Table 2. Primers and DNA probes used in this study1.
Primer Name Primer Sequence 5’ 3’
EMSA primers EMSA primers
5’_pagR_EMSA (5’ 6-FAM label) CGCAAATTTCCAGCGCCTGCG
3’_pagR_EMSA (5’ HEX label) TACACCGGCAAGTTGGGCTAC
Deletion, Cloning, and RT-qPCR primers
5’_pagR_wanner
ATGTCGATACCCCGTAAACGGCGCAGTA CCGGTAAAGTGTAGGCTGGAGCTGCTTC
3’_pagR_wanner
TTAGCAGCTTTCCCGCATACATAAACTG GAGGCGATCATATGAATATCCTCCTTAG
5’_pagR_BspQI NNGCTCTTCNTTCATGTCGATACCCCGTAAACG
3’_pagR_BspQI NNGCTCTTCNTTATTAGCAGCTTTCCCGCATAC
5’_tktD_BspQI NNGCTCTTCNTTCATGAACGTAACCGAAA
3’_tktE_BspQI NNGCTCTTCNTTATTAAAGCAGTGATTTCG
5’_tktA_BspQI NNGCTCTTCNTTCATGTCCTCACGTAAAGAGCTTG
3’_tktA_BspQI NNGCTCTTCNTTATTACAGCAGTGCTTTCGCTT
5’_tktB_BspQI NNGCTCTTCNTTCATGTCCCGTAAAGACCTTGC
3’_tktB_BspQI NNGCTCTTCNTTATTAGCCTTTGATGTTTAGCACC
5’_tktD_wanner
TCACCCAACTGGCGCGCGATATTCGCGT CGCCACGCGTGTAGGCTGGAGCTGCTTC
3’_tktE_wanner
TTTCGCGGCTTCTACAATCGCTTCGGCGG TGAGTCCCATATGAATATCCTCCTTAG
5’_stm2343_qPCR GTTCCGGCCTGGGTAGTAGTT
3’_stm2343_qPCR CCGATGAAAGATCGGAGTGT
5’_tktD_qPCR CGATGATATCGCCGGACTAC
3’_tktD_qPCR CCTCATTGAGCGTCTGCTTC
5’_tktE_qPCR CTATCGATCGCATGTTGGTG
3’_tktE_qPCR CTGCCCATAACGCTCTTTGA
Operon PCR Primers
5’_operon PCR_1 AGCGCCATAAAGAGCTGA
3’_operon PCR_1 CGATGATATCGCCGGACTAC
5’_operon PCR_2 TATTCAGCTCTTCGCGCG
3’_operon PCR_2 TCCTGCCAGTGCTGTTAC
5’_operon PCR_3 ACATACCCCCTAGCGG
3’_operon PCR_3 GTTCCGGCCTGGGTAGTAGTT
5’_operon PCR_4 CCGATGAAAGATCGGAGTGT
3’_operon PCR_4 TTGGGCCATATTATGTATTAGCG
DNase 1 Footprinting Primers
5’_sequencing template GGTACTGCGCCGTTTAC
3’_sequencing template GAACAATCGCCGTAAGGTATTC
5’_digestion/sequencing (5’ 6-FAM label)
CGCAAATTTCCAGCGCCTGCG (same as 5’_pagR_EMSA)
3’_digestion/sequencing (5’ HEX label) TGTCGTTCTTTGCTTCGCATGAC