|
| Status |
Public on Jun 12, 2019 |
| Title |
BT6B [S132] |
| Sample type |
SRA |
| |
|
| Source name |
whole-organism
|
| Organism |
Nematostella vectensis |
| Characteristics |
tissue: whole organism
developmental stage: adult
treatment: blue light:dark
time point: time point 6
replicate: replicate B
|
| Treatment protocol |
Animals were experimentally exposed to one of 4 light conditions: 1) red light:dark 2) blue light:dark 3) green light:dark or 4) dark:dark conditions for 1 month, then sampled every 4 hours for 1 day (24 hours) in replicates of 4
|
| Growth protocol |
Animals were maintained as described in Hand et al. (1994)
|
| Extracted molecule |
total RNA |
| Extraction protocol |
Whole-organism RNA was extracted from animals (that were preserved in RNAlater and stored at -80) using Ambion RNAqueous extraction kit.
Libraries were prepared as in Meyer et al. (2011)
|
| |
|
| Library strategy |
RNA-Seq |
| Library source |
transcriptomic |
| Library selection |
cDNA |
| Instrument model |
Illumina HiSeq 2500 |
| |
|
| Description |
blue light:dark, time point 6, replicate B
Sample name in processed data file:
S132
|
| Data processing |
Sequenced reads were concatenated and renamed based on sample ID
Each Illumina read was trimmed of the adapter and PCR duplicates were removed
Quality filtering was performed using fastx_toolkit
Transcriptome mapping was performed using Bowtie2
Genome_build: genome Putnam et al. (2007) is available at:
https://figshare.com/articles/Nematostella_vectensis_transcriptome_and_gene_models_v2_0/807696
Supplementary_files_format_and_content: tab-delimited table of counts per gene for each sample
|
| |
|
| Submission date |
Jun 11, 2019 |
| Last update date |
Jun 12, 2019 |
| Contact name |
Whitney at Leach |
| Organization name |
University of North Carolina at Charlotte
|
| Department |
Biological Sciences
|
| Lab |
Reitzel
|
| Street address |
9201 University City Blvd.
|
| City |
Charlotte |
| ZIP/Postal code |
28223 |
| Country |
USA |
| |
|
| Platform ID |
GPL23802 |
| Series (1) |
| GSE132526 |
Decoupling behavioral and transcriptional responses to color in an eyeless cnidarian |
|
| Relations |
| BioSample |
SAMN12017448 |
| SRA |
SRX6037307 |
