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Metabolomics,Unknown,Transcriptomics,Genomics,Proteomics

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Effects of muscle regeneration after injury on overloading-induced hypertrophy

ABSTRACT: Cardiotoxin was injected into left soleus muscle of adult rats. Right muscle was kept intact. Ambulation recovery was allowed for 8 weeks. After 8 weeks of regeneration period, both left and right soleus muscles were overloaded by the transection of synergists' tendons for 2 weeks. We tested 6 muscles for each group. RNA samples were mixed with same amount from each muscle toward analysis by microarray.

ORGANISM(S): Rattus norvegicus

SUBMITTER: Fuminori Kawano

PROVIDER: E-GEOD-79114 | biostudies-arrayexpress |

REPOSITORIES: biostudies-arrayexpress

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Effects of muscle regeneration after injury on overloading-induced hypertrophy

Project description:Cardiotoxin was injected into left soleus muscle of adult rats. Right muscle was kept intact. Ambulation recovery was allowed for 8 weeks. After 8 weeks of regeneration period, both left and right soleus muscles were overloaded by the transection of synergists' tendons for 2 weeks.

2016-03-12 | GSE79114 | GEO

Differences in gene expression between fast and slow muscle or between normal and denervated slow muscles

Project description:Fast and slow skeletal muscles show different characteristics and phenotypes. This data obtained from microarray includes the comparison of normal fast plantaris and slow soleus muscles of adult rats. Characters of slow muscle are strongly dependent on the level of muscular activity. Denervation silences the muscular activity. Therefore, we determined the effects of denervation on gene expression in slow soleus muscle of adult rats. Denervation was performed by transection (~5 mm) of left sciatic nerve at the gluteal level. No treatments were made in the normal control rats. Sampling of soleus and/or plantaris was performed in both normal and experimental groups 28 days after the surgery.

2014-10-04 | E-GEOD-62028 | biostudies-arrayexpress

Metabolomics Workbench ST000666 - GNPS - Rat Rotator Cuff Lipidomics

Project description:Rats were subjected to bilateral rotator cuff tears of the right and left supraspinatus muscle. Muscles were harvested from each shoulder at 0, 10, 30, or 60 days post surgery.

2018-08-02 | MSV000082718 | GNPS

Entrapment Neuropathy Results in Different MicroRNAs Expression Patterns from Denervation Injury in Rats

Project description:To compare the microRNAs (miRNAs) expression profile in the innervated soleus muscle and L4-L6 DRG neuronsafter sciatic nerve entrapment with a non-constrictive silastic tube, subsequent surgical decompression, and denervation injury. The experimental soleus muscles and dorsal root ganglions (DRGs) from each experimental group (sham control, denervation, entrapment, and decompression) were analyzed with an Agilent® rat miRNA array to detect dysregulated miRNAs Three-condition experiment, DRGs and soleus muscles of the rats receiving sciatic nerve denervation 6 months, sciatic nerve entrapment 6 months, and sciatic nerve entrapment 6 months then decompression for 3 months v.s. soleus muscle (sham control), Biological replicates: 1 control replicates, 3 experiment replicates

2010-06-12 | E-GEOD-22181 | biostudies-arrayexpress

Identification of cold-shock protein RBM3 as a possible regulator of skeletal muscle size

Project description:The goal of this study was to identify changes in muscle gene expression that may contribute to loss of adaptability of old muscle. Muscle atrophy was induced in young adult (6-month) and old (32-month) male Brown Norway/F344 rats by two weeks of hind limb suspension (HS) and soleus muscles were analyzed by cDNA microarrays. We conclude that a cold shock response may be part of a compensatory mechanism in muscles undergoing atrophy to preserve remaining muscle mass and that RBM3 may be a therapeutic target to prevent muscle loss.

2008-07-23 | GSE12087 | GEO

Effect of Gadd45a overexpression on mouse skeletal muscle mRNA levels.

Project description:Gadd45a is a stress-induced protein that causes skeletal muscle atrophy. The goal of these studies was to determine the effects of Gadd45a overexpression on mRNA levels in mouse skeletal muscle. For additional details see Ebert et al, Stress-Induced Skeletal Muscle Gadd45a Expression Reprograms Myonuclei and Causes Muscle Atrophy. JBC epub. June 12, 2012. Tibialis anterior (TA) muscles from muscle-specfic ATF4 knockout mice (ATF4 mKO) were transfected with either 20 mg empty plasmid (pcDNA3) (left TA) or 20 mg pCMV-FLAG-Gadd45a (right TA) and harvested 7 days later. mRNA levels in Gadd45a-transfected muscles were normalized to levels in control transfected muscles.

2012-09-15 | E-GEOD-39196 | biostudies-arrayexpress

Differential isoform expression and selective muscle involvement in muscular dystrophies

Project description:To test the hypothesis that different muscles may express variable amounts of different isoforms of muscle genes, we applied a custom-designed exon microarray containing probes for 57 muscle-specific genes to assay the transcriptional profiles in sets of human adult, lower limb skeletal muscles. Muscle biopsies from 15 individuals were selected for analysis dissected from 21 anatomically different muscles collected from eight men and seven women, ranging from 61 to 91 years The muscle tissue samples collected included samples from 11 different thigh muscles––vastus medialis, vastus lateralis, vastus intermedialis, sartorius, gracilis, semimembranosus, semitendinosus, biceps femoris, adductor magnus, adductor longus, and rectus femoris––and 10 lower leg muscles––flexor digitorum longus, extensor digitorum longus, tibialis posterior, tibialis anterior, peroneus longus/brevis, extensor hallucis longus, gastrocnemius lateralis, gastrocnemius medialis, flexor hallucis longus, and soleus. Approximately five to seven muscle pieces were collected from each individual muscle sampled. The muscle sample pieces obtained for histological analysis measured roughly 10 mm x 5 mm, and the pieces for RNA isolation 5 mm x 5 mm. The samples were obtained directly from the proximal vital parts of the amputated limbs and processed immediately following their removal to avoid tissue degradation.To test the hypothesis that different muscles may express variable amounts of different isoforms of muscle genes, we applied a custom-designed Agilent exon microarray containing probes for 57 muscle-specific genes to assay the transcriptional profiles in sets of human adult, lower limb skeletal muscles

2015-06-17 | E-GEOD-69938 | biostudies-arrayexpress

Differences in gene expression between fast and slow muscle or between normal and denervated slow muscles

2014-10-04 | GSE62028 | GEO

RNAseq analysis of skeletal muscle transcriptomes from non-transgenic (NTG) and skeletal muscle specific overexpression a deletion mutant form of ornithine transcarbamylase (MCK-ΔOTC) mice.

Project description:We analyzed the gene expression changes that result from mitochondria overloaded by unfolded proteins in skeletal muscles. Mitochondrial-retained mutant ornithine transcarbamylase (ΔOTC) is a known protein degraded by LONP1 and an established model for studying mitochondrial proteostasis imbalance. We generated transgenic mice overexpressing ΔOTC specifically in skeletal muscle using the muscle creatine kinase promoter (MCK-ΔOTC). Transcriptome analysis was performed by whole-genome gene expression profiling experiments in muscles from the MCK-ΔOTC mice and NTG littermate controls. The comparative mRNA profiling strategy revealed extensive genomic reprogramming in MCK-ΔOTC muscles, with 1051 genes up- and 519 genes down-regulated (1.5-fold change and p<0.05), respectively. GO analysis of the regulated genes in MCK-ΔOTC muscles revealed significant enrichment in unfolded protein response as well as RNA processing process. These data suggest that mitochondria overloaded by ΔOTC unfolded proteins induce extensive genomic reprogramming in skeletal muscle

2022-07-28 | GSE192991 | GEO

Overloading mesenchymal progenitors (FAPs)

Project description:Skeletal muscle possesses the ability to adapt its size in response to milieus, which is called plasticity. Resistance training induces the increment of muscle mass called muscle hypertrophy. Muscle stem cells (MuSC; also known as muscle stem cells) function to supply new nuclei for myofiber during the overload in muscle. We found that Yap1 and Taz in mesenchymal progenitors (also called FAPs) are critical for MuSC proliferation in overloaded muscles. We hypothsize that Yap1/Taz-dependent mesenchymal progenitors derived factor induces MuSC proliferation. In order to identify such factors, RNA-seq of overloaded FAPs were performed.

2021-11-19 | GSE162827 | GEO

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