|
| Status |
Public on Jun 30, 2023 |
| Title |
BY4743_NaCl_Gen10_Rep2 |
| Sample type |
SRA |
| |
|
| Source name |
BY4743
|
| Organism |
Saccharomyces cerevisiae |
| Characteristics |
strain: BY4743
genetic lineage: Laboratory
generation: 10
media: YPD+G418
stress: 0.7M NaCl
|
| Treatment protocol |
Cell pellets were pretreated with 1ul Zymolyase for 1 hour at 30C prior to plasmid isolation
|
| Growth protocol |
Strains used in the study include BC187, BY4743, NCYC3290, and YPS128. Strains were grown in YPD medium containing 0.7M NaCl and G418 (200mg/L) for plasmid selection, in flasks at 30°C. Frozen library-transformed stocks were thawed and placed in 100ml of liquid YPD with 0.7M NaCl and G418 (200mg/L) at a starting OD600 of 0.05. The pooled growing cultures were transferred to fresh media after 5 generations to keep cells in log phase. Cells were harvested after 10 generations and cell pellets were stored at -80°C.
|
| Extracted molecule |
genomic DNA |
| Extraction protocol |
Plasmids were isolated from cell pellets using the Qiagen Spin MiniPrep Kit.
Libraries were constructed using PCR where plasmid barcodes were amplified with multiplex primers containing Illumina adapters and unique 10bp index tags to allow for sample identification after sequencing, as described in Magtanong et al., 2011 and Piotrowski et al., 2015.
|
| |
|
| Library strategy |
OTHER |
| Library source |
genomic |
| Library selection |
other |
| Instrument model |
Illumina HiSeq 4000 |
| |
|
| Description |
Sample-113
|
| Data processing |
Read counts generated using a script to identify samples from fastq files that are associated with each 10bp index tag
Library strategy: BAR-seq
|
| |
|
| Submission date |
Feb 27, 2023 |
| Last update date |
Jun 30, 2023 |
| Contact name |
Audrey Gasch |
| E-mail(s) |
agasch@wisc.edu
|
| Organization name |
University of Wisconsin
|
| Department |
Genetics
|
| Street address |
425G Henry mall
|
| City |
Madison |
| State/province |
WI |
| ZIP/Postal code |
53706 |
| Country |
USA |
| |
|
| Platform ID |
GPL21656 |
| Series (2) |
| GSE226247 |
Natural variation in the consequences of gene overexpression during osmotic stress [BAR-Seq] |
| GSE226248 |
Natural variation in the consequences of gene overexpression during osmotic stress |
|
| Relations |
| BioSample |
SAMN33460502 |
| SRA |
SRX19516384 |
