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Updated: Jul 5, 2026

A Chromatin Immunoprecipitation Assay to Identify Novel NFAT2 Target Genes in Chronic Lymphocytic Leukemia
Published on: December 4, 2018
c-Jun controls histone modifications, NF-kappaB recruitment, and RNA polymerase II function to activate the ccl2 gene
Sabine Wolter1, Anneke Doerrie, Axel Weber
1Institute of Pharmacology, Medical School Hannover, Carl-Neuberg Strasse 1, D-30625 Hannover, Germany.
Abstract:
Interleukin-1 (IL-1)-induced mRNA expression of ccl2 (also called MCP-1), a prototypic highly regulated inflammatory gene, is severely suppressed in cells lacking c-Jun or Jun N-terminal protein kinase 1 (JNK1)/JNK2 genes and is only partially restored in cells expressing a c-Jun(SS63/73AA) mutant protein. We used chromatin immunoprecipitation to identify three c-Jun-binding sites located in the far 5' region close to the transcriptional start site and in the far 3' region of murine and human ccl2 genes. Mutational analysis revealed that the latter two sites contribute to ccl2 transcription in response to the presence of IL-1 or of ectopically expressed c-Jun-ATF-2 dimers. Further experiments comparing wild-type and c-Jun-deficient cells revealed that c-Jun regulates Ser10 phosphorylation of histone H3, acetylation of histones H3 and H4, and recruitment of histone deacetylase 3 (HDAC3), NF-kappaB subunits, and RNA polymerase II across the ccl2 locus. c-Jun also coimmunoprecipitated with p65 NF-kappaB and HDAC3. Based on DNA microarray analysis, c-Jun was required for full expression of 133 out of 162 IL-1-induced genes. For inflammatory genes, these data support the idea of an activator function of c-Jun that is executed by multiple mechanisms, including phosphorylation-dependent interaction with p65 NF-kappaB and HDAC3 at the level of chromatin.
Insights
The transcription factor c-Jun is crucial for regulating inflammatory gene expression, including ccl2 (MCP-1). It controls gene activation through multiple mechanisms involving chromatin modifications and interactions with key proteins like NF-kappaB.
Area of Science:
- Molecular Biology
- Immunology
- Gene Regulation
Background:
- Interleukin-1 (IL-1) induces expression of inflammatory genes like ccl2 (MCP-1).
- c-Jun and Jun N-terminal protein kinase (JNK) pathways are critical for this gene induction.
- The precise role of c-Jun in regulating ccl2 transcription and chromatin dynamics was not fully understood.
Purpose of the Study:
- To investigate the mechanisms by which c-Jun regulates IL-1-induced ccl2 gene expression.
- To identify c-Jun binding sites and their functional significance in the ccl2 gene.
- To elucidate the role of c-Jun in modulating chromatin structure and protein recruitment at the ccl2 locus.
Main Methods:
- Chromatin immunoprecipitation (ChIP) to identify c-Jun binding sites.
- Mutational analysis of the ccl2 gene promoter and regulatory regions.
- Comparison of gene expression in wild-type and c-Jun-deficient cells.
- Co-immunoprecipitation assays.
- DNA microarray analysis.
Main Results:
- Three functional c-Jun binding sites were identified in the murine and human ccl2 genes, with two in the 3' region being critical for IL-1-induced transcription.
- c-Jun regulates histone modifications (H3 phosphorylation, H3/H4 acetylation) and the recruitment of histone deacetylase 3 (HDAC3), NF-kappaB subunits, and RNA polymerase II to the ccl2 locus.
- c-Jun physically interacts with p65 NF-kappaB and HDAC3.
- c-Jun is essential for the full expression of a significant number of IL-1-induced genes, including many inflammatory genes.
Conclusions:
- c-Jun acts as a critical activator of IL-1-induced inflammatory gene expression, including ccl2.
- c-Jun employs multiple mechanisms to regulate gene transcription, involving direct DNA binding, modulation of chromatin structure, and protein-protein interactions.
- These findings highlight the multifaceted role of c-Jun in orchestrating inflammatory responses at the chromatin level.
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