Table 1.

Global regulators. The numbers in braces denote the percentage of genes in the category regulated by the TF. In bold are the functional categories, which are dominantly regulated by the respective TF. Functional categories are as follows: AA, Amino acid biosynthesis; CPRO, Cellular processes; CEN, Cell envelope; CIM, Central intermediary metabolism; DNA, DNA metabolism; ENER, Energy metabolism; FATE, Protein fate; MOB, Mobile and extrachromosomal element functions; Signal, Signal transduction; PUR, Purines, pyrimidines, nucleosides and nucleotides; REG; Regulatory functions; Transport, Transport and binding proteins.

Protein	Functional Category	Regulatory role	Family
AbrB	AA (10.2); CPRO (16.3); REG (30.6); Transport (18.3)	Regulates the transcription of genes expressed during the transition state between vegetative growth and the onset of stationary phase and sporulation	AbrB
CcpA	CPRO (6.6); ENER (33.9); REG (13.2); Signal (4.7); Transport (26.4)	Repression of the carbohydrate utilization genes; and in the positive regulation of genes involved in excretion of excess carbon.	LacI
CodY	AA (22.5); MOB (12.5); REG (20.0); Transport (12.5)	Repression of genes induced as cells make the transition from rapid exponential growth to stationary phase and sporulation.	CodY
ComK	AA (12.1); CEN (15.6); CPRO (13.9); DNA (7.8); ENER (7.8); FATE (6.0); PUR (7.8); REG (10.4); Transport (6.9).	Intermediate regulatory gene required for the expression of the late competence genes.	ComK
SpoOA	CPRO (17.0); PUR (23.1); REG (18.2); Transport (7.3)	Initiation of sporulation (negative regulation of abrB, kinA, kinC, spo0A; positive regulation of spoIIA, spoIIE, spoIIG)	OmpR
TnrA	CIM (18.5); ENER (18.5); Transport (25.9)	Regulates genes during nitrogen-limited growth	MerR