In silico analysis of mismatches in RT-qPCR assays of 177 SARS-CoV-2 sequences from Brazil.

Autor:	Santos RDS; Universidade de Fortaleza, Núcleo de Biologia Experimental (NUBEX), Fortaleza, CE, Brasil., Bret RSC; Universidade de Fortaleza, Núcleo de Biologia Experimental (NUBEX), Fortaleza, CE, Brasil., Moreira ACOM; Universidade de Fortaleza, Núcleo de Biologia Experimental (NUBEX), Fortaleza, CE, Brasil., Campos AR; Universidade de Fortaleza, Núcleo de Biologia Experimental (NUBEX), Fortaleza, CE, Brasil., Silva ARAE; Universidade de Fortaleza, Núcleo de Biologia Experimental (NUBEX), Fortaleza, CE, Brasil., Lima DM; Universidade de Fortaleza, Núcleo de Biologia Experimental (NUBEX), Fortaleza, CE, Brasil., Tavares KCS; Universidade de Fortaleza, Núcleo de Biologia Experimental (NUBEX), Fortaleza, CE, Brasil.
Jazyk:	angličtina
Zdroj:	Revista da Sociedade Brasileira de Medicina Tropical [Rev Soc Bras Med Trop] 2020 Nov 25; Vol. 53, pp. e20200657. Date of Electronic Publication: 2020 Nov 25 (Print Publication: 2020).
DOI:	10.1590/0037-8682-0657-2020
Abstrakt:	Introduction: Quantitative reverse transcription polymerase chain reaction (RT-qPCR) can detect the severe acute respiratory syndrome Coronavirus-2 (SARS-CoV-2) in a highly specific manner. However, a decrease in the specificity of PCR assays for their targets may lead to false negative results. Methods: Here, 177 high-coverage complete SARS-CoV-2 genome sequences from 13 Brazilian states were aligned with 15 WHO recommended PCR assays. Results: Only 3 of the 15 completely aligned to all Brazilian sequences. Ten assays had mismatches in up to 3 sequences and two in many sequences. Conclusion: These results should be taken into consideration when using PCR-based diagnostics in Brazil.
Databáze:	MEDLINE
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