 |
 |
GEO help: Mouse over screen elements for information. |
|
| Status |
Public on Apr 30, 2018 |
| Title |
Waveband Specific Transcriptional Control of Select Genetic Pathways in Xiphophorus maculatus Skin |
| Organism |
Xiphophorus maculatus |
| Experiment type |
Expression profiling by high throughput sequencing
|
| Summary |
Changes in the transcriptional profiles of Xiphophorus maculatus skin was assessed by RNA-Seq after exposure to fluorescent (i.e., FL, 4,100K or “cool white”), or narrow wavelength regions of light between 300-600 nm (i.e., 50 nm or 10 nm regions, herein termed ”wavebands”). Exposure to varied 50 nm wavebands allowed identification of waveband specific transcriptional modulation within gene sets representing discrete functional pathways within Xiphophorus skin. For example, exposure to either 350-400 or 450-500 nm wavebands resulted in opposite transcriptional effects in necrosis and apoptosis gene sets that predict selective differential suppression or activation of these pathways (i.e., 350-400 nm; necrosis suppression, apoptosis activation, and 450-500 nm; apoptosis suppression, necrosis activation). Further investigation of waveband specific transcription employing successive 10 nm waveband exposures within the genetically responsive 500-550 nm waveband show; (a) greater numbers of genes may be transcriptionally modulated after 10 nm exposures, than observed for either 50 nm or FL exposures. (b) the 10 nm wavebands incite greater functional specificity than either 50 nm or FL exposures. (c) The principal genetic effects of FL are primarily due to the 30 nm between 500 to 530 nm.
|
| |
|
| Overall design |
Xiphophorus maculatus fish were exposed to 4,100K fluorescent light, 50 nm wavelength window (waveband) between 300 to 600 nm wavelength region, or 10 nm waveband between 500 and 550 nm wavelength region. Gene expression were profiled by mRNA-Seq following exposure to each type of light exposre and were compared to the baseline gene expression (i.e., no light exposure)
|
| |
|
| Contributor(s) |
Walter R, Boswell M, Chang J, Boswell W, Lu Y, Novarro K, Walter S, Walter D, Salinas R, Savage M |
| Citation(s) |
29747585 |
| Submission date |
Mar 28, 2018 |
| Last update date |
Feb 12, 2020 |
| Contact name |
Yuan Lu |
| Organization name |
Xiphophorus Genetic Stock Center
|
| Street address |
university drive
|
| City |
San Marcos |
| State/province |
TX |
| ZIP/Postal code |
78666 |
| Country |
USA |
| |
|
| Platforms (1) |
| GPL24317 |
Illumina HiSeq 2000 (Xiphophorus maculatus) |
|
| Samples (32)
|
|
| Relations |
| BioProject |
PRJNA447434 |
| SRA |
SRP136668 |
| Supplementary file |
Size |
Download |
File type/resource |
| GSE112473_all.counts.csv.gz |
944.8 Kb |
(ftp)(http) |
CSV |
SRA Run Selector |
| Raw data are available in SRA |
| Processed data are available on Series record |
|
|
|
|
 |
Less...
More...