Myoglobin is an oxygen storage molecule that is selectively expressed in cardiac and slow-twitch skeletal muscles that have a high oxygen demand. Numerous studies have implicated hypoxia in the regulation of myoglobin expression as an adaptive response to hypoxic stress. However, the details of this relationship remain undefined. In the present study, adult mice exposed to 10% oxygen for periods up to 3 wk exhibited increased myoglobin expression only in the working heart, whereas myoglobin was either diminished or unchanged in skeletal muscle groups. In vitro and in vivo studies revealed that hypoxia in the presence or absence of exercise-induced stimuli reprograms calcium signaling and modulates myoglobin gene expression. Hypoxia alone significantly altered calcium influx in response to cell depolarization or depletion of endoplasmic reticulum calcium stores, which inhibited the expression of myoglobin. In contrast, our whole animal and transcriptional studies indicate that hypoxia in combination with exercise enhanced the release of calcium from the sarcoplasmic reticulum via the ryanodine receptors triggered by caffeine, which increased the translocation of nuclear factor of activated T-cells into the nucleus to transcriptionally activate myoglobin expression. The present study unveils a previously unrecognized mechanism where the hypoxia-mediated regulation of calcium transients from different intracellular pools modulates myoglobin gene expression. In addition, we observed that changes in myoglobin expression, in response to hypoxia, are not dependent on hypoxia-inducible factor-1 or changes in skeletal muscle fiber type. These studies enhance our understanding of hypoxia-mediated gene regulation and will have broad applications for the treatment of myopathic diseases. nuclear factor of activated T cells; calcineurin; skeletal muscle MYOGLOBIN IS A CYTOPLASMIC hemoprotein that is abundantly expressed in heart and oxidative skeletal myofibers. Elegant studies using physiological, biochemical, and spectroscopic analyses support an important role for myoglobin in facilitated oxygen transport, as a reservoir for oxygen and as a scavenger of reactive oxygen species in the mammalian heart and skeletal muscle (6,16,20,34,35,39). Detailed transcriptional analyses have been undertaken to define upstream activation motifs including a CCAC box, A/T element, nuclear factor of activated T cells (NFAT) response element, and E boxes that are necessary for muscle-specific transcription of the myoglobin gene (4,5,21,22). Following differentiation, myoglobin expression is coordinately regulated by neural and muscular activities that stimulate calcium signaling within the cell. Stimuli that enhance intracellular calcium levels increase activity and gene expression of calcineurin, a Ca 2ϩ /calmodulindependent serine phosphatase (13,47,48). Upon activation, calcineurin dephosphorylates the transcription factor NFAT, which translocates to the nucleus and combinatorially interacts with other transcription factors to regulate myo...