|
| Status |
Public on Nov 22, 2023 |
| Title |
ciprofloxacin-resistant Pseudomonas aeruginosa, G1 treated 3 |
| Sample type |
SRA |
| |
|
| Source name |
ciprofloxacin-resistant Pseudomonas aeruginosa
|
| Organism |
Bacteria |
| Characteristics |
cell type: ciprofloxacin-resistant Pseudomonas aeruginosa
genotype: WT
treatment: G1 with light
|
| Treatment protocol |
Ciprofloxacin-resistant Pseudomonas aeruginosa were mixed with PBS or G1, and then exposed to light to study the impact of NO release on bacterial gene expression through RNA sequencing.
|
| Growth protocol |
Ciprofloxacin-resistant Pseudomonas aeruginosa cells were maintained with LB with 37 oC.
|
| Extracted molecule |
total RNA |
| Extraction protocol |
The entire RNA was extracted using the TRIzol RNA Extraction Kit.
|
| |
|
| Library strategy |
RNA-Seq |
| Library source |
transcriptomic |
| Library selection |
cDNA |
| Instrument model |
Illumina HiSeq 2500 |
| |
|
| Data processing |
Differential expression analysis used the DESeq2 Bioconductor package, a model based on the negative binomial distribution. To control for false positives in the analysis, the p-values of the differentially expressed genes were adjusted using the Benjamini and Hochberg approach. In this analysis, genes with an adjusted p-value (Padj) < 0.05 were considered significantly differentially expressed. The GOSeq package (v1.34.1) was used to identify Gene Ontology (GO) terms that annotate a list of enriched genes with a significant p-value less than 0.05.
Assembly: dgcA
|
| |
|
| Submission date |
Nov 03, 2023 |
| Last update date |
Nov 22, 2023 |
| Contact name |
jian cheng |
| E-mail(s) |
cjivn@ustc.edu.cn
|
| Organization name |
USTC
|
| Street address |
JINZHAI ROAD 96
|
| City |
Hefei |
| ZIP/Postal code |
230026 |
| Country |
China |
| |
|
| Platform ID |
GPL32770 |
| Series (1) |
| GSE246965 |
Biofilm Heterogeneity-Adaptive Photoredox Catalysis Enables Red Light-Triggered Nitric Oxide Release for Combating Drug-Resistant Infections |
|
| Relations |
| BioSample |
SAMN38089039 |
| SRA |
SRX22363458 |
