|
| Status |
Public on Mar 01, 2016 |
| Title |
I1 and I2 Seq |
| Sample type |
SRA |
| |
|
| Source name |
Pseudoalteromonas sp. A2_1 mmol/L H2O2
|
| Organism |
Pseudoalteromonas sp. A2 |
| Characteristics |
strain: an isolate from seawater with high activity against H2O2
growth medium: ZoBell 2216E medium with a final concentration of 1 mmol/L H2O2
|
| Growth protocol |
Pseudoalteromonas sp. A2 was cultured at 10 ℃ with rotation at a speed of 150 r/min in ZoBell 2216E medium consisting of 5 g of tryptone, 1 g of yeast extract in 1 L of seawater.
|
| Extracted molecule |
total RNA |
| Extraction protocol |
Total RNA was extracted using TRIzol® Reagent according the manufacturer’s instructions
RNA-Seq transcriptome libraries were prepared following TruSeqTM RNA sample preparation Kit from Illumina (San Diego, CA) by using 5 μg of total RNA
|
| |
|
| Library strategy |
RNA-Seq |
| Library source |
transcriptomic |
| Library selection |
cDNA |
| Instrument model |
Illumina HiSeq 2000 |
| |
|
| Data processing |
Illumina Casava1.8 software used for basecalling.
Removed the adapter sequence of reads; Removed reads that did not contain at least 25 Q30 bases; Removed all reads that contained 10% ambiguous characters
Bowtie2 was used for the reads alignment
COG, KEGG, GO
Genome_build: JPMC00000000
Supplementary_files_format_and_content: annotation-table and genes-fpkm-matrix files include FPKM, GO, KEGG and COG values for each sample
|
| |
|
| Submission date |
Mar 11, 2015 |
| Last update date |
May 15, 2019 |
| Contact name |
LI Yang |
| E-mail(s) |
yiyangli561016@163.com
|
| Phone |
15376797911
|
| Organization name |
The First Institute of Oceanography
|
| Department |
SOA
|
| Lab |
Key Lab of Marine Bioactive Substances
|
| Street address |
6 Xian-Xia Ling Road
|
| City |
Qingdao |
| State/province |
Shandong |
| ZIP/Postal code |
266061 |
| Country |
China |
| |
|
| Platform ID |
GPL19880 |
| Series (1) |
| GSE66773 |
Genome-wide transcriptional response of the Arctic bacterium Pseudoalteromonas sp. A2 to oxidative stress |
|
| Relations |
| BioSample |
SAMN03400065 |
| SRA |
SRX951921 |
