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| Status |
Public on Oct 23, 2017 |
| Title |
Transcriptional profiles of skeletal muscles in mice exposed to acute hypoxia |
| Organism |
Mus musculus |
| Experiment type |
Expression profiling by high throughput sequencing
|
| Summary |
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.
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| Overall design |
Gene expressions in in vivo skeletal muscles exposed to 8% O2 for 2 hours and 6 hours
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| |
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| Contributor(s) |
McCulloch AD, Gan Z |
| Citation(s) |
28688178 |
| |
| Submission date |
May 10, 2016 |
| Last update date |
May 15, 2019 |
| Contact name |
Andrew Douglas McCulloch |
| E-mail(s) |
amcculloch@ucsd.edu
|
| Phone |
858-534-2547
|
| Organization name |
UC San Diego
|
| Department |
Bioengineering
|
| Lab |
CMRG
|
| Street address |
9500 Gilman Drive
|
| City |
La Jolla |
| State/province |
CA |
| ZIP/Postal code |
92093-0412 |
| Country |
USA |
| |
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| Platforms (1) |
| GPL13112 |
Illumina HiSeq 2000 (Mus musculus) |
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| Samples (9)
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| Relations |
| BioProject |
PRJNA321188 |
| SRA |
SRP074762 |
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