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Diurnal oscillations in murine brown adipose tissue analyzed by RNA-seq

ABSTRACT: Brown adipose tissue (BAT) burns fatty acids to produce heat, and shows diurnal oscillation with peak activity in glucose and triglyceride-derived fatty acid uptake at wakening. To gain further insight in the diurnal regulation of metabolic BAT activity, we performed RNA-sequencing (RNA-seq) on interscapular (i)BAT samples collected from chow-fed male C57BL/6J mice (10 weeks old) exposed to mild cold (22°C) at 3-hour intervals throughout a 24-hour period (n=4 mice per time point). All mice were entrained to a 12h:12h light:dark cycle, and therefore time is denoted as Zeitgeber Time (ZT) in which ZT0 indicates the onset of the light (active) phase.

ORGANISM(S): Mus musculus

PROVIDER: GSE182045 | GEO | 2022/04/16

REPOSITORIES: GEO

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Diurnal oscillations in murine brown adipose tissue analyzed by ChIP-seq

Project description:Brown adipose tissue (BAT) burns fatty acids to produce heat, and shows diurnal oscillation with peak activity in glucose and triglyceride-derived fatty acid uptake at wakening. To gain further insight in the diurnal regulation of metabolic BAT activity, we performed chromatin immunoprecipitation sequencing (ChIP-seq) on pooled interscapular (i)BAT samples collected from chow-fed male C57BL/6J mice (10 weeks old) exposed to mild cold (22°C) at 3-hour intervals throughout a 24-hour period (n=8 mice per time point). All mice were entrained to a 12h:12h light:dark cycle, and therefore time is denoted as Zeitgeber Time (ZT) in which ZT0 indicates the onset of the light (active) phase.

2022-04-16 | GSE197261 | GEO

Angiopoietin-like 4 governs diurnal lipoprotein lipase activity in brown adipose tissue.

Project description:OBJECTIVE: Brown adipose tissue (BAT) burns fatty acids (FAs) to produce heat, and shows diurnal oscillation in glucose and triglyceride (TG)-derived FA-uptake, peaking around wakening. Here we aimed to gain insight in the diurnal regulation of metabolic BAT activity.METHODS: RNA-sequencing, chromatin immunoprecipitation (ChIP)-sequencing and lipidomics analyses were performed on BAT samples of wild type C57BL/6J mice collected at 3-h intervals throughout the day. Knockout and overexpression models were used to study causal relationships in diurnal lipid handling by BAT.RESULTS: We identified pronounced enrichment of oscillating genes involved in extracellular lipolysis in BAT, accompanied by oscillations of FA and monoacylglycerol content. This coincided with peak lipoprotein lipase (Lpl) expression, and was predicted to be driven by peroxisome proliferator-activated receptor gamma (PPARγ) activity. ChIP-sequencing for PPARγ confirmed oscillation in binding of PPARγ to Lpl. Of the known LPL-modulators, angiopoietin-like 4 (Angptl4) showed the largest diurnal amplitude opposite to Lpl, and both Angptl4 knockout and overexpression attenuated oscillations of LPL activity and TG-derived FA-uptake by BAT.CONCLUSIONS: Our findings highlight involvement of PPARγ and a crucial role of ANGPTL4 in mediating the diurnal oscillation of TG-derived FA-uptake by BAT, and imply that time of day is essential when targeting LPL activity in BAT to improve metabolic health.

2023-11-15 | MTBLS4082 | MetaboLights

Integrated omic analysis reveals multilevel control of renal and systemic metabolism by the renal tubular circadian clock

Project description:Circadian rhythmicity in renal function suggests a requirement for circadian adaptations in renal metabolism. We studied circadian changes in renal metabolic pathways using integrated transcriptomic, proteomic and metabolomic analysis performed on control mice and mice deficient in the circadian clock gene Bmal1 in the renal tubule (cKOt mice). Proteins were extracted from whole kidneys of 60 mice. Of these, 30 were conditional knockouts of Arntl (Bmal1) and 30 were of control genotype. They were housed under 12-hours light/12-hours dark cycles and were sacrificed at six different time points: zeitgeber time ZT 0, ZT 4, ZT 8, ZT 12, ZT 16, ZT 20 ( ZT 0 being the time of light on and ZT 12 the time of light off). Five replicates per genotype and time point were analysed.

2023-03-15 | PXD036803 | Pride

ATAC-seq analysis of the day-night rhythm in chromatin accessibility in PCM1+ left ventricular cardiomyocyte nuclei

Project description:This study investigated differential chromatin accessibility at zeitgeber time (ZT) 0 denoting the start of the light/inactive period in mice compared to ZT12 (the start of the dark/active) period to obtain insights into diurnal changes in transcription factor binding and gene regulatory pathways in the mouse cardiomyocytes.

2024-02-29 | E-MTAB-13696 | biostudies-arrayexpress

RNA sequencing of suprachiasmatic nuclues, retina, liver and lung collected at day and night from African Four Striped Mice (Rhabdomys pumilio) housed under dim vs bright daytime light

Project description:Circadian clocks are essential for generating and coordinating rhythms in animals’ physiology, behaviour, and metabolism. These activities are regulated by intracellular molecular clocks that operate with a ~24 hour periodicity. The African striped mouse, Rhabdomys pumilio, is notable for undergoing temporal niche switching from ancestrally nocturnal to diurnal, although the molecular components of its’ circadian organization remain unknown. We undertook transcriptome profiling of daily rhythms in the suprachiasmatic nucleus (SCN) and in the liver, lung and retina of Rhabdomys stably housed under a stable 12h:12h light:dark cycle with bright (n=10) or dim (n=10) daytime light intensity. Tissues were collected at two time points: two hours after lights on (Zeitgeber Time (ZT2)) coinciding with high behavioural activity, or two hours after lights off (ZT14) during the animal’s resting/sleep period, and RNA-sequencing performed.

2023-07-31 | E-MTAB-12024 | biostudies-arrayexpress

Diurnal Gene Variation in Mouse Eye

Project description:The purpose of this study was to explore diurnal gene expression changes that occur in the RPE/Choroid/Sclera. Mice C57BL/6J were purchased from the Jackson Laboratory (Bar Harbor, ME) and raised to approximately 2 months of age and entrained to a 12hr/12hr light/dark cycle for two weeks. Eye cups from male mice were rapidly dissected and RPE/ choroid/sclera tissues were collected over three consecutive diurnal cycles at Zeitgeber time (ZT) 0.5, 1, 1.5, 4, 11, 13, 16, and 23 hrs, for a total of 24 time points. Three mice were used for each time point and dissections for dark time points were done under dim-red light. To generate a reference RNA for microarray hybridization, whole eyes from equal numbers of male and female mice were collected at ZT6 and ZT7. Time: Samples were collected at the indicated Zeitgeber time points

2015-08-09 | GSE40023 | GEO

Diurnal Gene Variation in Mouse Eye

2015-08-09 | E-GEOD-40023 | biostudies-arrayexpress

A database of circadian and diel rhythmic gene expression in the yellow fever mosquito Aedes aegypti

Project description:The mosquito Ae. aegypti is responsible for the transmission of many diseases including yellow fever and Dengue fever. This species exhibits many behaviors that are under diel and circadian control. However, there has been little reporting on gene expression rhythmicity. To study how gene expression is globally regulated by diel and circadian mechanisms, we have undertaken a DNA microarray analysis of Ae. aegypti head and bodies under 12:12 light:dark cycle (LD) and constant dark (DD, free-running) conditions. Zeitgeber Time (ZT) with ZT12 defined as the initiation of the one hour dusk period under the light:dark cycle, and ZT0 defined as beginning of the one hour dawn period. Circadian Time (CT) with CT0 defined as subjective dawn, inferred from ZT0 of the previous light:dark cycle.

2014-08-19 | GSE60496 | GEO

Analysis of gene expression in grape berries due to diurnal effects (DIU_06).

Project description:This is a 24 hour time course experiment to investigate changes in gene expression in deseeded berries sampled every three hours within a 24 hour period at 2 time points during development i.e. T4 (preveraison) & T15 (postveraison). Changes in gene expression within the 24 hour period were analyzed to identify expression profiles that coincided with diurnal changes. The gene expression profiles were then to be compared between the two developmental time points T4 v T15). Keywords: Diurnal time course

2018-11-22 | GSE7751 | GEO

Analysis of gene expression in grape berries due to diurnal effects (DIU_05).

Project description:This is a 24 hour time course experiment to investigate changes in gene expression in deseeded berries sampled every three hours within a 24 hour period at 2 time points during development i.e. T5 (preveraison) & T17 (postveraison). Changes in gene expression within the 24 hour period were analyzed to identify expression profiles that coincided with diurnal changes. The gene expression profiles were then to be compared between the two developmental time points T5 v T17). Keywords: Diurnal time course

2018-11-22 | GSE7749 | GEO

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