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Jmjd3 is required for tissue-restricted antigens expression in mTECs

ABSTRACT: Jmjd3 is required for tissue-restricted antigens expression in mTECs

PROVIDER: PRJNA433532 | ENA |

REPOSITORIES: ENA

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			Action	DRS
	SRR6691670.fastq.gz	Fastqsanger.gz
	SRR6691671.fastq.gz	Fastqsanger.gz
	SRR6691672.fastq.gz	Fastqsanger.gz
	SRR6691673.fastq.gz	Fastqsanger.gz
	SRR6691674.fastq.gz	Fastqsanger.gz

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Jmjd3 is required for tissue-restricted antigens expression in mTECs

Project description:To understand the role of Jmjd3 in medullary thymic epithelial cells (mTECs) function and development, Jmjd3 was conditionally deleted in thymic epithelial cells. At the age of 4 weeks, mTECs were sorted by flow cytometry and RNA-seq was performed to identify the genes targeted by Jmjd3 for repression.

2021-02-08 | GSE110360 | GEO

Single-cell transcriptome sequencing from mouse mTECs

2015-08-02 | E-MTAB-3346 | biostudies-arrayexpress

Single-cell transcriptome sequencing from mouse mTECs (additional data)

Project description:Promiscuous gene expression (pGE) of tissue-restricted antigens in medullary thyme ephitelial cells (mTECs) is essential for self-tolerance induction and to prevent autoimmunity. We sequenced single mTEC transcriptomes to explore gene expression heterogeneity and to discover patterns of regulation of pGE. This data set complements what's submitted earlier, under ArrayExpress accession E-MTAB-3346 ( http://www.ebi.ac.uk/arrayexpress/experiments/E-MTAB-3346/ ).

2015-08-03 | E-MTAB-3624 | biostudies-arrayexpress

In-depth profiling of transcriptional activity of Aire in mouse mTECs

Project description:Aire, a transcriptional regulator whose defect results in the development of autoimmunity, controls the transcriptome in medullary thymic epithelial cells (mTECs) including the genes for self-antigens. Here, we utilized a technique for profiling transcriptome from a single cell (RamDA-seq) to investigate bulk populations in mTECs deeply.

2023-01-07 | GSE222285 | GEO

Single-cell RNA-seq of murine medullary thymic epithelial cells (mTECs)

Project description:The capability of T cells for discrimination between self and non-self peptides is based on rigorous negative selection of developing thymocytes by medullary thymic epithelial cells (mTECs). The mTECs purge autoreactive T cells by expression of cell-type specific genes referred to as tissue-restricted antigens (TRAs), therefore, the expression patterns of TRA genes can help understand development of mTECs and the regulatory mechanism during the development. We use single-cell RNA-sequencing to resolve patterns of TRA expression, and to elucidate how these patterns are changed during mTEC development. Thymi were collected from 2 and 4 week-old wild-type male and female mice. The mTEC suspension obtained from sorting was loaded onto the Fluidigm C1 platform using mediumsized capture chips (10-17m cells). External RNA Control Consortium (ERCC) spike-ins (Ambion, Life Technologies) were included in the lysis buffer. Reverse transcription and cDNA preamplification were performed using the SMARTer Ultra Low RNA kit (Clontech). The cDNA libraries for sequencing were prepared and libraries from 96 single cells were pooled and subsequently purified; pooled samples were sequenced on an Illumina HiSeq 2500 instrument.

2018-05-08 | E-MTAB-5727 | biostudies-arrayexpress

Cancer-restricted cryptic antigens are targets for T cell recognition

Project description:Cancer-restricted cryptic antigens are targets for T cell recognition

| PRJNA1210005 | ENA

Cancer-restricted cryptic antigens are targets for T cell recognition

Project description:Cancer-restricted cryptic antigens are targets for T cell recognition

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Histone lysine demethylase JMJD3/KDM6B is required for the establishment of adult hippocampal neurogenesis

Project description:Mutations in the JMJD3 (KDM6B) chromatin regulator are causally associated with autism spectrum disorder and syndromic intellectual disability, but the neurodevelopmental roles of this histone 3 lysine 27 (H3K27) demethylase are poorly understood. Neural stem cells (NSCs) in the hippocampal dentate gyrus (DG) generate new granule neurons throughout life, and deficits in DG neurogenesis are associated with cognitive and behavioral problems. Here we show that Jmjd3 is required for the establishment of adult neurogenesis in the mouse DG. Conditional deletion of Jmjd3 in embryonic DG precursors results in an adult hippocampus that is essentially devoid of NSCs. While early postnatal mice with Jmjd3-deletion have near normal numbers of DG NSCs, at later stages, Jmjd3-deleted NSCs fail to propagate normally. In addition to the loss of NSCs during postnatal development, neurogenesis from Jmjd3-deleted NSCs is impaired, corresponding to defective neurogenic gene expression. Without Jmjd3, NeuroD2 and Bcl11b(Ctip2) are not properly expressed and exhibit increased levels of H3K27me3, underscoring the role of Jmjd3 in the regulation of transcription for neuronal differentiation. Thus, these data indicate that Jmjd3 plays dual roles in postnatal DG neurogenesis, being critical for the establishment of the NSC pool as well as the differentiation of young DG granule neurons. More broadly, our results suggest a neurodevelopmental link between JMJD3 mutations and hippocampal dysfunction, providing new insights into how mutations in chromatin regulators may contribute to learning disorders.

2021-04-01 | GSE73706 | GEO

Genome wide trimethyl-H3K27 distibution in macrophages from wild-type and Jmjd3-/- macrophages.

Project description:Jmjd3 is trimethyl H3K27 specific demethylase required for M2 macrophage polarization. Genomic fragments obtained from wild-type and Jmjd3-/- mouse macrophages were immunoprecipitated with anti H3K27me3 Ab, and deep sequencing was performed. wild-type and Jmjd3-/- macrophages

2010-08-22 | E-GEOD-23297 | biostudies-arrayexpress

Histone demethylase JMJD3 is a key epigenetic activator of FGF21 signaling-induced hepatic autophagy and lipolysis

Project description:Autophagy is essential for cellular survival and energy homeostasis under nutrient deprivation. Despite the emerging importance of nuclear events in autophagy regulation, epigenetic control of autophagy gene transcription remains unclear. Here, we identify Jumonji-D3 (JMJD3/KDM6B) histone demethylase as a key epigenetic activator of hepatic autophagy. Upon fasting-induced fibroblast growth factor-21 (FGF21) signaling, JMJD3 epigenetically upregulated global autophagy-network genes, including Tfeb, Atg7, Atgl, and Fgf21, through demethylation of histone H3K27-me3, resulting in autophagy-mediated lipid degradation. Mechanistically, phosphorylation of JMJD3 at Thr-1044 by FGF21 signal-activated PKA increased its nuclear localization and interaction with the nuclear receptor PPARto transcriptionally activate autophagy. Chronic administration of FGF21 in obese mice improved defective autophagy and hepatosteatosis in a JMJD3-dependent manner. Remarkably, in non-alcoholic fatty liver disease patients, hepatic expression of JMJD3, ATG7, LC3, and KL were substantially decreased. These findings demonstrate that FGF21-JMJD3 signaling epigenetically links nutrient deprivation with hepatic autophagy and lipid degradation in mammals

2020-05-26 | PXD015672 | Pride

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