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pBS32 encodes RapP, a phosphatase that, besides repressing Spo0F activity, also inhibits genetic competence through direct or indirect repression of ComA (Parashar et al. 2013; Omer Bendori et al. 2015).
We were able to show that while in the Ndt80-only targets, most of the repression pattern, although Sum1 dependent, is a result of an indirect effect of Sum1, in the common targets both pathways- some genes are repressed mainly directly by sum1, whereas in other genes the indirect repression by Sum1 is also important.
Indirect repression of CDH1 is also accomplished by EMT inducers, including SIX1, GSC and FOXC2 [ 29- 31].
However, it is likely too short to get an indirect repression of genes because of the HDACi-induced overexpression of an inhibitor of these genes.
A recent study of mammalian cells demonstrated that resveratrol preserved their proliferative capacity and inhibited S6 kinase phosphorylation, thereby eliciting an indirect repression of mTOR activity [ 68].
The complexes of these sRNAs and the sRNA chaperone protein Hfq destabilize the mRNA of the quorum-sensing master regulator LuxR, resulting in the indirect repression of the lux operon transcription [ 24].
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Repression by Mig1 can be both direct and indirect, through repression of genes encoding transcriptional activators.
In these cases, positive regulation by Fe-Fur is indirect – via repression of transcription of a gene whose product, in turn, represses target genes.
The direct or indirect PerR repression of several of these genes could be partially relieved by the addition of H2O2.
This suggests a different mode of regulation, i.e., direct for activation, and indirect for repression, of the PacC target genes.
Furthermore, GR-mediated indirect-mode repression via protein-protein interactions may occur at lower GC concentrations than activation/repression via direct-mode GR dimer binding to GREs (1, 3, 23, 100, 101).
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