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Chip-chip from mouse olfactory epithelium (OE) and liver with antibodies against H3K9me3 and H4K20me3

ABSTRACT: The Olfactory Receptor (OR) genes are specifically expressed in the MOE in a monogenic and monoallelic fashion. Only 1 out of 2800 alleles is expressed in each olfactory sensory neuron in mice. ChIP-chip from mouse olfactory epithelium (OE) and liver for H3K9me3 and H4K20me3 revealed that the ORs are highly enriched for these modifications in OE but not in liver. 24 samples were analyzed (20 from OE and 4 from liver) with matching inputs as controls. For the OE samples, there were 2-3 replicates for each array.

ORGANISM(S): Mus musculus

SUBMITTER: Stavros Lomvardas

PROVIDER: E-GEOD-24420 | biostudies-arrayexpress |

REPOSITORIES: biostudies-arrayexpress

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An epigenetic signature for monoallelic olfactory receptor expression.

Magklara Angeliki A Yen Angela A Colquitt Bradley M BM Clowney E Josephine EJ Allen William W Markenscoff-Papadimitriou Eirene E Evans Zoe A ZA Kheradpour Pouya P Mountoufaris George G Carey Catriona C Barnea Gilad G Kellis Manolis M Lomvardas Stavros S

Cell 20110428 4

Constitutive heterochromatin is traditionally viewed as the static form of heterochromatin that silences pericentromeric and telomeric repeats in a cell cycle- and differentiation-independent manner. Here, we show that, in the mouse olfactory epithelium, olfactory receptor (OR) genes are marked in a highly dynamic fashion with the molecular hallmarks of constitutive heterochromatin, H3K9me3 and H4K20me3. The cell type and developmentally dependent deposition of these marks along the OR clusters ...[more]

PMID: 21529909

Similar Datasets

Chip-chip from mouse olfactory epithelium (OE) and liver with antibodies against H3K9me3 and H4K20me3

Project description:The Olfactory Receptor (OR) genes are specifically expressed in the MOE in a monogenic and monoallelic fashion. Only 1 out of 2800 alleles is expressed in each olfactory sensory neuron in mice. ChIP-chip from mouse olfactory epithelium (OE) and liver for H3K9me3 and H4K20me3 revealed that the ORs are highly enriched for these modifications in OE but not in liver.

2011-05-03 | GSE24420 | GEO

Lamin b receptor regulates nuclear architecture and gene expression in olfactory neurons

Project description:Gene positioning and regulation of nuclear architecture are thought to influence gene expression. Here, we show that in mouse olfactory neurons, silent olfactory receptor (OR) genes from different chromosomes converge in a small number of heterochromatic foci. These foci are OR-exclusive and form in a cell-type-specific and differentiation- dependent manner. The aggregation of OR genes is developmentally synchronous with the downregulation of Lamin b Receptor (LBR) and can be reversed by ectopic expression of LBR in mature olfactory neurons. LBR-induced reorganization of nuclear architecture and redistribution of OR loci results in misregulation of OR transcription and disruption of the targeting specificity of the olfactory neurons. Our observations are consistent with a model of spatial regulation of OR expression and provide evidence for the instructive role of nuclear architecture and compartmentalization in gene regulation and differentiation. A complex probe was made by array capture to label mouse olfactory receptor genes by DNA FISH; this microarray data verifies the composition of that probe. Probe was made by array capture and elution from a custom olfactory receptor genomic region tiling array. Probe was verified on a chr1-4 tiling array.

2012-08-30 | E-GEOD-38488 | biostudies-arrayexpress

Role of iRhom2 in Olfaction: Implications for Odorant Receptor Regulation and Activity-dependent Adaptation

Project description:The cell surface metalloprotease ADAM17 and its binding partners iRhom2 and iRhom1 modulate cell-cell interactions by mediating the release of membrane proteins such as TNFa and EGFR-ligands from the cell surface. Most cell types express both iRhoms, though myeloid cells exclusively express iRhom2, and iRhom1 is the main iRhom in the mouse brain. Here we report that iRhom2 is uniquely expressed in olfactory sensory neurons (OSNs), highly specialized cells expressing one olfactory receptor (OR) from a repertoire of over a thousand OR genes in mice. iRhom2-/- mice had no evident morphological defects in the olfactory epithelium (OE), yet RNAseq analysis revealed differential expression of a small subset of ORs. Notably, while the majority of ORs remain unaffected in iRhom2-/- OE, OSNs expressing ORs that are enriched in iRhom2-/- OE showed fewer gene expression changes upon odor environmental changes than the majority of OSNs. Moreover, we discovered an inverse correlation between the expression of iRhom2 compared to OSN activity genes and that odor exposure negatively regulates iRhom2 expression. Given that ORs are specialized G-protein coupled receptors (GPCRs) and many GPCRs activate iRhom2/ADAM17, we investigated if ORs could activate iRhom2/ADAM17. Activation of OR2AT4 by its agonist sandalore in keratinocytes, where this receptor is ectopically expressed, leads to ERK1/2 phosphorylation, likely via an iRhom2/ADAM17-dependent pathway. Taken together, these findings point to a mechanism by which odor stimulation of OSNs activates iRhom2/ADAM17 catalytic activity, resulting in downstream transcriptional changes to the OR repertoire and activity genes, and driving a negative feedback loop to downregulate iRhom2 expression.

2024-05-28 | GSE268171 | GEO

Characterizing the expression of human olfactory receptor genes

Project description:We aim, among other things, to characterize olfactory receptor (OR) genes wich are differentially expressed between olfactory epithelium (OE) and other organ tissues, in humans. Six OE samples and ten non-OE samples, including two samples of the following tissues: liver, kidney, lung, testis, and heart.

2010-06-11 | E-GEOD-5969 | biostudies-arrayexpress

Characterizing the expression of Pan troglodytes olfactory receptor genes

Project description:We aim, among other things, to characterize olfactory receptor (OR) genes wich are differentially expressed between olfactory epithelium (OE) and other organ tissues, in chimpanzees (Pan troglodytes), and to make comparisons with human data from a previous series using the same platform. Keywords: Comparative Four OE samples and eight non-OE samples, including two samples of the following tissues: heart, liver, lung, and testis.

2008-10-01 | E-GEOD-11156 | biostudies-arrayexpress

Expression data from MeGRX232-OE and MeGRX360-OE Arabidopsis

Project description:MeGRX232 and MeGRX360 are drought-inducible CC-type glutaredoxins in cassava. Overexpression of them in Arabidopsis caused different effects on plant growth. We used microarray to identified the different expression genes in MeGRX232-OE and MeGRX360-OE Arabidopsis

2016-05-06 | GSE81136 | GEO

IMA1 OE #7-4 line compared to EYFP OE line (control)

Project description:RNAseq transcriptome of IRON MAN1 OE line. IMA1 OE plants accumulate Fe in their tissue and exhibit a constitutive induction of their root Fe uptake system.

2016-10-08 | GSE87745 | GEO

Klf5 OE ES

Project description:Klf5 OE ES

| PRJNA1026845 | ENA

miniChIP-chip of murine hematopoietic stem cells and progeny with H3K4me3, H3K79me2, H3K9/14ac, H3K27me3, H3K9me3, PolII

Project description:This study describes the changes in epigenetic chromatin modifications during murine hematopoietic stem cell differentiation in vivo using a modified miniChIP-chip technology. We have addressed issues including bivalent (H3K4me3/H3K27me3) modifications, lineage priming hypothesis, and stem cell chromatin properties in our study described in Weishaupt et al., 2009 (Blood) Comparison of 4 murine hematopoietic stem, progenitor and mature cell types directly isolated from primary tissues using FACS. HSCs are phenotypically identified in bone marrow as lineage-, cKit+, Sca1+, CD150+, Flk2/Flt3- (LSKCD150+ cells). MPPs are phenotypically identified in bone marrow as lineage-, cKit+, Sca1+, CD150-, Flk2/Flt3+ (LSKCD150- cells). PreMegEs are phenotypically identified in bone marrow as lineage-, cKit+, Sca1-, CD150+, CD105-, FcgRI/IIlo and CD41- cells as described in Pronk et al., 2007. Splenic-derived CD4+ T cells are phentypically identified as CD4+, CD8-, B220-, Nk1.1- cells as described in Rolf et al., 2008.

2009-11-08 | E-GEOD-18734 | biostudies-arrayexpress

Genome-wide screen reveals rhythmic regulation of genes involved in odor processing in the olfactory epithelium

Project description:Odor discrimination behavior displays circadian fluctuations in mice indicating that mammalian olfactory function is under control of the circadian system. This is further supported by the facts that odor discrimination rhythms depend on the presence of clock genes and that olfactory tissues contain autonomous circadian clocks. However, the molecular link between circadian function and olfactory processing is still unknown. In order to elucidate the molecular mechanisms underlying this link, we focused on the olfactory epithelium (OE), the primary target of odors and the site of the initial events in olfactory processing. We asked whether olfactory sensory neurons (OSNs) within the OE possess an autonomous circadian clock and whether olfactory pathways are under circadian control. Employing clock gene-driven bioluminescence reporter assays, immunohistochemistry and a time-dependent microarray-based transcriptome analysis on OE samples, we found robust circadian rhythms of core clock genes and their proteins in OSNs, suggesting that the OE indeed contains an autonomous circadian clock. Furthermore, we identified several OSN-specific components of the olfactory pathway that are under circadian control, including several candidates with putative roles in circadian olfactory processing, such as KIRREL2 -- an established factor involved in short-term OSN activation. The spatiotemporal expression patterns of our candidate proteins suggest that they are involved in short-term anabolic processes to rhythmically prepare the cell for peak performances and to promote circadian function of OSNs. We performed a genome-wide expression study with RNA from OE tissue extracted at 4-h intervals in constant darkness from previously entrained mice. Total RNA of four mice per sampling time was pooled in equal amounts.

2015-11-04 | E-GEOD-69853 | biostudies-arrayexpress

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