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Search indexed NASA NTRS and DOE OSTI research on propulsion, heat transfer, battery materials and energy systems. Follow report and document links to the original sources.

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460 records · Page 26
All sourcesNASA NTRSDOE OSTI
DOE OSTI2020

BinaryCIF and CIFTools—Lightweight, efficient and extensible macromolecular data management

3D macromolecular structural data is growing ever more complex and plentiful in the wake of substantive advances in experimental and computational structure determination methods including macromolecular crystallography, cryo-electron microscopy, and integrative methods. Efficient means of working with 3D macromolecular structural data for archiving, analyses, and visualization are central to facilitating interoperability and reusability in compliance with the FAIR Principles. We address two challenges posed by growth in data size and complexity. First, data size is reduced by bespoke compression techniques. Second, complexity is managed through improved software tooling and fully leveraging available data dictionary schemas. To this end, we introduce BinaryCIF, a serialization of Crystallographic Information File (CIF) format files that maintains full compatibility to related data schemas, such as PDBx/mmCIF, while reducing file sizes by more than a factor of two versus gzip compressed CIF files. Moreover, for the largest structures, BinaryCIF provides even better compression—factor ten and four versus CIF files and gzipped CIF files, respectively. Herein, we describe CIFTools, a set of libraries in Java and TypeScript for generic and typed handling of CIF and BinaryCIF files. Together, BinaryCIF and CIFTools enable lightweight, efficient, and extensible handling of 3D macromolecular structural data.

59 BASIC BIOLOGICAL SCIENCES↗
DOE OSTI2020

Modeling Functional Organic Chemistry in Arctic Rivers: An Idealized Siberian System

Rivers of the Arctic will become ever more important for the global climate, since they carry a majority of continental dissolved organic carbon flux into the rapidly changing polar ocean. Aqueous organics comprise a wide array of functional groups, several of which are likely to impact coastal and open water biophysical properties. Light attenuation, interfacial films, aerosol formation, gas release and momentum exchange can all be cited. We performed Lagrangian kinetic modeling for the evolution of riverine organic chemistry as the molecules in question make their way from the highlands to Arctic outlets. Classes as diverse as the proteins, sugars, lipids, re-condensates, humics, bio-tracers and small volatiles are all included. Our reduced framework constitutes an idealized northward flow driving a major hydrological discharge rate and primarily representing the Russian Lena. Mountainous, high solute and tundra sources are all simulated, and they meet up at several points between soil and delta process reactors. Turnover rates are parameterized beginning with extrapolated coastal values imposed along a limited tributary network, with connections between different terrestrial sub-ecologies. Temporal variation of our total dissolved matter most closely resembles the observations when we focus on the restricted removal and low initial carbon loads, suggesting relatively slow transformation along the water course. Thus, channel combinations and mixing must play a dominant role. Nevertheless, microbial and photochemical losses help determine the final concentrations for most species. Chemical evolution is distinct for the various functionalities, with special contributions from pre- and post-reactivity in soil and delta waters. Several functions are combined linearly to represent the collective chromophoric dissolved matter, characterized here by its absorption. Tributaries carry the signature of lignin phenols to segregate tundra versus taiga sources, and special attention is paid to the early then marine behaviors of low molecular weight volatiles. Heteropolycondensates comprise the largest percentage of reactive carbon in our simulations due to recombination/accumulation, and they tend to be preeminent at the mouth. Outlet concentrations of individual structures such as amino acids and absorbers lie above threshold values for biophysical influence, on the monolayer and light attenuation. The extent of coastal spreading is examined through targeted regional box modeling, relying on salinity and color for calibration. In some cases, plumes reach the scale of peripheral arctic seas, and amplification is expected during upcoming decades. Conclusions are mapped from the Lena to other boreal discharges, and future research questions are outlined regarding the bonding type versus mass release as permafrost degrades. Dynamic aqueous organic coupling is recommended for polar system models, from headwaters to coastal diluent.

54 ENVIRONMENTAL SCIENCES↗
DOE OSTI2022

The Role of Phytoplankton Biomacromolecules in Controlling Ocean Surface Roughness

Satellite altimetric data routinely map sea surface topography by measuring the ocean return signal. One source of altimeter measurement contamination occurs when the radar ocean backscatter becomes unusually large, a situation termed a Sigma-0 bloom. Past research suggests Sigma-0 blooms are associated with weak wind and natural surface slick conditions where capillary waves at the air–sea interface are suppressed. To date, no explicit connection between these conditions and Sigma-0 bloom presence has been provided. Using a series of simplified equations, our reduced model determines capillary wave heights from estimates of planktonic carbon concentrations and regional wind speed. Our results suggest that the radar signal reflection increases as capillary wave height decreases. This relationship depends on surfactant concentration, surfactant composition, and wind speed. Model sensitivity analysis indicates that the interface reflectivity depends on biological activity and wind speed. Our proposed simplified model provides a method to identify potential Sigma-0 bloom regions. We conclude that because of the demonstrated impact of biological surfactants on ocean roughness, it is necessary to consider the biological activity, i.e., phytoplankton bloom events, when interpreting signals from radar altimetry and when developing ocean hydrology models.

54 ENVIRONMENTAL SCIENCES↗
NASA NTRS2005

Nanofluidic size exclusion chromatograph for in site macrometer analyses

We are developing a nanofluidic size exclusion chromatograph system that can be incorporated into a miniature lab-on-a-chip devices which will provide detailed information on the geochemical and biological history of soil, ice, and water samples by identifying and qualifying a broad range of macromolecular polar and nonpolar organic compounds.

size exclusion chromatograph↗