|
Status |
Public on Aug 06, 2016 |
Title |
Identification of the PhoB regulon and role of PhoU in the phosphate-starvation response of Caulobacter crescentus (ChIP-seq) |
Organism |
Caulobacter vibrioides NA1000 |
Experiment type |
Genome binding/occupancy profiling by high throughput sequencing
|
Summary |
An ability to sense and respond to changes in extracellular phosphate is critical to the survival of most bacteria. For Caulobacter crescentus, which typically lives in phosphate-limited environments, this process is especially crucial. Like many bacteria, Caulobacter responds to phosphate limitation through a conserved two-component signaling pathway called PhoR-PhoB, but the direct regulon of PhoB in this organism is unknown. Here, we use ChIP-Seq to map the global binding patterns of the phosphate-responsive transcriptional regulator PhoB in both phosphate-limited and -replete conditions. Combined with genome-wide expression profiling, our work demonstrates that PhoB is induced to regulate nearly 50 genes in phosphate-starved conditions. The PhoB regulon is comprised primarily of genes known or predicted to help Caulobacter scavenge for and import inorganic phosphate, including 15 different membrane transporters. We also investigated the regulatory role of PhoU, a widely conserved protein proposed to coordinate phosphate import with expression of the PhoB regulon by directly modulating the histidine kinase PhoR. However, our studies show that it likely does not play such a role in Caulobacter as depleting PhoU has no significant effect on PhoB-dependent gene expression. Instead, cells lacking PhoU exhibit a striking accumulation of large polyphosphate granules suggesting that PhoU participates in controlling intracellular phosphate metabolism.
|
|
|
Overall design |
An allele of phoB bearing a C-terminal 3x-flag tag was integrated at its native locus, and ChIP followed by deep sequencing on Illumina MiSeq was performed on samples grown in rich medium, phosphate-limited medium, and in a pstS::Tn5 mutant background in rich medium.
|
|
|
Contributor(s) |
Laub MT, Lubin EA |
Citation missing |
Has this study been published? Please login to update or notify GEO. |
|
Submission date |
Aug 07, 2015 |
Last update date |
May 15, 2019 |
Contact name |
Michael Laub |
Organization name |
MIT
|
Street address |
31 Ames St
|
City |
Cambridge |
State/province |
MA |
ZIP/Postal code |
02142 |
Country |
USA |
|
|
Platforms (1) |
GPL20784 |
Illumina MiSeq (Caulobacter crescentus NA1000) |
|
Samples (6)
|
|
This SubSeries is part of SuperSeries: |
GSE71961 |
Identification of the PhoB regulon and role of PhoU in the phosphate-starvation response of Caulobacter crescentus |
|
Relations |
BioProject |
PRJNA292618 |
SRA |
SRP062286 |