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Journal Diagn Microbiol Infect Dis

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Early IgG / IgA response in hospitalized COVID-19 patients is associated with a less severe disease.

Giorgio Fedele, Gianluca Russo, Ilaria Schiavoni, Pasqualina Leone, Eleonora Olivetta, Valentina Perri, Maria Antonella Zingaropoli, Maria Rosa Ciardi, Patrizia Pasculli, Claudio Maria Mastroianni, Paola Stefanelli,

We determined the kinetics of anti-SARS-CoV-2 antibody response in fifteen hospitalized COVID-19 patients. Patients were divided into mild/moderate (mild, n=1; moderate, n=4) or severe (n=10) and virus-specific anti-Nucleocapsid IgM, anti-Spike IgG and anti-Spike IgA were measured in serial serum samples collected 0-15 days after hospital admission. Surrogate neutralization assays were ... Read more >>

Diagn Microbiol Infect Dis (Diagnostic microbiology and infectious disease)
[2021, :]

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Verification of the Abbott Alinity m Resp-4-Plex Assay for detection of SARS-CoV-2, influenza A/B, and respiratory syncytial virus

Annie Cheng, Stefan Riedel, Ramy Arnaout, James E. Kirby,

COVID-19 symptomology may overlap with other circulating respiratory viruses that may also cause severe disease and for which there are specific and potentially life-saving treatments. The Abbott Alinity m Resp-4-Plex assay is a multiplex PCR assay that simultaneously detects and differentiates infection with SARS-CoV-2, influenza A, influenza B, and respiratory ... Read more >>

Diagn Microbiol Infect Dis (Diagnostic microbiology and infectious disease)
[2021, :]

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Frequency of respiratory pathogens other than SARS-CoV-2 detected during COVID-19 testing

Matheus Negri Boschiero, Aires Duarte, Camila Vantini Capasso Palamim, Alfonso Eduardo Alvarez, Renan Marrichi Mauch, Fernando Augusto Lima Marson,

The frequencies of 19 respiratory pathogens other than SARS-CoV-2 were assessed in 6,235 Brazilian individuals tested for COVID-19. Overall, only 83 individuals who tested positive for SARS-CoV-2 had co-detection of other pathogens. Individuals infected with Rhinovirus/Enterovirus, Human Coronavirus (HCoV)-HKU1, HCoV-NL63, HPIV-4, Influenza A (-H1N1 and other subtypes), Influenza B, Human ... Read more >>

Diagn Microbiol Infect Dis (Diagnostic microbiology and infectious disease)
[2021, :]

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Importance of anti-SARS-CoV-2 assay antigenic composition as revealed by the results of the Belgian external quality assessment (EQA) scheme

Alena Moerman, Kris Vernelen, Bernard China, Arnaud Capron, Dorien Van Den Bossche, Joachim Mariën, Kevin K. Ariën, Jos Van Acker, Marie-Luce Delforge, Marijke Reynders, An Boel, Melissa Depypere, Natasja Van Gasse, Sara Vijgen, Jonathan Brauner, Barbara Dujardin, Elizaveta Padalko,

<h4>Background</h4> We report on sample IS/17575 since it generated highly divergent results in the Belgian SARS-CoV-2 serology EQA scheme. <h4>Materials and methods</h4> Sample IS/17575 was serum originating from a 30 years old male patient. 124 diagnostic laboratories analysed this sample. <h4>Results</h4> A total of 168 results was returned (including 5 ... Read more >>

Diagn Microbiol Infect Dis (Diagnostic microbiology and infectious disease)
[2021, :]

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Commercial Interferon-gamma release assay to assess the immune response to first and second doses of mRNA vaccine in previously COVID-19 infected versus uninfected individuals.

Nuria Tormo, David Navalpotro, María Martínez-Serrano, Marta Moreno, Fernando Grosson, Irene Tur, M Remedios Guna, Pepa Soriano, Ana Tornero, Concepción Gimeno,

We analysed immunological response during vaccination by using quantitative anti-spike IgG antibodies (qAbs) and Interferon-gamma (IFNγ) production by SARS-CoV-2-specific CD4+ and CD8+ T cells (QuantiFERONⓇ assay). Blood samples were collected at four time points: a day before the reception of first (T0) and second (T1) BNT162b2 doses, 14 (T2) and ... Read more >>

Diagn Microbiol Infect Dis (Diagnostic microbiology and infectious disease)
[2021, :]

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SARS-CoV-2 infection long time after full vaccination is related to a lack of neutralizing antibodies

Enagnon Kazali ALIDJINOU, Olivier GAILLOT, Aurélie GUIGON, Claire TINEZ, Mouna LAZREK, Laurence BOCKET, Ilka ENGELMANN, Didier HOBER,

SARS-CoV-2 infections after COVID-19 vaccination are not unexpected, but those occurring more than 14 days after second vaccine dose need to be investigated. We describe a well-characterized infection which occurred almost 2 months after full vaccination, and provide the evidence of a link with a lack of anti-SARS-CoV-2 neutralizing antibodies. ... Read more >>

Diagn Microbiol Infect Dis (Diagnostic microbiology and infectious disease)
[2021, :]

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Predictors of Respiratory Bacterial Co-Infection in Hospitalized COVID-19 Patients

Austin Bolker, Kelci Coe, Jessica Smith, Kurt Stevenson, Shu-Hua Wang, Erica Reed,

The primary objectives were to determine the prevalence of and identify variables associated with respiratory bacterial co-infection in COVID-19 inpatients. Secondary outcomes included length of stay and in-hospital mortality. Eighty-two (11.2%) of 735 COVID-19 inpatients had respiratory bacterial co-infection. Fifty-seven patients met inclusion criteria and were matched to three patients ... Read more >>

Diagn Microbiol Infect Dis (Diagnostic microbiology and infectious disease)
[2021, :]

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Evaluation of observed and unobserved self-collection of saline gargle samples for the detection of SARS-CoV-2 in outpatients

Mai-Lei Woo Kinshella, Peter Tilley, Ghada N. Al-Rawahi, Jocelyn A. Srigley, Iryna Kayda, Mitchell Canes, Meghan McLennan, Jeffrey N. Bone, Michelle Dittrick, Vijay J. Gadkar, Linda M.N. Hoang, David M. Goldfarb,

The diagnostic sensitivity of observed and unobserved self-collected saline gargle (SG) samples for the molecular detection of SARS-CoV-2 in adults and school-aged children was evaluated against a reference standard of health care worker (HCW) collected nasopharyngeal (NP) flocked swab. A total of 46 participants had a positive NP swab sample; ... Read more >>

Diagn Microbiol Infect Dis (Diagnostic microbiology and infectious disease)
[2021, :]

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Comparison of SARS-CoV-2 antigen testing to RT-PCR in a real-world setting-an observational cohort study.

Jens Bräunlich, Reimund Hoheisel, Alexander Dinse-Lambracht,

A total of 2978 patients with validated paired results (SARS-CoV2-antigen and PCR) were identified. Our results show that only 45 antigen tests from 90 patients with positive validated PCR were correctly identified by antigen testing (sensitivity 50%). Roughly 50% of these patients had ongoing respiratory symptoms. ... Read more >>

Diagn Microbiol Infect Dis (Diagnostic microbiology and infectious disease)
[2021, 102(1):115531]

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Evaluation of different phenotypic methods to detect methicillin resistance in Staphylococcus aureus isolates recovered from cystic fibrosis patients.

Andrea García-Caballero, Juan de Dios Caballero, Ainhize Maruri, Maria Isabel Serrano-Tomás, Rosa Del Campo, María Isabel Morosini, Rafael Cantón,

Methicillin-resistant Staphylococcus aureus (MRSA) detection in cystic fibrosis (CF) is challenging. We compared different phenotypic methods among 157 S. aureus from 136 CF-patients: cefoxitin (FOX) and oxacillin (OXA) broth-microdilution; MicroScan-WalkAway®; FOX and OXA disk-diffusion (DD), and PBP2a-latex agglutination. PCR detection of mecA/mecC was the gold standard. Growth on ChromIDTM-MRSA agar ... Read more >>

Diagn Microbiol Infect Dis (Diagnostic microbiology and infectious disease)
[2021, 102(1):115559]

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A deletion in the N gene may cause diagnostic escape in SARS-CoV-2 samples.

Silvia Zannoli, Giorgio Dirani, Francesca Taddei, Giulia Gatti, Ilaria Poggianti, Agnese Denicolò, Valentina Arfilli, Martina Manera, Andrea Mancini, Arianna Battisti, Vittorio Sambri,

Five SARS-CoV-2-positive samples showed N-gene drop-out with a RT-PCR multiplex test. WGS found all samples to harbor a deletion in the same region of the N gene, which is likely to impair the efficiency of amplification. This highlights the need for a continued surveillance of viral evolution and diagnostic test ... Read more >>

Diagn Microbiol Infect Dis (Diagnostic microbiology and infectious disease)
[2021, 102(1):115540]

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Rapidly fatal infection with Bacillus cereus/thuringiensis: genome assembly of the responsible pathogen and consideration of possibly contributing toxins.

Monica Butcher, Daniela Puiu, Mark Romagnoli, Karen C Carroll, Steven L Salzberg, David W Nauen,

Bloodstream infection with Bacillus cereus/thuringiensis can be life threatening, particularly in patients who are severely immunocompromised. In this report we describe a case that progressed from asymptomatic to fatal over approximately 5 hours despite extensive resuscitation efforts. We identify the pathogen and assemble its genome, in which we find genes ... Read more >>

Diagn Microbiol Infect Dis (Diagnostic microbiology and infectious disease)
[2021, 101(4):115534]

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Kinetics of anti-SARS-CoV-2 IgG antibody levels and potential influential factors in subjects with COVID-19: A 11-month follow-up study.

Huanyuan Luo, Dorothée Camilleri, Ibon Garitaonandia, Dilshat Djumanov, Tao Chen, Ulrike Lorch, Jörg Täubel, Duolao Wang,

We aim to study kinetics of anti-SARS-CoV-2 IgG antibody levels in subjects with COVID-19 for up to 11 months and the potential influential factors. The study was a prospective longitudinal study. The analyses were based on 77 serum/plasma samples with a mean of 4 samples per participant (range 1 - ... Read more >>

Diagn Microbiol Infect Dis (Diagnostic microbiology and infectious disease)
[2021, 101(4):115537]

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Early IgG / IgA response in hospitalized COVID-19 patients is associated with a less severe disease.

Giorgio Fedele, Gianluca Russo, Ilaria Schiavoni, Pasqualina Leone, Eleonora Olivetta, Valentina Perri, Maria Antonella Zingaropoli, Maria Rosa Ciardi, Patrizia Pasculli, Claudio Maria Mastroianni, Paola Stefanelli,

We determined the kinetics of anti-SARS-CoV-2 antibody response in fifteen hospitalized COVID-19 patients. Patients were divided into mild/moderate (mild, n = 1; moderate, n = 4) or severe (n = 10) and virus-specific anti-Nucleocapsid IgM, anti-Spike IgG and anti-Spike IgA were measured in serial serum samples collected 0 to 15 ... Read more >>

Diagn Microbiol Infect Dis (Diagnostic microbiology and infectious disease)
[2021, 105(1):115539]

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Violet colonies of Talaromyces marneffei produce on CHROMagar candida medium.

Xiu-Jiao Xia, Yan Zhong, Bo Sang, Qiu-Ping Li, Hui-Lin Zhi, Wen-Wen Lv, Hong Shen, Ze-Hu Liu,

In the present report, we describe an unusual case of mixed infection of Candida albicans and Talaromyces marneffei in the oral cavity and oropharynx with cutaneous involvement. On the CHROMagar Candida plate, green colonies (identified as C. albicans) and tiny violet colonies (identified as T. marneffei) grew from the throat ... Read more >>

Diagn Microbiol Infect Dis (Diagnostic microbiology and infectious disease)
[2021, 101(4):115533]

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Rare Lelliottia nimipressuralis from a wound infection case report using whole genome sequencing-based bacterial identification.

Hosoon Choi, Munok Hwang, Piyali Chatterjee, Chetan Jinadatha, Dhammika H Navarathna,

Identification of clinical bacterial isolates is an essential first step to provide guidelines for treatment of pathogenic bacterial infection. Infection occurred in a laceration along the medial aspect of left upper arm of a 71-year-old female. Conventional biochemical testing and MALDI-TOF MS identification failed to correctly identify a bacterial isolate. ... Read more >>

Diagn Microbiol Infect Dis (Diagnostic microbiology and infectious disease)
[2021, 101(4):115538]

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Abbott ID now COVID-19 assay performance: a year in review.

Phyu M Thwe, Elphas Maiyo, Ping Ren,

Diagn Microbiol Infect Dis (Diagnostic microbiology and infectious disease)
[2021, 101(4):115536]

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Impact of a pharmacist-facilitated, evidence-based bundle initiative on Staphylococcus aureus bacteremia management.

Wesley D Kufel, Keri A Mastro, Jeffrey M Steele, Dongliang Wang, Scott W Riddell, Kristopher M Paolino, Stephen J Thomas,

<h4>Objective</h4>To evaluate a pharmacist-facilitated evidence-based bundle (EBB) initiative with infectious disease consultation (IDC) for Staphylococcus aureus bacteremia (SAB).<h4>Methods</h4>This was a before-and-after quasi-experimental study of adult patients with SAB before and after the pharmacist-facilitated EBB initiative, which included IDC, timely definitive antibiotics, source control, echocardiography, and repeat blood cultures.<h4>Results</h4>Ninety and 111 ... Read more >>

Diagn Microbiol Infect Dis (Diagnostic microbiology and infectious disease)
[2021, 101(4):115535]

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Use of real-time PCR as an alternative to conventional genotyping methods for the laboratory detection of lymphogranuloma venereum (LGV).

Evonne N Woodson, Samantha S Katz, Sheree S Mosley, Damien C Danavall, Katherine E Bowden, Kai-Hua Chi, Brian H Raphael,

Lymphogranuloma venereum (LGV) can be differentiated from non-LGV chlamydial infection using Sanger sequencing or molecular assays, including those that are commercially-available internationally. Here, we describe the performance of a rapid real-time PCR (RT-PCR)-based strategy in differentiating Chlamydia trachomatis infections associated with LGV or non-LGV serovars. One hundred three rectal swabs, ... Read more >>

Diagn Microbiol Infect Dis (Diagnostic microbiology and infectious disease)
[2021, 101(4):115532]

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Qualitative and quantitative effects of thermal treatment of naso-oropharyngeal samples before cobas SARS-CoV-2 testing.

Todd M Pryce, Peter A Boan, Ian D Kay, James P Flexman,

To improve laboratory safety we thermally treated naso-oropharyngeal samples before testing with the cobas SARS-CoV-2 assay. This study aimed to determine if thermal treatment significantly affects the qualitative detection of severe acute respiratory syndrome coronavirus 2 (SARS-CoV-2) and the quantitative measurement of cobas SARS-CoV-2 ORF1a and E-gene target copy number ... Read more >>

Diagn Microbiol Infect Dis (Diagnostic microbiology and infectious disease)
[2021, 101(4):115519]

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Whole-genome analysis of SARS-CoV-2 samples indicate no tissue specific genetic adaptation of the virus in COVID-19 patients' upper and lower respiratory tract.

Claudia Wylezich, Tina Schaller, Rainer Claus, Klaus Hirschbühl, Bruno Märkl, Elisabeth Kling, Oliver Spring, Dirk Höper, Jürgen Schlegel, Martin Beer, Sebastian Dintner,

Sample panels of SARS-CoV-2 cases were retrospectively whole-genome sequenced. In three individuals, samples of upper and lower respiratory tract resulted in identical sequences suggesting virus stability including the spike protein cleavage site. In a fourth case, low-level intra-host genomic evolution and a unique 5-nucleotide deletion was observed. ... Read more >>

Diagn Microbiol Infect Dis (Diagnostic microbiology and infectious disease)
[2021, 101(4):115520]

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Impact of cobas PCR Media freezing on SARS-CoV-2 viral RNA integrity and whole genome sequencing analyses.

Patrick Benoit, Floriane Point, Simon Gagnon, Daniel E Kaufmann, Cécile Tremblay, Richard Paul Harrigan, Isabelle Hardy, François Coutlée, Simon Grandjean Lapierre,

SARS-CoV-2 whole genome sequencing is a molecular biology tool performed to support many aspects of the response to the pandemic. Freezing of primary clinical nasopharyngeal swabs and shipment to reference laboratories is usually required for sequencing. Cobas PCR Media transport medium facilitates high throughput SARS-CoV-2 RT-PCR analyses on cobas platforms. ... Read more >>

Diagn Microbiol Infect Dis (Diagnostic microbiology and infectious disease)
[2021, 101(4):115521]

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SARS-CoV-2 reinfection in a healthcare professional in inner Sao Paulo during the first wave of COVID-19 in Brazil.

Carlos Henrique Camargo, Claudia Regina Gonçalves, Erica Valessa Ramos Gomes Pagnoca, Karoline Rodrigues Campos, Janaína Olher Martins Montanha, Maricélia Navarro Pinheiro Flores, Márcia Maria Costa Nunes Soares, Fernanda Modesto Tolentino Binhardi, Patrícia Marques Ferreira, Ana Lucia Frugis Yu, Telma Regina Marques Pinto Carvalhanas, Adriano Abbud, Adriana Bugno, Claudio Tavares Sacchi,

Coronavirus Disease 2019 pandemic remains a threat to public health. We report 2 cases of Coronavirus Disease 2019 infection in the same healthcare professional in Brazil. Genomic analysis identified that primoinfection was caused by the endemic lineage B.1.1.33 while reinfection by the lineage B.1.1.44, a lineage with an additional V1176F ... Read more >>

Diagn Microbiol Infect Dis (Diagnostic microbiology and infectious disease)
[2021, 101(4):115516]

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Comparison of diagnostic performance of five molecular assays for detection of SARS-CoV-2.

Neena Kanwar, Dithi Banerjee, Anjana Sasidharan, Ayah Abdulhamid, Marissa Larson, Brian Lee, Rangaraj Selvarangan, Rachael M Liesman,

We compared the performance of the Abbott Real Time SARS-CoV-2 assay (Abbott assay), Aptima™ SARS-CoV-2 assay (Aptima assay), BGI Real-Time SARS-CoV-2 assay (BGI assay), Lyra® SARS-CoV-2 assay (Lyra assay), and DiaSorin Simplexa™ COVID assay for SARS-CoV-2 detection. Residual nasopharyngeal samples (n = 201) submitted for routine SARS-CoV-2 testing by Simplexa ... Read more >>

Diagn Microbiol Infect Dis (Diagnostic microbiology and infectious disease)
[2021, 101(4):115518]

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Clinical and microbiological characteristics of patients with bacteremia and normal procalcitonin.

Leora S Boussi, Tarun Popli, Nicholas Feola, Rajat Nog,

Procalcitonin is a biomarker of bacterial infection used to guide antimicrobial therapy. However, emerging studies have highlighted bacteremic patients with low procalcitonin, potentially limiting its clinical utility. Here, we conducted an observational, retrospective study analyzing clinical and microbiological parameters of adult patients with bacteremia and procalcitonin <2 ng/mL. High proportions ... Read more >>

Diagn Microbiol Infect Dis (Diagnostic microbiology and infectious disease)
[2021, 101(4):115515]

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