TABLE 2.
pmpE, pmpH, and pmpI internal sequencing primers
| Primer | Sequence (5′-3′) | Nucleotide locationc and direction |
|---|---|---|
| pmpE-560 | TAC CTT TGT TGT GAG CGA GAA TC | 560, forward |
| pmpE-570R | AAC AAG ACT GAT TCT CGC TCA C | 570, reverse |
| pmpE-1259 | CAA TAA GGA AGC TGA TCA AAC AG | 1259, forward |
| pmpE-1510R | CCW ATA TGA TTM AGT GTT AYA GAG G | 1510, reverse |
| pmpE-2359R | TCT CCT TGR GTA TAG AAA TGG TGA C | 2359, reverse |
| pmpE-2499 | GCT CTT GGT ATT TAT TCT AGC CTG | 2499, forward |
| pmpH-443REV | GGC ACA ATA GAC AAA GGA GAA TAC C | 443, reverse |
| pmpH-1026 | TCT TGT AGC AGA TGA TTC GGT TGT C | 1026, forward |
| pmpH-1097REVa | CCA TTC GTG CTC ATA TTG ATA GTA G | 1097, reverse |
| pmpH-1174REVa | ACC AGA GCT TGC TTC ACT CAC | 1174, reverse |
| pmpH-1914a | CAC TAT TAA TGA TGC AGA TGC TGC | 1914, forward |
| pmpH-2011a | GTA CCT CCT AAT ACC AAT AAC ACT CTG | 2011, forward |
| pmpH-2188REV | CAT GCA GAG ATG CTA CAA ATC CAA C | 2188, reverse |
| pmpH-2619 | TCG TCA GTT CGC TAG AGA TTA TGA G | 2619, forward |
| pmpI-435R | GCA GAG ATG GCT CCT CCA GAG | 435, reverse |
| pmpl-627 | CGG CGC TAT TTG CTG TAG TAA TC | 627, forward |
| pmpI N2b | TCC CCC GGG CGT GAC TTC TCC CAC CCC | 1118, forward |
| pmpI C2b | AGA AAG CTT AGG GGC GTG GAT AGT TAC | 1438, reverse |
| pmpI-1659 | TTC TTG GAA AGA TTC TGA TGA AGG G | 1659, forward |
| pmpI-1729REV | ACG AGT GTA GAT TGA CGT TCT GG | 1729, reverse |
| pmpI-2301 | TGA GGA GAG TTC GGG AGA GAT TC | 2301, forward |
a
pmpH-1174REV and pmpH-2011 did not work on all strains due to mismatches in those regions with LGV and ocular strains. Therefore, pmpH-1097REV and pmph-1914 were made as alternate primers.
b
Underlined bases in pmpI N2 and pmpI C2 indicate restriction sites added to the primer and are not part of the pmpI gene.
c
Primer locations indicate base position of each primer in serovar D for each pmp gene.