Abstract
Skeletal muscle comprises a family of diverse tissues with highly specialized functions. Many acquired diseases, including HIV and COPD, affect specific muscles while sparing others. Even monogenic muscular dystrophies selectively affect certain muscle groups. These observations suggest that factors intrinsic to muscle tissues influence their resistance to disease. Nevertheless, most studies have not addressed transcriptional diversity among skeletal muscles. Here we use RNAseq to profile mRNA expression in skeletal, smooth, and cardiac muscle tissues from mice and rats. Our data set, MuscleDB, reveals extensive transcriptional diversity, with greater than 50% of transcripts differentially expressed among skeletal muscle tissues. We detect mRNA expression of hundreds of putative myokines that may underlie the endocrine functions of skeletal muscle. We identify candidate genes that may drive tissue specialization, including Smarca4, Vegfa, and Myostatin. By demonstrating the intrinsic diversity of skeletal muscles, these data provide a resource for studying the mechanisms of tissue specialization.
Document Type
Article
Publication Date
5-29-2018
Digital Object Identifier (DOI)
https://doi.org/10.7554/eLife.34613.001
Funding Information
National Institute of Arthritis and Musculoskeletal and Skin Diseases (AR069266) to Karyn A. Esser and Michael E. Hughes.
National Institute of Arthritis and Musculoskeletal and Skin Diseases (AR066082) to Karyn A. Esser.
Related Content
All raw data and. bed files are available on NCBI’s Gene Expression Omnibus (accession number: GSE100505), and transcript-level expression values can also be downloaded from MuscleDB (http://muscledb.org/), a web application built using the ExpressionDB platform (Hughes et al., 2017).
Repository Citation
Terry, Erin E.; Zhang, Xiping; Hoffmann, Christy; Hughes, Laura D.; Lewis, Scott A.; Li, Jiajia; Wallace, Matthew J.; Riley, Lance A.; Douglas, Collin M.; Gutierrez-Monreal, Miguel A.; Lahens, Nicholas F.; Gong, Ming C.; Andrade, Francisco H.; Esser, Karyn A.; and Hughes, Michael E., "Transcriptional Profiling Reveals Extraordinary Diversity Among Skeletal Muscle Tissues" (2018). Physiology Faculty Publications. 122.
https://uknowledge.uky.edu/physiology_facpub/122
Supplementary file 1.
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Supplementary file 10.
elife-34613-transrepform-v2.docx (246 kB)
Transparent reporting form
Included in
Cell and Developmental Biology Commons, Computational Biology Commons, Musculoskeletal System Commons, Physiology Commons, Systems Biology Commons
Notes/Citation Information
Published in eLife, v. 7, e34613, p. 1-27.
© 2018, Terry et al.
This article is distributed under the terms of the Creative Commons Attribution License, which permits unrestricted use and redistribution provided that the original author and source are credited.