TABLE 1.

Primers and oligonucleotides used in this study^a

Primer or oligonucleotide	Sequence (5′→3′)	Application
sigB-GShiftF	ACAGCCGGCAGAGCGGTCA	Gel shift sigB upstream region
sigB-GShiftR	CCGATCGGCTTGCACTGTCAT	Gel shift sigB upstream region
sigEGS-F	CGTCCATGCCCGCAGCGTATGT	Gel shift sigE upstream region
sigEGS-R	AGTTCCATGGGAATTACCGTCGCGT	Gel shift sigE upstream region
sigHGS-F	TGCGATTCAGCGCTGGAAATAACC	Gel shift sigH upstream region
sigHGS-R	GTCGGCCATCTTGATTAACTGGGT	Gel shift sigH upstream region
sigEupts1	AGGTAACGGTATGGTTTCTAAGCCAAAGCTCAGATTGCTCATATA	Gel shift sigE wt distal site
sigEupbs1	TATATGAGCAATCTGAGCTTTGGCTTAGAAACCATACCGTTACCT	Gel shift sigE wt distal site
sigEupts2	TGCTCATATATGGCCCATACGCCGGTACGCGACGGTAATTCCCAT	Gel shift sigE wt proximal site
sigEupbs2	ATGGGAATTACCGTCGCGTACCGGCGTATGGGCCATATATGAGCA	Gel shift sigE wt proximal site
sigEupts3	AGGTAACGGTATGGTTAAAAAGCCAAAGCTCAGATTGCTCATATA	Gel shift sigE mutant distal site
sigEupbs3	TATATGAGCAATCTGAGCTTTGGCTTTTTAACCATACCGTTACCT	Gel shift sigE mutant distal site
sigE80F	GGACAGCGCAGGTAACGGTAT	Gel shift sigE dist. and prox.
sigE80R	ACCGTCGCGTACCGGCGTAT	Gel shift sigE dist. and prox.
sigE60mF	ATGGTTAAAAAGCCAAAGCTCAGATTG	Gel shift sigE dist. and prox.
sigBGS-R-MluI2	CCACGCGTAAGCCGGACTTTGAGTTCCCACCC (RP for sigB upstream region)	DNase I sigB antisense
sigBGS-RS2	CGCGTAAGCCGGACTTTGAGTTCCCACCC (primer for sequencing ladder)	Sequencing sigB
sigE-R-MluI3	CCACGCGTCAACCCGGGGTCCGCCG (RP for sigE upstream region)	DNase I sigE antisense
sigE-RS3	CGCGTCAACCCGGGGTCCGCCG (primer for sequencing ladder)	Sequencing sigE
Rv0981NotI	GCGGCCGCTCGGCCGCGCGGCTGTGGACACTAACT	Cloning of mprAB
Rv0983NotI	GCGGCCGCCTAGGTTGCTCTTCCTGTACTAGG	Cloning of mprAB
mprB(del39aa)F1	GATGTCAACGCGATGCTGGTCAACCGGGTGCTTGCCATCCGT	Site-directed mutagenesis of mprB
mprB(del39aa)R1	ACGGATGGCAAGCACCCGGTTGACCAGCATCGCGTTGACATC	Site-directed mutagenesis of mprB
sigARTsense	GCCGATGACGACGAGGAG	qRT-PCR
sigARTantisense	GGCGGATGCGGTGAGTTC	qRT-PCR
sigBRTsense	GGTCTGATCCGAGCGATGG	qRT-PCR
sigBRTantisense	GATGGTGCGGCTCTGGTC	qRT-PCR
mprARTsense	CATTGCTGGAGATGCCTGATCG	qRT-PCR
mprARTantisense	CTCGGTCTTGCGGCGTAG	qRT-PCR
sigERTsense	AATCGCAACTTTGCGTTGCCG	qRT-PCR
sigERTantisense	ATGAGACATGCTGGTCGGACTCAA	qRT-PCR
Rv1057RTsense	GACGGTGCCATCGCCTACG	qRT-PCR
Rv1057RTantisense	GACCAACCCGCCGATCTCG	qRT-PCR
Rv1813cRTsense	GGTTGCCTATCCCTCCGATTATCC	qRT-PCR
Rv1813cRTantisense	TCTAGTGCGACTTGCTCTGCTC	qRT-PCR
Rv2053cRTsense	CTGCTGGTGCCGCCGATC	qRT-PCR
Rv2053cRTantisense	GTGCCGCTCTCGCCGAAG	qRT-PCR
Rv2626cRTsense	GAGATGCTCAACGTCATGGAAGAAC	qRT-PCR
Rv2626cRTantisense	GCAGGTGTCGGGCGATGTC	qRT-PCR
Rv2627cRTsense	AGGAGGAGGAGTCGCTGATCG	qRT-PCR
Rv2627cRTantisense	GCCACTGGGACACCGAGAATC	qRT-PCR
Rv2628RTsense	ACCAGGAGGCGATGATGAATCTAG	qRT-PCR
Rv2628RTantisense	CGGACACGGTGCTAGTGATCTC	qRT-PCR

^aRP, reverse primer; wt, wild type; dist., distal; prox., proximal.