|
| Status |
Public on Mar 25, 2024 |
| Title |
plasmid DNA fragments, amplified, before screening |
| Sample type |
SRA |
| |
|
| Source name |
PO1f
|
| Organism |
synthetic construct |
| Characteristics |
cell line: PO1f
cell type: yeast cell
|
| Growth protocol |
Y. lipolytica transformed with the whole-genome sgRNA plasmid library was inoculated in SD-Leu medium. When cell growth reached the late exponential phase (after approximately 36 hours), 1 mL of culture was collected for plasmid extraction.
|
| Extracted molecule |
other |
| Extraction protocol |
Plasmid extraction was performed using ZymoprepTM Yeast Plasmid Miniprep II (Zymo Research Corporation).
Sequences containing spacers in sgRNA plasmids were amplified via PCR, purified, fragmented, and their ends were repaired and reformed to become clusters.
|
| |
|
| Library strategy |
OTHER |
| Library source |
other |
| Library selection |
other |
| Instrument model |
HiSeq X Ten |
| |
|
| Data processing |
The original data of sequencing results were subjected to image Base calling by using the software CASAVA(v1.8.2), and the quality was preliminarily analyzed.
The overlap regions of paired-end sequencing results were merged.
Through sequences alignment, the abundance of spacer of every sgRNA plasmid could be determined.
Assembly: YarliW29
Supplementary files format and content: xlsx.tab-Abundance of sgRNA spacers before screening
Supplementary files format and content: xlsx.tab-Abundance of sgRNA spacers after acetic acid screening
Supplementary files format and content: xlsx.tab-Abundance of sgRNA spacers after furfural screening
Library strategy: CRISPR screen
|
| |
|
| Submission date |
Mar 24, 2024 |
| Last update date |
Mar 25, 2024 |
| Contact name |
Qianxi He |
| E-mail(s) |
a18080502576@outlook.com
|
| Organization name |
Tianjin University
|
| Street address |
Yaguan road 135
|
| City |
Tianjin |
| ZIP/Postal code |
300000 |
| Country |
China |
| |
|
| Platform ID |
GPL26697 |
| Series (1) |
| GSE262333 |
Mining novel gene targets for improving tolerance to furfural and acetic acid in Yarrowia lipolytica using whole-genome clustered regularly interspaced short palindromic repeats interference library [CRISPR screen] |
|
| Relations |
| BioSample |
SAMN40594208 |
| SRA |
SRX24035273 |
