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Comparison of SARS-CoV-2 Detection by Rapid Antigen and by Three Commercial RT-qPCR Tests: A Study from Martin University Hospital in Slovakia

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Biomedical Center Martin, Jessenius Faculty of Medicine in Martin, Comenius University in Bratislava, 036 01 Martin, Slovakia
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Department of Microbiology and Immunology, Jessenius Faculty of Medicine in Martin, Comenius University in Bratislava, 036 01 Martin, Slovakia
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Department of Pathological Anatomy, Jessenius Faculty of Medicine in Martin, Comenius University in Bratislava, 036 01 Martin, Slovakia
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Clinic of Obstetrics and Gynecology, Jessenius Faculty of Medicine in Martin, Comenius University in Bratislava, 036 01 Martin, Slovakia
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Hospital Hygiene Department, Martin University Hospital, 036 01 Martin, Slovakia
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Modern Medical Leadership, s.r.o., 036 01 Martin, Slovakia
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Department of Thoracic Surgery, Martin University Hospital, Jessenius Faculty of Medicine in Martin, Comenius University in Bratislava, 036 01 Martin, Slovakia
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Clinic of Neurology, Martin University Hospital, Jessenius Faculty of Medicine in Martin, Comenius University in Bratislava, 036 01 Martin, Slovakia
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Clinic of Pneumology and Phthisiology, Martin University Hospital, Jessenius Faculty of Medicine in Martin, Comenius University in Bratislava, 036 01 Martin, Slovakia
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Department of Pediatric Surgery, Martin University Hospital, Jessenius Faculty of Medicine in Martin, Comenius University in Bratislava, 036 01 Martin, Slovakia
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Department of Infectious Diseases and Travel Medicine, Martin University Hospital, Jessenius Faculty of Medicine in Martin, Comenius University in Bratislava, 036 01 Martin, Slovakia
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Department of Physiology, Jessenius Faculty of Medicine in Martin, Comenius University in Bratislava, 036 01 Martin, Slovakia
*
Author to whom correspondence should be addressed.
Academic Editor: David Berrigan
Int. J. Environ. Res. Public Health 2021, 18(13), 7037; https://doi.org/10.3390/ijerph18137037
Received: 20 April 2021 / Revised: 10 June 2021 / Accepted: 24 June 2021 / Published: 1 July 2021
The global pandemic of coronavirus disease 2019 (COVID-19) caused by the severe acute respiratory syndrome coronavirus 2 (SARS-CoV-2) is having a tremendous impact on the global economy, health care systems and the lives of almost all people in the world. The Central European country of Slovakia reached one of the highest daily mortality rates per 100,000 inhabitants in the first 3 months of 2021, despite implementing strong prophylactic measures, lockdowns and repeated nationwide antigen testing. The present study reports a comparison of the performance of the Standard Q COVID-19 antigen test (SD Biosensor) with three commercial RT-qPCR kits (vDetect COVID-19-MultiplexDX, gb SARS-CoV-2 Multiplex-GENERI BIOTECH Ltd. and Genvinset COVID-19 [E]-BDR Diagnostics) in the detection of infected individuals among employees of the Martin University Hospital in Slovakia. Health care providers, such as doctors and nurses, are classified as “critical infrastructure”, and there is no doubt about the huge impact that incorrect results could have on patients. Out of 1231 samples, 14 were evaluated as positive for SARS-CoV-2 antigen presence, and all of them were confirmed by RT-qPCR kit 1 and kit 2. As another 26 samples had a signal in the E gene, these 40 samples were re-isolated and subsequently re-analysed using the three kits, which detected the virus in 22, 23 and 12 cases, respectively. The results point to a divergence not only between antigen and RT-qPCR tests, but also within the “gold standard” RT-qPCR testing. Performance analysis of the diagnostic antigen test showed the positive predictive value (PPV) to be 100% and negative predictive value (NPV) to be 98.10%, indicating that 1.90% of individuals with a negative result were, in fact, positive. If these data are extrapolated to the national level, where the mean daily number of antigen tests was 250,000 in April 2021, it points to over 4700 people per day being misinterpreted and posing a risk of virus shedding. While mean Ct values of the samples that were both antigen and RT-qPCR positive were about 20 (kit 1: 20.47 and 20.16 for Sarbeco E and RdRP, kit 2: 19.37 and 19.99 for Sarbeco E and RdRP and kit 3: 17.47 for ORF1b/RdRP), mean Ct values of the samples that were antigen-negative but RT-qPCR-positive were about 30 (kit 1: 30.67 and 30.00 for Sarbeco E and RdRP, kit 2: 29.86 and 31.01 for Sarbeco E and RdRP and kit 3: 27.47 for ORF1b/RdRP). It confirms the advantage of antigen test in detecting the most infectious individuals with a higher viral load. However, the reporting of Ct values is still a matter of ongoing debates and should not be conducted without normalisation to standardised controls of known concentration. View Full-Text
Keywords: SARS-CoV-2; antigen; RT-qPCR; Ct; sensitivity; specificity; NPV—negative predictive value; PPV—positive predictive value SARS-CoV-2; antigen; RT-qPCR; Ct; sensitivity; specificity; NPV—negative predictive value; PPV—positive predictive value
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MDPI and ACS Style

Dankova, Z.; Novakova, E.; Skerenova, M.; Holubekova, V.; Lucansky, V.; Dvorska, D.; Brany, D.; Kolkova, Z.; Strnadel, J.; Mersakova, S.; Janikova, K.; Samec, M.; Pokusa, M.; Petras, M.; Sarlinova, M.; Kasubova, I.; Loderer, D.; Sadlonova, V.; Kompanikova, J.; Kotlebova, N.; Kompanikova, A.; Hrnciarova, M.; Stanclova, A.; Antosova, M.; Dzian, A.; Nosal, V.; Kocan, I.; Murgas, D.; Krkoska, D.; Calkovska, A.; Halasova, E. Comparison of SARS-CoV-2 Detection by Rapid Antigen and by Three Commercial RT-qPCR Tests: A Study from Martin University Hospital in Slovakia. Int. J. Environ. Res. Public Health 2021, 18, 7037. https://doi.org/10.3390/ijerph18137037

AMA Style

Dankova Z, Novakova E, Skerenova M, Holubekova V, Lucansky V, Dvorska D, Brany D, Kolkova Z, Strnadel J, Mersakova S, Janikova K, Samec M, Pokusa M, Petras M, Sarlinova M, Kasubova I, Loderer D, Sadlonova V, Kompanikova J, Kotlebova N, Kompanikova A, Hrnciarova M, Stanclova A, Antosova M, Dzian A, Nosal V, Kocan I, Murgas D, Krkoska D, Calkovska A, Halasova E. Comparison of SARS-CoV-2 Detection by Rapid Antigen and by Three Commercial RT-qPCR Tests: A Study from Martin University Hospital in Slovakia. International Journal of Environmental Research and Public Health. 2021; 18(13):7037. https://doi.org/10.3390/ijerph18137037

Chicago/Turabian Style

Dankova, Zuzana, Elena Novakova, Maria Skerenova, Veronika Holubekova, Vincent Lucansky, Dana Dvorska, Dusan Brany, Zuzana Kolkova, Jan Strnadel, Sandra Mersakova, Katarina Janikova, Marek Samec, Michal Pokusa, Martin Petras, Miroslava Sarlinova, Ivana Kasubova, Dusan Loderer, Vladimira Sadlonova, Jana Kompanikova, Nina Kotlebova, Adriana Kompanikova, Martina Hrnciarova, Andrea Stanclova, Martina Antosova, Anton Dzian, Vladimir Nosal, Ivan Kocan, Dalibor Murgas, Dusan Krkoska, Andrea Calkovska, and Erika Halasova. 2021. "Comparison of SARS-CoV-2 Detection by Rapid Antigen and by Three Commercial RT-qPCR Tests: A Study from Martin University Hospital in Slovakia" International Journal of Environmental Research and Public Health 18, no. 13: 7037. https://doi.org/10.3390/ijerph18137037

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