Comparative performance of SARS-CoV-2 real-time PCR diagnostic assays on samples from Lagos, Nigeria.

Autor: Onwuamah CK; Microbiology Department, Centre for Human Virology and Genomics, Nigerian Institute of Medical Research, Yaba, Lagos State, Nigeria., Okwuraiwe AP; Microbiology Department, Centre for Human Virology and Genomics, Nigerian Institute of Medical Research, Yaba, Lagos State, Nigeria., Salu OB; Department of Medical Microbiology and Parasitology, Centre for Human & Zoonotic Virology, College of Medicine, University of Lagos, Idi-Araba, Lagos State, Nigeria., Shaibu JO; Microbiology Department, Centre for Human Virology and Genomics, Nigerian Institute of Medical Research, Yaba, Lagos State, Nigeria., Ndodo N; National Reference Laboratory, Nigeria Centre for Disease Control, Abuja, Nigeria., Amoo SO; Microbiology Department, Centre for Human Virology and Genomics, Nigerian Institute of Medical Research, Yaba, Lagos State, Nigeria., Okoli LC; Microbiology Department, Centre for Human Virology and Genomics, Nigerian Institute of Medical Research, Yaba, Lagos State, Nigeria., Ige FA; Microbiology Department, Centre for Human Virology and Genomics, Nigerian Institute of Medical Research, Yaba, Lagos State, Nigeria., Ahmed RA; Microbiology Department, Centre for Human Virology and Genomics, Nigerian Institute of Medical Research, Yaba, Lagos State, Nigeria., Bankole MA; Lagos State Biosecurity and Biobank Laboratory, Mainland Hospital, Lagos State Ministry of Health, Lagos, Lagos State, Nigeria., Sokei JO; Microbiology Department, Centre for Human Virology and Genomics, Nigerian Institute of Medical Research, Yaba, Lagos State, Nigeria., Mutiu BP; Lagos State Biosecurity and Biobank Laboratory, Mainland Hospital, Lagos State Ministry of Health, Lagos, Lagos State, Nigeria., Ayorinde J; Department of Biochemistry and Nutrition, Nigerian Institute of Medical Research, Yaba, Lagos State, Nigeria., Saka BA; Global Emerging Pathogens Treatment Consortium (GET), Yaba, Lagos State, Nigeria., Obiekea C; National Reference Laboratory, Nigeria Centre for Disease Control, Abuja, Nigeria., Mba N; National Reference Laboratory, Nigeria Centre for Disease Control, Abuja, Nigeria., Adegbola RA; Microbiology Department, Centre for Human Virology and Genomics, Nigerian Institute of Medical Research, Yaba, Lagos State, Nigeria., Omilabu S; Microbiology Department, Centre for Human Virology and Genomics, Nigerian Institute of Medical Research, Yaba, Lagos State, Nigeria.; Department of Medical Microbiology and Parasitology, Centre for Human & Zoonotic Virology, College of Medicine, University of Lagos, Idi-Araba, Lagos State, Nigeria., Ihekweazu C; Director-General's Office, Nigeria Centre for Disease Control, Abuja, Nigeria., Salako BL; Director-General's Office, Nigerian Institute of Medical Research, Yaba, Lagos State, Nigeria., Audu R; Microbiology Department, Centre for Human Virology and Genomics, Nigerian Institute of Medical Research, Yaba, Lagos State, Nigeria.
Jazyk: angličtina
Zdroj: PloS one [PLoS One] 2021 Feb 04; Vol. 16 (2), pp. e0246637. Date of Electronic Publication: 2021 Feb 04 (Print Publication: 2021).
DOI: 10.1371/journal.pone.0246637
Abstrakt: A key element in containing the spread of the SARS-CoV-2 infection is quality diagnostics which is affected by several factors. We now report the comparative performance of five real-time diagnostic assays. Nasopharyngeal swab samples were obtained from persons seeking a diagnosis for SARS-CoV-2 infection in Lagos, Nigeria. The comparison was performed on the same negative, low, and high-positive sample set, with viral RNA extracted using the Qiagen Viral RNA Kit. All five assays are one-step reverse transcriptase real-time PCR assays. Testing was done according to each assay's manufacturer instructions for use using real-time PCR platforms. 63 samples were tested using the five qPCR assays, comprising of 15 negative samples, 15 positive samples (Ct = 16-30; one Ct = 35), and 33 samples with Tib MolBiol E-gene Ct value ranging from 36-41. All assays detected all high positive samples correctly. Three assays correctly identified all negative samples while two assays each failed to correctly identify one different negative sample. The consistent detection of positive samples at different Ct/Cq values gives an indication of when to repeat testing and/or establish more stringent in-house cut-off value. The varied performance of different diagnostic assays, mostly with emergency use approvals, for a novel virus is expected. Comparative assays' performance reported may guide laboratories to determine both their repeat testing Ct/Cq range and/or cut-off value.
Competing Interests: The authors have declared that no competing interests exist.
Databáze: MEDLINE
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