|
| Status |
Public on Feb 11, 2015 |
| Title |
Transcriptional Response to C1 and methylated compounds in Pelagibacter HTCC1062 |
| Platform organisms |
Candidatus Pelagibacter ubique HTCC1002; Candidatus Pelagibacter ubique HTCC1062; Candidatus Pelagibacter sp. HTCC7211 |
| Sample organism |
Candidatus Pelagibacter ubique HTCC1062 |
| Experiment type |
Expression profiling by array
|
| Summary |
Recent studies have shown that Pelagibacter oxidize a wide range of one carbon (C1) and methylated compounds that are ubiquitous in the oceans. However, the metabolic pathways used to oxidize and assimilate these compounds are complex and have been only partly described. To understand the metabolism of these compounds in Pelagibacter and to identify candidate genes involved in these pathways, we used microarray to study changes in gene expression in response to five different compounds (trimethylamine N-oxide (TMAO), methylamine, dimethylsulfoniopropionate (DMSP), methanol, and glycine betaine (GBT)) in Pelagibacter strain HTCC1062.
|
| |
|
| Overall design |
This project will examine the transcriptional response of the marine microorganism Pelagibacter HTCC1062 to five methylated compounds. To do this, 18 flasks were innoculated with cells - 3 flasks without any methylated compounds and rest of 15 treated with different methylated compounds respectively (TMAO (trtmA), methylamine (trtmB), DMSP (trtmC), methanol (trtmD) and glycine betaine (trtmE)). Cells were all harvested at the same timepoint in the exponential phase.
|
| |
|
| Contributor(s) |
Sun J, Giovannoni SJ |
| Citation missing |
Has this study been published? Please login to update or notify GEO. |
| |
| Submission date |
Feb 11, 2015 |
| Last update date |
Feb 11, 2015 |
| Contact name |
Jing Sun |
| Organization name |
Oregon State University
|
| Department |
Microbiology Department
|
| Lab |
Giovannoni Lab
|
| Street address |
220 Nash Hall
|
| City |
Corvallis |
| State/province |
OR |
| ZIP/Postal code |
97331 |
| Country |
USA |
| |
|
| Platforms (1) |
| GPL7330 |
Candidatus Pelagibacter ubique OSU_SAR11_affychip |
|
| Samples (18)
|
|
| Relations |
| BioProject |
PRJNA275205 |
Less...
More...