Table 1.
Primer sequences used in RT-LAMP and RT-qPCR.
Fig 1.
Number of collected samples and SARS-CoV-2 lineage determination during COVID-19 waves in Gabon.
The number of samples collected every month is shown on the graph. Bar colors depict the lineages of SARS-CoV-2 detected in each sample. Monthly COVID-19 cases in Gabon are represented on the graph with a dotted line. The first, second, and third waves of COVID-19 are highlighted in orange, and the lineages of SARS-CoV-2 detected in samples collected during each COVID-19 wave are shown in the upper pie graph.
Table 2.
Evaluation of the sensitivity of RT-LAMP assay using viral RNA of SARS-CoV-2 variants.
Fig 2.
Validation of RT-LAMP assay using clinical samples collected between March 2020 and October 2021 in Gabon.
The time to positivity (Tp) determined by RT-LAMP was plotted against viral genome copies per reaction for each sample assessed in this study. Colors depict the lineages of SARS-CoV-2. The correlation curve is shown on the plots.
Table 3.
Validation of RT-LAMP assay using clinical samples collected in Gabon.
Fig 3.
Nucleotide identity within the RT-LAMP primer binding site in BA.2 and BA.3 strains.
Nucleotide identity was plotted against the nucleotide position of each RT-LAMP primer sequence. The arrows depict the length and direction of each primer. Colors indicate each primer set. A total of 5,920 and 1,678 strains were used for evaluating BA.2 and BA.3 variant sequences, respectively.
Table 4.
Evaluation of the sensitivity of RT-LAMP assay for the detection of viral RNAs of Omicron variants.