Curation Information

Publication
Characterization of the RpoN regulon reveals differential regulation of T6SS and new flagellar operons in Vibrio cholerae O37 strain V52.;Dong TG, Mekalanos JJ;Nucleic acids research 2012 Sep; 40(16):7766-75 [22723378]
TF
RpoN [Q9KP49, view regulon]
Reported TF sp.
Vibrio cholerae O37 strain V52 [185332]
Reported site sp.
Vibrio cholerae O37 strain V52 [185332]
Created by
Erill Lab
Curation notes
ChIP-Seq on Ch-2 Vibrio cholerae O1 biovar El Tor str. N16961 chosen as reference by authors (gene names)

Experimental Process

ChIP-Seq + RNA-Seq

Transcription Factor Binding Sites


TGGCATCCCACTTGC
TGGCACGCTTCGTGC
TGGCACAATTTATGC
CGGCATTGAAAATGC
TGGAACATTAATTGC
TGGCATCTTCTTTGC
CGGCGCATTTATTGC
TGTACAGAAATGAGC
AGGCACAATATTTGC
TGGCATATAGCTTGC
TGGCCTGTAATTTGC
TGGCACAGATAGTGC
TGGCACTTTATTTGC
TGGCACGCACTATGC
CGGAATAAAATTTGC
TGGCATCCCACTTGC
TGGCACGCTTCGTGC
TGGCACAATTTATGC
CGGCATTGAAAATGC
TGGAACATTAATTGC
TGGCATCTTCTTTGC
CGGCGCATTTATTGC
TGTACAGAAATGAGC
AGGCACAATATTTGC
TGGCATATAGCTTGC
TGGCCTGTAATTTGC
TGGCACAGATAGTGC
TGGCACTTTATTTGC
TGGCACGCACTATGC
CGGAATAAAATTTGC

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
TGGCATCCCACTTGC VCA0017,
... ... VCA0017 VCA0016 VCA0015
Experimental technique details ChIP-Seq (ECO:0006009) - Experimental technique details RNA-Seq (ECO:0005664) - activator monomer
TGGCACGCTTCGTGC
... ... VCA0040 VCA0041
Experimental technique details ChIP-Seq (ECO:0006009) - Experimental technique details RNA-Seq (ECO:0005664) - activator monomer
TGGCACAATTTATGC VCA0051, VCA0050, VCA0049,
... ... VCA0051 VCA0050 VCA0049 VCA0052 VCA0053
Experimental technique details ChIP-Seq (ECO:0006009) - Experimental technique details RNA-Seq (ECO:0005664) - activator monomer
CGGCATTGAAAATGC
... ... VCA0101 VCA0100 VCA0099 VCA0098 VCA0102
Experimental technique details ChIP-Seq (ECO:0006009) - Experimental technique details RNA-Seq (ECO:0005664) - activator monomer
TGGAACATTAATTGC VCA0105, VCA0106,
... ... VCA0105 VCA0106 VCA0104 VCA0103
Experimental technique details ChIP-Seq (ECO:0006009) - Experimental technique details RNA-Seq (ECO:0005664) - activator monomer
TGGCATCTTCTTTGC VCA0144,
... ... VCA0144 VCA0143 VCA0145
Experimental technique details ChIP-Seq (ECO:0006009) - Experimental technique details RNA-Seq (ECO:0005664) - activator monomer
CGGCGCATTTATTGC VCA0195,
... ... VCA0195 VCA0196 VCA0197
Experimental technique details ChIP-Seq (ECO:0006009) - Experimental technique details RNA-Seq (ECO:0005664) - activator monomer
TGTACAGAAATGAGC
... ... VCA0283 VCA0284 VCA0285 VCA0286
Experimental technique details ChIP-Seq (ECO:0006009) - Experimental technique details RNA-Seq (ECO:0005664) - activator monomer
AGGCACAATATTTGC
... ... VCA0524 VCA0523 VCA0525
Experimental technique details ChIP-Seq (ECO:0006009) - Experimental technique details RNA-Seq (ECO:0005664) - activator monomer
TGGCATATAGCTTGC
... ... VCA0545 VCA0546
Experimental technique details ChIP-Seq (ECO:0006009) - Experimental technique details RNA-Seq (ECO:0005664) - activator monomer
TGGCCTGTAATTTGC VCA0734,
... ... VCA0734 VCA0733 VCA0732
Experimental technique details ChIP-Seq (ECO:0006009) - Experimental technique details RNA-Seq (ECO:0005664) - activator monomer
TGGCACAGATAGTGC
... ... VCA0826 phhB phhA
Experimental technique details ChIP-Seq (ECO:0006009) - Experimental technique details RNA-Seq (ECO:0005664) - activator monomer
TGGCACTTTATTTGC
... ... VCA0972 VCA0971 VCA0973 VCA0974
Experimental technique details ChIP-Seq (ECO:0006009) - Experimental technique details RNA-Seq (ECO:0005664) - activator monomer
TGGCACGCACTATGC VCA1016,
... ... VCA1016 VCA1017 VCA1018
Experimental technique details ChIP-Seq (ECO:0006009) - Experimental technique details RNA-Seq (ECO:0005664) - activator monomer
CGGAATAAAATTTGC
... ... VCA1074 VCA1075 VCA1076
Experimental technique details ChIP-Seq (ECO:0006009) - Experimental technique details RNA-Seq (ECO:0005664) - activator monomer