Deep Proteomics of Mouse Skeletal Muscle Enables Quantitation of Protein Isoforms, Metabolic Pathways, and Transcription Factors*

Abstract

Skeletal muscle constitutes 40% of individual body mass and plays vital roles in locomotion and whole-body metabolism. Proteomics of skeletal muscle is challenging because of highly abundant contractile proteins that interfere with detection of regulatory proteins. Using a state-of-the art MS workflow and a strategy to map identifications from the C2C12 cell line model to tissues, we identified a total of 10,218 proteins, including skeletal muscle specific transcription factors like myod1 and myogenin and circadian clock proteins. We obtain absolute abundances for proteins expressed in a muscle cell line and skeletal muscle, which should serve as a valuable resource. Quantitation of protein isoforms of glucose uptake signaling pathways and in glucose and lipid metabolic pathways provides a detailed metabolic map of the cell line compared with tissue. This revealed unexpectedly complex regulation of AMP-activated protein kinase and insulin signaling in muscle tissue at the level of enzyme isoforms.

Cited by papers we hold 7

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• Proteomic landscape of Alzheimer’s Disease: novel insights into pathogenesis and biomarker discovery · 2021
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• Glucose transporters in adipose tissue, liver, and skeletal muscle in metabolic health and disease · 2020
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• Gene co-expression networks associated with carcass traits reveal new pathways for muscle and fat deposition in Nelore cattle · 2019
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• Regulation of Skeletal Muscle Glucose Transport and Glucose Metabolism by Exercise Training · 2019
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• Region and cell-type resolved quantitative proteomic map of the human heart · 2017
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