Curation Information

Publication
Novel target genes of PsrA transcriptional regulator of Pseudomonas aeruginosa.;Kojic M, Jovcic B, Vindigni A, Odreman F, Venturi V;FEMS microbiology letters 2005 May 15; 246(2):175-81 [15899403]
TF
PsrA [Q9HZJ9, view regulon]
Reported TF sp.
Pseudomonas aeruginosa PAO1
Reported site sp.
Pseudomonas aeruginosa PAO1
Created by
Matthew Coveyou
Curation notes
-

Experimental Process

Started by performing a full-genome search of the binding motif (G/CAAAC N2-4 GTTTG/C), with the variance of N used to investigate the importance of spacing between the two motifs and maximize number of candidate genes. Of the results, 10 were deemed probable and tested via Beta-gel reporter assay, which demonstrated that 4 of the genes were regulated by PsrA. 2D-PAGE was used to identify differences in expression pattern between the wild type and a strain lacking PsrA, and identified 11 protein spots for investigation. Following EMSA of 3 identified genes and a control, all 3 were shown to bind with PsrA.

Transcription Factor Binding Sites


CAAACGCCTGTTTG
CAAACAAACGTTTG
CAAACGTTTGTTTG
GAAACCGGGGTTTC
CAAACGCCTGTTTG
CAAACAAACGTTTG
CAAACGTTTGTTTG
GAAACCGGGGTTTC

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
CAAACGCCTGTTTG PA0506
... ... PA0506
Experimental technique details 2D PAGE (ECO:0005614) - Experimental technique details Beta-gal reporter assay - Experimental technique details Comparative genomics search (ECO:0005622) - Experimental technique details EMSA (ECO:0001807) - repressor not specified
CAAACAAACGTTTG etfB, etfA,
... ... etfB etfA PA2953
Experimental technique details 2D PAGE (ECO:0005614) - Experimental technique details Beta-gal reporter assay - Experimental technique details Comparative genomics search (ECO:0005622) - Experimental technique details EMSA (ECO:0001807) - repressor not specified
CAAACGTTTGTTTG PA2953,
... ... PA2953 etfB etfA
Experimental technique details Beta-gal reporter assay - Experimental technique details Comparative genomics search (ECO:0005622) - activator not specified
GAAACCGGGGTTTC mmsR,
... ... 4000000 mmsR mmsA mmsB PA3568 PA3572
Experimental technique details Beta-gal reporter assay - Experimental technique details Comparative genomics search (ECO:0005622) - Experimental technique details EMSA (ECO:0001807) - activator not specified