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Coles, V. J., Stukel, M. R., Brooks, M. T., Burd, A., Crump, B. C., Moran, M. A., et al. (2017). Ocean biogeochemistry modeled with emergent trait-based genomics. Science, 358(6367), 1149–1154.
Abstract: Marine ecosystem models have advanced to incorporate metabolic pathways discovered with genomic sequencing, but direct comparisons between models and “omics” data are lacking. We developed a model that directly simulates metagenomes and metatranscriptomes for comparison with observations. Model microbes were randomly assigned genes for specialized functions, and communities of 68 species were simulated in the Atlantic Ocean. Unfit organisms were replaced, and the model self-organized to develop community genomes and transcriptomes. Emergent communities from simulations that were initialized with different cohorts of randomly generated microbes all produced realistic vertical and horizontal ocean nutrient, genome, and transcriptome gradients. Thus, the library of gene functions available to the community, rather than the distribution of functions among specific organisms, drove community assembly and biogeochemical gradients in the model ocean.
Keywords: Atlantic Ocean; Biochemical Phenomena/genetics; Metabolic Networks and Pathways/*genetics; Metagenome; *Metagenomics; Microbial Consortia/*genetics; Models, Biological; Seawater/*microbiology; Transcriptome
|Shi, Q. (2017). Coupling ocean currents and waves with wind stress over the Gulf Stream. Ph.D. thesis, Florida State University, Tallahassee, FL.|
|Sun, S. (2017). Dynamics-based analysis of tropical waves. Ph.D. thesis, Florida State University, Tallahassee, FL.|
|Maksimova, E. V. (2017). On the observed synoptic signal in the Mississippi-Alabama slope flow. J. Geophys. Res. Oceans, 122(1), 185–192.|
|Savage, A. C., Arbic, B. K., Richman, J. G., Shriver, J. F., Alford, M. H., Buijsman, M. C., et al. (2017). Frequency content of sea surface height variability from internal gravity waves to mesoscale eddies. J. Geophys. Res. Oceans, 122(3), 2519–2538.|
|Dukhovskoy, D. S., Bourassa, M. A., Petersen, G. N., & Steffen, J. (2017). Comparison of the ocean surface vector winds from atmospheric reanalysis and scatterometer-based wind products over the Nordic Seas and the northern North Atlantic and their application for ocean modeling. J. Geophys. Res. Oceans, 122(3), 1943–1973.|
|Shin, D. W., Baigorria, G. A., Romero, C. C., Cocke, S., Oh, J. - H., & Kim, B. - M. (2017). Assessing crop yield simulations driven by the NARCCAP regional climate models in the southeast United States. J. Geophys. Res. Atmos., 122(5), 2549–2558.|
|Stukel, M. R., & Ducklow, H. W. (2017). Stirring Up the Biological Pump: Vertical Mixing and Carbon Export in the Southern Ocean. Global Biogeochem. Cycles, 31(9), 1420–1434.|
|Savage, A. C., Arbic, B. K., Alford, M. H., Ansong, J. K., Farrar, J. T., Menemenlis, D., et al. (2017). Spectral decomposition of internal gravity wave sea surface height in global models. J. Geophys. Res. Oceans, 122(10), 7803–7821.|
Savage, A. C., Arbic, B. K., Alford, M. H., Ansong, J. K., Farrar, J. T., Menemenlis, D., et al. (2017). Spectral decomposition of internal gravity wave sea surface height in global models: INTERNAL GRAVITY WAVE SEA SURFACE HEIGHT. J. Geophys. Res. Oceans, 122(10), 7803–7821.
Abstract: Two global ocean models ranging in horizontal resolution from 1/128 to 1/488 are used to study the space and time scales of sea surface height (SSH) signals associated with internal gravity waves (IGWs). Frequency-horizontal wavenumber SSH spectral densities are computed over seven regions of the world ocean from two simulations of the HYbrid Coordinate Ocean Model (HYCOM) and three simulations of the Massachusetts Institute of Technology general circulation model (MITgcm). High wavenumber, high-frequency SSH variance follows the predicted IGW linear dispersion curves. The realism of high-frequency motions (>0:87 cpd) in the models is tested through comparison of the frequency spectral density of dynamic height variance computed from the highest-resolution runs of each model (1/258 HYCOM and 1/488 MITgcm) with dynamic height variance frequency spectral density computed from nine in situ profiling instruments. These high-frequency motions are of particular interest because of their contributions to the small-scale SSH variability that will be observed on a global scale in the upcoming Surface Water and Ocean Topography (SWOT) satellite altimetry mission. The variance at supertidal frequencies can be comparable to the tidal and low-frequency variance for high wavenumbers (length scales smaller than 50 km), especially in the higher-resolution simulations. In the highest-resolution simulations, the high-frequency variance can be greater than the low-frequency variance at these scales.
Keywords: high-frequency motions; atmospheric pressure; dynamic height