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Metabolomics,Unknown,Transcriptomics,Genomics,Proteomics

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Transcriptomic effects of law salt diet on the mouse left ventricle

ABSTRACT: Low salt diet is a constant recommendation to hypertensive patients. Here we investigated the impact of prolonged reduced sodium feeding on the geneomic fabrics responsible for heart contraction in adult male mice. Although only 166 (0.59%) of the 27901 quantified transcripts in all samples were significantly up- and 88 (0.32%) down-regulated, the synergistic coupling of the heart contraction genes increased by 22% while their antagonistic coupling decreased by 43%. This substantial remodeling of the heart contraction genomic fabric justifyes the low salt diet recommendation. Agilent mouse two-color gene expression arrays were used to profile the left heart ventricles of 16 weeks old C57Bl/6j male mice subjected for the last 8 weeks of their lives to normal (N, 0.4% Na) or low (L, 0.05%Na) salt diet. Differently labeled biological replicates were cohybridized with each array. Results of similarly labeled different conditions were compared then averaged for the two fluorescent labels. Thus, MW1 & MW3 were compared with MH1 & MH3, MW2 & MW4 were compared with MH2 & + MH4, and the results of the comparisons averaged. This design uses 100% of the resources, has a better normlaiztion and allows all possible comparisons among the conditions.

ORGANISM(S): Mus musculus

SUBMITTER: Dumitru Iacobas

PROVIDER: E-GEOD-72561 | biostudies-arrayexpress |

REPOSITORIES: biostudies-arrayexpress

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Transcriptomic effects of law salt diet on the mouse left ventricle

Project description:Low salt diet is a constant recommendation to hypertensive patients. Here we investigated the impact of prolonged reduced sodium feeding on the geneomic fabrics responsible for heart contraction in adult male mice. Although only 166 (0.59%) of the 27901 quantified transcripts in all samples were significantly up- and 88 (0.32%) down-regulated, the synergistic coupling of the heart contraction genes increased by 22% while their antagonistic coupling decreased by 43%. This substantial remodeling of the heart contraction genomic fabric justifyes the low salt diet recommendation.

2015-09-01 | GSE72561 | GEO

Transcriptomic effects of early life and peripubertal dietary vitamin D deficiency on mouse ovaries

Project description:Vitamin D2 (VD) and the VD3 receptor (VDR) are proposed to have multiple important physiological roles that include but are not limited to glucose homeostasis, bone health, immune competency and more recently maintenance of normal reproductive physiology. The prevalence of VD deficiency in the US is reported to be as high as 60% in some populations. Several recent studies suggest that reproductive-aged women and their offspring are at the greatest risk for VD deficiency. The objective of our study was to determine the effect of early life (intrauterine through preweaning) and peripubertal VD deficiency on female reproductive physiology. Profile and compare the ovarian transcriptomes of 2-month-old C57BL/6J mice that received a normal (OC samples) or a VD-deficient diet only during the early life (OE samples) or peripubertal (OP samples). Each diet group (OC, OE and OP) was composed of 4 females (biological replicas).

2013-06-21 | E-GEOD-48167 | biostudies-arrayexpress

Transcriptomic effects of early life and peripubertal dietary vitamin D deficiency on mouse pituitary gland

Project description:Vitamin D2 (VD) and the VD3 receptor (VDR) are proposed to have multiple important physiological roles that include but are not limited to glucose homeostasis, bone health, immune competency and more recently maintenance of normal reproductive physiology. The prevalence of VD deficiency in the US is reported to be as high as 60% in some populations. Several recent studies suggest that reproductive-aged women and their offspring are at the greatest risk for VD deficiency. The objective of our study was to determine the effect of early life (intrauterine through preweaning) and peripubertal VD deficiency on female reproductive physiology. Profile and compare the hypophysis transcriptomes of 2-month-old C57BL/6J mice that received a normal (OC samples) or a VD-deficient diet only during the early life (OE samples) or peripubertal (OP samples). Each diet group (OC, OE and OP) was composed of 4 females (biological replicas).

2013-06-21 | E-GEOD-48169 | biostudies-arrayexpress

Left-right transcriptomic differences in adult male mouse heart ventricles

Project description:Left and right heart ventricles of adult male mice were profiled to determine the differences in gene expression, control, coordination and signaling fabrics Two-sides (L= left, R = right) gene expression profiling experiment in adult mouse male (M) ventricles (V). 4 biological replicates: MVL1-4, MVR1-4.

2013-03-21 | E-GEOD-45348 | biostudies-arrayexpress

Left-right transcriptomic differences in adult male mouse heart atria

Project description:Left and right heart atria of adult male mice were profiled to determine the differences in gene expression, control, coordination and signaling fabrics Two-sides (L= left, R = right) gene expression profiling experiment in adult mouse male (M) atria (A). 4 biological replicates: MAL1-4, MAR1-4. This experiment used our standard multiple yellow strategy in which Cy3 and Cy5 labeled biological replicates are cohybridized with a two-color array and each channel is processed independently.

2013-03-20 | E-GEOD-45339 | biostudies-arrayexpress

Genomic alterations during the progress of pulmonary hypertension

Project description:Pulmonary hypertension (PH), a rare disorder is a complication of a number of cardiopulmonary, unrelated systemic diseases, drug toxicity and genetic mutations. Major advances have been made in the field, but the pathogenesis of PH is not yet understood. Several experimental models such as monocrotaline (MCT) and hypoxia have been used to understand the mechanism underlying the pathogenesis of PH. We have recently shown that that the addition of hypoxia to MCT injected rats accelerates the disease process leading to neointima formation. We have profiled the lungs of adult male Sprague-Dawley rats kept for 4 weeks in normal atmospheric conditions or in hypobaric hypoxia (380 mmHg) w/o subcutaneous injection with 40 mg/kg MCT or just saline. While MCT and hypoxia altered expression of few genes when applied separately, together they induced a substantial alteration of the transcriptome. The most profoundly altered pathways by the combined effect of hypoxia and MCT were: endocytosis, apoptosis, HIF-1 signaling pathway and vascular smooth muscle contraction. Two-condition (C = normal atmospheric conditions (control) vs H = hypobaric hypoxia) + two treatment (M = with MCT, O = without MCT) experiment. Four biological replicas of each combination: CO, HO, CM, HM. Differently labeled biological replicates were cohybridized with each array. Results of similarly labeled different conditions were compared then averaged for the two fluorescent labels. For instance: CO1 & CO3 were compared with CM1 & CM3, CO2 & CO4 were compared with CM2 & + CM4, and the results of the comparisons averaged. This design uses 100% of the resources, has a better normlaiztion and allows all possible comparisons among the conditions.

2015-09-04 | E-GEOD-72707 | biostudies-arrayexpress

Transcription profiling of rat Dahl salt sensitive strain heart treated with dihydropyridine calcium channel blocker (CCB) benidipine.

Project description:Benidipine hydrochloride is a long-acting calcium channel blocker and is used for the treatment of hypertension and angina pectoris. The cardioprotective effects of benidipine have been shown in several animal and clinical studies. We examined the effect of the dihydropyridine calcium channel blocker (CCB) benidipine on the gene expression profile in heart by DNA microarray. Dahl salt-sensitive (DS) rats were fed with normal diet (0.19% NaCl) or a high-salt diet (8% NaCl) from 7 weeks of age. Benidipine (4mg/kg) or vehicle (0.5% w/v methylcellulose 400cP) was administered orally after the start of the feeding. DS rats fed the high-salt diet showed an increase in systolic blood pressure (SBP), which was accompanied by the gain of heart weight. SBP was significantly lower in the benidipine group than in the vehicle group. The weight of heart was significantly decreased in the benidipine group. Experiment Overall Design: Three samples were analyzed, the hearts of rat with normal diet (normal), high-salt diet plus vehicle (control), high-salt diet plus Benidipine (Benidipine). We use 2 arrays: control vs. normal and Benidipine vs. control. Replicates and dye swaps were not performed.

2009-06-23 | E-GEOD-8201 | biostudies-arrayexpress

Transcriptomic effects of early life and peripubertal dietary vitamin D deficiency on mouse ovaries and pituitary glands

Project description:This SuperSeries is composed of the SubSeries listed below. Refer to individual Series

2013-06-21 | E-GEOD-48170 | biostudies-arrayexpress

Global Microarray Analysis of Bacillus sp. N16-5 Salt Stress Adaptation

Project description:The alkaliphilic halotolerant bacterium Bacillus sp. N16-5 often faces salt stress in its natural habitats. One-color microarrays was used to investigate transcriptome expression profiles of Bacillus sp. N16-5 adaptation reactions to prolonged grown at different salinities (0%, 2%, 8% and 15% NaCl) and the initial reaction to suddenly alter salinity from 0% to 8% NaCl. Salt induced gene expression was measured when culture was grown on different salinities (0%, 2%, 8% and 15% NaCl) to mid-logarithmic phase. And salt induced gene expression was also measured at 0 min, 10 min, 30 min, 60min, 120min after a sudden change salinity from 0% to 8% NaCl.

2015-01-03 | E-GEOD-64621 | biostudies-arrayexpress

Remodeling of major genomic fabrics and their interplay in metastatic clear cell renal carcinoma

Project description:Clear cell renal carcinoma (CCRC) accounts for >80% of all kidney cancers but what triggers the tumorigenesis in the kidney and metastases in the bones are still under debate. Our hypothesis is that remodeling of the genomic fabrics of certain functional pathways and their interplay beyond critical limits are key causes of CCRC. We profiled the transcriptomes of metastatic chest wall and of two primary cancerous sites of the renal medulla and compared them with that of non-cancerous kidney resection margins. Samples were collected from a 74 years old male with metastatic carcinoma, consistent with renal cell carcinoma, clear cell type, Fuhrman grade 3, who undergone total right kidney nephrectomy and resection of a chest wall mass. Transcriptomic analysis pointed the tumor region in the right kidney that led to the chest wall metastases. The tumor proved heterogeneous not only in the expression level but also in the expression control, coordination and interplay of pathways responsible for cellular processes and genetic and environmental information processing. The differently regulated pathways in the two sides of the tumor: CCRC, and HIF-1, Vegfa and mTor signaling indicate activation of distinct mechanisms. Four-conditions (CTR = control - non-cancerous kidney resection margins, PTA = primary tumor side A, PTB = primary tumor side B, MET = chest wall metastasis. Four biological replicates of each condition.

2015-08-24 | E-GEOD-72304 | biostudies-arrayexpress

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