Table 2.
Primers used in this study
| Primera | Sequence (5′–3′)b | Position (5′–3′)c | Reference |
|---|---|---|---|
| V1-F | GGIGARGAYGGIWSIHTICARGG | 333–355 | 15 |
| V2-R | TGRAAICCIGGIADIGTRTT | 964–945 | 15 |
| vanN-F | CCTCTGCCATTTGTATGAAT | 403–422 | This study |
| vanN-R | TTGACGCTTGATTTCTCTAC | 851–832 | This study |
| RACE-PCR | |||
| vanNRace1-R | GTCCGTCGATGAGATCAG | 497–480 | This study |
| vanNRace2-R | GCCGCAACCAACATAAGGAAT | 395–375 | This study |
| vanNRace3-R | TCTCCAGTGCCACCGTGTA | 337–319 | This study |
| vanRNRace1-R | CTATGGGAAGGCTGATCG | 4188–4171 | This study |
| vanRNRace2-R | TTCCAGCGGGTTGAAAGGT | 4126–4108 | This study |
| vanRNRace3-R | ATCTGCGCCTAGAGTCAGTC | 4093–4074 | This study |
| Sequencing | |||
| vanTm1-F | CATGGTCGTTGCGATTCACTG | 1679–1699 | This study |
| vanTm2-F | CTGCTTATTACAGCGGTTCACGC | 2042–2064 | This study |
| vanTr-F | CTAGGCTATACACCATCGATACG | 2883–2905 | This study |
| vanR-F | GGAGTGGTAGGGATAATGGATAC | 3790–3812 | This study |
| vanT-U-R | TDATNVDNGCNGGNARRTACCA | 2023–2001 | 8 |
| vanT-U2-R | CCNARNCKRTGCAMNCCNGTRTC | 3034–3012 | 8 |
| RserU1-R | AYRTCNGGNARCATNACRTC | 3978–3959 | 8 |
| SerU1-R | GGNGTNYKNARRTCRTGNGC | 4954–4935 | 8 |
| TAIL-PCR | |||
| AD1 | TGWGNAGWANCASAGA | NA | 25 |
| AD2 | AGWGNAGWANCAWAGG | NA | 25 |
| AD3 | CAWCGICNGAIAWGAA | NA | 25 |
| AD4 | TCSTICGNACITWGGA | NA | 25 |
a
F, forward; R, reverse.
b
K for G or T; M for A or C; R for A or G; S for G or C; W for A or T; Y for C or T; D for A, G, or T; V for A, C, or G; I for inosine, and N for any base.
c
Position from the vanN translation start codon. NA, not applicable.