can be classified into four single nucleotide polymorphism (SNP) types and 16 subtypes. Determining <i>M. leprae</i> drug resistance and genotype is typically done by PCR and Sanger DNA sequencing, which require substantial effort. Here we describe a rapid ... Read more >>

J Clin Microbiol (Journal of clinical microbiology)
[2021, :JCM0081421]

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Identification of molds with MALDI-TOF mass spectrometry: performance of the newly developed MSI-2 application in comparison with the Bruker filamentous fungi database and MSI-1.

Anne-Cécile Normand, Marion Blaize, Sébastien Imbert, Ann Packeu, Pierre Becker, Arnaud Fekkar, Dirk Stubbe, Renaud Piarroux,

Matrix-assisted laser desorption ionization time of flight mass spectrometry (MALDI-TOF MS) represents a promising tool for the rapid and efficient identification of molds, but improvements are still necessary to achieve satisfactory results when identifying cryptic species. Here, we aimed to validate a new web application, MSI-2, which replaces MSI-1, an ... Read more >>

J Clin Microbiol (Journal of clinical microbiology)
[2021, :JCM0129921]

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Assessment of SARS-CoV-2 genome sequencing: quality criteria and low frequency variants.

Damien Jacot, Trestan Pillonel, Gilbert Greub, Claire Bertelli,

Although many laboratories worldwide have developed their sequencing capacities in response to the need for SARS-CoV-2 genome-based surveillance of variants, only few reported some quality criteria to ensure sequence quality before lineage assignment and submission to public databases. Hence, we aimed here to provide simple quality control criteria for SARS-CoV-2 ... Read more >>

J Clin Microbiol (Journal of clinical microbiology)
[2021, :JCM0094421]

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Antimicrobial resistance spectrum conferred by pRErm46 of emerging macrolide (multidrug)-resistant Rhodococcus equi.

Erdal Erol, Mariela Scortti, Jordan Fortner, Mukesh Patel, José A Vázquez-Boland,

Clonal multidrug resistance recently emerged in <i>Rhodococcus equi</i>, complicating the therapeutic management of this difficult-to-treat animal and human pathogenic actinomycete. The currently spreading multidrug-resistant (MDR) "2287" clone arose in equine farms upon acquisition, and co-selection by mass macrolide-rifampin therapy, of the pRErm46 plasmid carrying the <i>erm</i>(46) macrolides-lincosamides-streptogramins resistance determinant, and ... Read more >>

J Clin Microbiol (Journal of clinical microbiology)
[2021, :JCM0114921]

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Fast and sensitive real-time PCR detection of major antiviral drug-resistance mutations in chronic hepatitis B patients using a predesigned panel of Locked-Nucleic-Acid TaqMan probes.

Son V Chu, Son T Vu, Hang M Nguyen, Ngan T Le, Phuong T Truong, Van T T Vu, Thuy T B Phung, Anh T V Nguyen,

We developed a novel real-time PCR assay that simultaneously evaluates eleven major nucleos(t)ide antiviral (NA) drug-resistance mutations (mt) in chronic hepatitis B patients (CHB), including L180M, M204I/V, and V207M (lamivudine (LMV) resistance), N/H238A/T (Adefovir (ADF) resistance) which are circulating in Vietnam; T184G/L, S202I, M250V (entecavir (ETV) resistance), and A194T (tenofovir ... Read more >>

J Clin Microbiol (Journal of clinical microbiology)
[2021, :JCM0093621]

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Performance characteristics of the Roche Diagnostics cobas® Liat® PCR System as a COVID-19 screening tool for hospital admissions in a regional healthcare delivery system.

Douglas Blackall, Raymond Moreno, Justin Jin, Rachel Plotinsky, Ronald Dworkin, Margret Oethinger,

The COVID-19 pandemic has required rapid implementation of multiple instrumentation platforms to detect SARS-CoV-2.…. ... Read more >>

J Clin Microbiol (Journal of clinical microbiology)
[2021, :JCM0127821]

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Unbiased Pandemic Pathogen Detection and the Federal Register.

Alexander L Greninger,

While I agree with much of what was written in Dr. Kumeren Govender's commentary on how metagenomics will improve diagnostics and catch early pandemics ("Precision Pandemic Preparedness: Improving Diagnostics with Metagenomics"), significant attention to current regulatory matters is required before realizing the author's vision (1).…. ... Read more >>

J Clin Microbiol (Journal of clinical microbiology)
[2021, :JCM0134621]

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COVID-associated pulmonary aspergillosis in the US: is it rare or have we missed the diagnosis?

Sean X Zhang, Joan-Miquel Balada-Llasat, Preeti Pancholi, Kaede V Sullivan, Stefan Riedel,

While the incidence of COVID-associated pulmonary aspergillosis (CAPA) in COVID-19 patients admitted to the ICU in Europe is widely published (incidence up to 30%) (1), data on CAPA from the United States is lacking or has not been well described (2, 3).…. ... Read more >>

J Clin Microbiol (Journal of clinical microbiology)
[2021, :JCM0113521]

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Molecular Epidemiology of Human Sapovirus Among Children with Acute Gastroenteritis in Western Canada.

Ran Zhuo, Xiaofeng Ding, Stephen B Freedman, Bonita E Lee, Samina Ali, Jasper Luong, Jianling Xie, Linda Chui, Ying Wu, Xiaoli Pang,

<i>Objectives:</i> Sapovirus is increasingly recognized as an important cause of acute gastroenteritis (AGE) worldwide, however studies of prevalence, genetic diversity and strain-specific clinical implications have been scarce. <i>Methods:</i> To fill this knowledge gap, we used reverse transcription real-time PCR and sequencing of the partial major capsid protein VP1 gene to ... Read more >>

J Clin Microbiol (Journal of clinical microbiology)
[2021, :JCM0098621]

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A Simple RT-PCR Melting temperature Assay to Rapidly Screen for Widely Circulating SARS-CoV-2 Variants.

Padmapriya Banada, Raquel Green, Sukalyani Banik, Abby Chopoorian, Deanna Streck, Robert Jones, Soumitesh Chakravorty, David Alland,

<b>Background</b>. The increased transmission of SARS-CoV-2 variants of concern (VOC) which originated in the United Kingdom (B.1.1.7/alpha), South Africa (B1.351/Beta), Brazil (P.1/Gamma), in the United States (B.1.427/429 or Epsilon) and in India (B.1.617.2/Delta) requires a vigorous public health response, including real time strain surveillance on a global scale. Although genome ... Read more >>

J Clin Microbiol (Journal of clinical microbiology)
[2021, :JCM0084521]

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Answer to August 2021 Photo Quiz.

Claudel Catinot Noubam Tchatat, Catherine Godfraind, Laura Montrieul, Nicolas Saroul, Elisa Creuzet, Maxime Moniot, Laurent Gilain, Philippe Poirier, Céline Nourrisson,

J Clin Microbiol (Journal of clinical microbiology)
[2021, 59(8):e0277020]

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A Novel Multiplexed Enzyme-Linked Immunosorbent Assay for the Detection of IgG Seroreactivity to Cytomegalovirus (CMV) UL144.

H Miller, P Simpson, M Forman, A Prigan, S Kehl, B Mesich, M Faron, N Ledeboer, R Arav-Boger,

Infection with human cytomegalovirus (CMV) is common and may have grave consequences in transplant recipients and congenitally infected children. Diagnosis of CMV infection is based on detection of specific antibodies and molecular assays. The incorporation of CMV serological assays into diagnostic algorithms requires careful evaluation and interpretation. Very few serological ... Read more >>

J Clin Microbiol (Journal of clinical microbiology)
[2021, 59(8):e0096421]

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Consequences of the Edge Effect in a Commercial Enzyme-Linked Immunosorbent Assay for the Diagnosis of Lyme Neuroborreliosis.

Tamara van Gorkom, Gijs H J van Arkel, Willem Voet, Steven F T Thijsen, Kristin Kremer,

The diagnosis of Lyme neuroborreliosis (LNB) is based on neurological symptoms, cerebrospinal fluid (CSF) pleocytosis, and intrathecally produced <i>Borrelia</i>-specific antibodies. In most cases, the presence of intrathecally produced <i>Borrelia</i>-specific antibodies is determined by using an enzyme-linked immunosorbent assay (ELISA). The edge effect is a known phenomenon in ELISAs and can ... Read more >>

J Clin Microbiol (Journal of clinical microbiology)
[2021, 59(8):e0328020]

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Progress toward Developing Sensitive Non-Sputum-Based Tuberculosis Diagnostic Tests: the Promise of Urine Cell-Free DNA.

Emily MacLean, Ruvandhi R Nathavitharana,

A highly accurate, non-sputum-based test for tuberculosis (TB) detection is a key priority for the field of TB diagnostics. A recent study in the <i>Journal of Clinical Microbiology</i> by Oreskovic and colleagues (J Clin Microbiol 59:e00074-21, 2021, https://doi.org/10.1128/JCM.00074-21) reports the performance of an optimized urine cell-free DNA (cfDNA) test using ... Read more >>

J Clin Microbiol (Journal of clinical microbiology)
[2021, 59(8):e0070621]

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Endemic SARS-CoV-2 Polymorphisms Can Cause a Higher Diagnostic Target Failure Rate than Estimated by Aggregate Global Sequencing Data.

Daniel D Rhoads, David Plunkett, Joy Nakitandwe, Andrew Dempsey, Zheng Jin Tu, Gary W Procop, David Bosler, Brian P Rubin, Michael J Loeffelholz, Jay E Brock,

J Clin Microbiol (Journal of clinical microbiology)
[2021, 59(8):e0091321]

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Accuracy of Molecular Amplification Assays for Diagnosis of Staphylococcal Pneumonia: a Systematic Review and Meta-analysis.

Ke Chen, Sarfraz Ahmed, Changfeng Sun, Yun-Jian Sheng, Gang Wu, Cun-Liang Deng, Suvash Chandra Ojha,

Rapid and accurate identification of staphylococcal pneumonia is crucial for effective antimicrobial stewardship. We performed a meta-analysis to evaluate the diagnostic value of nucleic acid amplification tests (NAAT) from lower respiratory tract (LRT) samples from suspected pneumonia patients to avoid superfluous empirical methicillin-resistant Staphylococcus aureus (MRSA) treatment. PubMed, Scopus, Embase, ... Read more >>

J Clin Microbiol (Journal of clinical microbiology)
[2021, 59(8):e0300320]

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Photo Quiz: A Bag of Marbles in the Nose.

Claudel Catinot Noubam Tchatat, Catherine Godfraind, Laura Montrieul, Nicolas Saroul, Elisa Creuzet, Maxime Moniot, Laurent Gilain, Philippe Poirier, Céline Nourrisson,

J Clin Microbiol (Journal of clinical microbiology)
[2021, 59(8):e0276820]

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Mutation-Specific SARS-CoV-2 PCR Screen: Rapid and Accurate Detection of Variants of Concern and the Identification of a Newly Emerging Variant with Spike L452R Mutation.

Huanyu Wang, Sophonie Jean, Richard Eltringham, John Madison, Pamela Snyder, Huolin Tu, Daniel M Jones, Amy L Leber,

The emergence of more transmissible and/or more virulent severe acute respiratory syndrome coronavirus 2 (SARS-CoV-2) variants of concern (VOC) has triggered intensive genomic surveillance, which is costly and difficult to sustain operationally over the long term. To address this problem, we developed a set of four multiplex mutation-specific PCR-based assays ... Read more >>

J Clin Microbiol (Journal of clinical microbiology)
[2021, 59(8):e0092621]

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A Molecular-Beacon-Based Multiplex Real-Time PCR Assay To Distinguish Mycobacterium abscessus Subspecies and Determine Macrolide Susceptibility.

Salvatore A E Marras, Liang Chen, Elena Shashkina, Rebecca M Davidson, Michael Strong, Charles L Daley, Barry N Kreiswirth,

Mycobacterium abscessus is a rapidly growing nontuberculous mycobacterial species that comprises three subspecies: M. abscessus subsp. abscessus, M. abscessus subsp. massiliense, and M. abscessus subsp. bolletii. These predominantly environmental microorganisms have emerged as life-threatening chronic pulmonary pathogens in both immunocompetent and immunocompromised patients, and their acquisition of macrolide resistance due ... Read more >>

J Clin Microbiol (Journal of clinical microbiology)
[2021, 59(8):e0045521]

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Usefulness of BioFire FilmArray BCID2 for Blood Culture Processing in Clinical Practice.

Benjamin Berinson, Anna Both, Laura Berneking, Martin Christner, Marc Lütgehetmann, Martin Aepfelbacher, Holger Rohde,

Rapid pathogen characterization from positive blood cultures (BC) can improve management of patients with bloodstream infections (BSI). The FilmArray blood culture identification (BCID) assay is a molecular test approved for direct identification of BSI causing pathogens from positive BC. A recently updated version of the panel (BCID2) comprises improved species ... Read more >>

J Clin Microbiol (Journal of clinical microbiology)
[2021, 59(8):e0054321]

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Performance of Three SARS-CoV-2 Immunoassays, Three Rapid Lateral Flow Tests, and a Novel Bead-Based Affinity Surrogate Test for the Detection of SARS-CoV-2 Antibodies in Human Serum.

Manuel Krone, Julia Gütling, Johannes Wagener, Thiên-Trí Lâm, Christoph Schoen, Ulrich Vogel, August Stich, Florian Wedekink, Jörg Wischhusen, Thomas Kerkau, Niklas Beyersdorf, Silvana Klingler, Simone Backes, Lars Dölken, Georg Gasteiger, Oliver Kurzai, Alexandra Schubert-Unkmeir,

For the control of immunity in COVID-19 survivors and vaccinated subjects, there is an urgent need for reliable and rapid serological assays. Based on samples from 63 COVID-19 survivors up to 7 months after symptom onset, and on 50 serum samples taken before the beginning of the pandemic, we compared ... Read more >>

J Clin Microbiol (Journal of clinical microbiology)
[2021, 59(8):e0031921]

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The Need for Dedicated Microbiology Leadership in the Clinical Microbiology Laboratory.

Linoj P Samuel, Glen T Hansen, Colleen S Kraft, Bobbi S Pritt, ,

Clinical microbiology laboratories play a crucial role in patient care using traditional and innovative diagnostics. Challenges faced by laboratories include emerging pathogens, rapidly evolving technologies, health care-acquired infections, antibiotic-resistant organisms, and diverse patient populations. Despite these challenges, many clinical microbiology laboratories in the United States are not directed by doctoral ... Read more >>

J Clin Microbiol (Journal of clinical microbiology)
[2021, 59(8):e0154919]

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Multicentre post-implementation assessment of the positive-predictive value of SARS-CoV-2 antigen-based point-of-care tests used for asymptomatic screening of continuing care staff.

Jamil N Kanji, Dustin T Proctor, William Stokes, Byron M Berenger, James Silvius, Graham Tipples, A Mark Joffe, Allison A Venner,

Frequent screening of SARS-CoV-2 among asymptomatic populations using antigen-based point of care tests (APOCT) is occurring globally with limited clinical performance data. The positive predictive value (PPV) of two APOCT used in the asymptomatic screening of SARS-CoV-2 among healthcare workers (HCW) at continuing care (CC) sites across Alberta, Canada was ... Read more >>

J Clin Microbiol (Journal of clinical microbiology)
[2021, :JCM0141121]

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