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13-lined ground squirrel (Spermophilus tridecemlineatus) hibernating liver transcriptome

ABSTRACT: This series represents the liver transcriptome for animals sampled during summer, interbout arousal, and late torpor Keywords = squirrel, liver, hibernation Keywords: other

ORGANISM(S): Callospermophilus lateralis Ictidomys tridecemlineatus

PROVIDER: GSE2021 | GEO | 2004/12/03

SECONDARY ACCESSION(S): PRJNA91845

REPOSITORIES: GEO

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13-lined ground squirrel (Spermophilus tridecemlineatus) hibernating liver transcriptome

Project description:This series represents the liver transcriptome for animals sampled during summer, interbout arousal, and late torpor Keywords = squirrel, liver, hibernation

2010-06-05 | E-GEOD-2021 | biostudies-arrayexpress

Golden-mantled ground squirrel (Spermophilus lateralis) hibernating liver transcriptome

Project description:This series represents the liver transcriptome for animals sampled during summer, interbout arousal, and late torpor Keywords = squirrel Keywords = liver Keywords = hibernation Keywords: other

2004-12-03 | GSE2024 | GEO

Golden-mantled ground squirrel (Spermophilus lateralis) hibernating liver transcriptome

2010-06-05 | E-GEOD-2024 | biostudies-arrayexpress

Golden-mantled ground squirrel (Spermophilus lateralis) hibernating heart transcriptome

Project description:This series represents the heart transcriptome for animals sampled during summer, interbout arousal, and late torpor Keywords = squirrel, heart, hibernation Keywords: other

2004-12-03 | GSE2023 | GEO

Golden-mantled ground squirrel (Spermophilus lateralis) hibernating heart transcriptome

Project description:This series represents the heart transcriptome for animals sampled during summer, interbout arousal, and late torpor Keywords = squirrel, heart, hibernation

2010-06-05 | E-GEOD-2023 | biostudies-arrayexpress

Golden-mantled ground squirrel (Spermophilus lateralis) hibernating brain transcriptome

Project description:This series represents the brain transcriptome for animals sampled during summer, interbout arousal, and late torpor. Note that the brain expression data for interbout aroused animals was not analyzed in our publication because the group consisted of just 2 animals. Keywords = squirrel, brain, hibernation Keywords: other

2004-12-03 | GSE2022 | GEO

Golden-mantled ground squirrel (Spermophilus lateralis) hibernating brain transcriptome

2010-06-05 | E-GEOD-2022 | biostudies-arrayexpress

GRO-seq analysis of liver gene transcription in hibernating 13-lined ground squirrels

Project description:Hibernators dramatically lower metabolism to save energy while fasting for months. Prolonged fasting challenges metabolic homeostasis, yet small-bodied hibernators emerge each spring ready to resume all aspects of active life, including immediate reproduction. The liver is the body’s metabolic hub, processing and detoxifying macromolecules to provide essential fuels to brain, muscle and other organs throughout the body. Here we quantify changes in liver gene expression using RNA-seq to measure the steady-state transcriptome and GRO-seq to measure transcription across several distinct physiological states of hibernation in 13-lined ground squirrels. Our data capture key timepoints in both the seasonal and torpor-arousal cycles of hibernation. Strong positive correlation between transcription and the transcriptome indicates that transcriptional control dominates the known seasonal reprogramming of metabolic gene expression in liver for hibernation. During the torpor-arousal cycle, however, discordance develops between transcription and the steady-state transcriptome by at least two mechanisms: 1) although not transcribed during torpor, some liver transcripts are unusually stable, consistent with data from other tissues; and 2) unexpectedly, on some genes, we document continuing, slow elongation with a failure to terminate transcription across the torpor bout. While the steady-state RNAs corresponding to these readthrough transcripts did not increase during torpor, they did increase shortly after rewarming despite then low transcription. Both of these mechanisms assure the availability of functional transcripts immediately upon rewarming. Integration of transcriptional, post-transcriptional and RNA stability control mechanisms, all demonstrated in these data, likely initiate a serial gene expression program across the short euthermic period that restores the tissue and prepares the animal for the next bout of torpor.

2021-05-10 | GSE166370 | GEO

Transcriptomics analysis reveals adaptive changes of hibernating retinas in 13-lined ground squirrel

Project description:Hibernation is a seasonally adaptive strategy that allows hibernators to live through extreme cold condition and was viewed as a highly regulated physiological event. In spite of the profound reduction of blood flow to retina, hibernation causes no lasting retinal injury and hibernators show increased tolerance to ischemic insults during hibernation period. To understand the molecular changes of retina in response to hibernation we applied transcriptomic analysis to explore the changes of gene expression of 13-lined ground squirrel retinas during hibernation.

2017-06-05 | GSE93685 | GEO

Protein expression and phosphoproteome of brown adipose tissue in the hibernating ground squirrel

Project description:Mammalian hibernation is characterized by metabolic rate depression and a strong decrease in core body temperature that together create energy savings such that most species do not have to eat over the winter months. Brown adipose tissue (BAT), a thermogenic tissue that uses uncoupled mitochondrial respiration to generate heat instead of ATP, plays a major role in rewarming from deep torpor. The present study used label-free phosphoproteomics to investigate changes in BAT from thirteen-lined ground squirrels (Ictidomys tridecemlineatus), comparing euthermic squirrels with squirrels in deep torpor. Differential expression of mitochondrial proteins was also investigated. Surprisingly, mitochondrial membrane and matrix protein expression in BAT was largely constant between active euthermic squirrels and their hibernating counterparts. Validation by immunoblotting confirmed that the protein levels of mitochondrial respiratory chain complexes were largely unchanged. However, phosphoproteomics showed that pyruvate dehydrogenase (PDH) phosphorylation increased during ground squirrel hibernation, and this was confirmed by immunoblotting with phospho-specific antibodies. PDH phosphorylation leads to its inactivation, which suggests that BAT carbohydrate oxidation is inhibited during hibernation. Phosphorylation of hormone-sensitive lipase (HSL) also increased during hibernation, suggesting that HSL would be in a partly activated state in BAT to produce the fatty acids that are likely the primary fuel for thermogenesis during arousal.

2017-07-11 | PXD004261 | Pride

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