A generic approach to identify Transcription Factor-specific operator motifs; Inferences for LacI-family mediated regulation in Lactobacillus plantarum WCFS1

Table 3 Operators for various LacI-family TFs present in L. plantarum. The operators that were verified by experiment in several species of the phylum Firmicutes are listed in normal print, the operators predicted by us for the orthologous TFs in L. plantarum are in bold italics. O₁ and O₂ indicate the relative position of the operator sequences with respect to the translation start. * Transcription from O₁ was 10 times stronger than from O₂.

CcpA-like LacI-family TF	Organism	Site	Operator	Evidence^(a)
MalR	S. pneumoniae	O₁	CG CAAA CG TTTT CC	pred/exp: [53]
		O_m	CG CAAA CG TTTG CG	pred/exp: [53]
Lp_0172	*L. plantarum*		*cG CAAa CG cTTG CA*	pred, this work
RbsR	L. sakei		gT AAAA CG TTTT Ac	pred: [112]
	E. faecalis		gT AAAA CG TTTT Ac
Lp_3661	*L. plantarum*		*.T AAAA CG TTTT Aa*	pred, this work
EbgR-like LacI-family TF
LacR	L. delbrueckii	O1	TTG TTT ACT AAA AAT	pred/exp: [50]
		O2	TTG TTT AGT AAA CGG	pred/exp: [50]
Lp_3470	*L. plantarum*		*aaa TTT AGT AAT t..*	pred, this work
GalR	S. thermophilus		..T TTT AGT AAA A..	pred/exp: [51]
GalR	S. mutans	O1*	AAA TTT AGT AAA ATT	pred/exp: [52]
		O2*	ATT TTT ACT AAA ATT	pred/exp: [52]
Lp_3479	*L. plantarum*		*aat TTT AGT AAA a..*	pred, this work

ISSN: 1471-2164