scholarly journals Differential Gene Expression and Biological Analyses of Primary Hepatocytes Following D-Chiro-Inositol Supplement

2021 ◽  
Vol 12 ◽  
Author(s):  
Feier Cheng ◽  
Shao-jun Yun ◽  
Jin-ling Cao ◽  
Ming-chang Chang ◽  
Jun-long Meng ◽  
...  
Keyword(s):  
Gene Expression ◽  
Insulin Resistance ◽  
Metabolic Diseases ◽  
Critical Role ◽  
Primary Hepatocyte ◽  
Rna Seq ◽  
Primary Hepatocytes ◽  
Before And After ◽  
Differential Gene ◽  
Compare And Contrast

Dietary supplements have improved the prevention of insulin resistance and metabolic diseases, which became a research hotspot in food science and nutrition. Obesity and insulin resistance, caused by a high-fat diet, eventually result in severe metabolic diseases, can be prevented with the dietary supplement D-chiro-inositol (DCI). In this work, we isolated mice primary hepatocytes with palmitic acid stimulation and DCI was applied to compare and contrast its effects of in primary hepatocyte biology. Before and after intervention with DCI, we used RNA-Seq technology to establish a primary hepatocyte transcriptome gene profile. We found that both PA and DCI cause a wide variation in gene expression. Particularly, we found that DCI plays critical role in this model by acting on glycolysis and gluconeogenesis. Overall, we generated extensive transcripts from primary hepatocytes and uncovered new functions and gene targets for DCI.

scholarly journals Transcriptional profiling reveals a role for RORα in regulating gene expression in obesity-associated inflammation and hepatic steatosis

2011 ◽  
Vol 43 (13) ◽  
pp. 818-828 ◽  
Author(s):  
Hong Soon Kang ◽  
Kyoko Okamoto ◽  
Yukimasa Takeda ◽  
Ju Youn Beak ◽  
Kevin Gerrish ◽  
...  
Keyword(s):  
Gene Expression ◽  
Insulin Resistance ◽  
Hepatic Steatosis ◽  
Metabolic Diseases ◽  
Transcriptional Profiling ◽  
Critical Role ◽  
Orphan Receptor ◽  
Signaling Proteins ◽  
Expression Of Genes ◽  
And Storage

Retinoid-related orphan receptor (ROR)α4 is the major RORα isoform expressed in adipose tissues and liver. In this study we demonstrate that RORα-deficient staggerer mice (RORαsg/sg) fed with a high-fat diet (HFD) exhibited reduced adiposity and hepatic triglyceride levels compared with wild-type (WT) littermates and were resistant to the development of hepatic steatosis, adipose-associated inflammation, and insulin resistance. Gene expression profiling showed that many genes involved in triglyceride synthesis and storage, including Cidec, Cidea, and Mogat1, were expressed at much lower levels in liver of RORαsg/sg mice. In contrast, overexpression of RORα in mouse hepatoma Hepa1–6 cells significantly increased the expression of genes that were repressed in RORαsg/sg liver, including Sult1b1, Adfp, Cidea, and ApoA4. ChIP and promoter analysis suggested that several of these genes were regulated directly by RORα. In addition to reduced lipid accumulation, inflammation was greatly diminished in white adipose tissue (WAT) of RORαsg/sg mice fed with an HFD. The infiltration of macrophages and the expression of many immune response and proinflammatory genes, including those encoding various chemo/cytokines, Toll-like receptors, and TNF signaling proteins, were significantly reduced in RORαsg/sg WAT. Moreover, RORαsg/sg mice fed with an HFD were protected from the development of insulin resistance. RORαsg/sg mice consumed more oxygen and produced more carbon dioxide, suggesting increased energy expenditure in this genotype. Our study indicates that RORα plays a critical role in the regulation of several aspects of metabolic syndrome. Therefore, RORα may provide a novel therapeutic target in the management of obesity and associated metabolic diseases.

scholarly journals Differential Gene Expression by RNA-Seq Analysis of the Primo Vessel in the Rabbit Lymph

2019 ◽  
Vol 12 (1) ◽  
pp. 11-19 ◽  
Author(s):  
Jun-Young Shin ◽  
Sang-Heon Choi ◽  
Da-Woon Choi ◽  
Ye-Jin An ◽  
Jae-Hyuk Seo ◽  
...  
Keyword(s):  
Gene Expression ◽  
Differential Gene Expression ◽  
Rna Seq ◽  
Differential Gene

The characteristics of mesenteric adipose tissue attached to different intestinal segments and their roles in immune regulation

2022 ◽  
Author(s):  
Haowei Zhang ◽  
Yujin Ding ◽  
Qin Zeng ◽  
Dandan Wang ◽  
Ganglei Liu ◽  
...  
Keyword(s):  
Gene Expression ◽  
Adipose Tissue ◽  
Immune Regulation ◽  
Expression Profiles ◽  
Critical Role ◽  
Gene Expression Profiles ◽  
Rna Seq ◽  
Mesenteric Adipose Tissue ◽  
Cell Components ◽  
Subsequent Effect

Background: Mesenteric adipose tissue (MAT) plays a critical role in the intestinal physiological ecosystems. Small and large intestines have evidently intrinsic and distinct characteristics. However, whether there exist any mesenteric differences adjacent to the small and large intestines (SMAT and LMAT) has not been properly characterized. We studied the important facets of these differences, such as morphology, gene expression, cell components and immune regulation of MATs, to characterize the mesenteric differences. Methods: The SMAT and LMAT of mice were utilized for comparison of tissue morphology. Paired mesenteric samples were analyzed by RNA-seq to clarify gene expression profiles. MAT partial excision models were constructed to illustrate the immune regulation roles of MATs, and 16S-seq was applied to detect the subsequent effect on microbiota. Results: Our data show that different segments of mesenteries have different morphological structures. SMAT not only has smaller adipocytes but also contains more fat-associated lymphoid clusters than LMAT. The gene expression profile is also discrepant between these two MATs in mice. B-cell markers were abundantly expressed in SMAT, while development-related genes were highly expressed in LMAT. Adipose-derived stem cells of LMAT exhibited higher adipogenic potential and lower proliferation rates than those of SMAT. In addition, SMAT and LMAT play different roles in immune regulation and subsequently affect microbiota components. Finally, our data clarified the described differences between SMAT and LMAT in humans. Conclusions: There were significant differences in cell morphology, gene expression profiles, cell components, biological characteristics, and immune and microbiota regulation roles between regional MATs.

scholarly journals RNAflow: An Effective and Simple RNA-Seq Differential Gene Expression Pipeline Using Nextflow

Genes ◽  
2020 ◽  
Vol 11 (12) ◽  
pp. 1487
Author(s):  
Marie Lataretu ◽  
Martin Hölzer
Keyword(s):  
Gene Expression ◽  
Homo Sapiens ◽  
Standard Technique ◽  
Common Species ◽  
Rna Seq ◽  
Rna Molecules ◽  
Gene Filtering ◽  
Differential Gene ◽  
High Level ◽  
Very High

RNA-Seq enables the identification and quantification of RNA molecules, often with the aim of detecting differentially expressed genes (DEGs). Although RNA-Seq evolved into a standard technique, there is no universal gold standard for these data’s computational analysis. On top of that, previous studies proved the irreproducibility of RNA-Seq studies. Here, we present a portable, scalable, and parallelizable Nextflow RNA-Seq pipeline to detect DEGs, which assures a high level of reproducibility. The pipeline automatically takes care of common pitfalls, such as ribosomal RNA removal and low abundance gene filtering. Apart from various visualizations for the DEG results, we incorporated downstream pathway analysis for common species as Homo sapiens and Mus musculus. We evaluated the DEG detection functionality while using qRT-PCR data serving as a reference and observed a very high correlation of the logarithmized gene expression fold changes.

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