RegulonDB RegulonDB 10.6.3: Operon Form
   

csgBAC operon and associated TUs in Escherichia coli K-12 genome




Operon      
Name: csgBAC
This page displays every known transcription unit of this operon and their known regulation.


Transcription unit          
Name: csgBAC
Gene(s): csgB, csgA, csgC   Genome Browser M3D Gene expression COLOMBOS
Note(s): This TU is transcribed only at low osmolarity, probably as a result of activation by the nonphosphorylated form of OmpR. There are nine elements involved in the regulation of curli expression through a complex network of interactions between transcription factors and the csg regulatory region |CITS: [15743952]|. csgBA mRNA levels are increased when csgD is overexpressed |CITS:[27434665]|. High concentrations of intracellular GlcNAc-6P signal the cells to downregulate the csgBA and csgDEFG operons |CITS:[16816193]|.
FruR (Cra) binds to four target sites in the csgDEFG-csgBAC intergenic region and has the ability to bend the DNA to activate the transcription of these operons, but there is a possibility that FruR may indirectly regulate the expression of the operon csgBAC via the regulator CsgD |CITS: [21559929]|.
Based on a microarray assay to identify genes relevant to the interaction between the bacterium and lettuce plant, the csgBA genes, which are involved in curli production, were found to be significantly upregulated |CITS:[22247152]|.
DnaK increases the expression of the csgBAC and csgDEFG operons, which are responsible for curli production, via quantity and quality control of RpoS and CsgD |CITS:[ 30271935]|.
Evidence: [LTED] Length of transcript experimentally determined
Reference(s): [1] Arnqvist A., et al., 1994
Promoter
Name: csgBp
+1: 1103859
Sigma Factor: Sigma38, Sigma70, Sigma38
Distance from start of the gene: 92
Sequence: aagaaaaatacaacgcgcgggtgagttattaaaaatatttccgcagacatactttccatcGtaacgcagcgttaacaaaat
                             -35                  -10       +1                   
Note(s): Of the transcriptional start site of this promoter, an AT-rich upstream activation sequence was determined that is required for transcriptional activation during entry into stationary phase; it is positioned between -98 and -54 with respect to the transcriptional start point. There are two transcripts in the csgBA operon; one primary transcript is initiated from the csgB promoter, which is differentially degraded to give a shorter transcript corresponding to the csgA gene. Crl is a new thermosensor identified in the Escherichia coli RpoS regulon which interacts directly with σS, promoting the binding of EσS to the csgBp promoter Bougdour A,2004
Evidence: [CV(FP/TIM)]
[FP]
[TIM]
Reference(s): [1] Arnqvist A., et al., 1994
[2] Bougdour A., et al., 2004
TF binding sites (TFBSs)
[CpxR,-] Phrase
Type Transcription factor Function Promoter Binding Sites Growth Conditions Evidence (Confirmed, Strong, Weak) Reference(s)
LeftPos RightPos Central Rel-Pos Sequence
remote CpxR-Phosphorylated repressor csgBp 1103388 1103402 -464.0 gtgttaaacaTGTAACTAAATGTAActcgttatat nd [BPP], [GEA], [HIBSCS] [3]
remote CpxR-Phosphorylated repressor csgBp 1103597 1103611 -255.0 cacacctccgTGGACAATTTTTTACtgcaaaaaga nd [HIBSCS] [4]
proximal CpxR-Phosphorylated repressor csgBp 1103859 1103873 8.0 actttccatcGTAACGCAGCGTTAAcaaaatacag nd [AIBSCS], [BPP], [GEA], [HIBSCS] [3], [4]
[CsgD,+] Phrase
Type Transcription factor Function Promoter Binding Sites Growth Conditions Evidence (Confirmed, Strong, Weak) Reference(s)
LeftPos RightPos Central Rel-Pos Sequence
proximal CsgD activator csgBp 1103772 1103786 -80.5 atttacgtggGTTTTAATACTTTGGtatgaactaa nd [BPP], [GEA], [HIBSCS] [5]
proximal CsgD activator csgBp 1103795 1103809 -57.5 ggtatgaactAAAAAAGAAAAATACaacgcgcggg nd [BPP], [GEA], [HIBSCS] [5]
proximal CsgD3 activator csgBp 1103816 1103826 -38.0 atacaacgcgCGGGTGAGTTAttaaaaatat nd [AIBSCS], [GEA], [SM] [6]
proximal CsgD activator csgBp 1103825 1103839 -27.5 gcgggtgagtTATTAAAAATATTTCcgcagacata nd [BPP], [GEA], [HIBSCS] [5]
[FliZ,-] Phrase
Type Transcription factor Function Promoter Binding Sites Growth Conditions Evidence (Confirmed, Strong, Weak) Reference(s)
LeftPos RightPos Central Rel-Pos Sequence
nd FliZ repressor csgBp nd nd nd nd nd [GEA] [7]
Note(s): 3The CsgD protein-binding site overlaps the -35 box of the csgBp promoter, which is consistent with the location for an activator-binding site Brombacher E,2003.
5The CsgD protein-binding site overlaps the -35 box of the csgBp promoter, which is consistent with the location for an activator-binding site Brombacher E,2003.


Transcription unit       
Name: csgC
Gene(s): csgC   Genome Browser M3D Gene expression COLOMBOS
Promoter
Name: csgCp
+1: Unknown
Evidence: [IEP]
Reference(s): [8] Zaslaver A., et al., 2006


RNA cis-regulatory element    
Regulation, transcriptional elongation  
Attenuator type: Transcriptional
Strand: forward
Evidence: [ICA] Inferred by computational analysis
Reference(s): [9] null null
  Structure type Energy LeftPos RightPos Sequence (RNA-strand)
  terminator -17.3 1104922 1104949 gtattacagaAACAGGGCGCAAGCCCTGTTTTTTTTCgggagaagaa
  anti-terminator -10.09 1104887 1104931 caacgcgaccGCTCATCAGTACTAATACATCATTTGTATTACAGAAACAGGGCGcaagccctgt
  anti-anti-terminator -9.3 1104855 1104893 tccgtcaacgTGACTCAGGTTGGCTTTGGTAACAACGCGACCGCTCATcagtactaat
Notes: "The provided "Sequence" is that of the RNA strand, i.e. U's are shown instead of T's and regulators on the reverse strand will appear as the reverse complement of the sequence delimited by LeftPos-RigtPos"


Evidence    

 [CV(FP/TIM)] cross validation(FP/TIM)

 [FP] Footprinting

 [TIM] Transcription initiation mapping

 [BPP] Binding of purified proteins

 [GEA] Gene expression analysis

 [HIBSCS] Human inference based on similarity to consensus sequences

 [AIBSCS] Automated inference based on similarity to consensus sequences

 [SM] Site mutation

 [IEP] Inferred from expression pattern


Reference(s)    

 [1] Arnqvist A., Olsen A., Normark S., 1994, Sigma S-dependent growth-phase induction of the csgBA promoter in Escherichia coli can be achieved in vivo by sigma 70 in the absence of the nucleoid-associated protein H-NS., Mol Microbiol 13(6):1021-32

 [2] Bougdour A., Lelong C., Geiselmann J., 2004, Crl, a low temperature-induced protein in Escherichia coli that binds directly to the stationary phase sigma subunit of RNA polymerase., J Biol Chem 279(19):19540-50

 [3] Prigent-Combaret C., Brombacher E., Vidal O., Ambert A., Lejeune P., Landini P., Dorel C., 2001, Complex regulatory network controls initial adhesion and biofilm formation in Escherichia coli via regulation of the csgD gene., J Bacteriol 183(24):7213-23

 [4] De Wulf P., McGuire AM., Liu X., Lin EC., 2002, Genome-wide profiling of promoter recognition by the two-component response regulator CpxR-P in Escherichia coli., J Biol Chem 277(29):26652-61

 [5] Ogasawara H., Yamamoto K., Ishihama A., 2011, Role of the Biofilm Master Regulator CsgD in Cross-Regulation between Biofilm Formation and Flagellar Synthesis., J Bacteriol 193(10):2587-97

 [6] Brombacher E., Dorel C., Zehnder AJ., Landini P., 2003, The curli biosynthesis regulator CsgD co-ordinates the expression of both positive and negative determinants for biofilm formation in Escherichia coli., Microbiology 149(Pt 10):2847-57

 [7] Pesavento C., Becker G., Sommerfeldt N., Possling A., Tschowri N., Mehlis A., Hengge R., 2008, Inverse regulatory coordination of motility and curli-mediated adhesion in Escherichia coli., Genes Dev 22(17):2434-46

 [8] Zaslaver A., Bren A., Ronen M., Itzkovitz S., Kikoin I., Shavit S., Liebermeister W., Surette MG., Alon U., 2006, A comprehensive library of fluorescent transcriptional reporters for Escherichia coli., Nat Methods 3(8):623-8

 [9] null, null, null, null


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