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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
Maksimova, E. V. (2018). A conceptual view on inertial internal waves in relation to the subinertial flow on the central west Florida shelf. Sci Rep, 8(1), 15952.
Abstract: The study reported here focuses on inertial internal wave currents on the west Florida midshelf in 50 m depth. In situ observations showed that the seasonal shifts in stratification change both the frequency range of inertial internal waves and their modulation time scales. According to the analysis, the subinertial flow evolution time scales also undergo compatible seasonal variations, and the inertial internal wave currents appear to be temporally and spatially related to the subinertial flow. Specifically, the subinertial flow evolving on frontal-/quasi-geostrophic time scales appears to be accompanied by the near-inertial oscillations/inertia-gravity waves in corresponding small/finite Burger number regimes, respectively. The quasi-geostrophic subinertial currents on the west Florida shelf are probably associated with the synoptic wind-forced flow, whereas the frontal-geostrophic currents are related to the evolution of density fronts. Further details of this conceptual view should, however, be elucidated in the future.
Keywords: GRAVITY-WAVES; HARMONIC-ANALYSIS; OCEAN; GENERATION; PATHWAYS; SPECTRUM