Figure 4: Regulatory modes of individual open reading frames governed by Fur in response to iron availability. | Nature Communications

Figure 4: Regulatory modes of individual open reading frames governed by Fur in response to iron availability.

From: Deciphering Fur transcriptional regulatory network highlights its complex role beyond iron metabolism in Escherichia coli

Figure 4

(a) Examples of holo-Fur repression (HR) mode (fepA-entD and fes-ybdZ-entF-fepE), holo-Fur activation (HA) mode (ftnB and ftnA) and apo-Fur activation (AA) mode (ycgZ-ymgA-ariR-ymgC). S/N denotes signal-to-noise ratio. (+) and (−) in ChIP-exo data indicate forward and reverse reads, respectively. Boxes with dotted lines are zoom-in examples in Supplementary Fig. 2. (b) Sequence logo representations of the Fur-DNA-binding profiles with consensus sequence highlighted with arrows. H-Reg-R, holo-Fur repression; H-Reg-A, holo-Fur activation; H-Reg-N, holo-Fur-binding peaks in regulatory regions but no change in transcript level; H-NoReg-N, holo-Fur-binding peaks in non-regulatory regions; B-Reg-N, binding peaks regardless of iron availability in regulatory regions but no change in transcript; B-NoReg-N, binding peaks regardless of iron availability in non-regulatory regions.

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