Curation Information

Publication
GeneChip expression analysis of the iron starvation response in Pseudomonas aeruginosa: identification of novel pyoverdine biosynthesis genes.;Ochsner UA, Wilderman PJ, Vasil AI, Vasil ML;Molecular microbiology 2002 Sep; 45(5):1277-87 [12207696]
TF
Fur [Q03456, view regulon]
Reported TF sp.
Pseudomonas aeruginosa PAO1
Reported site sp.
Pseudomonas aeruginosa PAO1
Created by
Erill Lab
Curation notes
-

Experimental Process

Differential expression under low and high iron conditions assessed by DNA array. Fur-binding sites in the promoters of differentially expressed genes detected by consensus search.

Transcription Factor Binding Sites


GAAGATGGTAATTAATTGC
CTTGATGAGAATTATTATA
CTGAATGATAATAATTATC
CATAATGATAAGCATTATC
ACGAATGATAAGAAATCTC
AATAATGAGAATGATTGTC
GACAATGCGATTCATTATC
GATAATGGCGATCTTCATC
GCAAATGAAAACTATTATC
GGAAATGAGATTTATTATC
TAAAATGATAACTATTATC
TAAATTTATAATAATTCTC
TTTTATGATAATGATTTTC
GAAGATGGTAATTAATTGC
CTTGATGAGAATTATTATA
CTGAATGATAATAATTATC
CATAATGATAAGCATTATC
ACGAATGATAAGAAATCTC
AATAATGAGAATGATTGTC
GACAATGCGATTCATTATC
GATAATGGCGATCTTCATC
GCAAATGAAAACTATTATC
GGAAATGAGATTTATTATC
TAAAATGATAACTATTATC
TAAATTTATAATAATTCTC
TTTTATGATAATGATTTTC

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
GAAGATGGTAATTAATTGC PA0968,
... ... PA0968 PA0976.1 PA0976 PA0975 PA0974 oprL tolB tolA tolR tolQ aspS pmpR ruvC ruvA ruvB PA0977
Experimental technique details Consensus search (ECO:0005624) - Experimental technique details DNA-array expression analysis (ECO:0005525) - repressor dimer
CTTGATGAGAATTATTATA fpvI,
... ... fpvI pvdP opmQ pvdT pvdR fpvR pvdQ pvdA
Experimental technique details Consensus search (ECO:0005624) - Experimental technique details DNA-array expression analysis (ECO:0005525) - repressor dimer
CTGAATGATAATAATTATC tonB1,
... ... tonB1 PA5533 PA5532
Experimental technique details Consensus search (ECO:0005624) - Experimental technique details DNA-array expression analysis (ECO:0005525) - repressor dimer
CATAATGATAAGCATTATC PA4220, fptA,
... ... PA4220 fptA pchE pchF pchG PA4223 PA4222
Experimental technique details Consensus search (ECO:0005624) - Experimental technique details DNA-array expression analysis (ECO:0005525) - repressor dimer
ACGAATGATAAGAAATCTC PA5217,
... ... PA5217 PA5228 ssrS PA5227 PA5226 PA5225 pepP ubiH PA5222 PA5221 PA5220 PA5219 PA5218 PA5216
Experimental technique details Consensus search (ECO:0005624) - Experimental technique details DNA-array expression analysis (ECO:0005525) - repressor dimer
AATAATGAGAATGATTGTC PA3530,
... ... PA3530 PA3529
Experimental technique details Consensus search (ECO:0005624) - Experimental technique details DNA-array expression analysis (ECO:0005525) - repressor dimer
GACAATGCGATTCATTATC foxI, foxR,
... ... foxI foxR foxA PA2465 PA2464 PA2469 gtdA PA2471 PA2472 PA2473 PA2474 PA2475 dsbG PA2477 PA2478
Experimental technique details Consensus search (ECO:0005624) - Experimental technique details DNA-array expression analysis (ECO:0005525) - repressor dimer
GATAATGGCGATCTTCATC pvdQ,
... ... pvdQ pvdA fpvI
Experimental technique details Consensus search (ECO:0005624) - Experimental technique details DNA-array expression analysis (ECO:0005525) - repressor dimer
GCAAATGAAAACTATTATC PA4896, PA4895,
... ... PA4896 PA4895 PA4894 ureG ureF ureE PA4897 opdK PA4899 PA4900 mdlC PA4902 PA4903
Experimental technique details Consensus search (ECO:0005624) - Experimental technique details DNA-array expression analysis (ECO:0005525) - repressor dimer
GGAAATGAGATTTATTATC pchR,
... ... pchR pchD pchC pchB pchA ssb PA4233
Experimental technique details Consensus search (ECO:0005624) - Experimental technique details DNA-array expression analysis (ECO:0005525) - repressor dimer
TAAAATGATAACTATTATC PA3899, PA3900,
... ... PA3899 PA3900 PA3898 PA3897 PA3896 PA3895 fecA PA3902
Experimental technique details Consensus search (ECO:0005624) - Experimental technique details DNA-array expression analysis (ECO:0005525) - repressor dimer
TAAATTTATAATAATTCTC
... ... fpvI pvdA pvdQ fpvR pvdR pvdT opmQ pvdP
Experimental technique details Consensus search (ECO:0005624) - Experimental technique details DNA-array expression analysis (ECO:0005525) - repressor dimer
TTTTATGATAATGATTTTC PA3410, PA3409,
... ... PA3410 PA3409 PA3411 PA3412
Experimental technique details Consensus search (ECO:0005624) - Experimental technique details DNA-array expression analysis (ECO:0005525) - repressor dimer