|
| Status |
Public on Jun 25, 2015 |
| Title |
stable SCV (DNA) |
| Sample type |
SRA |
| |
|
| Source name |
WCH_DNA
|
| Organism |
Staphylococcus aureus |
| Characteristics |
strain: WCH-SK2
phenotype: MRSA
medium: day 55 of continuous culture -CDM
stress: high level of stress (0.03%)
|
| Treatment protocol |
Cells were harvested and treated with RNA protect (Qiagen)
|
| Growth protocol |
Strain WCH-SK2 was cultured in batch culture condition and in a prologned continuous culture (chemostat) for 60 days
|
| Extracted molecule |
genomic DNA |
| Extraction protocol |
Whole genomic DNA extraction and purification were performed according to manufacturers protocols (Blood and Cell culture DNA Maxi kit PN13362 and QIAGEN Genomic-tip 500/G columns, QIAGEN
SMRT sequencing from sequencing service provider (DNA Link, South Korea).
|
| |
|
| Library strategy |
OTHER |
| Library source |
genomic |
| Library selection |
other |
| Instrument model |
PacBio RS II |
| |
|
| Data processing |
Library strategy: DNA-seq
Bowtie2 to align reads from samples
Genome_build: NC_007795; WCH-SK2 batch and WCH-SK2 SCV sequence
Supplementary_files_format_and_content: excel files (comma seperated values files) and excel worksheet files; fasta files are available on the series record.
|
| |
|
| Submission date |
Jun 24, 2015 |
| Last update date |
May 15, 2019 |
| Contact name |
Long M.G Bui |
| E-mail(s) |
bmglongd99@gmail.com
|
| Phone |
06183132610
|
| Organization name |
University of Adelaide
|
| Department |
Microbiology
|
| Lab |
416
|
| Street address |
North Terrace Campus
|
| City |
Adelaide |
| State/province |
South Australia |
| ZIP/Postal code |
5005 |
| Country |
Australia |
| |
|
| Platform ID |
GPL20613 |
| Series (1) |
| GSE63750 |
Prolonged growth of a clinical S. aureus strain selects for a stable SCV and Full genomic characterization of the development in a clinical Staphylococcus aureus strain of a stable Small Colony Variant cell-type |
|
| Relations |
| BioSample |
SAMN03792422 |
| SRA |
SRX1074086 |
