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| Status |
Public on Jun 30, 2018 |
| Title |
Chromatin landscape of human visceral and subcutaneous adipocytes |
| Organism |
Homo sapiens |
| Experiment type |
Genome binding/occupancy profiling by high throughput sequencing
Expression profiling by high throughput sequencing
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| Summary |
Obesity is characterized by the excess of body fat leading to impaired health. Abdominal fat is particularly harmful and is associated with cardiovascular and metabolic diseases and cancer. In contrast, subcutaneous fat is generally considered less detrimental. The mechanisms that establish the cellular characteristics of these distinct fat types in humans are not fully understood. Here, we explored whether differences of their gene regulatory mechanisms can be investigated in vitro. For this purpose, we in vitro differentiated human visceral and subcutaneous pre-adipocytes into mature adipocytes and obtained their gene expression profiles and genome-wide H3K4me3, H3K9me3 and H3K27ac patterns. Subsequently, we compared those data with public gene expression data from visceral and subcutaneous fat tissues. We found that the in vitro differentiated adipocytes show significant differences in their transcriptional landscapes, which correlate with biological pathways that are characteristic for visceral and subcutaneous fat tissues, respectively. Unexpectedly, visceral adipocyte enhancers are rich on motifs for transcription factors involved in the Hippo-YAP pathway, cell growth and inflammation, which are not typically associated with adipocyte function. In contrast, enhancers of subcutaneous adipocytes show enrichment of motifs for common adipogenic transcription factors, such as C/EBP, NFI and PPARgamma, implicating substantially disparate gene regulatory networks in visceral and subcutaneous adipocytes. Consistent with the role in obesity, predominantly the histone modification pattern of visceral adipocytes is linked to obesity-associated diseases. Thus, this work suggests that the properties of visceral and subcutaneous fat tissues can be studied in vitro and provides preliminary insights into their gene regulatory processes.
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| Overall design |
ChIP-Seq for H3K4me3, H3K9me3 and H3K27ac of in vitro differentiated human visceral and subcutaneous adipocytes. Two biological replicates were performed.
RNA-Seq of visceral and subcutaneous pre-adipocytes (1x) and mature adipocytes (2x).
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| Contributor(s) |
Liefke R, Bokelmann K, Ghadimi BM, Dango S |
| Citation(s) |
29966764 |
| Submission date |
Aug 14, 2017 |
| Last update date |
Jul 25, 2021 |
| Contact name |
Robert Liefke |
| E-mail(s) |
robert.liefke@imt.uni-marburg.de
|
| Organization name |
Philipps University of Marburg
|
| Department |
Institute of Molecular Biology and Tumor Research (IMT)
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| Street address |
Hans-Meerwein-Str. 2
|
| City |
Marburg |
| State/province |
Hessen |
| ZIP/Postal code |
35043 |
| Country |
Germany |
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| Platforms (1) |
| GPL20301 |
Illumina HiSeq 4000 (Homo sapiens) |
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| Samples (22)
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| Relations |
| BioProject |
PRJNA398252 |
| SRA |
SRP115414 |
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