|
| Status |
Public on Sep 22, 2017 |
| Title |
Batch 1 CcI6 + 200 mM sucrose |
| Sample type |
SRA |
| |
|
| Source name |
culture
|
| Organism |
Frankia sp. CcI6 |
| Characteristics |
stress: osmotic-stressed
temperature: 28 o C
time (days incubation): 7 days
|
| Treatment protocol |
growth under salt stress (+200 mM NaCl) or osmotic stress (+200 mM sucrose)
|
| Growth protocol |
7 days at 28 degrees in BAP medium
|
| Extracted molecule |
total RNA |
| Extraction protocol |
Rneasy kit
Stable RNA removal via the Microbeexpress kit. RNA libraries were prepared for sequencing using standard illumina protocols
|
| |
|
| Library strategy |
RNA-Seq |
| Library source |
transcriptomic |
| Library selection |
cDNA |
| Instrument model |
Illumina HiSeq 2000 |
| |
|
| Description |
Barcode: GTGGCC
|
| Data processing |
Illumina Casava 1.8.3 software used for base calling
Sequence reads were trimmed for adapter sequence and mapped to Frankia sp.strain CcI3 genome using CLC Genomics workbench
Genome_build: CcI6
Supplementary_files_format_and_content: tab-delimited tex files include RPKM values for each sample
|
| |
|
| Submission date |
Feb 22, 2017 |
| Last update date |
May 15, 2019 |
| Contact name |
Louis S Tisa |
| E-mail(s) |
[email protected]
|
| Phone |
603-862-2442
|
| Organization name |
University of New Hampshire
|
| Department |
MCBS
|
| Lab |
Tisa Lab
|
| Street address |
46 College Rd
|
| City |
Durham |
| State/province |
NH |
| ZIP/Postal code |
03824 |
| Country |
USA |
| |
|
| Platform ID |
GPL23095 |
| Series (1) |
| GSE95217 |
Expression data of Frankia sp. strain CcI6 under salt stress, osmotic stress, and control conditions (no salt/osmotic stress) |
|
| Relations |
| BioSample |
SAMN06392710 |
| SRA |
SRX2582556 |
