Collection of Manually Curated Inferences of Regulons in Prokaryotic Genomes
-- version 4.0 --

Collection of regulogs in Listeriaceae taxonomic group

General statistics
Genomes 4
TF regulogs 25
TF regulons 94
TF binding sites 361
RNA regulogs 0
RNA regulons 0
RNA sites 0

This collection involves all regulons that were tentatively predicted by applying integrative comparative genomic approach to a single taxonomic group of closely-related genomes. To infer the regulons operated by transcription factors (TFs), we combined the identification of TF binding sites and cross-genome comparison of regulons with the analysis of the genomic and functional context of candidate target genes. To infer the regulons operated by regulatory RNAs such as riboswitches, we identified candidate RNA regulatory elements using HMM profiles and further analyzed their genomic and functional context.

Studied genomes and reconstructed regulon statistics
TF RNA Total
Genomes Regulons Sites Regulons Sites Regulons Sites
Listeria innocua Clip11262 24 93 0 0 24 93
Listeria monocytogenes EGD-e 24 99 0 0 24 99
Listeria seeligeri serovar 1/2b str. SLCC3954 22 79 0 0 22 79
Listeria welshimeri serovar 6b str. SLCC5334 24 90 0 0 24 90
Genomic distribution of regulons
Family Type Regulator Function
ArgR TF ArgR
2 ArgR

Listeria monocytogenes EGD-e
2 ArgR

Listeria seeligeri serovar 1/2b str. SLCC3954
2 ArgR

Listeria welshimeri serovar 6b str. SLCC5334
2 ArgR

Listeria innocua Clip11262
Arginine biosynthesis
ArsR TF CzrA
1 CzrA

Listeria monocytogenes EGD-e
1 CzrA

Listeria seeligeri serovar 1/2b str. SLCC3954
1 CzrA

Listeria welshimeri serovar 6b str. SLCC5334
1 CzrA

Listeria innocua Clip11262
Zinc resistance; Nickel resistance; Copper resistance; Cobalt resistance; Cadmium resistance
BirA TF BirA
1 BirA

Listeria seeligeri serovar 1/2b str. SLCC3954
1 BirA

Listeria welshimeri serovar 6b str. SLCC5334
1 BirA

Listeria innocua Clip11262
Biotin biosynthesis
CsoR TF CsoR
1 CsoR

Listeria monocytogenes EGD-e
1 CsoR

Listeria seeligeri serovar 1/2b str. SLCC3954
1 CsoR

Listeria welshimeri serovar 6b str. SLCC5334
1 CsoR

Listeria innocua Clip11262
Copper resistance
DtxR TF MntR
2 MntR

Listeria monocytogenes EGD-e
2 MntR

Listeria seeligeri serovar 1/2b str. SLCC3954
2 MntR

Listeria welshimeri serovar 6b str. SLCC5334
2 MntR

Listeria innocua Clip11262
Manganese homeostasis
FUR TF Fur
16 Fur

Listeria monocytogenes EGD-e
13 Fur

Listeria seeligeri serovar 1/2b str. SLCC3954
14 Fur

Listeria welshimeri serovar 6b str. SLCC5334
16 Fur

Listeria innocua Clip11262
Iron homeostasis
TF Zur
4 Zur

Listeria monocytogenes EGD-e
4 Zur

Listeria seeligeri serovar 1/2b str. SLCC3954
4 Zur

Listeria welshimeri serovar 6b str. SLCC5334
4 Zur

Listeria innocua Clip11262
Zinc homeostasis
GntR/MocR TF PdxR
2 PdxR

Listeria monocytogenes EGD-e
2 PdxR

Listeria seeligeri serovar 1/2b str. SLCC3954
2 PdxR

Listeria welshimeri serovar 6b str. SLCC5334
2 PdxR

Listeria innocua Clip11262
Pyridoxine biosynthesis
GntR/Others TF GmuR
4 GmuR

Listeria monocytogenes EGD-e
4 GmuR

Listeria seeligeri serovar 1/2b str. SLCC3954
4 GmuR

Listeria welshimeri serovar 6b str. SLCC5334
4 GmuR

Listeria innocua Clip11262
Glucomannan utilization
TF NagR
4 NagR

Listeria monocytogenes EGD-e
4 NagR

Listeria seeligeri serovar 1/2b str. SLCC3954
4 NagR

Listeria welshimeri serovar 6b str. SLCC5334
4 NagR

Listeria innocua Clip11262
N-acetylglucosamine utilization
TF TreR
1 TreR

Listeria monocytogenes EGD-e
1 TreR

Listeria seeligeri serovar 1/2b str. SLCC3954
1 TreR

Listeria welshimeri serovar 6b str. SLCC5334
1 TreR

Listeria innocua Clip11262
Trehalose utilization
TF YhcF
1 YhcF

Listeria monocytogenes EGD-e
1 YhcF

Listeria seeligeri serovar 1/2b str. SLCC3954
1 YhcF

Listeria welshimeri serovar 6b str. SLCC5334
1 YhcF

Listeria innocua Clip11262
Multidrug efflux; Multidrug resistance
TF YtrA
1 YtrA

Listeria monocytogenes EGD-e
1 YtrA

Listeria seeligeri serovar 1/2b str. SLCC3954
1 YtrA

Listeria welshimeri serovar 6b str. SLCC5334
1 YtrA

Listeria innocua Clip11262
Multidrug resistance; Multidrug efflux
HrcA TF HrcA
2 HrcA

Listeria monocytogenes EGD-e
2 HrcA

Listeria seeligeri serovar 1/2b str. SLCC3954
2 HrcA

Listeria welshimeri serovar 6b str. SLCC5334
2 HrcA

Listeria innocua Clip11262
Heat shock response
LacI TF AlsR
2 AlsR

Listeria monocytogenes EGD-e
2 AlsR

Listeria welshimeri serovar 6b str. SLCC5334
Allose utilization
TF BglR
2 BglR

Listeria monocytogenes EGD-e
2 BglR

Listeria seeligeri serovar 1/2b str. SLCC3954
2 BglR

Listeria welshimeri serovar 6b str. SLCC5334
2 BglR

Listeria innocua Clip11262
Beta-glucosides utilization
TF BglR2
4 BglR2

Listeria monocytogenes EGD-e
4 BglR2

Listeria seeligeri serovar 1/2b str. SLCC3954
4 BglR2

Listeria welshimeri serovar 6b str. SLCC5334
4 BglR2

Listeria innocua Clip11262
Beta-glucosides utilization
TF CcpB
1 CcpB

Listeria monocytogenes EGD-e
1 CcpB

Listeria seeligeri serovar 1/2b str. SLCC3954
1 CcpB

Listeria welshimeri serovar 6b str. SLCC5334
1 CcpB

Listeria innocua Clip11262
TF Lmo0031
2 Lmo0031

Listeria monocytogenes EGD-e
2 Lmo0031

Listeria innocua Clip11262
Sugar utilization
TF MdxR
2 MdxR

Listeria monocytogenes EGD-e
2 MdxR

Listeria seeligeri serovar 1/2b str. SLCC3954
2 MdxR

Listeria welshimeri serovar 6b str. SLCC5334
2 MdxR

Listeria innocua Clip11262
Maltodextrin utilization; Maltose utilization
TF UriR
1 UriR

Listeria monocytogenes EGD-e
1 UriR

Listeria seeligeri serovar 1/2b str. SLCC3954
1 UriR

Listeria welshimeri serovar 6b str. SLCC5334
1 UriR

Listeria innocua Clip11262
Nucleoside utilization
TF YcjW
3 YcjW

Listeria monocytogenes EGD-e
3 YcjW

Listeria welshimeri serovar 6b str. SLCC5334
3 YcjW

Listeria innocua Clip11262
Sugar utilization
LexA TF LexA
12 LexA

Listeria monocytogenes EGD-e
10 LexA

Listeria seeligeri serovar 1/2b str. SLCC3954
10 LexA

Listeria welshimeri serovar 6b str. SLCC5334
12 LexA

Listeria innocua Clip11262
SOS response
NrdR TF NrdR
2 NrdR

Listeria monocytogenes EGD-e
2 NrdR

Listeria seeligeri serovar 1/2b str. SLCC3954
2 NrdR

Listeria welshimeri serovar 6b str. SLCC5334
2 NrdR

Listeria innocua Clip11262
Deoxyribonucleotide biosynthesis
TrpR TF HisR
2 HisR

Listeria monocytogenes EGD-e
2 HisR

Listeria seeligeri serovar 1/2b str. SLCC3954
2 HisR

Listeria welshimeri serovar 6b str. SLCC5334
2 HisR

Listeria innocua Clip11262
Histidine biosynthesis