|
| Status |
Public on Nov 04, 2020 |
| Title |
Paeruginosa_PAO1_EmptyVector 3 |
| Sample type |
SRA |
| |
|
| Source name |
bacterial culture
|
| Organism |
Pseudomonas aeruginosa PAO1 |
| Characteristics |
genotype/variation: Wildtype with empty vector
condition: Swarming
|
| Growth protocol |
Bacteria were grown on swarm plates.
|
| Extracted molecule |
total RNA |
| Extraction protocol |
Swarm fronts were harvested and suspended in RNA-Protect Bacteria Reagent.
RNA libraries were prepared for sequencing using standard Illumina protocols.
|
| |
|
| Library strategy |
RNA-Seq |
| Library source |
transcriptomic |
| Library selection |
cDNA |
| Instrument model |
Illumina HiSeq 2500 |
| |
|
| Data processing |
Illumina software used for basecalling.
Sequence reads were mapped to the Pseudomonas aeruginosa genome using STAR v2.6.
Count data was generated from STAR produced BAM files using HTSeq v0.61p1.
Genome_build: PAO1 (https://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&id=208964)
processed_file_content: *.count: Tab-delimited text files include counts.
|
| |
|
| Submission date |
Mar 10, 2020 |
| Last update date |
Nov 06, 2020 |
| Contact name |
Shannon Coleman |
| Organization name |
University of British Columbia
|
| Street address |
2259 Lower Mall
|
| City |
Vancouver |
| State/province |
BC |
| ZIP/Postal code |
V6T 1Z4 |
| Country |
Canada |
| |
|
| Platform ID |
GPL18782 |
| Series (1) |
| GSE146765 |
The small RNAs PA2952.1 and prrH as regulators of virulence, motility and iron metabolism in Pseudomonas aeruginosa |
|
| Relations |
| BioSample |
SAMN14351354 |
| SRA |
SRX7890867 |
