Table 4.
Primers used in this study
| Name | Oligo sequence | |
|---|---|---|
| Primers used for generating KO mutants | TII_D_fl1_fw | 5′-GCTACGGATCCCTGCCAGGTATTGCCGTATT-3′ |
| TII_D_fl1_rv | 5′-GCTACAAGCTTCAATCAGCTTGTCGAATTGC-3′ | |
| TII_D_fl2_rv | 5′-GCCCAGTAGCTGACATTCATCCCCGATCAATTATGCAAGCAG-3′ | |
| TII_D_fl2_fw | 5′-TTCTTGACGAGTTCTTCTGATGGACTGGATGTCTGGATCA-3′ | |
| TII_C_fl1_fw | 5′-GCTACGAATCTCAGATCTGTGCGAGGATTG-3′ | |
| TII_C_fl1_rv | 5′-GCTACAAGCTTCAACTCGCCTTTACGTACCC-3′ | |
| TII_C_fl2_rv2 | 5′-GCCCAGTAGCTGACATTCATCCGACGGCATGATGAGTTTGTG-3′ | |
| TII_C_fl2_fw2 | 5′-TTCTTGACGAGTTCTTCTGAAGCAAGCTGGTCAGGAACAT-3′ | |
| Kan_F | 5′-ATGATTGAACAAGATGGATTGC-3′ | |
| Kan_R | 5′-GCCTTCTTGACGAGTTCTTCTGA-3′ | |
| Chi_Fl1_F | 5′-GAACTAGTCTCGATCATGGGGGTATTTG-3′ | |
| Chi_Fl1_R | 5′-GCCCAGTAGCTGACATTCATCCCAGGTGCTTTTTCATTGCTTC-3′ | |
| Chi_Fl2_F | 5′-GCCTTCTTGACGAGTTCTTCTGACGTGACGTATCGTGCAAAGT-3′ | |
| Chi_Fl2_R | 5′-ATCCCGGGACGCGGTCAAGTCGATGTAG-3′ | |
| Kan_Chi_F | 5′-GAAGCAATGAAAAAGCACCTGGGATGAATGTCAGCTACTGGGC-3′ | |
| Kan_Chi_R | 5′-ACTTTGCACGATACGTCACGTCAGAAGAACTCGTCAAGAAGGC-3′ | |
| P1_chtos | 5′-GCTACGGGCCCGGCATCGGTGACTATCGTAAC-3′ | |
| P2_chtos | 5′-GCTACTTAATTAAGCTAGCGTAGCACAGCCGATACCGTAAGC-3′ | |
| P3_chtos | 5′-GCTACGCTAGCTTAATTAAGTAGCGCAATGGAGCAAGCTGATGG -3′ | |
| P4_chtos | 5′-GCTACGCGGCCGCAACGTGCGCGACGATACGTTC-3′ | |
| Kan_chts_F | 5′-GGATGAATGTCAGCTACTGGGC-3′ | |
| Kan_chts_R | 5′-TCAGAAGAACTCGTCAAGAAGGC-3′ | |
| P1_chtbdp | 5′-GCTACGCGGCCACGCCGAGATGATGTTG-3′ | |
| P2_chtbdp | 5′-GCTACTTAATTAAGCTAGCGTAGCCGATCGTGCGTGAGTAAG-3′ | |
| P3_chtbdp | 5′-GCTACGCTAGCTTAATTAAGTAGCAGCCAACCGACGTACCTACC-3′ | |
| P4_chtbdp | 5′-GCTACGGGCCCAAGACGGCGGGCGTATTACC-3′ | |
| Kan_cbp_F | 5′-GGATGAATGTCAGCTACTGGGC-3′ | |
| Kan_cbp_R | 5′-TCAGAAGAACTCGTCAAGAAGGC-3′ | |
| Primers used for RT-qPCR studies | TIISS_D_RT_F | 5′-GAGCAGCGATACCAACATCC-3′ |
| TIISS_D_RT_R | 5′-TTGAATGCGGAGACCGAAG-3′ | |
| TIISS_C_RT_F | 5′-AGCGTCACTTACTGGGTCATC-3′ | |
| TIISS_C_RT_R | 5′-CGAGCCGAACAGAGTTTGAG-3′ | |
| Chi_RT_F | 5′-CGCTGGATACGGTCAACATC-3′ | |
| Chi_RT_R | 5′-GCCTTGCACGTCATTCTT-3′ | |
| CBP_RT_F | 5′-ACGACAGCGCATAATCCTTC-3′ | |
| CBP_RT_R | 5′-GGGTGCATCGTAAATCAGGT | |
| Chtos_RT_F | 5′-AGGTGGACTGACCCGTATTG | |
| Chtos_RT_R | 5′-TTGCACGCTGTATTGGATGT-3′ | |
| rpoB_RT_F | 5′-ATTTCCTTCACCAGCACGTT-3′ | |
| rpoB_RT_R | 5′-TTCGGGGAAATGGAAGTGT-3′ | |
| Primers used for control of generated mutants | Arm_A_rv (Kan) | 5′-AGTGACAACGTCGAGCACAG-3′ |
| Arm_B_fw (Kan) | 5′-CGTTGGCTACCCGTGATATT-3′ | |
| TIISSD_C_A_fw | 5′-TCACCTCACGTAGCAGATCG-3′ | |
| TIISSD_C_rv | 5′-GCATCGACGAAATTCAAGGT-3′ | |
| TIISSD_D_fw | 5′-GATAACCGGATCGTCAAGGA-3′ | |
| TIISSD_D_B_rv | 5′-CCGGACAAGTCGTACTCGAT-3′ | |
| TIISSD_Int_fw | 5′-GTCGAGGGACCAAAGTTTCA-3′ | |
| TIISSD_Int_rv | 5′-GGCGTAGACAGGATGTTGGT-3′ | |
| TIISSC_CA_fw | 5′-ACTCCAGCCCGCATACATAC-3′ | |
| TIISSC_C_rv | 5′-ATTCAGCGCACGTAGATCGT-3′ | |
| TIISSC_D_fw | 5′-GCGTCACTTACTGGGTCATC-3′ | |
| TIISSC_DB_rv | 5′-AGGAAGTGCTGCGTGTAACC-3′ | |
| Chi_Ctrl1_KO_F | 5′-GAACCATTCGCCTTCTTCAC-3′ | |
| Chi_Ctrl1_WT_R | 5′-ATCGCTTTCAACAGGTGCTT-3′ | |
| Chi_Ctrl2_WT_R | 5′-CCAGTTGTGGCAAATGATTG-3′ | |
| Chi_Ctrl2_KO_R | 5′-ATTTCGGCTCTGACGTGACT-3′ | |
| Chi_Int_fw | 5′-TGACCTCCATCGCCAAGTCG-3′ | |
| Chi_Int_rv | 5′-CGGAACACCTGCGTGAATGC-3′ | |
| Chtos_ext_for_1 | 5′-GAAGCGTGATGTGATTGAAG-3′ | |
| Chtos_ext_rev_1 | 5′-AAGTCGCATCCAGACATTG-3′ | |
| Chtos_int_for_1 | 5′-GACGCCAAGACGATCTACCA-3′ | |
| Chtos_int_rev_1 | 5′-TTGGGCTTTGACCTTGCTAC-3′ | |
| Cbp_ext_for_1 | 5′-ACTTTCTGAATACAGCTTGC-3′ | |
| Cbp_ext_rev_1 | 5′-CAGTCATGATGCAATACGTG-3′ | |
| Cbp_int_for_1 | 5′-GCGGTCTAGTCCCTGCTTAC-3′ | |
| Cbp_int_rev_1 | 5′-GAGGCTATTGGTCGTCACCT-3′ | |
| pBS_nspI_for_I | 5′-AGCTCACTCAAAGGCGGTAA-3′ | |
| pBS_nspI_rev_I | 5′-TTTTTGTGATGCTCGTCAGG-3′ |