TABLE 2.
Oligonucleotide primers used in the study
| Primer | Target | Melting temp (°C)a | GenBank accession no(s). | Sequenceb |
|---|---|---|---|---|
| CFBS | cfb gene | 56.7 | X72754 | 328-GAT GTA TCT ATC TGG AAC TCT AGT G-352 |
| Sag59c | cfb gene | 77.4 | X72754 | 350-GTGGCTGGTGCATTGTTAT TTT CAC CAG CTG TAT TAG AAG TA-391 |
| Sag190c | cfb gene | 76.8 | X72754 | 545-CATTAACCGGTTTTTCATAATCT GTT CCC TGA ACA TTA TCT TTG AT-500 |
| CFBA | cfb gene | 63.2 | X72754 | 568-TTT TTC CAC GCT AGT AAT AGC CTC-545 |
| 16SS | 16S rRNA gene | 69.3 | AB023574 | 1441-GCC GCC TAA GGT GGG ATA GAT G-1462 |
| 23SA | 23S rRNA gene | 65.7 | X68427 | 70-CGT CGT TTG TCA CGT CCT TC-51 |
| DSF2d | 16S rRNA gene | 75.9 | AB023574 | 975-CATCCTTCTGACC GGC CTA GAG ATA GGC TTT CT-1007 |
| DSR1d | 16S rRNA gene | 81.5 | AB023574 | 1250-CGTCACCGG CTT GCG ACT CGT TGT ACC AA-1222 |
| cpsES3 | cpsE gene | 71.5 | AB028896 (Ia), AF163833 (III) | 6410/6020-GTT AGA TGT TCA ATA TAT CAA TGA ATG GTC TAT TTG GTC AG-6450/6060 |
| cpsFS | cpsF gene | 75.0 | AB028896 (Ia), AF163833 (III) | 6777/6387-CAT CTG GTG CCG CTG TAG CAG TAC CAT T-6804/6414 |
| cpsFA | cpsF gene | 73.2 | AB028896 (Ia), AF163833 (III) | 6859/6469-GTC GAA AAC CTC TAT A/GTA AAC/T GGT CTT ACA A/GCC AAA TAA CTT ACC-6815/6425 |
| cpsGA | cpsG gene | 54.7 | AB028896 (Ia), AF163833 (III) | 7162/6772-AAG/C AGT TCA TAT CAT CAT ATG AGA G-7138/6748 |
| cpsGA1 | cpsG gene | 74.5 | AB028896 (Ia), AF163833 (III) | 7199/6809-CCG CCA/G TGT GTG ATA ACA ATC TCA GCT TC-7171/6781 |
| IacpsHS1 | cpsH gene | 77.9 | AB028896 (Ia) | 8463-GGC CTG CTG GGA TTA ATG AAT ATA GTT CCA GGT TTG C-8499 |
| cpsIA | cpsI gene | 70.3 | AB028896 (Ia), AF163833 (III) | 8816/8312-GTA TAA CTT CTA TCA ATG GAT GAG TCT GTT GTA GTA CGG-8778/8274 |
| IbcpsIS | cpsI gene | 71.1 | AB050723 (Ib) | 4116-GAT AAT AGT GGA GAA ATT TGT GAT AAT TTA TCT CAA AAA GAC G-4158 |
| IbcpsIA1 | cpsI gene | 78.6 | AB050723 (Ib) | 4638-CCT GAT TCA TTG CAG AAG TCT TTA CGA TGC GAT AGG TG-4601 |
| IIIcpsHS | cpsH gene | 72.1 | AF163833 (III) | 7672-GAA TAC TAT TGG TCT GTA TGT TGG TTT TAT TAG CAT CGC-7710 |
| IVcpsHS1 | cpsH gene | 71.2 | AF355776 (IV) | 7887-CCC AAG TAT AGT TAT GAA TAT TAG TTG GAT GGT TTT TGG-7925 |
| IVcpsMA | cpsH gene | 80.7 | AF355776 (IV) | 8265-GGG TCA ATT GTA TCG TCG CTG TCA ACA AAA CCA ATC AAA TC-8225 |
| VcpsHS2 | cpsH gene | 74.0 | AF349539 (V) | 7871-CCC AGT GTG GTA ATG AAT ATT AGT TGG CTA GTT TTT GG-7908 |
| VcpsMA | cpsM gene | 73.1 | AF349539 (V) | 8244-CCC CCC ATA AGT ATA AAT AAT ATC CAA TCT TGC ATA GTC AG-8204 |
| VIcpsHS1 | cpsH gene | 77.2 | AF337958 (VI) | 7767-CCT TAT TGG GCA AGG TAT AAG AGT TCC CTC CAG TGT G-7803 |
| VIcpsIA | cpsI gene | 74.5 | AF337958 (VI) | 8126-GAA GCA AAG ATT CTA CAC AGT TCT CAA TCA CTA ACT CCG-8088 |
a
The primer melting temperatures were provided by a primer synthesizer (Sigma-Aldrich).
b
Numbers represent the numbered base positions at which primer sequences start and finish (numbering start point 1 refers to start points 1 of the GenBank accession numbers for the corresponding genes). Underlined sequences indicate the bases added to modify previously published primers. Slashes between letters indicate the alternative nucleotides in different serotypes. Slashes between numbers indicate alternative positions according to two GenBank references.
c
From Ke et al. (12).
d
From Ahmet et al. (1).