Identification of the circadian transcriptome in adult mouse skeletal muscle

John J. McCarthy, Jessica L. Andrews, Erin L. McDearmon, Kenneth S. Campbell, Brigham K. Barber, Brooke H. Miller, John R. Walker, John B. Hogenesch, Joseph S. Takahashi, Karyn A. Esser

Research output: Contribution to journalArticle

188 Citations (Scopus)

Abstract

Circadian rhythms are approximate 24-h behavioral and physiological cycles that function to prepare an organism for daily environmental changes. The basic clock mechanism is a network of transcriptional-translational feedback loops that drive rhythmic expression of genes over a 24-h period. The objectives of this study were to identify transcripts with a circadian pattern of expression in adult skeletal muscle and to determine the effect of the Clock mutation on gene expression. Expression profiling on muscle samples collected every 4 h for 48 h was performed. Using COSOPT, we identified a total of 215 transcripts as having a circadian pattern of expression. Real-time PCR results verified the circadian expression of the core clock genes, Bmal1, Per2, and Cry2. Annotation revealed cycling genes were involved in a range of biological processes including transcription, lipid metabolism, protein degradation, ion transport, and vesicular trafficking. The tissue specificity of the skeletal muscle circadian transcriptome was highlighted by the presence of known muscle-specific genes such as Myod1, Ucp3, Atrogin1 (Fbxo32), and Myh1 (myosin heavy chain IIX). Expression profiling was also performed on muscle from the Clock mutant mouse and sarcomeric genes such as actin and titin, and many mitochondrial genes were significantly downregulated in the muscle of Clock mutant mice. Defining the circadian transcriptome in adult skeletal muscle and identifying the significant alterations in gene expression that occur in muscle of the Clock mutant mouse provide the basis for understanding the role of circadian rhythms in the daily maintenance of skeletal muscle.

Original languageEnglish (US)
Pages (from-to)86-95
Number of pages10
JournalPhysiological Genomics
Volume31
Issue number1
DOIs
StatePublished - Sep 19 2007

Fingerprint

Transcriptome
Skeletal Muscle
Muscles
Circadian Rhythm
Gene Expression
Genes
Connectin
Biological Phenomena
Organ Specificity
Mitochondrial Genes
Myosin Heavy Chains
Gene Regulatory Networks
Ion Transport
Lipid Metabolism
Proteolysis
Actins
Real-Time Polymerase Chain Reaction
Down-Regulation
Maintenance
Mutation

Keywords

  • Circadian rhythms
  • Clock mutant
  • Gene expression
  • MyoD

ASJC Scopus subject areas

  • Physiology
  • Genetics

Cite this

McCarthy, J. J., Andrews, J. L., McDearmon, E. L., Campbell, K. S., Barber, B. K., Miller, B. H., ... Esser, K. A. (2007). Identification of the circadian transcriptome in adult mouse skeletal muscle. Physiological Genomics, 31(1), 86-95. https://doi.org/10.1152/physiolgenomics.00066.2007

Identification of the circadian transcriptome in adult mouse skeletal muscle. / McCarthy, John J.; Andrews, Jessica L.; McDearmon, Erin L.; Campbell, Kenneth S.; Barber, Brigham K.; Miller, Brooke H.; Walker, John R.; Hogenesch, John B.; Takahashi, Joseph S.; Esser, Karyn A.

In: Physiological Genomics, Vol. 31, No. 1, 19.09.2007, p. 86-95.

Research output: Contribution to journalArticle

McCarthy, JJ, Andrews, JL, McDearmon, EL, Campbell, KS, Barber, BK, Miller, BH, Walker, JR, Hogenesch, JB, Takahashi, JS & Esser, KA 2007, 'Identification of the circadian transcriptome in adult mouse skeletal muscle', Physiological Genomics, vol. 31, no. 1, pp. 86-95. https://doi.org/10.1152/physiolgenomics.00066.2007
McCarthy JJ, Andrews JL, McDearmon EL, Campbell KS, Barber BK, Miller BH et al. Identification of the circadian transcriptome in adult mouse skeletal muscle. Physiological Genomics. 2007 Sep 19;31(1):86-95. https://doi.org/10.1152/physiolgenomics.00066.2007
McCarthy, John J. ; Andrews, Jessica L. ; McDearmon, Erin L. ; Campbell, Kenneth S. ; Barber, Brigham K. ; Miller, Brooke H. ; Walker, John R. ; Hogenesch, John B. ; Takahashi, Joseph S. ; Esser, Karyn A. / Identification of the circadian transcriptome in adult mouse skeletal muscle. In: Physiological Genomics. 2007 ; Vol. 31, No. 1. pp. 86-95.
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