Author: Santos, Renan da Silva; Bret, Raissa Souza Caminha; Moreira, Ana Cristina de Oliveira Monteiro; Campos, Adriana Rolim; Silva, Angelo Roncalli Alves e; Lima, Danielle Malta; Tavares, Kaio Cesar Simiano
Title: In silico analysis of mismatches in RT-qPCR assays of 177 SARS-CoV-2 sequences from Brazil Cord-id: a6o9n89j Document date: 2020_11_25
ID: a6o9n89j
Snippet: 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 Brazili
Document: 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.
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