Curation Information

Publication
ArnR, a novel transcriptional regulator, represses expression of the narKGHJI operon in Corynebacterium glutamicum.;Nishimura T, Teramoto H, Vert├Ęs AA, Inui M, Yukawa H;Journal of bacteriology 2008 May; 190(9):3264-73 [18296524]
TF
ArnR [A4QDE6, view regulon]
Reported TF sp.
Corynebacterium glutamicum R
Reported site sp.
Corynebacterium glutamicum R
Created by
Joe Sparenberg
Curation notes
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Experimental Process

QRT-PCR analysis was performed with an arnR deficient strain and compared to a wild type strain to identify genes regulated by arnR. The results show that ArnR represses the narKGHI operon and the hmp gene. Results were confirmed with DNA microarray analyses. LacZ reporter assay shows that arnR is positively autoregulated by its own gene product. EMSAs were performed and results show that ArnR directly regulates transcription of narKGHI operon, hmp gene and arnR. EMSAs were also performed using different size fragments to pinpoint the location of the promoter region. TAWTTAAWTA was inferred as a consensus sequence determined by primer extension analysis. These results were confirmed with DNase I footprinting analysis.

Transcription Factor Binding Sites


TAATTAAATA
TATTTAATTA
TATTTAATTA
TAATTAAATA
TATTTAATTA
TATTTAATTA

Gene Regulation

Regulated genes for each binding site are displayed below. Gene regulation diagrams show binding sites, positively-regulated genes, negatively-regulated genes, both positively and negatively regulated genes, genes with unspecified type of regulation. For each indvidual site, experimental techniques used to determine the site are also given.

Site sequence Regulated genes Gene diagram Experimental techniques TF function TF type
TAATTAAATA cgR_1269, cgR_1268, cgR_1267, cgR_1266, cgR_1265,
... ... cgR_1269 cgR_1268 cgR_1267 cgR_1266 cgR_1265 cgR_1270
Experimental technique details Beta-gal reporter assay - Experimental technique details DNA-array expression analysis (ECO:0005525) - Experimental technique details DNAse footprinting (ECO:0005631) - Experimental technique details EMSA (ECO:0001807) - Experimental technique details qRT-PCR [RNA] (ECO:0001808) - Experimental technique details Site directed mutagenesis (ECO:0005667) - repressor not specified
TATTTAATTA cgR_2724,
... ... cgR_2724 cgR_2725 cgR_2726
Experimental technique details DNA-array expression analysis (ECO:0005525) - Experimental technique details EMSA (ECO:0001807) - Experimental technique details qRT-PCR [RNA] (ECO:0001808) - repressor not specified
TATTTAATTA cgR_1264
... ... cgR_1264
Experimental technique details Beta-gal reporter assay - Experimental technique details DNA-array expression analysis (ECO:0005525) - Experimental technique details EMSA (ECO:0001807) - Experimental technique details qRT-PCR [RNA] (ECO:0001808) - activator not specified