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Transcriptomic signatures and chromatin structure in adipocytes isolated from premenauposal women subcutaneous fat

ABSTRACT: This SuperSeries is composed of the SubSeries listed below.

ORGANISM(S): Homo sapiens

PROVIDER: GSE143450 | GEO | 2020/06/08

REPOSITORIES: GEO

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Transcriptomic signatures and chromatin structure in adipocytes isolated from premenauposal women subcutaneous fat [ATAC-seq]

Project description:Our data showed that lipid and glucose metabolic pathways genes were expressed at higher levels in gluteofemoral adipocyte fraction in pears, while genes associated with inflammation were higher in both abdominal and gluteofemoral apple adipocyte fraction. Gluteofemoral adipocyte chromatin from pear-shaped women contained a significantly higher number of differentially open ATAC-seq peaks relative to chromatin from the apple-shaped gluteofemoral adipocytes. In contrast, abdominal adipocyte chromatin openness showed few differences between apple and pear-shaped women. We revealed a correlation between gene transcription and open chromatin at the proximity of the TSS of some of the differentially expressed genes.

2020-06-08 | GSE143449 | GEO

Transcriptomic signatures and chromatin structure in adipocytes isolated from premenauposal women subcutaneous fat [RNA-seq]

2020-06-08 | GSE143448 | GEO

Transcriptomic signatures and chromatin structure in adipocytes isolated from premenauposal women subcutaneous fat

Project description:Transcriptomic signatures and chromatin structure in adipocytes isolated from premenauposal women subcutaneous fat

| PRJNA600513 | ENA

Transcriptomic signatures and chromatin structure in adipocytes isolated from premenauposal women subcutaneous fat [ATAC-seq]

Project description:Transcriptomic signatures and chromatin structure in adipocytes isolated from premenauposal women subcutaneous fat [ATAC-seq]

| PRJNA600519 | ENA

Transcriptomic signatures and chromatin structure in adipocytes isolated from premenauposal women subcutaneous fat [RNA-seq]

Project description:Transcriptomic signatures and chromatin structure in adipocytes isolated from premenauposal women subcutaneous fat [RNA-seq]

| PRJNA600518 | ENA

Fat Distribution in Women Is Associated With Depot-Specific Transcriptomic Signatures and Chromatin Structure.

Project description:Background:Preferential accumulation of fat in the upper body (apple shape) is associated with higher risk of developing metabolic syndrome relative to lower body fat (pear shape). We previously discovered that chromatin openness partially defined the transcriptome of preadipocytes isolated from abdominal and gluteofemoral fat. However, the molecular mechanisms underlying interindividual variation in body shape are unknown. Methods:Adipocyte fraction was isolated from abdominal and gluteofemoral fat biopsies of premenopausal women (age and body mass index matched) segregated initially only by their waist-to-hip ratio. We evaluated transcriptomic and chromatin accessibility using RNA sequencing and assay for transposase-accessible chromatin using sequencing (ATAC-seq) along with key clinical parameters. Results:Our data showed that higher lower body fat mass was associated with better lipid profile and free fatty acid decrease after glucose administration. Lipid and glucose metabolic pathways genes were expressed at higher levels in gluteofemoral adipocyte fraction in pears, whereas genes associated with inflammation were higher both in abdominal and gluteofemoral apple adipocyte fraction. Gluteofemoral adipocyte chromatin from pear-shaped women contained a significantly higher number of differentially open ATAC-seq peaks relative to chromatin from the apple-shaped gluteofemoral adipocytes. In contrast, abdominal adipocyte chromatin openness showed few differences between apple- and pear-shaped women. We revealed a correlation between gene transcription and open chromatin at the proximity of the transcriptional start site of some of the differentially expressed genes. Conclusions:Integration of data from all 3 approaches suggests that chromatin openness partially governs the transcriptome of gluteofemoral adipocytes and may be involved in the early metabolic syndrome predisposition associated with body shape.

| S-EPMC7261146 | biostudies-literature

Proteomic Signatures of Human Visceral and Subcutaneous Adipocytes.

Project description:ContextAdipose tissue distribution is a key factor influencing metabolic health and risk in obesity-associated comorbidities.ObjectiveHere we aim to compare the proteomic profiles of mature adipocytes from different depots.MethodsAbdominal subcutaneous (SA) and omental visceral adipocytes (VA) were isolated from paired adipose tissue biopsies obtained during bariatric surgery on 19 severely obese women (body mass index > 30 kg/m2) and analyzed using state-of-the-art mass spectrometry. Differential expression analysis and weighted gene co-expression network analysis (WGCNA) were performed to investigate proteome signature properties and to examine a possible association of the protein expression with the clinical data.ResultsWe identified 3686 protein groups and found 1140 differentially expressed proteins (adj. P value < 0.05), of which 576 proteins were upregulated in SA and 564 in VA samples. We provide a global protein profile of abdominal SA and omental VA, present the most differentially expressed pathways and processes distinguishing SA from VA, and correlate them with clinical and body composition data. We show that SA are significantly more active in processes linked to vesicular transport and secretion, and to increased lipid metabolism activity. Conversely, the expression of proteins involved in the mitochondrial energy metabolism and translational or biosynthetic activity is higher in VA.ConclusionOur analysis represents a valuable resource of protein expression profiles in abdominal SA and omental VA, highlighting key differences in their role in obesity.

| S-EPMC8851937 | biostudies-literature

Transcriptome profile of subcutaneous adipocytes isolated from obese vs. lean postmenopausal women

2013-02-02 | GSE44000 | GEO

Transcriptome profile of subcutaneous adipocytes isolated from obese vs. lean postmenopausal women

Project description:Adipocytes isolated from lean and obese postmenopausal women with no significant differences in metabolic syndrome parameters demonstrate changes in multiple inflammatory, metabolic and structural gene families. Purified adipocyte samples were isolated from subcutaneous adipose tissue surgical biopsies of 7 obese (BMI>30) and 7 lean (BMI<25) postmenoposal women and gene expression was quantified with Agilent-014850, 4X44K human whole genome platform arrays (GPL6480)

2013-02-02 | E-GEOD-44000 | biostudies-arrayexpress

Early postnatal interactions between beige adipocytes and sympathetic neurites regulate innervation of subcutaneous fat.

Project description:While beige adipocytes have been found to associate with dense sympathetic neurites in mouse inguinal subcutaneous white fat (iWAT), little is known about when and how this patterning is established. Here, we applied whole-tissue imaging to examine the development of sympathetic innervation in iWAT. We found that parenchymal neurites actively grow between postnatal day 6 (P6) and P28, overlapping with early postnatal beige adipogenesis. Constitutive deletion of Prdm16 in adipocytes led to a significant reduction in early postnatal beige adipocytes and sympathetic density within this window. Using an inducible, adipocyte-specific Prdm16 knockout model, we found that Prdm16 is required for guiding sympathetic growth during early development. Deleting Prdm16 in adult animals, however, did not affect sympathetic structure in iWAT. Together, these findings highlight that beige adipocyte-sympathetic neurite communication is crucial to establish sympathetic structure during the early postnatal period but may be dispensable for its maintenance in mature animals.

| S-EPMC7990502 | biostudies-literature

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