(E) Photos showing the sexual and asexual phenotypes of strains expressing CreA from the native (WT) or overexpressing gpdA promoters. (C) A boxplot showing the gene expression values of sreA in wild type and the creAΔ mutant. The upper display threshold set on the genome browser for each screenshot is indicated by the scale bar on the right. ChIP signals in a wild-type nontagged strain is shown as a negative control. (B) A genome browser screenshot for CreA ChIP-seq signal at the sreA gene promoter. 4E and G for the phenotypes of the wild type and the creAΔ mutant grown on solid media containing different (A) hydrogen peroxide (H 2O 2) and (D) iron (Fe) concentrations at 37☌ for 3 days, respectively. (A and D) Representative photos for the plate tests presented in Fig. Phenotypic characterization of the creAΔ mutant. (H) An illustration showing the presence or absence of SYGGRG and motifs 2 and 4 at each of the CreA binding sites. (G) The output of de novo motif analysis by MEME-ChIP on CreA binding sites. The genomic locations of SYGGRG, motif 2, and motif 4 are indicated on the genome browser by red, blue, and purple markings, respectively. (F) Genome browser screenshots showing CreA ChIP-seq signals at representative CreA binding sites with or without the SYGGRG motif. Background ChIP-seq signal in an untagged wild-type strain grown under glucose conditions was included as a control. (E) A boxplot displaying CreA ChIP-seq signals at CreA binding sites with or without SYGGRG motif. (D) A diagram showing the frequency of SYGGRG motif across 1-kb regions spanning CreA binding sites. The signals across a 3-kb window spanning each CreA ChIP-seq summit are displayed. (C) Heatmaps displaying CreA HA and CreA GFP ChIP-seq and background (WT) signals over CreA binding sites identified in the CreA HA and CreA GFP strains. (B) A Venn diagram showing the overlap of CreA binding sites detected in CreA HA and CreA GFP strains. Annotated genes are indicated by gray lines at the bottom. ChIP-seq signals in nontagged wild-type strains are presented as negative controls for the corresponding ChIP-seq experiments. (A) A genome browser view of CreA HA (in blue) and CreA GFP (in green) ChIP-seq signals over chromosome III of A.
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February 2023
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