|
| Status |
Public on Mar 25, 2024 |
| Title |
Non-Tetracycline exposed time point 30 minue, 2nd replicate |
| Sample type |
SRA |
| |
|
| Source name |
Mixture of Salmonella and E.coli strains
|
| Organisms |
Salmonella enterica; Escherichia coli J53 |
| Characteristics |
cell type: Bacteria
treatment: Non-Tetracycline exposed time point 30 minue
|
| Extracted molecule |
total RNA |
| Extraction protocol |
RNA was isolated using RNeasy RNA extraction kit (Qiagen)
Libraries were prepared using the Illumina TruSeq Stranded mRNA kit
|
| |
|
| Library strategy |
RNA-Seq |
| Library source |
transcriptomic |
| Library selection |
cDNA |
| Instrument model |
HiSeq X Ten |
| |
|
| Description |
n30R3
|
| Data processing |
The reads were quality filtered and the demultiplexed raw sequencing files were imported into the BV-BRC3.33.16 program
The samples were analyzed with the RNA-Seq Analyses Service using Tuxedo and the HTSeq-DESeq2 pipelines with the mapping the reads to both S. enterica 452 and E. coli.
Assembly: Tuxedo
Supplementary files format and content: Excel file with raw counts for tetracycline non-treated sample at different time points
Supplementary files format and content: Excel file with raw counts for tetracycline treated sample at different time points
|
| |
|
| Submission date |
Mar 07, 2024 |
| Last update date |
Mar 25, 2024 |
| Contact name |
Steven Foley |
| Organization name |
National Center for Toxicological Research, U.S. Food and Drug Administration
|
| Department |
Microbiology
|
| Street address |
3900 NCTR Road
|
| City |
Jefferson |
| State/province |
AR |
| ZIP/Postal code |
72079 |
| Country |
USA |
| |
|
| Platform ID |
GPL34283 |
| Series (1) |
| GSE261094 |
Impact of Multiple Antimicrobial Exposures on the Transfer Efficiency of Multidrug Resistance Plasmids in Salmonella enteric |
|
| Relations |
| BioSample |
SAMN40300182 |
| SRA |
SRX23871516 |
