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Genomic expression study of regenerated endothelial cells in high cholesterol-fed and fish oil-rich groups

ABSTRACT: Experiments on primary cultures of native and regenerated endothelial cells demonstrated genomic changes in the latter related to vasomotor control, coagulation, oxidative stress, lipid metabolism and extracellular matrix. However, the genomic changes caused by the combination of either hyperlipidemia or supplementation with polyunsaturated fatty acids and endothelial regeneration are unknown.The present experiments were designed to test the hypothesis that endothelial regeneration process is affected differentially at the genomic level by the exposure to either high cholesterol or PUFA-rich diet in vivo.

ORGANISM(S): Sus scrofa

PROVIDER: GSE24762 | GEO | 2010/10/18

SECONDARY ACCESSION(S): PRJNA132165

REPOSITORIES: GEO

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Genomic expression study of regenerated endothelial cells in high cholesterol-fed and fish oil-rich groups

Project description:Experiments on primary cultures of native and regenerated endothelial cells demonstrated genomic changes in the latter related to vasomotor control, coagulation, oxidative stress, lipid metabolism and extracellular matrix. However, the genomic changes caused by the combination of either hyperlipidemia or supplementation with polyunsaturated fatty acids and endothelial regeneration are unknown.The present experiments were designed to test the hypothesis that endothelial regeneration process is affected differentially at the genomic level by the exposure to either high cholesterol or PUFA-rich diet in vivo. This study consists of three treatment groups, the control (n=8), high cholesterol-fed (CHL;n=6) and PUFA-rich (FO; n=6) groups. Native (LCX) and regenerated (LAD) samples of each animal from each treatment group was analyzed and followed by statistical analysis (paired t test) of all the animals from each group. The analytical results (N vs R) from each group would then be compared to that of the control group. Native cells from control group would also be compared to the native cells of the other animal groups (CHL/FO). Supplementary files: Comparisons of fish oil vs ctrl and high cholesterol vs ctrl.

2010-10-18 | E-GEOD-24762 | biostudies-arrayexpress

RNA-seq of Hydra body segments and regenerated Hydra animals

Project description:Positional RNA-sequencing of isolated Hydra body pieces and RNA-sequencing of fully regenerated Hydra animal was combined with RNA-sequencing of actively regenerating spheroids (see submission E-MTAB-9672) in order to elucidate the role of tissue stretching on regeneration and body pattern formation.

2022-10-13 | E-MTAB-9676 | biostudies-arrayexpress

The consequences of n-3 polyunsaturated fatty acids (PUFA) depletion on hepatic lipid metabolism in mice

Project description:In the present study, we investigated the consequences of n-3 polyunsaturated fatty acids (PUFA) depletion on hepatic lipid metabolism in mice fed during three months with a diet presenting a high n-6/n-3 PUFA ratio to induce n-3 PUFA depletion. Microarray analyses were performed to identify the molecular targets involved in the development of hepatic steatosis associated with n-3 PUFA depletion.

2011-08-26 | GSE26986 | GEO

Transcriptome profiling data for secondary vascular tissue regeneration in Populus tomentosa

Project description:Regeneration is a common strategy for plants to repair their damaged body plans after attack from other organisms or physical assaults. Trees with bark girdling on a large scale will grow new bark within one month and this bark regeneration after girdling system has been proven to be an efficient method to study secondary vascular development as well as plant tissue regeneration in vivo. We herein show the molecular features of differentiating xylem cell fate switch process during secondary vascular tissue (SVT) regeneration in Populus. Based on our data, we propose a working model to illustrate the molecular dynamics underlying xylem cell fate switch process during SVT regeneration, which is significant to understand the pattern formation during the SVTs regeneration and also would shed light on the mechanisms of tissue regeneration in plants. Specific regenerated tissues of Populus at different stages were isolated by tangential cryo-sectioning. Total RNA from cryo-sections representing different regenerating tissues was extracted for Affymetrix Poplar Whole Genome Array hybridization. Five samples (two replicates for each sample) were used for gene expression analysis: differentiating xylem (diX, Stage 0), dedifferentiating xylem cells (deX, Stage I), regenerated phloem (rPh, Stage II), differentiating regenerated cambium (diC, Stage II) and regenerated cambium (rC, Stage III). In addition, one pooled genomic DNA sample from cryo-sections of differentiating xylem from two trees was isolated for DNA hybridization to produce a new CDF file that was used to mask out some potentially cross-hybridizing probesets from the standard Affymetrix Poplar Genome Array. Supplementary file: poplar.cdf

2012-07-25 | E-GEOD-25309 | biostudies-arrayexpress

Breast Cancer experiments

Project description:Experimental studies confirmed n-6 type polyunsaturated fatty acid as pro-carcinogenic factor and n-3 fatty acid as cancer restraining agent; though their mode of action on tumor cells are still unclear. To review the contrasting effect of omega-3 and omega-6 fatty acids over carcinoma by studying genomic alteration in treated cancer cells, two members from each family of PUFAs, namely EPA and DHA from n-3 PUFA family and, AA and LA from n-6 PUFA family was selected to treat four breast cancer cell lines: MDA-MB231, MDA-MB435S, HCC2218 and MCF-7 for two time period- 6hr and 24hr.

2006-03-29 | E-GEOD-4497 | biostudies-arrayexpress

Expression data from day 17 bovine endometrium

2012-01-20 | GSE35212 | GEO

Dietary long-chain omega 3 fatty acids modify sphingolipid metabolism to facilitate asthmatic airway hyperreactivity

Project description:We report the effects of dietary n-3 polyunsaturated fatty acids (PUFAs) on sphingolipid metabolism and airway reactivity in the lung. Mice were fed a n3-PUFA enriched fishoil diet or an isocaloric control coconut oil-enriched diet (CO) for 8 weeks. The n-3 PUFA diet affected pulmonary sphingolipid metabolism, and airway reactivity, independent of inflammation or allergic sensitization. These findings support a role for pulmonary sphingolipid homeostasis in asthma and could have implications for the use of n-3 PUFA dietary supplements in asthma.

2022-08-01 | GSE203418 | GEO

Expression data from day 17 bovine endometrium

Project description:The potential for dietary supplementation with n-3 polyunsaturated fatty acids (n-3 PUFA) to improve reproductive efficiency in cattle has received much interest. The mechanisms by which n-3 PUFA may affect physiological and biochemical processes in key reproductive tissues are likely to be mediated by significant alterations in gene expression. We used microarrays to assess endometrial gene expression on day 17 of the estrous cycle in n-3 PUFA compared with control fed heifers. Beef heifers were supplemented with a rumen protected source of either a saturated fatty acid (CON; palmitic acid) or high n-3 PUFA (n-3 PUFA; 275 g) diet per animal per day for 45 days and global gene expression was determined in uterine endometrial tissue using an Affymetrix® oligonucleotide bovine array.

2012-01-20 | E-GEOD-35212 | biostudies-arrayexpress

Array analysis of wound induced hair neogenesis (late stage)

Project description:Mice were wounded and measured for regeneration starting 4 days after wound closure with simultaneous measurement of hair follicle neogenesis and biopsing. At each time point, RNA was collected from one mouse with high number of regenerated follicles and one without regenerated follicles. Whole skin biopsies of wound scars were submitted for Affymetrix Exon arrays. 3 replicates of mice with high number of regenerated follicles, 3 replicates of mice with no regenerated follicles; each pair taken at a different date after wound closure.

2015-08-05 | E-GEOD-50419 | biostudies-arrayexpress

Obesity reprograms the pulmonary polyunsaturated fatty acid-derived lipidome prior to injury in a diet-dependent manner

Project description:Obesity exacerbates inflammation upon lung injury; however, the mechanisms by which obesity primes pulmonary dysregulation prior to injury are not well studied. Notably, little is known about how obesity dysregulates pulmonary polyunsaturated fatty acid (PUFA) metabolism that is central to inflammation initiation and resolution. Herein, we first show that a high fat diet (HFD) administered to C57BL/6J mice increases the relative abundance of pulmonary PUFA-containing triglycerides and the concentration of PUFA-derived oxylipins, independent of an increase in total pulmonary PUFAs, prior to onset of pulmonary inflammation. Experiments with a genetic model of obesity did not recapitulate the effects of the HFD on the pulmonary oxylipin signature, revealing a diet-driven effect. Subsequent pulmonary next-generation RNA sequencing identified complex and unique transcriptional regulation with the HFD. The HFD increased pathways related to glycerophospholipid metabolism and immunity, including an elevation in B cell differentiation and signaling. Finally, computational integration of lipidomic with transcriptomic data revealed novel HFD-driven networks between glycerophospholipid metabolism and B cell receptor signaling with specific PUFA-derived oxylipins. Collectively, these data show obesity dysregulates pulmonary PUFA metabolism prior to lung injury, which may be a mechanism by which obesity primes the lungs to respond poorly upon infectious and/or inflammatory challenges.

2022-09-28 | GSE194403 | GEO

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