Fiber transformation in electric-stimulated culture
Ontology highlight
ABSTRACT:
ORGANISM(S): Mus musculus
PROVIDER: GSE6657 | GEO | 2007/01/18
SECONDARY ACCESSION(S): PRJNA104271
REPOSITORIES: GEO
Shared Molecules
Only show the datasets with similarity scores above: 0.5
Threshold
0.5
Similar Datasets
Project description:Comparing the gene expression profiles of day 3 of in vitro cultured FDB fibers with or without slow-fiber-type pattern of electrical stimulation, with inhibition of CaMK signaling pathways(KN93 or KN62), with amplified RNA (cRNA probes). ----CaMK inhibition (KN93): GSM154001, GSM154002, GSM154003, GSM154004, GSM154025, and GSM154026. ----CaMK inhibition (KN62)GSM154027, GSM154028, GSM154029, GSM154030, GSM154031, and GSM154032. ----Negative control (KN92): GSM154033, GSM154034, GSM154035, GSM154036, GSM154037, and GSM154038. Keywords: cell treatment
2007-01-18 | GSE6660 | GEO
Project description:Comparing the gene expression profile of day 3 of in vitro cultured FDB fibers with or without inhibition of CaMK signaling pathways(KN93 vs KN92), with amplified RNA (cRNA probes). Two indepenedent comparisons in conditions of culturing FDB fibers with or without slow-fiber-type pattern of electrical stimulation were both conducted. ----Un-stimulated culture: GSM153971, GSM153972, GSM153975, and GSM153976. ----Electric-stimulated culture: GSM153978, GSM153980, GSM153984, GSM153985, GSM153986, and GSM153987. Keywords: cell treatment
2007-01-18 | GSE6659 | GEO
Project description:Comparing the gene expression profile of day 3 of in vitro cultured FDB fibers to day 0 FDB fibers, with amplified RNA (cRNA probes). Keywords: cell treatment
2007-01-18 | GSE6656 | GEO
Project description:Comparing the gene expression profile of day 3 of in vitro cultured FDB fibers with or without activation of calcineurin signaling pathways, with amplified RNA (cRNA probes). constitutively active calcineurin was overexpression in one group of FDB fibers. Keywords: cell treatment
2007-01-18 | GSE6658 | GEO
Project description:Skeletal muscle is a key tissue in human aging, which affects different muscle fiber types unequally. We developed a highly sensitive single muscle fiber proteomics workflow to study human aging and show that the senescence of slow and fast muscle fibers is characterized by diverging metabolic and protein quality control adaptations. Whereas mitochondrial content declines with aging in both fiber types, glycolysis and glycogen metabolism are upregulated in slow but downregulated in fast muscle fibers. Aging mitochondria decrease expression of the redox enzyme monoamine oxidase A. Slow fibers upregulate a subset of actin and myosin chaperones, whereas an opposite change happens in fast fibers. These changes in metabolism and sarcomere quality control may be related to the ability of slow, but not fast, muscle fibers to maintain their mass during aging. We conclude that single muscle fiber analysis by proteomics can elucidate pathophysiology in a sub-type specific manner.
2017-06-14 | PXD006182 | Pride
Project description:Mammalian skeletal muscles are composed of multinucleated cells termed slow or fast fibers according to their contractile and metabolic properties. Here we developed a high sensitivity workflow to characterize the proteome of single fibers. Analysis of segments of the same fiber by traditional and unbiased proteomics methods yielded the same subtype assignment. We discovered novel subtype specific features, most prominently mitochondrial specialization of fiber types in substrate utilization. The fiber type resolved proteomes can be applied to a variety of physiological and pathological conditions and illustrate the utility of single cell type analysis for dissecting proteomic heterogeneity.
2015-02-05 | PXD001641 | Pride
Project description:Skeletal muscles are composed of a heterogeneous collection of fiber types with different physiological adaption in response to a stimulus and disease-related conditions. Each fiber has a specific molecular expression of myosin heavy chain molecules (MyHC). So far MyHCs are currently the best marker proteins for characterization of individual fiber types and several proteome profiling studies have helped to dissect the molecular signature of whole muscles and individual fibers. Herein, we describe a mass spectrometric workflow to measure skeletal muscle fiber type-specific proteomes. To bypass the limited quantities of protein in single fibers, we developed a Proteomics high-throughput Fiber Typing (ProFiT) approach enabling profiling of MyHC in single fibers. Aliquots of protein extracts from separated muscle fibers were subjected to capillary LC-MS gradients to profile MyHC isoforms in a 96-well format. Muscle fibers with the same MyHC protein expression were pooled and subjected to proteomic, pulsed-SILAC and phosphoproteomic analysis. Our fiber type-specific quantitative proteome analysis confirmed the distribution of fiber types in the soleus muscle, substantiates metabolic adaptions in oxidative and glycolytic fibers, and highlighted significant differences between the proteomes of type IIb fibers from different muscle groups, including a differential expression of desmin and actinin-3. A detailed map of the Lys-6 incorporation rates in muscle fibers showed an increased turnover of slow fibers compared to fast fibers. In addition, labeling of mitochondrial respiratory chain complexes revealed a broad range of Lys-6 incorporation rates, depending on the localization of the subunits within distinct complexes.
2021-02-02 | PXD017755 | Pride
Project description:Skeletal muscle is composed of both slow-twich oxidative myofibers and fast-twitch glycolytic myofibers that differentially impact muscle metabolism, function, and eventually whole-body physiology. In the present study, we find that the mesodermal transcription factor T-box 15 (Tbx15) is highly and specifically expressed in glycolytic myofibers. Ablation of Tbx15 in vivo leads to a decrease in muscle size due to a decrease in the number of glycolytic fibers, associated with a small increase in the number of oxidative fibers. This shift in fiber composition results in muscles with slower myofiber contraction and relaxation, and also results in decreased whole-body oxygen consumption, decreased spontaneous activity, increased adiposity, and glucose intolerance. In order to identify genes regulated by Tbx15, we utilized C2C12 myoblasts with either a stable retroviral over-expression or stable lentiviral knockdown of Tbx15. RNA was extracted and biotin labelled complementary RNA (cRNA) was prepared from three independent transfections of the four stable C2C12 myoblast cell lines: shTbx15, shGFP, pBABE-Empty-puro, pBABE-Tbx15-puro. Cells were collected at 90% confluency, and subjected to microarray analysis. Affymetrix M430 2.0 Chips were used.
2015-07-03 | E-GEOD-70489 | biostudies-arrayexpress
Project description:Skeletal muscle is highly developed after birth, consisting of glycolytic fast- and oxidative slow-twitch fibers; however, the mechanisms of fiber type-specific differentiation are poorly understood. Here, we found an unexpected role for mitochondrial fission in the differentiation of fast-twitch oxidative fibers. Depletion of the mitochondrial fission factor dynamin-related protein 1 (Drp1) in mouse skeletal muscle and cultured myotubes resulted in the specific reduction of fast-twitch muscle fibers independently of respiratory function. Altered mitochondrial fission caused the activation of the Akt/mammalian target of rapamycin (mTOR) pathway via the mitochondrial accumulation of mTOR complex 2 (mTORC2), and rapamycin administration rescued the reduction of fast-twitch fibers in vivo and in vitro. Under Akt/mTOR activation, the mitochondria-related cytokine growth differentiation factor-15 was upregulated, which repressed fast-twitch fiber differentiation. Our findings reveal a novel role for mitochondrial dynamics in the activation of mTORC2 on mitochondria, resulting in the differentiation of muscle fibers.
2023-04-01 | GSE228362 | GEO
Project description:To get glance to the events of the fast elongation and second cell wall synthesis stages of developing cotton fiber cells, we examined expression patterns of over 5000 genes by cDNA array from 3 to 18 DPA in a 3-day interval. RNAs from the 3-, 6-, 9-, 12-, 15-, and 18-DPA fibers were compared to the 9-DPA fiber RNA for time-course analysis. Four biological repeats were carried out including two dye-swap ones.
2006-04-12 | E-GEOD-4639 | biostudies-arrayexpress