More than just a metabolic regulator - elucidation and validation of new targets of PdhR in Escherichia coli

BMC Systems Biology

Table 2 Identification of further targets of PdhR

Targets sorted by z-score				Targets sorted by regulatory score
ID	Gene	Regulatory score	z-score	ID	Gene	Regulatory score	z-score
b1109	ndh *	2.913	7.803	b1109	ndh *	2.913	7.803
b0091	murC ^$	-0.030	5.958	b0114	aceE *	2.250	5.866
b0115	aceF *	2.008	5.883	b4467	glcF ^$	2.181	0.275
b0114	aceE *	2.250	5.866	b0115	aceF *	2.008	5.883
b0088	murD ^$	-0.013	5.623	b2579	yfiD *	1.973	0.805
b0090	murG ^$	-0.015	4.773	b2979	glcD ^$	1.853	1.709
b0089	ftsW ^$	0.073	4.664	b4467	glcF ^$	1.163	0.275
b0084	ftsI ^$	0.140	4.556	b2975	glcA ^$	1.144	0.400
b0082	mraW ^$	-0.056	4.297	b2977	glcG ^$	1.056	2.315
b0087	mraY ^$	0.086	4.229	b2601	aroF	1.051	1.723
b0125	hpt	0.002	4.149	b3828	metR	1.035	1.449
b3613	envC	-0.005	3.938	b2976	glcB ^$	0.977	2.124
b0628	lipA *	-0.075	3.914	b1596	ynfM	0.927	0.007
b4052	dnaB	-0.018	3.864	b2600	tyrA	0.915	2.065
b0085	murE ^$	0.167	3.659	b2505	yfgH	0.820	0.425
b0822	ybiV	0.284	3.653	b0333	prpC	0.729	0.021
b2683	ygaH	-0.077	3.628	b0331	prpB	0.713	0.024
b0436	tig	-0.260	3.620	b3939	metB	0.677	2.667
b4290	fecB *	0.315	3.561	b3547	yhjX	0.668	2.931
b0083	ftsL ^$	0.119	3.536	b3426	glpD	0.659	0.904

Top-ranking genes with putative phylogenetically conserved binding sites of PdhR sorted according to z-scores (first four columns) and regulatory scores (last four columns). Previously known targets of PdhR are marked with "*" and new targets confirmed in this study with "$". Additionally to the new experimentally validated targets indicated in the above table, a regulation of mraZ, murF, ddlB, ftsQ, ftsA, ftsZ and lpxC by PdhR was confirmed as they are part of the operon that forms the dcw-cluster.

ISSN: 1752-0509