|
| Status |
Public on Jul 19, 2013 |
| Title |
acrylic acid rep 2 |
| Sample type |
SRA |
| |
|
| Source name |
acrylic acid rep 2
|
| Organism |
Picosynechococcus sp. PCC 7002 |
| Characteristics |
condition: 5mM acrylic acid
strain: PCC 7002
|
| Treatment protocol |
Acrylic acid samples were treated with 5mM acrylic acid at pH 8.0
|
| Growth protocol |
50 mL volumes at a light intensity of 140 µE/m2/s at 35 °C with no agitation
|
| Extracted molecule |
total RNA |
| Extraction protocol |
Trizol at 95C. Samples cleaned up with Rneasy Kit
|
| |
|
| Library strategy |
RNA-Seq |
| Library source |
transcriptomic |
| Library selection |
cDNA |
| Instrument model |
Illumina HiSeq 2000 |
| |
|
| Data processing |
Ribsomal RNA genes were removed from the PCC 7002 genome (Genbank ID CP000951.1-CP000957.1)
Reads were trimmed of Ns
Aligment to genome was done allowing 2 mismatches
RPKM values were calculated using the CLC Workbench
Genome_build: ASM1948v1
Supplementary_files_format_and_content: RPKM values and fold change
|
| |
|
| Submission date |
Jul 17, 2013 |
| Last update date |
May 15, 2019 |
| Contact name |
Brian Pfleger |
| Organization name |
University of Wisconsin-Madison
|
| Department |
Chemical and Biological Engineering
|
| Lab |
Brian Pfleger Lab
|
| Street address |
1415 Engineering Dr
|
| City |
Madison |
| State/province |
WI |
| ZIP/Postal code |
53706 |
| Country |
USA |
| |
|
| Platform ID |
GPL17466 |
| Series (1) |
| GSE48981 |
RNA profiling of Synechococcus sp. PCC 7002 exposed to acrylic acid |
|
| Relations |
| BioSample |
SAMN02260224 |
| SRA |
SRX326411 |
