|
| Status |
Public on Aug 04, 2015 |
| Title |
ChIP-seq analyses of 10 quorum sensing regulators in Pseudomonas aeruginosa |
| Organism |
Pseudomonas aeruginosa |
| Experiment type |
Genome binding/occupancy profiling by high throughput sequencing
|
| Summary |
The Pseudomonas aeruginosa quorum-sensing (QS) systems contribute to bacterial homeostasis and pathogenicity. Although many regulators have been characterized to control the production of virulence factors and QS signaling molecules, its detailed regulatory mechanisms still remain elusive. Here, we performed chromatin immunoprecipitation followed by high-throughput DNA sequencing (ChIP-seq) on 10 key QS regulators. The direct regulation of these genes by corresponding regulator has been confirmed by Electrophoretic mobility shift assays (EMSAs) and quantitative real-time polymerase chain reactions (qRT-PCR). Binding motifs are found by using MEME suite and verified by footprint assays in vitro. Collectively, this work provides new cues to better understand the detailed regulatory networks of QS systems.
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| |
|
| Overall design |
ChIP-seq of 10 QS regulators in Pseudomonas aeruginosa
|
| |
|
| Contributor(s) |
Deng X |
| Citation(s) |
26206672 |
| Submission date |
Jan 27, 2015 |
| Last update date |
May 15, 2019 |
| Contact name |
Xin Deng |
| E-mail(s) |
xindeng@cityu.edu.hk
|
| Phone |
852-34425693
|
| Organization name |
City University of Hong Kong
|
| Department |
Biomedical Sciences
|
| Street address |
To Yuen Building
|
| City |
Hong Kong |
| ZIP/Postal code |
60637 |
| Country |
Hong Kong |
| |
|
| Platforms (1) |
| GPL18644 |
Illumina HiSeq 2000 (Pseudomonas aeruginosa) |
|
| Samples (20)
|
|
| This SubSeries is part of SuperSeries: |
| GSE110522 |
RpoN-dependent global regulation in Pseudomonas aeruginosa PAO1 |
|
| Relations |
| BioProject |
PRJNA273759 |
| SRA |
SRP052880 |
| Supplementary file |
Size |
Download |
File type/resource |
| GSE65356_2588vsvmacs2_peaks.txt.gz |
1.6 Kb |
(ftp)(http) |
TXT |
| GSE65356_algrmacs2e15_peaks.txt.gz |
3.1 Kb |
(ftp)(http) |
TXT |
| GSE65356_exsavsvmacs2_peaks.txt.gz |
1.7 Kb |
(ftp)(http) |
TXT |
| GSE65356_gacavsvmacs2e10_peaks.txt.gz |
2.1 Kb |
(ftp)(http) |
TXT |
| GSE65356_mextvsvmacs2_peaks.txt.gz |
1.1 Kb |
(ftp)(http) |
TXT |
| GSE65356_mvfrvsvmacs2_peaks.txt.gz |
1.7 Kb |
(ftp)(http) |
TXT |
| GSE65356_rponvsvmacs2e30_peaks.txt.gz |
11.5 Kb |
(ftp)(http) |
TXT |
| GSE65356_soxrvsvmacs2_peaks.txt.gz |
2.2 Kb |
(ftp)(http) |
TXT |
| GSE65356_vfrvsvmacs2_peaks.txt.gz |
6.0 Kb |
(ftp)(http) |
TXT |
| GSE65356_wsprvsvmacs2e4_peaks.txt.gz |
737 b |
(ftp)(http) |
TXT |
SRA Run Selector |
| Raw data are available in SRA |
| Processed data are available on Series record |
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