TABLE 3.
Primers used in this study
| Primer no. | Name | Sequence | Description |
|---|---|---|---|
| 341 | pssl7-F-PstI | 5′-CCCC-CTGCAG-GCAGACTAGTAATTGTAGGG | Pssl7-sGFP reporter |
| 489 | sGFP-R-BamHI | 5′-CCC-GGATCC-TTAGTGGTGGTGGTGGTGG | Pssl7-sGFP reporter |
| 1118 | Rot-Mut1-F-NdeI | 5′-CCCCCATATGATGAAAAAAGTAAATAACGACACTGTAGCAGGAATTGCAGCATTAGAAGCACTTTTGG | Forward primer to make a Rot F10A/L13A/Q14A/T17A mutant; use with primer 311 to clone into pOS1Plgt |
| 1120 | Rot-Mut3-F | 5′-CAAAATGGCAAGAGCAGCAATTTTAATTTTACTAAC | Forward SOEing primer to make a Rot S36A/E38A/E39A mutant; use with primer 311 |
| 1121 | Rot-Mut3-R | 5′-GTTAGTAAAATTAAAATTGCTGCTCTTGCCATTTTG | Reverse SOEing primer to make a Rot S36A/E38A/E39A mutant; use with primer 313 |
| 1122 | Rot-Mut4-F | 5′-CTTTATGGGCAAAAGGTTCTATGAC | Forward SOEing primer to make a Rot Q48A mutant; use with primer 311 |
| 1123 | Rot-Mut4-R | 5′-GTCATAGAACCTTTTGCCCATAAAG | Reverse SOEing primer to make a Rot Q48A mutant; use with primer 313 |
| 1124 | Rot-Mut5-F | 5′-GGTTCTATGACGGCAGCAGAAATGGAC | Forward SOEing primer to make a Rot L54A/K55A mutant; use with primer 311 |
| 1125 | Rot-Mut5-R | 5′-GTCCATTTCTGCTGCCGTCATAGAACC | Reverse SOEing primer to make a Rot L54A/K55A mutant; use with primer 313 |
| 1126 | Rot-Mut6-F | 5′-GATTTGTTGAAGCAGCAGCAGCAGCAGCAGCAGCAACGTATAATAATTTAG | Forward SOEing primer to make a Rot K64A/P65A/Y66A/K67A/R68A/T69A/R70A mutant; use with primer 311 |
| 1127 | Rot-Mut6-R | 5′-CTAAATTATTATACGTTGCTGCTGCTGCTGCTGCTGCTGCTTCAACAAATC | Reverse SOEing primer to make a Rot K64A/P65A/Y66A/K67A/R68A/T69A/R70A mutant; use with primer 313 |
| 1128 | Rot-Mut7-F | 5′-CGAGAGCATATAATGCATTAGTTGAATTAG | Forward SOEing primer to make a Rot T71A/N74A mutant; use with primer 311 |
| 1129 | Rot-Mut7-R | 5′-CTAATTCAACTAATGCATTATATGCTCTCG | Forward SOEing primer to make a Rot T71A/N74A mutant; use with primer 313 |
| 1132 | Rot-Mut9-F | 5′-GACGATGAAGCAACAGTTATTATTC | Forward SOEing primer to make a Rot R91A mutant; use with primer 311 |
| 1133 | Rot-Mut9-R | 5′-GAATAATAACTGTTGCTTCATCGTC | Reverse SOEing primer to make a Rot R91A mutant; use with primer 313 |
| 1137 | Rot-Mut13-F | 5′-GAAGAAATTGCAATTTTAGCAACTTTATGGC | Forward SOEing primer to make a Rot L41A/L44A mutant; use with primer 311 |
| 1138 | Rot-Mut13-R | 5′-GCCATAAAGTTGCTAAAATTGCAATTTCTTC | Reverse SOEing primer to make a Rot L41A/L44A mutant; use with primer 313 |
| 311 | rot-6×His–3′-RXhoI | 5′-CCCCTCGAG-TTAGTGATGGTGATGGTGATG-CACAGCAATAATTGCGTTTAAAC | Reverse primer to clone rot into pOS1-Plgt |
| 313 | rot5′F-NdeI | 5′-CCCC-CATATG-AAAAAAGTAAATAACGACACTG | Forward primer to clone rot downstream of the lgt promoter in the pOS1-Plgt plasmid. |
| 270 | hla P1-RT | 5′-AAAAAACTGCTAGTTATTAGAACGAAAGG | qRT-PCR analysis of hla |
| 271 | hla P2-RT | 5′-GGCCAGGCTAAACCACTTTTG | qRT-PCR analysis of hla |
| 278 | 16S P1-RT | 5′-TGAGATGTTGGGTTAAGTCCCGCA | qRT-PCR analysis of 16S rRNA |
| 279 | 16S P2-RT | 5′-CGGTTTCGCTGCCCTTTGTATTGT | qRT-PCR analysis of 16S rRNA |
| 280 | ssl7 P1-RT | 5′-AACGTTAGCTAAAGCAACATTGGC | qRT-PCR analysis of ssl7 |
| 281 | ssl7 P2-RT | 5′-TTGCTTGAACTGCTTGGCCTTCTG | qRT-PCR analysis of ssl7 |
| 290 | spA1P1-RT | 5′-CAGCAAACCATGCAGATGCTA | qRT-PCR analysis of spa |
| 291 | spA2P2-RT | 5′-GCTAATGATAATCCACCAAATACAGTTG | qRT-PCR analysis of spa |
| 370 | lukE-P1 | 5′-GAAATGGGGCGTTACTCAAA | qRT-PCR analysis of lukE |
| 371 | lukE-P2 | 5′-GAATGGCCAAATCATTCGTT | qRT-PCR analysis of lukE |
| 305 | pssl7-R-BIO | 5′-BIO-CCCC-AGTACTATTCTCCCAATCTATTT | Biotinylated primer for EMSA probe amplification |
| 341 | pssl7-F | 5′-CCCC-CTGCAG-GCAGACTAGTAATTGTAGGG | EMSA probe amplification |
| 736 | plukED-F-BIO | 5′-BIO-AAGTTTCACTTTCTTTCTATATAAAT | Biotinylated primer for EMSA probe amplification |
| 397 | plukED-R | 5′-CCC-CTGCAG-ATCTTCGTTTAACGGACAATAG | EMSA probe amplification |