RegulonDB RegulonDB 10.7: Operon Form
   

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




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


Transcription unit       
Name: otsA
Gene(s): otsA   Genome Browser M3D Gene expression COLOMBOS
Note(s): The start codon of otsA is located 23 nt before the end of otsB, resulting in an overlap between the ots genes.
Evidence: [PM] Polar mutation
Reference(s): [1] Kaasen I., et al., 1992
Promoter
Name: otsAp
+1: 1981651
Sigma Factor: Sigma38 Sigmulon
Distance from start of the gene: 39
Sequence: catcatggcgactggcgggtgtgccggatgtctggagctggcttgaaatgataaccaccgCattacaacaaaaaagagaaa
                            -35              -10            +1                   
Note(s): The otsA promoter is an internal weak promoter, and it is within the otsB gene and 39 nt upstream from the otsA start codon. Upstream of otsB there is an inverted repeat, and a half-site of this repeat is also found in front of otsA. These may represent binding sites for a regulatory protein. The transcription of the otsBA operon is reduced when the rpoS gene is inactivated, but whether there is a σS-type interaction (direct or indirect) with the otsBA operon is not known.
Evidence: [HIPP]
[TIM]
Reference(s): [2] Hengge-Aronis R., et al., 1991
[3] Kaasen I., et al., 1994
Terminator(s)
Type: rho-independent
Sequence: aatcacagttTCTTTTCGCGAGCATCCTGCTCGGCGAAAAGagttattgcc
Reference(s): [3] Kaasen I., et al., 1994


Transcription unit       
Name: otsBA
Gene(s): otsA, otsB   Genome Browser M3D Gene expression COLOMBOS
Note(s): The start codon of otsA is located 23 nt before the end of otsB, resulting in an overlap between the ots genes.
Evidence: [PM] Polar mutation
Reference(s): [1] Kaasen I., et al., 1992
Promoter
Name: otsBp2
+1: 1982442
Sigma Factor: Sigma38 Sigmulon
Distance from start of the gene: 55
Sequence: taacggttggctgttcttcgttgcaaatggcgacccccgtcacactgtctatacttacatGtctgtaaagcgcgttctgcg
                           -35               -10            +1                   
Note(s): The operon otsAB is positively regulated by RpoS in stationary phase and is mainly controlled at the transcription level Hengge-Aronis R,1991. Strøm AR, Kaasen I,1993 It is also osmotically regulated. Region 4 of the σ38 protein and the elements near the -35 DNA region are involved in triggering the response to high salt concentrations, which ensures the transcriptional activation of the otsBp2 promoter to counteract this physiological challenge Rosenthal AZ,2006.
Evidence: [RS-EPT-CBR]
[TIM]
Reference(s): [4] Becker G., et al., 2001
[3] Kaasen I., et al., 1994
[5] Rosenthal AZ., et al., 2006
[6] Salgado H, et al., 2012
Terminator(s)
Type: rho-independent
Sequence: aatcacagttTCTTTTCGCGAGCATCCTGCTCGGCGAAAAGagttattgcc
Reference(s): [3] Kaasen I., et al., 1994


Transcription unit       
Name: otsBA
Gene(s): otsA, otsB   Genome Browser M3D Gene expression COLOMBOS
Note(s): The start codon of otsA is located 23 nt before the end of otsB, resulting in an overlap between the ots genes.
Evidence: [PM] Polar mutation
Reference(s): [1] Kaasen I., et al., 1992
Promoter
Name: otsBp
+1: 1982465
Sigma Factor: Sigma38 Sigmulon
Distance from start of the gene: 78
Sequence: tttcccaccatagccaaccgccataacggttggctgttcttcgttgcaaatggcgaccccCgtcacactgtctatacttac
                              -35                 -10       +1                   
Note(s): Upstream of otsB there is an inverted repeat, and a half-site of this repeat is also found in front of otsA. These may represent binding sites for a regulatory protein. The transcription of the otsBA operon is reduced when the rpoS gene is inactivated, but it is not clear whether the σS effect is the result of a direct or indirect interaction on the otsBA operon.
Evidence: [HIPP]
[TIM]
Reference(s): [2] Hengge-Aronis R., et al., 1991
[3] Kaasen I., et al., 1994
Terminator(s)
Type: rho-independent
Sequence: aatcacagttTCTTTTCGCGAGCATCCTGCTCGGCGAAAAGagttattgcc
Reference(s): [3] Kaasen I., et al., 1994




Reference(s)    

 [1] Kaasen I., Falkenberg P., Styrvold OB., Strom AR., 1992, Molecular cloning and physical mapping of the otsBA genes, which encode the osmoregulatory trehalose pathway of Escherichia coli: evidence that transcription is activated by katF (AppR), J Bacteriol 174(3):889-98

 [2] Hengge-Aronis R., Klein W., Lange R., Rimmele M., Boos W., 1991, Trehalose synthesis genes are controlled by the putative sigma factor encoded by rpoS and are involved in stationary-phase thermotolerance in Escherichia coli., J Bacteriol 173(24):7918-24

 [3] Kaasen I., McDougall J., Strom AR., 1994, Analysis of the otsBA operon for osmoregulatory trehalose synthesis in Escherichia coli and homology of the OtsA and OtsB proteins to the yeast trehalose-6-phosphate synthase/phosphatase complex., Gene 145(1):9-15

 [4] Becker G., Hengge-Aronis R., 2001, What makes an Escherichia coli promoter sigma(S) dependent? Role of the -13/-14 nucleotide promoter positions and region 2.5 of sigma(S)., Mol Microbiol 39(5):1153-65

 [5] Rosenthal AZ., Hu M., Gralla JD., 2006, Osmolyte-induced transcription: -35 region elements and recognition by sigma38 (rpoS)., Mol Microbiol 59(3):1052-61

 [6] Salgado H, Peralta-Gil M, Gama-Castro S, Santos-Zavaleta A, Muñiz-Rascado L, García-Sotelo JS, Weiss V, Solano-Lira H, Martínez-Flores I, Medina-Rivera A, Salgado-Osorio G, Alquicira-Hernández S, Alquicira-Hernández K, López-Fuentes A, Porrón-Sotelo L, Huerta AM, Bonavides-Martínez C, Balderas-Martínez YI, Pannier L, Olvera M, Labastida A, Jiménez-Jacinto V, Vega-Alvarado L, Del Moral-Chávez V, Hernández-Alvarez A, Morett E, Collado-Vides J., 2012, RegulonDB v8.0: omics data sets, evolutionary conservation, regulatory phrases, cross-validated gold standards and more., Nucleic Acids Res.


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