Table 3.
Oligonucleotide probes used in this study
| Probe | Target gene or virulence factor | Tm (°C)a | Sequence (5′-3′) | GenBank accession no. |
|---|---|---|---|---|
| OA-1809 | toxR | 74.6 | 115-AGTTGTACGATTAGGAAGCAACGAAAGCCGTATACTC-152 | AB029914.1 |
| OA-1810 | toxR | 74.9 | 177-AAGTTTTAACCCGTAACGAGCTTCACGAGTTTGTTT-212 | AB029914.1 |
| OA-1844 | nuc | 58.3 | 324-GATACACCTGAAACAAAGCATCC-346 | EF529608.1 |
| OA-1845 | nuc | 51.3 | 355-GTGTAGAGAAATATGGTCCTGA-376 | EF529608.1 |
| OA-1846 | nuc | 50.9 | 435-GACAAAGGTCAAAGAACTGAT-455 | EF529608.1 |
| OA-1987 | ipaH | 55.6 | 596-GATAATGATACCGGCGCTCTGCTCTCC-622 | M76444.1 |
| OA-1989 | ipaH | 50 | 702-AGATAGAAGTCTACCTGGCCTTCCAGACCA-731 | M76444.1 |
| OA-1990 | ipaH | 50 | 768-AGGAAATGCGTTTCTATGGCGTGTCG-793 | M76444.1 |
| OA-1991 | ipaH | 51.9 | 883-ACCATGGCATGCTGTACTGAAGCGTAC-909 | M76444.1 |
| OA-2408 | ITS | 62.2 | 209-GAATAACTAAGCTAATTCAAATGAGTTATCTTACT-243 | FJ518147.1 |
| OA-2409 | ITS | 68.2 | 481-CCACCCAGATAGTCTTTGAAAGAGACACTTT-511 | FJ518156.1 |
| OA-2416 | ITS | 70.9 | 405-AGCGCACAGTCAGCGCAACATACATTA-431 | FJ518156.1 |
| OA-2417 | ITS | 63.8 | 491-CCCAGACGTCATTAAGAAGAAACATCT-517 | FJ518583.1 |
| OA-2949 | invA | 73.2 | 1454-GCAACGTCAATGAATATTTCGGTATTCAGGAAAC-1487 | L26162.1 |
| OA-2950 | invA | 70.9 | 1741-GAATTACGAGCAGTAATGGTATCTGCTGAAGTTG-1774 | L26162.1 |
| OA-2954 | speB | 72.3 | 647-GGTAACCCTTACAACCTATTGACACCTGTTATTGAAA-683 | L26162.1 |
| OA-2956 | speB | 74.1 | 827-CCATATTTCAACCATCCTAAGAACTTGTTTGCAGC-861 | L26162.1 |
| OA-3147 | ail | 66.8 | 230-ATGATTTCTTCTATGGCAGTAATAAGTTTGGTC-262 | M29945.1 |
| OA-3150 | ail | 69.1 | 355-GGAAAGGTTAAGGCATCTGTATTTGATGAATC-386 | M29945.1 |
| OA-3155 | rfbE | 69 | 410-CTTTAAGAGATCTGTGTGATGAGCACGGC-438 | DQ772987.1 |
| OA-3159 | rfbE | 71.5 | 619-AACCAAGGGGTAGTGGCAGGGAAGC-643 | DQ772987.1 |
| OA-3160 | rfbE | 70.7 | 564-CATCACATCGGGCGAGGGTGGTAT-568 | DQ772987.1 |
| OA-3163 | rpoS | 71.7 | 563-ATGAGCCAACCGCTGAAGAGATCGC-587 | AY187681.1 |
| OA-3165 | rpoS | 70 | 597-GGATATTCCGGTTGACGATGTGAGCA-622 | AY187681.1 |
| OA-3167 | rpoS | 69.2 | 864-TGGGCAAGAGATTGGTTTAACTCGTGA-890 | AY187681.1 |
| OA-3168 | hlyA | 71.6 | 854-CCTACAAGACCTTCCAGATTTTTCGGCAA-882 | U25446.1 |
| OA-1993 | 16S rRNA gene | 71.9 | 1380-TTGTACACACCGCCCGTCACACCAT-1404b | X80725 |
| WL-4006 | TTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTc | |||
| Cy3 | TTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTT-Cy3d |
a
Predicted using Primer Premier 5.0 software.
b
The 16S rRNA gene-based probe was used as the positive control.
c
The poly(T)40 probe was used as the negative control.
d
The poly(T)40 probe labeled with 3′-Cy3 was used as the positional reference and printing control.