WDR5 serves in co-activation and influences genome targeting of KLF3
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ABSTRACT:
PROVIDER: PRJNA821085 | ENA |
REPOSITORIES: ENA
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Project description:Krüppel-like Factor 3 (KLF3) is a member of the archetypal SP/KLF family of transcription factors that bind GC-rich elements and CACCC boxes in promoters and enhancers via three classical Zinc Fingers (ZFs) at or near their C-termini. KLF3 can both repress and activate transcription. It represses by recruiting CtBP co-repressors via its N-terminal domain but the mechanism by which it activates was unknown. Here we show KLF3 associates with WDR5 and this interaction is associated with gene activation. We also demonstrate that this interaction is required for proper genomic targeting of KLF3. This helps explain previous results indicating that both the C-terminal ZF DNA-binding domain and N-terminal functional domain are required for KLF3 to identify its target genes. This result adds to only a handful of examples that transcriptional co-regulators, in addition to facilitating activation and repression, can also influence target gene selection.
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Project description:The aim of this experiment was to investigate the dysregulation of gene expression in whole E12.5 embryos containing a gene trap (CH) or point mutation (H275R) within the Klf3 gene Affymetrix microarrays were performed on RNA from wildtype, Klf3 H275R/H275R, Klf3 H275R/+, Klf3 CH homozygous and Klf3 CH heterozygous E12.5 embryos
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Project description:The aim of this experiment was to investigate the dysregulation of gene expression in whole E12.5 embryos containing a gene trap (CH) or point mutation (H275R) within the Klf3 gene Affymetrix microarrays were performed on RNA from wildtype, Klf3 H275R/H275R, Klf3 H275R/+, Klf3 CH homozygous and Klf3 CH heterozygous E12.5 embryos Four wildtype replicates, three Klf3 H275R/H275R replicates, four Klf3 H275R/+ replicates, four Klf3 CH homozygous replicates and two Klf3 CH heterozygous replicates of whole E12.5 embryos, litter-matched where possible.
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Project description:The aim of this study was to identify protein partners of the Kruppel-like factor 3 (KLF3) functional domain. We have previously shown that the non-DNA binding domain (the functional domain) of KLF3 play an important role in genomic localisation of this transcription factor (Burdach et al, 2014, Nucleic Acids Research, 42(1):276-89) and that the KLF3 functional domain is sufficient to direct an artificial zinc finger protein to new targets (Lim et al, 2016, Nucleic Acids Research, 44(7):3118-30). In this study we aimed to identify partner proteins of the KLF3 functional domain that might help to account for the role of this domain in genomic localisation. We had previously established HEK293 cell lines stably expressing either empty pMSCVpuro vector or pMSCVpuro-KLF3 functional domain (amino acids 1-262) with a C-terminal glycine-serine linker followed by a V5 epitope tag (Lim et al, 2016, Nucleic Acids Research, 44(7):3118-30). In this current study we performed two independent replicate experiments using the empty vector and KLF3 functional domain-V5 expressing HEK293 cells. Co-immunoprecipitation coupled with mass spectrometry was performed, using an antibody to the V5 tag, to identify endogenous HEK293 cell proteins that were bound by the KLF3 functional domain but not detected in the V5 co-immunoprecipitation samples from the empty vector cells. The mass spectrometry data was used to prioritise KLF3 functional domain partner proteins for further studies. In this experiment, WDR5 was identified as a partner protein of the KLF3 functional domain (in both independent replicates of the experiment) and the interaction of KLF3 and WDR5 was subsequently confirmed and the interaction interface of KLF3 that is bound by WDR5 mapped using co-immunoprecipitation experiments in COS cells.Sample description:- F002311 and F002312 are mass spec results from the empty transfected cell control cells- F002313 and F002314 are mass spec results from the cell stably expressing KLF3 functional domain
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Project description:The aim of this experiment was to investigate the regulation of gene expression by KLF3 and KLF8 in fetal erythroid cells by analyzing single and double mutant mouse models. Affymetrix microarrays were performed on RNA from TER119+ fetal liver cells from E13.5 wildtype, Klf8gt/gt, Klf3-/- and Klf3-/- Klf8gt/gt mice. Four wildtype replicates, four Klf8gt/gt replicates, three Klf3-/- replicates and four Klf3-/- Klf8gt/gt replicates of E13.5 TER119+ fetal liver cell samples, litter-matched where possible.
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