Curation Information

Publication: Fis is essential for capsule production in Pasteurella multocida and regulates expression of other important virulence factors.;Steen JA, Steen JA, Harrison P, Seemann T, Wilkie I, Harper M, Adler B, Boyce JD;PLoS pathogens 2010 Feb 5; 6(2):e1000750 [20140235]
TF: FIS [P57902, view regulon]
Reported TF sp.: Pasteurella multocida VP161
Reported site sp.: Pasteurella multocida VP161
Created by: Erill Lab
Curation notes: -
External databases: NCBI GEO (GSE17686) http://www.ncbi.nlm.nih.gov/geo/query/acc.cgi?acc=GSE17686.

Experimental Process

Role of FIS detected by observation of acapsular phenotype, genomic analysis and complementation. Target genes identified by DNA array. Validation for specific target genes by cloning promoters to Kan resistance cassette. Sites predicted with PSSM search. Expression

Transcription Factor Binding Sites

Sites reported in the paper
Sites matched in the genome

GACCAAAAATAAATC
GATTATATTTTAAAT

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
GACCAAAAATAAATC	phyA, hyaE, hexD, hexC, hexB,		Experimental technique details Ad-hoc qualitative phenotype observation (ECO:0005674) Ad-hoc qualitative phenotype observation - ECO:0005674 A non-standard trait (e.g. natural competence) is assessed qualitatively (e.g. presence/absence) and used as a natural reporter. The observed phenotype should be described in the experimental notes. - Experimental technique details DNA-array expression analysis (ECO:0005525) DNA-array expression analysis - ECO:0005525 DNA-arrays (or DNA-chips or microarrays) are flat slabs of glass, silicon or plastic onto which thousands of multiple short single-stranded (ss) DNA sequences (corresponding to small regions of a genome) have been attached. After performing a mRNA extraction in induced and non-induced cells, the mRNA is again reverse transcribed, but here the reaction is tweaked, so that the emerging cDNA contains nucleotides marked with different fluorophores for controls and experiment. Targets will hybridize by base-pairing with those probes that resemble them the most. The array can then be stimulated by a laser and scanned for fluorescence at two different wavelengths (control and induced). The ratio or log-ratio between the two fluorescence intensities corresponds to the induction level. -	activator	dimer
GATTATATTTTAAAT	phyA, hyaE, hexD, hexC, hexB,		Experimental technique details Ad-hoc qualitative phenotype observation (ECO:0005674) Ad-hoc qualitative phenotype observation - ECO:0005674 A non-standard trait (e.g. natural competence) is assessed qualitatively (e.g. presence/absence) and used as a natural reporter. The observed phenotype should be described in the experimental notes. - Experimental technique details DNA-array expression analysis (ECO:0005525) DNA-array expression analysis - ECO:0005525 DNA-arrays (or DNA-chips or microarrays) are flat slabs of glass, silicon or plastic onto which thousands of multiple short single-stranded (ss) DNA sequences (corresponding to small regions of a genome) have been attached. After performing a mRNA extraction in induced and non-induced cells, the mRNA is again reverse transcribed, but here the reaction is tweaked, so that the emerging cDNA contains nucleotides marked with different fluorophores for controls and experiment. Targets will hybridize by base-pairing with those probes that resemble them the most. The array can then be stimulated by a laser and scanned for fluorescence at two different wavelengths (control and induced). The ratio or log-ratio between the two fluorescence intensities corresponds to the induction level. -	activator	dimer