To understand the underlying gene changes in in vivo muscles during acute hypoxic exposure, we studied the transcriptional profiles of in vivo skeletal muscles from mice exposed to 8% O2 for 0 hours, 2 hours, and 6 hours. For each condition, we extracted total RNA from fresh in vivo plantaris muscles for 3 biological replicates. The NGS data was acquired using paired-end 100bp by Illumina HiSeq 2000 with a depth around 100X. The quality control of raw data indicated excellent quality of sequencing data with quality scores in the range of 33-40 all over the reads. The analysis of differential expressed genes indicated quick genes responses in skeletal muscles in both 2 and 6 hours of hypoxia. The gene changes indicated a shift from genes associated with extracellular lumen in 2 hours of hypoxia to genes associated with the nuclear lumen in 6 hours of hypoxia. Signaling pathways such as PI3K/Akt signaling, mTOR signaling, MAPK signaling showed enriched gene responses. The KEGG-pathway based pathway-network analysis suggested the PI3K/Akt signaling pathway as a nodal pathway among the gene response-enriched pathways during acute hypoxia. Our Western blot experiments indicated a functional down-regulation of PI3K/Akt signaling by de-phosphorylation of Akt. SOURCE: Andrew,Douglas,McCulloch (amcculloch@ucsd.edu) - CMRG UC San Diego

Pluto Bioinformatics

GSE81286: Transcriptional profiles of skeletal muscles in mice exposed to acute hypoxia