| Contributors | Affiliation | Role |
|---|---|---|
| Dyhrman, Sonya T. | Woods Hole Oceanographic Institution (WHOI) | Principal Investigator, Contact |
| Nahorniak, Jasmine | Oregon State University (OSU-CEOAS) | Data Manager |
| Gegg, Stephen R. | Woods Hole Oceanographic Institution (WHOI) | BCO-DMO Data Manager |
C-MORE Gene Expression
Gene expression data from Trichodesmium culture experiments
Orchard et al. (2009)
Elizabeth D. Orchard, Eric A. Webb, Sonya T. Dyhrman. 2009. "Molecular analysis of the phosphorus starvation response in Trichodesmium spp.". Environmental Microbiology 11:2400-2411.
DOI: 10.1111/j.1462-2920.2009.01968.x
US: http://dx.doi.org/10.1111/j.1462-2920.2009.01968.x
This dataset includes some acronyms, defined as follows:
P phosphorus phoA alkaline phosphatase sphX sphX gene pstS pstS gene nifH nitrogenase iron protein APA alkaline phosphatase activity
Experiments were conducted to study the expression of genes involved in Phosphorus (P) uptake and (Dissolved Organic Phosphorus) DOP hydrolysis. There were two different types of experimental design: (i) 'transfer experiment' wherein exponentially growing cells were transferred to replete (+P) and no P (-P) media, and (ii) 're-feed experiment' in which cells were starved for P and then P was added back in. Each of these experiments was replicated with similar results.
| File |
|---|
gene_expression.csv (Comma Separated Values (.csv), 1.68 KB) MD5:77e61ad80136c278a5318df5ccf7b57d Primary data file for dataset ID 3225 |
| Parameter | Description | Units |
| gene_name | gene name | text |
| experiment_type | experiment type | text |
| hours_from_start | hours from experiment start | hours |
| gene_expression_P_limited | gene expression ratio relative to time 0 | phophorus limited |
| stderr_gene_expression_P_limited | standard error for the gene_expression_P_limited data | dimensionless |
| gene_expression_P_replete | gene expression ratio relative to time 0 | phophorus replete |
| stderr_gene_expression_P_replete | standard error for the gene_expression_P_replete data | dimensionless |
| statistically_different | indicates statistical differences between the P_limited and P_replete gene expression data (y or n) | text |
| Website | |
| Platform | WHOI |
| Start Date | 2007-11-01 |
| End Date | 2008-11-01 |
| Description | C-MORE project laboratory experiments done in Sonya Dyhrman's lab at the
Woods Hole Oceanographic Institution's Redfield Building, Woods Hole, MA, USA |
The Center for Microbial Oceanography: Research and Education (C-MORE) is a recently established (August 2006; NSF award: EF-0424599) NSF-sponsored Science and Technology Center designed to facilitate a more comprehensive understanding of the diverse assemblages of microorganisms in the sea, ranging from the genetic basis of marine microbial biogeochemistry including the metabolic regulation and environmental controls of gene expression, to the processes that underpin the fluxes of carbon, related bioelements and energy in the marine environment. Stated holistically, C-MORE's primary mission is: Linking Genomes to Biomes.
We believe that the time is right to address several major, long-standing questions in microbial oceanography. Recent advances in the application of molecular techniques have provided an unprecedented view of the structure, diversity and possible function of sea microbes. By combining these and other novel approaches with more well-established techniques in microbiology, oceanography and ecology, it may be possible to develop a meaningful predictive understanding of the ocean with respect to energy transduction, carbon sequestration, bioelement cycling and the probable response of marine ecosystems to global environmental variability and climate change. The strength of C-MORE resides in the synergy created by bringing together experts who traditionally have not worked together and this, in turn, will facilitate the creation and dissemination of new knowledge on the role of marine microbes in global habitability.
The new Center will design and conduct novel research, broker partnerships, increase diversity of human resources, implement education and outreach programs, and utilize comprehensive information about microbial life in the sea. The Center will bring together teams of scientists, educators and community members who otherwise do not have an opportunity to communicate, collaborate or design creative solutions to long-term ecosystem scale problems. The Center's research will be organized around four interconnected themes:
Each theme will have a leader to help coordinate the research programs and to facilitate interactions among the other related themes. The education programs will focus on pre-college curriculum enhancements, in service teacher training and formal undergraduate/graduate and post-doctoral programs to prepare the next generation of microbial oceanographers. The Center will establish and maintain creative outreach programs to help diffuse the new knowledge gained into society at large including policymakers. The Center's activities will be dispersed among five partner institutions:
and will be coordinated at the University of Hawaii at Manoa.