TABLE 1.
Molecular beacon probe and primer sequences
| Oligonucleotidea | Sequence (5′–3′)b |
|---|---|
| MAB2248 for | GTGACCGGTCTCGATCAGTT |
| MAB2248 rev | CATTGTCTGGCGTCAATGGC |
| MAB2248 bol MB | CFR610-CCGTGC CTCGGGAACCGGATGACT GCACGG-BHQ-2 |
| MAB2830 for | CCTCATCGAGGACGGTCAGA |
| MAB2830 rev | CACGAATCCGGGCAGCAATA |
| MAB2830 abs MB | FAM-CCGTCG CGAGGCCGGCATCGGCGCA CGACGG-BHQ-1 |
| MAB2830 mas MB | Q670-CCGTCG GAAGCTGGTATCGGTCCAGG CGACGG-BHQ-2 |
| 23S rrl for | CGGCGAAATTGCACTACGAG |
| 23S rrl rev | CCGAACCAAACGCCAATACC |
| 23S rrl WT MB | FAM-CGCTGC CAGGACGAAAAGACCCC GCAGCG-BHQ-1 |
| Δerm(41) for | TTCAGGGGAGTTCGTTGTGA |
| Δerm(41) rev | AAAGTGCTTCGCGGCAATG |
| Δerm(41) MB | CFR610-CACGG TGGACGCTCCGGGC CCGTG-BHQ-2 |
| erm(41) T28C for | GCATGCCCCGATATCTTTGG |
| erm(41) T28C rev | ATCCACAACGAACTCCCCTG |
| erm(41) T28C MB | Q670-CGCTG ACGCCAGCGGGGCTG CAGCG-BHQ-2 |
a
Forward (for) and reverse (rev) primers and molecular beacon probe (MB) sequences for each of the target genes. abs, M. abscessus subsp. abscessus; bol, M. abscessus subsp. bolletii; mas, M. abscessus subsp. massiliense; WT, wild-type.
b
BHQ-1, Blackhole Quencher 1; BHQ-2, Blackhole Quencher 2; CFR610, Cal Fluor Red 610; FAM, fluorescein; Q670, Quasar 670; underlined nucleotides represent arm sequences of the molecular beacon probe.