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Metabolomics,Unknown,Transcriptomics,Genomics,Proteomics

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Regulatory T cells from colonic lamina propria [array]

ABSTRACT: The colonic lamina propria contains a distinct population of Foxp3+ T regulatory cells (Tregs) that modulate responses to commensal microbes. Analysis of gene expression revealed that the transcriptome of colonic Tregs is distinct from splenic and other tissue Tregs. Rorγ and Helios in colonic Tregs mark distinct populations: Rorγ+Helios- or Rorγ-Helios+ Tregs. We uncovered an unanticipated role for Rorγ, a transcription factor generally considered to be antagonistic to Foxp3. Rorγ in colonic Tregs accounts for a small but specific part of the colon-specific Treg signature. (1) Total colonic and splenic Foxp3+ Treg comparison: Lymphocytes were isolated from colonic lamina propria and spleens of Foxp3-ires-GFP mice, where GFP reports Foxp3 expression. TCRb+CD4+GFP+ cells were double sorted into Trizol. (2) Colonic Rorγ+ and Rorγ- Treg comparison: Foxp3-ires-Thy1.1 reporter mice were crossed to Rorc-GFP reporter mice to generate mice that report both Foxp3 and Rorγ expression. Rorγ+Foxp3+ Tregs (TCRb+CD4+Thy1.1+GFP+) and Rorγ-Foxp3+ Tregs (TCRb+CD4+Thy1.1+GFP-) from colonic lamina propria were double sorted into Trizol.To reduce variability and increase cell number, cells from multiple mice were pooled for sorting and at least three replicates were generated for all groups. RNA from 1.5-3.0 x104 cells was amplified, labeled and hybridized to Affymetrix Mouse Gene 1.0 ST Arrays.

ORGANISM(S): Mus musculus

SUBMITTER: CBDM Lab

PROVIDER: E-GEOD-68009 | biostudies-arrayexpress |

REPOSITORIES: biostudies-arrayexpress

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Regulatory T cells from colonic lamina propria [RNA-Seq]

Project description:The colonic lamina propria contains a distinct population of Foxp3+ T regulatory cells (Tregs) that modulate responses to commensal microbes. Analysis of gene expression revealed that the transcriptome of colonic Tregs is distinct from splenic and other tissue Tregs. Rorγ and Helios in colonic Tregs mark distinct populations: Rorγ+Helios- or Rorγ-Helios+ Tregs. We uncovered an unanticipated role for Rorγ, a transcription factor generally considered to be antagonistic to Foxp3. Rorγ in colonic Tregs accounts for a small but specific part of the colon-specific Treg signature. Nrp1- Tregs were sorted from Foxp3-cre.Rorcfl/fl mice, which have a Treg-selective deletion of Rorc, or paired WT littermates. For low-input RNAseq, 1,000 TCRb+CD4+YFP(Foxp3)+Nrp1- cells were double-sorted into Trizol, RNA extracted and reverse-transcribed using ArrayScript (Ambion). To reduce variability at least three replicates were generated.

2015-07-25 | E-GEOD-71304 | biostudies-arrayexpress

Regulatory T cells from colonic lamina propria [RNA-Seq]

2015-07-25 | GSE71304 | GEO

Regulatory T cells from colonic lamina propria [array]

2015-07-25 | GSE68009 | GEO

Homeostatic, repertoire and transcriptional relationships between colon T regulatory cell subsets

Project description:Foxp3+ regulatory T cells (Tregs) in the colon are key to promoting peaceful co-existence with symbiotic microbes. Differentiated in either thymic or peripheral locations, and modulated by microbes and other cellular influencers, colonic Treg subsets have been identified through key transcription factors (TF; Helios, Rorg, Gata3, cMaf), but their inter-relationships are unclear. Here, we perform genomic analysis of colonic lamina propria Tregs with conditional KOs of each of these TFs to better understand how each TF contributes to colonic Treg identity and function.

2023-12-20 | GSE240657 | GEO

Transcriptional profile of Foxp3+ regulatory T cells from colon lamina propria and mesenteric lymph node in steady state mice

Project description:The IL-33 receptor ST2 is differentially expressed by colonic lamina propria Treg cells Microarray of sort-purified Foxp3+ Treg cells from colonic lamina propria over mesenteric lymph node

2014-06-03 | E-GEOD-58145 | biostudies-arrayexpress

Epithelial-derived IL-18 regulates Th17 cell differentiation and Foxp3+ Treg cell function in the intestine

Project description:Microarray of sort-purified WT and Il18r1-/- Foxp3+ Treg cells from colonic lamina propria during prevention of naive CD4+ T cell mediated intestinal inflammation.

2014-12-31 | E-MTAB-3067 | biostudies-arrayexpress

Immune Gene Expression Profile of Conventional and Regulatory T cells

Project description:Understanding human regulatory T cells (Tregs) heterogeneity may identify markers of disease pathogenesis and facilitate the development of optimized cellular therapeutics. To better elucidate human Treg subsets, we conducted direct transcriptional profiling of CD4+FOXP3+Helios+ thymic-derived Treg (tTreg) and CD4+FOXP3+Helios- peripherally-induced Treg (pTreg), followed by comparison to CD4+FOXP3-Helios- T conventional (Tconv) cells. This analysis revealed that the coinhibitory receptor T-cell immunoglobulin and immunoreceptor tyrosine-based inhibitory motif domain (TIGIT) was highly expressed on tTreg. In this study CD4 T cells were stained for the Treg-associated transcription factors FOXP3 and Helios, and subsequently FACS sorted to yield three populations: tTreg (CD4+FOXP3+Helios+), pTreg (CD4+FOXP3+Helios–) and the reference population Tconv (CD4+FOXP3–Helios–). A direct transcriptional profile was obtained from the recovered RNA from the populations defined as tTreg, pTreg, and Tconv.

2015-04-30 | E-GEOD-61834 | biostudies-arrayexpress

Helios expression defines two distinct populations of Foxp3+ Treg cells

Project description:The transcription factor Helios is expressed in a large subset of Foxp3+ Tregs of both mouse and man. We previously demonstrated that Treg induced in peripheral sites (pTreg) from Foxp3- T conventional (Tconv) cells were Helios- and proposed that Helios is a marker of thymic derived Treg (tTreg). To compare the two Treg subpopulations, we generated Helios-GFP reporter mice and crossed them to Foxp3-RFP reporter mice. The Helios+ Treg population expressed a more activated phenotype and had a higher suppressive capacity in vitro. Both populations expressed a highly demethylated TSDR and both subsets were equivalent in their ability to suppress inflammatory bowel disease in vivo. However, Helios+ Treg more effectively inhibited the proliferation of activated, autoreactive splenocytes from scurfy mice. When Helios+ and Helios- Treg were transferred to lymphoreplete mice, both populations maintained comparable Foxp3 expression, but Foxp3 expression was less stable in Helios- Treg when transferred to lymphopenic mice. Gene expression profiling of the two populations demonstrated a large number of differentially expressed genes and that Helios- Treg subpopulation expressed certain genes normally expressed in CD4+Foxp3- T cells. TCR repertoire analysis indicated very little overlap between Helios+ and Helios- Treg. Thus, Helios+ and Helios- Treg subpopulations are phenotypically and functionally distinct, consistent with thymic and peripheral sites of origin, respectively. Because of their superior suppressive activity and enhanced stability Foxp3+Helios+ Treg represent the optimal Treg population for cellular immunotherapy.

2019-01-24 | GSE117989 | GEO

Transcriptional profiling of colonic Regulatory T (Treg) cells, CD4+ conventional T (Tconv) cells, dendritic cells (DCs), and epithelial cells (ECs) from Vdr WT- or Vdr KO-Foxp3 reporter mice

Project description:We reported transcriptional characterization of Treg cells, Tconv cells, and DCs isolated from coloinc lamina propria of Vdr WT- or Vdr KO-Foxp3 reporter mice. We also reported transcriptional characterization of colonic ECs isolated from Vdr WT- or Vdr KO-Foxp3 reporter mice.

2019-12-31 | GSE137405 | GEO

RNA-seq analysis of transcriptomes of WT and Foxp3∆2 Treg cells in colon lamina propria

Project description:We performed RNA-seq analysis of Tregs isolated from Foxp3RFP/∆2Foxp3GFP-cre female mice. CD4+GFP+RFP+ (WT Tregs) and CD4+GFP+RFP- (Foxp3∆2 Tregs) cells were sorted from colon lamina propria to a typical purity of >95%. In order to obtain enough RNA for sequencing, we combined the cells sortd from the cLP of three mice for library construction. Genes that were upregulated (532 genes) and downregulated (497 genes) in Foxp3∆2 Tregs

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