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The histone H3 K4me3, K27me3 and K27ac genome-wide dis-tributions are differently influenced by sex in brain cortexes and gastrocnemius of the Alzheimer’s disease PSAPP mouse model

ABSTRACT: The histone H3 K4me3, K27me3 and K27ac genome-wide dis-tributions are differently influenced by sex in brain cortexes and gastrocnemius of the Alzheimer’s disease PSAPP mouse model

PROVIDER: PRJNA782297 | ENA |

REPOSITORIES: ENA

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The histone H3 K4me3, K27me3 and K27ac genome-wide dis-tributions are differently influenced by sex in brain cortexes and gastrocnemius of the Alzheimer’s disease PSAPP mouse model

Project description:Background: Women represent the majority of Alzheimer’s disease patients and show typical symptoms. Genetic, hormonal and behavioral mechanisms have been proposed to explain gender differences in dementia prevalence. Whether sex differences exist in the epigenetic landscape of neuronal tissue during the progression of the disease is unknown. Methods: To investigate the differences of histone H3 modifications important for transcription we determined the ge-nome-wide profiles in K4me3, K27ac and K27me3 from brain cortexes of an Alzheimer mouse model (PSAPP). Gastrocnemius muscles were also tested since they are known to be different in the two sexes and are affected during the disease progression. Results: Correlation analysis dis-tinguished the samples based on sex for H3K4me3 and H3K27met3 but not for H3K27ac. The analysis of TSS signal distribution and of bounding sites revealed that the epigenetic landscape of gastrocnemius is more influenced than brain by sex, with the exception of H3K27me3 distribution on the X chromosome which showed sex-related differences in promoters belonging to behavior and cellular/ neuronal spheres in mice cortexes. Conclusions: The epigenetic landscape is slightly affected by sex in brain, with the exception of H3K27me3. On the other hand, a higher number of differences can be found in gastrocnemius.

2022-01-05 | GSE189260 | GEO

Influenced genes by miR663a

Project description:Influenced genes by miR663a

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Matrisome age-related changes in the mouse gastrocnemius muscle

Project description:In recent years, thanks to the great development of mass spectrometry (MS)-based high-throughput proteomic techniques, a large-scale protein characterization is less challenging. Proteomic approaches have been successfully applied to SM in different experimental models [21–24]; however, to date, there is little information on ECM proteins and how they change during ageing. The identification and quantification of ECM components and their interactions are es-sential steps to understand the role of the matrisome in sarcopenia. In this context, we combined a proteomic approach (i.e., LC-MS/MS and bioinformatic analyses) with mor-phological and morphometrical evaluations at fluorescence and transmission electron microscopy of the gastrocnemius muscle in adult and old mice. This age range has been selected since it has been observed that most of changes in muscle protein expression take place after middle age. The gastrocnemius muscle was selected for analysis since it is prevalently composed of fast-twitch fibre, which are especially affected by atrophy during aging. Our findings highlighted several modifications of ECM protein composition and organization in old mice, which likely play a role in the alteration of muscle properties during aging.

2022-02-17 | PXD027895 | Pride

Gene expression profiling of gastrocnemius of mini muscle mice

Project description:Few studies have investigated heterogeneity of selection response in replicate lines subjected to equivalent selection. We developed 4 replicate lines of mice based on high levels of voluntary wheel running (high runner or HR lines) while also maintaining 4 non-selected control lines. This led to the unexpected discovery of the HR mini-muscle (HRmini) phenotype, recognized by a 50% reduction in hindlimb muscle mass, which became fixed in 1 of the 4 HR selected lines. Here, we report genome-wide expression profiling describing transcriptome differences between HRnormal and HRmini medial gastrocnemius. This work provides a resource for understanding differences in muscle phenotypes in populations exhibiting high running capacity. Male mice were used from an animal model of 4 closed lines selectively bred for high voluntary wheel-running behaviour (HR) and 4 control lines bred without intentional selection, described in Swallow et al. Animals used in the current work were sampled from generation 37 at a mean age of 84 days (range = 79-86). For microarray analysis, we used gastrocnemius muscles (including both lateral and medial portions) from HRmini line #3 and HRnormal line #8 (n = 6, in each group). To obtain sufficient RNA, gastrocnemius samples of HRmini were pooled from left and right limbs from each animal, whereas HRnormal gastrocnemius was sampled from either left or right limb only.

2013-02-19 | E-GEOD-41910 | biostudies-arrayexpress

The effects of MuRF1 knockout, sex, and a high fat diet consumption on gastrocnemius muscle transcriptomics.

Project description:MuRF1 is an E3 ubiquitin ligase known to play a role in skeletal muscle atrophy. Our objectives in this study were to gain further insight into the roles MuRF1 plays in skeletal muscle and to determine if this is influenced by sex and/or consumption of a high fat diet. To address these objectives we used RNA sequencing to analyze the transcriptome of gastrocnemius muscle from 30 week old, MuRF1 knockout (-/-) and wild type, male and female mice fed a chow or high fat diet (HFD).

2021-12-01 | GSE179163 | GEO

The Histone H3 K4me3, K27me3, and K27ac Genome-Wide Distributions Are Differently Influenced by Sex in Brain Cortexes and Gastrocnemius of the Alzheimer's Disease PSAPP Mouse Model.

Project description:Women represent the majority of Alzheimer's disease patients and show typical symptoms. Genetic, hormonal, and behavioral mechanisms have been proposed to explain sex differences in dementia prevalence. However, whether sex differences exist in the epigenetic landscape of neuronal tissue during the progression of the disease is still unknown. To investigate the differences of histone H3 modifications involved in transcription, we determined the genome-wide profiles of H3K4me3, H3K27ac, and H3K27me3 in brain cortexes of an Alzheimer mouse model (PSAPP). Gastrocnemius muscles were also tested since they are known to be different in the two sexes and are affected during the disease progression. Correlation analysis distinguished the samples based on sex for H3K4me3 and H3K27me3 but not for H3K27ac. The analysis of transcription starting sites (TSS) signal distribution, and analysis of bounding sites revealed that gastrocnemius is more influenced than brain by sex for the three histone modifications considered, exception made for H3K27me3 distribution on the X chromosome which showed sex-related differences in promoters belonging to behavior and cellular or neuronal spheres in mice cortexes. H3K4me3, H3K27ac, and H3K27me3 signals are slightly affected by sex in brain, with the exception of H3K27me3, while a higher number of differences can be found in gastrocnemius.

| S-EPMC8715457 | biostudies-literature

Expression data from gastrocnemius of wild type and transgenic mice

Project description:We want to find differential expressed genes of gastrocnemius from transgenic mice of knockout DGAT1 and WT mice. We used microarrays to detail the global programme of differential expressed genes of gastrocnemius from transgenic mice of konckout DGAT1 and WT mice.

2016-10-27 | GSE89192 | GEO

microRNA-seq from gastrocnemius (ENCSR501DNZ)

Project description:RNA Evaluation mouse PND14 female gastrocnemius microRNA-seq from Mortazavi For data usage terms and conditions, please refer to http://www.genome.gov/27528022 and http://www.genome.gov/Pages/Research/ENCODE/ENCODE_Data_Use_Policy_for_External_Users_03-07-14.pdf

2021-11-04 | GSE187501 | GEO

microRNA-seq from gastrocnemius (ENCSR143LTW)

Project description:RNA Evaluation mouse PND25 female gastrocnemius microRNA-seq from Mortazavi For data usage terms and conditions, please refer to http://www.genome.gov/27528022 and http://www.genome.gov/Pages/Research/ENCODE/ENCODE_Data_Use_Policy_for_External_Users_03-07-14.pdf

2021-11-04 | GSE187392 | GEO

microRNA-seq from gastrocnemius (ENCSR037MYU)

Project description:RNA Evaluation mouse PND10 female gastrocnemius microRNA-seq from Mortazavi For data usage terms and conditions, please refer to http://www.genome.gov/27528022 and http://www.genome.gov/Pages/Research/ENCODE/ENCODE_Data_Use_Policy_for_External_Users_03-07-14.pdf

2021-11-04 | GSE187409 | GEO

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