TABLE 3.
Sets of LAMP oligonucleotides used in this study.
| LAMP primer | Sequence (5′–3′) | References |
| N_Set1_F3 | TGGCTACTACCGAAGAGCT | Ben-Assa et al., 2020; Bhadra et al., 2021; Song et al., 2021; Rabe and Cepko, 2020; Thi et al., 2020; Zhang et al., 2020a; Anahtar et al., 2021; this study |
| N_Set1_B3 | TGCAGCATTGTTAGCAGGAT | |
| N_Set1_FIP | TCTGGCCCAGTTCCTAGGTA GTGACGAATTCGTGGTGGTGA | |
| N_Set1_BIP | AGACGGCATCATATGGGTTGC ACGGGTGCCAATGTGATCT | |
| N_Set1_LF | TGGACTGAGATCTTTCATTTTACCG | |
| N_Set1_LB | ACTGAGGGAGCCTTGAATACA | |
| N_Set2_F3 | TGGACCCCAAAATCAGCG | Huang et al., 2020; González-González et al., 2021; this study |
| N_Set2_B3 | GCCTTGTCCTCGAGGGAAT | |
| N_Set2_FIP | CCACTGCGTTCTCCATTCTGGTAA ATGCACCCCGCATTACG | |
| N_Set2_BIP | CGCGATCAAAACAACGTCGGCCC TTGCCATGTTGAGTGAGA | |
| N_Set2_LF | TTGAATCTGAGGGTCCACCAAA | |
| N_Set2_LB | GGTTTACCCAATAATACTGCGTCTT | |
| E_Set1_F3 | TGATGAGCCTGAAGAACATG | This study |
| E_Set1_B3 | CGCTATTAACTATTAACGTACCT | |
| E_Set1_FIP | TCGGTTCATCATAAATTGGTTCCAT CAAATTCACACAATCGACGG | |
| E_Set1_BIP | ACGACTACTAGCGTGCCTTTGTCT CTTCCGAAACGAATG | |
| E_Set1_LF | ACTGGATTAACAACTCCGGATGA | |
| E_Set1_LB | GTAAGCACAAGCTGATGAGTACGAA | |
| RdRp_F3 | CTGTCAAATTACAGAATAATGAGC | This study |
| RdRp_B3 | TCCATCACTCTTAGGGAATC | |
| RdRp_FIP | TGTCATCAGTGCAAGCAGTTTGCTG TTGCACTACGACAGA | |
| RdRp_BIP | ATGCGTTAGCTTACTACAACACACC CATTTCAAATCCTGTAAATCG | |
| RdRp_LF | ACCGGCAGCACAAGACA | |
| RdRp_LB | ACAAAGGGAGGTAGGTTTGTACT | |
| N2_F3 | ACCAGGAACTAATCAGACAAG | Butler et al., 2020; Zhang et al., 2020b |
| N2_B3 | GACTTGATCTTTGAAATTTGGATCT | |
| N2_FIP | TTCCGAAGAACGCTGAAGCGGAAC TGATTACAAACATTGGCC | |
| N2_BIP | CGCATTGGCATGGAAGTCACAATTT GATGGCACCTGTGTA | |
| N2_LF | GGGGGCAAATTGTGCAATTTG | |
| N2_LB | CTTCGGGAACGTGGTTGACC | |
| E1_F3 | TGAGTACGAACTTATGTACTCAT | Butler et al., 2020; Zhang et al., 2020b |
| E1_B3 | TTCAGATTTTTAACACGAGAGT | |
| E1_FIP | ACCACGAAAGCAAGAAAAAGAAG TTCGTTTCGGAAGAGACAG | |
| E1_BIP | TTGCTAGTTACACTAGCCATCCTTA GGTTTTACAAGACTCACGT | |
| E1_LF | CGCTATTAACTATTAACG | |
| E1_LB | GCGCTTCGATTGTGTGCGT |
Ref, references where the DNA oligos where originally published or share the same set of primers; F3/B3, outer forward (F) and backward primers; FIP/BIP, inner primers; LF/LB, loop primers. For detailed information on targeted SARS-CoV-2 sequence used, refer to Supplementary Figures 4–6 and Figure 9.