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Next Generation Sequencing Facilitates Quantitative Analysis of adipose tissue Treg and LN Treg Transcriptomes

ABSTRACT: Next Generation Sequencing Facilitates Quantitative Analysis of adipose tissue Treg and LN Treg Transcriptomes

PROVIDER: PRJNA513260 | ENA |

REPOSITORIES: ENA

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Next Generation Sequencing Facilitates Quantitative Analysis of adipose tissue Treg and LN Treg Transcriptomes

Project description:The goal of this study is to reveal unique features of adipose Tregs and to study mechanisms underlying how mediator Med23 regulate adipose Treg function in aged mice. Therefore, mRNA profiles of LN Tregs (from 4-month old Foxp3Cre mice) and adipose Tregs (from 4-month old Foxp3Cre, 4-month old obese Foxp3Cre, 10-month old Foxp3Cre and 10-month old Med23fl/fl;Foxp3Cre mice) were generated by deep sequencing, single experiment, using Illumina HiSeq2000. We compared transcriptome features between lymph node-derived Tregs and adipose Tregs from 4-month old lean or obese mice. Using unbiased comparative gene expression analyses, we found adipose Tregs display an up-signature of Insr (Insulin receptor) and Hif1a, while Pparg acts as a positive control. We next compared gene expression profiles of adipose Tregs from 10-month old Med23fl/fl;Foxp3Cre (MKO) and Foxp3Cre (WT) mice. adipose Med23-ΔTreg cells display impaired transcription of Pparg and Il1rl1 (ST2), and they simultaneously acquire the expression of Nt5e (CD73), while Entpd1 (CD39) expression was not dramatically altered. Our studies implicate protective roles of CD73hi adipose Tregs and offer new therapeutic strategies against age-associated metabolic syndrome.

2021-07-15 | GSE124721 | GEO

Adult mouse LN, dermis and epidermis Treg scRNAseq

Project description:Adult mouse LN, dermis and epidermis Treg scRNAseq

| PRJNA733478 | ENA

Single-cell Sequencing of adipose Treg cells

Project description:Systematic characterizations of adipose Treg subsets and their in vivo roles remain uncommon. Using paired single-cell RNA-seq and TCR-seq to map adipose Treg cells, we identified conserved adipose subsets with distinct clonal expansion patterns. By gain and loss of function studies, we demonstrated adipose Treg subsets display disparate influences. To understand the clonal structure of adipose Treg cells, we analyzed their TCR sharing data and observed a number of overlapped TCR clonotypes, suggesting a cellular state transition between adipose Treg clusters. Our findings have important implications for understanding phenotypic diversity of tissue Tregs in vivo.

2021-07-15 | GSE137493 | GEO

Single-cell ATAC-Sequencing of adipose Treg cells

Project description:Systematic characterizations of adipose Treg subsets and their in vivo roles remain uncommon. The goal of this study is to reveal the heterogeneity and chromatin landscape of adipose Treg cells. Using single-cell ATAC-seq to map adipose Treg cells, we identified different adipose subsets. Strikingly, our scATAC-seq analysis revealed a strong enrichment of key transcription factor motifs, which may play function in fate specification. By gain and loss of function studies, we further demonstrated adipose Treg subsets display disparate physiologic influences. Our findings have important implications for understanding phenotypic diversity of tissue Tregs in vivo.

2021-07-15 | GSE147768 | GEO

Next Generation Sequencing Facilitates Quantitative Analysis of Adipose Tregs from Foxp3Cre and Hif1afl/fl;Foxp3Cre mice

Project description:The goal of this study is to study mechanisms underlying how HIF-1α regulates adipose Treg function. Therefore, mRNA profiles of adipose Tregs (from 4-month old Foxp3Cre and Hif1afl/fl;Foxp3Cre mice) were generated by deep sequencing, single experiment, using Illumina HiSeq TEN. We compared gene expression profiles of adipose Tregs from Hif1afl/fl;Foxp3Cre and Foxp3Cre mice. Using unbiased comparative gene expression analyses, we found adipose HIF-1α-ΔTreg cells showed higher expression of Nt5e gene and simultaneously down-regulated canonical adipose Treg genes (including Pparg, Il1rl1, Klrg1, Areg). Therefore, these data suggested a dependency of HIF-1α on PPAR-γ expression in adipose Tregs.

2021-07-15 | GSE152082 | GEO

Single-cell Sequencing of adipose Treg cells

Project description:Single-cell Sequencing of adipose Treg cells

| PRJNA565725 | ENA

Next Generation Sequencing Facilitates Quantitative Analysis of Control and Oct3 Deficient Adipose Transcriptomes

Project description:Next Generation Sequencing Facilitates Quantitative Analysis of Control and Oct3 Deficient Adipose Transcriptomes

| PRJNA507774 | ENA

Next Generation Sequencing Facilitates Quantitative Analysis of FOXP3-YFP-Cre and FOXP3-YFP-Cre/USP21-floxp/floxp Treg Cells Transcriptomes

Project description:Regulatory T (Treg) cells harbor immune suppressive capacity and are crucial for the maintenance of peripheral tolerance. Treg cells are considered to be heterogenic, where compromised FOXP3 expression results in the generation of exTreg cells. Here we report that the E3 deubiquitinase USP21 prevents the depletion of FOXP3 protein and restricts tissue-resident exTreg cell generation. Mice lacking USP21 in Treg cells display immune disorders characterized by spontaneous T cell activation and excessive T helper type 1 (Th1) skewing. USP21 stabilizes FOXP3 protein by mediating its deubiquitination and therefore helps to maintain the expression of Treg signature genes. Moreover, at inflamed loci, tissue-resident USP21-deficient Treg cells display a Th1-like effector phenotype. Therefore, we demonstrate how USP21 controls the identity of tissue-resident Treg cells by preventing FOXP3 loss.

2017-01-29 | GSE77458 | GEO

Single-cell ATAC-Sequencing of adipose Treg cells

Project description:Single-cell ATAC-Sequencing of adipose Treg cells

| PRJNA616335 | ENA

Next Generation Sequencing Facilitates Quantitative Analysis of Control and Oct3 Deficient Adipose Transcriptomes

Project description:Analysis of Oct3-deficient inguinal and control white adipose tissue from 8-week-old C57BL/6 animals after 4 ºC for one month. Results provide insight into the role of Oct3 in WAT beiging.

2018-12-01 | GSE123181 | GEO

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