Various variants of severe acute respiratory syndrome (SARS) coronavirus 2 (SARS-CoV-2) began emerging worldwide from the end of 2020 to the beginning of 2021. The variants GRY/VOC202012/01 (B1.1.7), GH/N501Y.V2 (B1.351), and GR/N501Y.V3 (P1) are characterized by N to Y amino acid substitution at position 501 in the S protein. The variant containing L to R substitution at position 452 in the S protein G/L452R.V3 (B1.617) was endemic to India. The heightened concern regarding these variants is related to their increased viral infectivity. Information about nucleotide mismatch(es) on the primer/probe sequence is important for maintaining good performance of real-time PCR assays. In this study, real-time RT-PCR assays developed by the National Institute of Infectious Diseases, Japan (NIID-N2 and NIID-S2 assays), were reviewed to analyze nucleotide mismatches of variants in primer/probe sequences. The frequency of mismatched sequences in three variants (GRY/VOC202012/01, GH/N501Y.V2, and GR/N501Y.V3) was lower than that in all SARS-CoV-2 sequences. The mismatch, that G to C substitution at nucleotide 8 in reverse primer of S2 set, elevated to about 16.3% in G/L452R.V3, however the substitution did not affect the analytical sensitivity of assay. Therefore, the study indicates that the NIID-N2 and NIID-S2 sets detect VOCs of SARS-CoV-2 with reliable efficiency.

从 2020 年底到 2021 年初，严重急性呼吸综合征 (SARS) 冠状病毒 2 (SARS-CoV-2) 的各种变体开始在全球范围内出现。变体 GRY/VOC202012/01 (B1.1.7)、GH/N501Y。 V2 (B1.351) 和 GR/N501Y.V3 (P1) 的特征在于 S 蛋白中 501 位的 N 到 Y 氨基酸取代。在 S 蛋白 G/L452R.V3 (B1.617) 的第 452 位包含 L 到 R 替换的变体是印度特有的。对这些变体的高度关注与它们增加的病毒感染性有关。关于引物/探针序列上核苷酸错配的信息对于保持实时 PCR 分析的良好性能很重要。在这项研究中，日本国立传染病研究所开发的实时 RT-PCR 检测（NIID-N2 和 NIID-S2 检测），审查以分析引物/探针序列中变体的核苷酸错配。三个变体（GRY/VOC202012/01、GH/N501Y.V2 和 GR/N501Y.V3）中错配序列的频率低于所有 SARS-CoV-2 序列。S2组反向引物中第8个核苷酸处的G到C取代的错配在G/L452R.V3中升高到约16.3%，但是取代不影响测定的分析灵敏度。因此，该研究表明 NIID-N2 和 NIID-S2 集能够以可靠的效率检测 SARS-CoV-2 的 VOC。在 G/L452R.V3 中升高至约 16.3%，但该替代不影响测定的分析灵敏度。因此，该研究表明 NIID-N2 和 NIID-S2 集能够以可靠的效率检测 SARS-CoV-2 的 VOC。在 G/L452R.V3 中升高至约 16.3%，但该替代不影响测定的分析灵敏度。因此，该研究表明 NIID-N2 和 NIID-S2 集能够以可靠的效率检测 SARS-CoV-2 的 VOC。