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

Collection of regulogs in Thermoanaerobacterales taxonomic group

General statistics
Genomes 7
TF regulogs 16
TF regulons 71
TF binding sites 146
RNA regulogs 3
RNA regulons 19
RNA sites 32

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
Anaerocellum thermophilum DSM 6725 13 27 3 3 16 30
Caldicellulosiruptor saccharolyticus DSM 8903 13 26 3 3 16 29
Carboxydothermus hydrogenoformans Z-2901 6 10 3 5 9 15
Moorella thermoacetica ATCC 39073 5 10 3 6 8 16
Thermoanaerobacter ethanolicus X514 12 25 3 6 15 31
Thermoanaerobacter italicus Ab9 10 23 2 5 12 28
Thermoanaerobacter tengcongensis MB4 12 25 2 4 14 29
Genomic distribution of regulons
Family Type Regulator Function
ArgR TF ArgR
1 ArgR

Thermoanaerobacter ethanolicus X514
1 ArgR

Thermoanaerobacter italicus Ab9
2 ArgR

Thermoanaerobacter tengcongensis MB4
3 ArgR

Caldicellulosiruptor saccharolyticus DSM 8903
1 ArgR

Carboxydothermus hydrogenoformans Z-2901
3 ArgR

Anaerocellum thermophilum DSM 6725
1 ArgR

Moorella thermoacetica ATCC 39073
Arginine biosynthesis
BirA TF BirA
1 BirA

Thermoanaerobacter ethanolicus X514
1 BirA

Thermoanaerobacter italicus Ab9
1 BirA

Thermoanaerobacter tengcongensis MB4
3 BirA

Caldicellulosiruptor saccharolyticus DSM 8903
2 BirA

Carboxydothermus hydrogenoformans Z-2901
3 BirA

Anaerocellum thermophilum DSM 6725
Biotin biosynthesis
CRP TF HcpR
2 HcpR

Caldicellulosiruptor saccharolyticus DSM 8903
2 HcpR

Anaerocellum thermophilum DSM 6725
Nitrosative stress response
FUR TF Fur
5 Fur

Thermoanaerobacter ethanolicus X514
5 Fur

Thermoanaerobacter italicus Ab9
6 Fur

Thermoanaerobacter tengcongensis MB4
2 Fur

Caldicellulosiruptor saccharolyticus DSM 8903
2 Fur

Carboxydothermus hydrogenoformans Z-2901
2 Fur

Anaerocellum thermophilum DSM 6725
2 Fur

Moorella thermoacetica ATCC 39073
Iron homeostasis
GntR/MocR TF PdxR
2 PdxR

Caldicellulosiruptor saccharolyticus DSM 8903
2 PdxR

Anaerocellum thermophilum DSM 6725
Pyridoxine biosynthesis
GntR/Others TF Csac_2166
1 Csac_2166

Thermoanaerobacter ethanolicus X514
1 Csac_2166

Thermoanaerobacter tengcongensis MB4
1 Csac_2166

Caldicellulosiruptor saccharolyticus DSM 8903
1 Csac_2166

Carboxydothermus hydrogenoformans Z-2901
1 Csac_2166

Anaerocellum thermophilum DSM 6725
Multidrug resistance; Multidrug efflux
TF Csac_2497
1 Csac_2497

Caldicellulosiruptor saccharolyticus DSM 8903
1 Csac_2497

Anaerocellum thermophilum DSM 6725
Multidrug resistance; Multidrug efflux
TF YhcF
1 YhcF

Caldicellulosiruptor saccharolyticus DSM 8903
1 YhcF

Anaerocellum thermophilum DSM 6725
1 YhcF

Moorella thermoacetica ATCC 39073
Metabolite transport; Multidrug efflux; Multidrug resistance
HrcA TF HrcA
2 HrcA

Thermoanaerobacter ethanolicus X514
2 HrcA

Thermoanaerobacter italicus Ab9
2 HrcA

Thermoanaerobacter tengcongensis MB4
2 HrcA

Caldicellulosiruptor saccharolyticus DSM 8903
2 HrcA

Carboxydothermus hydrogenoformans Z-2901
2 HrcA

Anaerocellum thermophilum DSM 6725
3 HrcA

Moorella thermoacetica ATCC 39073
Heat shock response
LacI TF IolR
1 IolR

Thermoanaerobacter ethanolicus X514
1 IolR

Thermoanaerobacter italicus Ab9
1 IolR

Thermoanaerobacter tengcongensis MB4
1 IolR

Caldicellulosiruptor saccharolyticus DSM 8903
1 IolR

Anaerocellum thermophilum DSM 6725
Inositol utilization
TF KojR
2 KojR

Thermoanaerobacter ethanolicus X514
2 KojR

Thermoanaerobacter italicus Ab9
2 KojR

Thermoanaerobacter tengcongensis MB4
2 KojR

Caldicellulosiruptor saccharolyticus DSM 8903
2 KojR

Anaerocellum thermophilum DSM 6725
Kojibiose utilization
TF MalR2
3 MalR2

Thermoanaerobacter ethanolicus X514
3 MalR2

Thermoanaerobacter italicus Ab9
3 MalR2

Thermoanaerobacter tengcongensis MB4
2 MalR2

Caldicellulosiruptor saccharolyticus DSM 8903
2 MalR2

Anaerocellum thermophilum DSM 6725
Maltose utilization; Maltodextrin utilization
TF RbsR
1 RbsR

Thermoanaerobacter ethanolicus X514
1 RbsR

Thermoanaerobacter tengcongensis MB4
Ribose utilization
TF TreR
2 TreR

Thermoanaerobacter ethanolicus X514
2 TreR

Thermoanaerobacter italicus Ab9
2 TreR

Thermoanaerobacter tengcongensis MB4
Trehalose utilization
NikR TF NikR
1 NikR

Thermoanaerobacter ethanolicus X514
1 NikR

Thermoanaerobacter italicus Ab9
1 NikR

Thermoanaerobacter tengcongensis MB4
Nickel homeostasis
TrpR TF HisR
1 HisR

Thermoanaerobacter ethanolicus X514
1 HisR

Thermoanaerobacter italicus Ab9
1 HisR

Thermoanaerobacter tengcongensis MB4
1 HisR

Caldicellulosiruptor saccharolyticus DSM 8903
2 HisR

Carboxydothermus hydrogenoformans Z-2901
1 HisR

Anaerocellum thermophilum DSM 6725
1 HisR

Moorella thermoacetica ATCC 39073
Histidine biosynthesis
RF00050 RNA FMN
2 FMN

Thermoanaerobacter ethanolicus X514
2 FMN

Thermoanaerobacter italicus Ab9
1 FMN

Thermoanaerobacter tengcongensis MB4
1 FMN

Caldicellulosiruptor saccharolyticus DSM 8903
1 FMN

Carboxydothermus hydrogenoformans Z-2901
1 FMN

Anaerocellum thermophilum DSM 6725
1 FMN

Moorella thermoacetica ATCC 39073
Riboflavin biosynthesis
RF00059 RNA TPP
3 TPP

Thermoanaerobacter ethanolicus X514
3 TPP

Thermoanaerobacter italicus Ab9
3 TPP

Thermoanaerobacter tengcongensis MB4
1 TPP

Caldicellulosiruptor saccharolyticus DSM 8903
3 TPP

Carboxydothermus hydrogenoformans Z-2901
1 TPP

Anaerocellum thermophilum DSM 6725
3 TPP

Moorella thermoacetica ATCC 39073
Thiamine biosynthesis
RF01055 RNA MOCO_RNA_motif
1 MOCO_RNA_motif

Thermoanaerobacter ethanolicus X514
1 MOCO_RNA_motif

Caldicellulosiruptor saccharolyticus DSM 8903
1 MOCO_RNA_motif

Carboxydothermus hydrogenoformans Z-2901
1 MOCO_RNA_motif

Anaerocellum thermophilum DSM 6725
2 MOCO_RNA_motif

Moorella thermoacetica ATCC 39073
Molybdopterin biosynthesis; Molybdenum homeostasis