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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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At least 397 records · Page 22
All sourcesNASA NTRSDOE OSTI
NASA NTRS2021

Performance of a broad-band, high-resolution, transition-edge sensor spectrometer for X-ray astrophysics

Future X-ray astrophysics experiments require multiplexed readout of high fill-factor, kilo-pixel arrays of transition-edge sensors (TESs), with very high spectral resolution over a broad range of energies. In this paper we report on a prototype kilo-pixel array of Mo/Au TESs readout with 8-column by 32-row time-division multiplexing (TDM). This system is being used to demonstrate the critical detector and readout technology for ESA’s Athena X-IFU, and when complete will be used in laboratory astrophysics experiments. Our array and TDM readout have demonstrated a combined full-width-at-half-maximum energy resolution, including >200 pixels, of:1.95 eV for Ti-Ka(4.5 keV), 1.97eV for Mn-Ka(5.9 keV), 2.16 eV for Co-Kα(6.9 keV),2.33 eV for Cu-Kα(8 keV), 3.26 eV for Br-Kα(11.9 keV). The 1 sigma statistical errorsare£0.01 eV for all spectra. These results meet the broad-band resolution requirements for X-IFU with margin.

S J Smith↗
NASA NTRS1991

A silicone column for GC analysis of polar and nonpolar chemicals

The investigation of the Saturnian System is being proposed jointly by NASA and the European Space Agency (ESA). The mission is scheduled for a launch in 1996. The mission provides an opportunity for close observation and exploration of Saturn's atmosphere, the complex Saturnian System of satellites and rings, Titan (Saturn's planet-sized moon), and Saturn's magnetosphere. The mission gives special attention to Titan which is blanketed by a thick, opaque atmosphere. An atmospheric probe will be deposited into the Titan Atmosphere for in situ measurement during a slow, three hour descent to the surface. The results from this analysis may provide the information which is important to the research of chemical evolution, and the origin of life. An analytical system was developed as a part of the Titan Aerosol Gas Experiment (TAGEX), a proposed experiment for the Cassini Mission. This system will use two highly sensitive detectors, the Metastable Ionization Detector (MID) and the Ion Mobility Spectrometer (IMS). Unfortunately, when commercial columns are utilized with these highly sensitive detectors, volatile components continuously bleed from the column and interfere with the detector. In addition, light columns must be able to separate polar and nonpolar organic chemicals within 10-15 minutes under isothermal conditions for the Titan Mission. Therefore, a highly crosslinked silicone polymeric packed column was developed which is able to efficiently separate amines, alcohols, and hydrocarbons with retention times less that 15 minutes at 100 C isothermal condition.

Shen, T. C.↗
NASA NTRS2007

Chemical Data Assimilation Estimates of Continental US Ozone and Nitrogen Budgets during INTEX-A

Global ozone analyses, based on assimilation of stratospheric profile and ozone column measurements, and NOy predictions from the Real-time Air Quality Modeling System (RAQMS) are used to estimate the ozone and NOy budget over the Continental US during the July-August 2004 Intercontinental Chemical Transport Experiment-North America (INTEX-A). Comparison with aircraft, satellite, surface, and ozonesonde measurements collected during the INTEX-A show that RAQMS captures the main features of the global and Continental US distribution of tropospheric ozone, carbon monoxide, and NOy with reasonable fidelity. Assimilation of stratospheric profile and column ozone measurements is shown to have a positive impact on the RAQMS upper tropospheric/lower stratosphere ozone analyses, particularly during the period when SAGE III limb scattering measurements were available. Eulerian ozone and NOy budgets during INTEX-A show that the majority of the Continental US export occurs in the upper troposphere/lower stratosphere poleward of the tropopause break, a consequence of convergence of tropospheric and stratospheric air in this region. Continental US photochemically produced ozone was found to be a minor component of the total ozone export, which was dominated by stratospheric ozone during INTEX-A. The unusually low photochemical ozone export is attributed to anomalously cold surface temperatures during the latter half of the INTEX-A mission, which resulted in net ozone loss during the first 2 weeks of August. Eulerian NOy budgets are shown to be very consistent with previously published estimates. The NOy export efficiency was estimated to be 24 percent, with NOx+PAN accounting for 54 percent of the total NOy export during INTEX-A.

Pierce, Robert B.↗
DOE OSTI2021

Time-resolved particle image velocimetry measurements of the turbulent Richtmyer–Meshkov instability

Experiments are presented on the Richtmyer–Meshkov instability (RMI) with a three-dimensional, multi-mode initial perturbation. The experiments use a vertical shock tube, where a stably stratified interface is formed between air and sulphur hexafluoride (SF 6 ) via counterflow. A perturbation is imposed at the interface by vertical oscillation of the gas column, forming Faraday waves. The interface is accelerated by a Mach 1.17 (in air) shock wave, and the development of the mixing region between the gases is investigated using particle image velocimetry. Following shock acceleration, a reflected shock wave from the bottom of the shock tube interacts with the mixing layer a second time (reshock). The experiment is initialized with both high and low amplitude perturbations to examine the effect of the perturbation amplitude on measured quantities. The instability growth exponent (θ) is determined from the kinetic energy field using the width of the mixing layer and the decay of kinetic energy, which are found to be in agreement when the flow is most strongly excited. A growth exponent of θ ≈ 0.5 is found for all cases except the high-amplitude reshocked regime (where θ ≈ 0.33). High-amplitude experiments exhibit the transitional outer Reynolds number (Re ≡ hh˙/ν >10 4 ) required for mixing transition following the incident shock, and both experiments are elevated well above this threshold following reshock. However, neither set of experiments meet the more stringent requirements proposed by Zhou et al. (Phys. Rev.E, vol. 67, issue 5, 2003) which include the time dependent aspect of the RMI, an observation which is also made when examining the spectra.

42 ENGINEERING↗
NASA NTRS1997

Cloud Radiation Forcings and Feedbacks: General Circulation Model Tests and Observational Validation

Using an atmospheric general circulation model (the National Center for Atmospheric Research Community Climate Model: CCM2), the effects on climate sensitivity of several different cloud radiation parameterizations have been investigated. In addition to the original cloud radiation scheme of CCM2, four parameterizations incorporating prognostic cloud water were tested: one version with prescribed cloud radiative properties and three other versions with interactive cloud radiative properties. The authors' numerical experiments employ perpetual July integrations driven by globally constant sea surface temperature forcings of two degrees, both positive and negative. A diagnostic radiation calculation has been applied to investigate the partial contributions of high, middle, and low cloud to the total cloud radiative forcing, as well as the contributions of water vapor, temperature, and cloud to the net climate feedback. The high cloud net radiative forcing is positive, and the middle and low cloud net radiative forcings are negative. The total net cloud forcing is negative in all of the model versions. The effect of interactive cloud radiative properties on global climate sensitivity is significant. The net cloud radiative feedbacks consist of quite different shortwave and longwave components between the schemes with interactive cloud radiative properties and the schemes with specified properties. The increase in cloud water content in the warmer climate leads to optically thicker middle- and low-level clouds and in turn to negative shortwave feedbacks for the interactive radiative schemes, while the decrease in cloud amount simply produces a positive shortwave feedback for the schemes with a specified cloud water path. For the longwave feedbacks, the decrease in high effective cloudiness for the schemes without interactive radiative properties leads to a negative feedback, while for the other cases, the longwave feedback is positive. These cloud radiation parameterizations are empirically validated by using a single-column diagnostic model. together with measurements from the Atmospheric Radiation Measurement program and from the Tropical Ocean Global Atmosphere Combined Ocean-Atmosphere Response Experiment. The inclusion of prognostic cloud water produces a notable improvement in the realism of the parameterizations, as judged by these observations. Furthermore, the observational evidence suggests that deriving cloud radiative properties from cloud water content and microphysical characteristics is a promising route to further improvement.

Lee,Wan-Ho↗
NASA NTRS1988

Infrared measurements of column amounts of stratospheric constituents in the Antarctic winter, 1987

The discovery of Farman et al. of recent large depletions of ozone in the Antarctic stratosphere in the austral spring has aroused great interest because of its serious potential consequences, as well as its surprising nature. An airborne expedition, including 21 experiments on two aircraft, was mounted for Punta Arenas, Chile, in August and September, 1987, to gather a wide range of data to understand the origins and implications of this phenomenon, known as the ozone hole. As a part of this expedition, a high resolution Fourier transform spectrometer was flown on the DC-8, measuring the column amount of a number of trace gases above the flight altitude. Column results are presented only from the flight of September 21; results from other flights are included in an accompanying paper. The deduced column for ozone HCl, and NO2 deduced from the spectra, plotted as a function of latitude are shown. It should be noted that there are many other factors varying as well as the latitude, but latitude seems to be the variable which most clearly provides a passage across the vortex boundary. It can be seen that south 76 degrees S., the column of ozone, HCl, and NO2, all decreas markedly, The ratio of HCl to Hf, normally about 5:1 in midlatitudes, approaches unity. Clearly the chemistry of chlorine and nitrogen are disturbed in the region of low ozone. While dynamical theories could perhaps explain a reduction of these three gases in the same region, since all are of stratospheric origin, it is difficult to see how any purely dynamical mechanism could produce the observed HCl:HF ratio, since the two gases have similar origins. A close look at other species to be reported as well as the correlation with other measurements, such as ClO supports the conclusion that the ozone depletion is a result of chemical processes which deplete HCl and NOx relative to the midlatitude situation.

Mankin, William G.↗
DOE OSTI2023

Influence of Light Atoms on Quantification of Atomic Column Positions in Distorted Perovskites with HAADF-STEM

Measurement of picometer-scale atomic displacements by aberration-corrected STEM has become invaluable in the study of crystalline materials, where it can elucidate ordering mechanisms and local heterogeneities. HAADF-STEM imaging, often used for such measurements due to its atomic number contrast, is generally considered insensitive to light atoms such as oxygen. Light atoms, however, still affect the propagation of the electron beam in the sample and, therefore, the collected signal. In this work, we demonstrate experimentally and through simulations that cation sites in distorted perovskites can appear to be displaced by several picometers from their true positions in shared cation-anion columns. The effect can be decreased through careful choice of sample thickness and beam voltage or can be entirely avoided if the experiment allows reorientation of the crystal along a more favorable zone axis. Therefore, it is crucial to consider the possible effects of light atoms and crystal symmetry and orientation when measuring atomic positions.

36 MATERIALS SCIENCE↗
DOE OSTI2020

Reduce Operations: Send Volume Balancing While Minimizing Latency

Communication hypergraph model was introduced in a two-phase setting for encapsulating multiple communication cost metrics (bandwidth and latency), which are proven to be important in parallelizing irregular applications. In the first phase, computational-task-to-processor assignment is performed with the objective of minimizing total volume while maintaining computational load balance. In the second phase, communication-task-to-processor assignment is performed with the objective of minimizing total number of messages while maintaining communication-volume balance. The reduce-communication hypergraph model suffers from failing to correctly encapsulate send-volume balancing. We propose a novel vertex weighting scheme that enables part weights to correctly encode send-volume loads of processors for send-volume balancing. The model also suffers from increasing the total communication volume during partitioning. To decrease this increase, we propose a method that utilizes the recursive bipartitioning framework and refines each bipartition by vertex swaps. For performance evaluation, we consider column-parallel SpMV, which is one of the most widely known applications in which the reduce-task assignment problem arises. Extensive experiments on 313 matrices show that, compared to the existing model, the proposed models achieve considerable improvements in all communication cost metrics. Furthermore, these improvements lead to an average decrease of 30% in parallel SpMV time on 512 processors for 70 matrices with high irregularity.

97 MATHEMATICS AND COMPUTING↗
NASA NTRS1987

A comparison of SAGE 1, SBUV, and Umkehr ozone profiles including a search for Umkehr aerosol effects

Using a spatially weighted average for the stratospheric aerosol and gas experiment 1 (SAGE 1) events derived from an autocorrelation analysis, 337 colocated SAGE 1 and Umkehr ozone profiles are found. The total column ozone in layers two through nine measured by SAGE 1 is found to be 4.6 + or - 1.3 percent higher at the 95 percent confidence level than the approximate total column ozone measured by Umkehr. Average layer ozone differences indicate that most of this discrepancy resides in the lower layers. Intercomparison of SAGE 1, Nimbus 7 solar backscattered ultraviolet (SBUV), and Umkehr ozone at stations north of 30 deg indicates that, in layer six, Umkehr values are consistently higher than both SAGE 1 and SBUV by about 10 percent. In layer eight, SBUV ozone is higher than both SAGE 1 and SBUV by about 10 percent. In the upper stratosphere, the SAGE 1-Umkehr ozone differences are small for low stratospheric aerosol optical depth cases, but vary from -3 percent in layer six to -8 percent in layer nine for high optical depth cases.

Newchurch, M. J.↗
NASA NTRS1988

Airborne Oceanographic Lidar (AOL) flight mission participation

From February 1986 to the present, the AOL participated in six interagency flight missions. (1) Shelf Edge Exchange Processes (SEEP II) (Department of Energy). The SEEP experiments are designed to assess the assimilative capacity of the Continental Shelf to absorb the energy by-products introduced into the near-shore ocean environment from coastal communities and marine activities such as energy production plants and offshore oil operations. (2) BIOWATT II (Office of Naval Research). The major objective of this study was to provide a better understanding of the relationships between ocean physics, biology, bioluminescence, and optics in oligotrophic portions of the Atlantic Ocean. (3) Fall Experiment (FLEX) (Department of Energy). The FLEX studies were designed to determine the fate of low salinity water in the coastal boundary zone that is advected south towards the Florida coast during autumn. (4) Greenland Sea and Icelandic Marine Biological Experiments (NASA). The investigations were designed to evaluate the distribution of surface layer chlorophyll in the Greeland Sea and in the coastal waters in the vicinity of Iceland. (5) Submerged Oceanic Scattering Layer Experiment (Naval Ocean Systems Center). This flight experiment demonstrated for the first time the feasibility of detecting and metrically measuring the depth to submerged layers of particulate matter in the shelf break region and in the inner coastal zone. (6) Microbial Exchanges and Coupling in Coastal Atlantic Systems (National Science Foundation). This investigation was designed to study the transportation and fate of particulates in coastal waters and in particular the Chesapeake Bay/coastal Atlantic Ocean. Shortly after the conduct of the flight experiments, airborne laser-induced chlorophyll a and phycoerythrin fluorescence data, as well as sea surface temperature and airborne expendable bathythermograph water column temperature profiles are supplied to cooperating institutions.

Hoge, F. E.↗
NASA NTRS1992

Comet impacts and chemical evolution on the bombarded earth

Amino acids yields for previously published shock tube experiments are used with minimum Cretaceous-Tertiary (K/T) impactor mass and comet composition to predict AIB amino acid K/T boundary sediment column density. The inferred initial concentration of all amino acids in the K/T sea and in similar primordial seas just after 10 km comet impacts would have been at least 10 exp -7 M. However, sinks for amino acids must also be considered in calculating amino acid concentrations after comet impacts and in assessing the contribution of comets to the origin of life. The changing concentration of cometary amino acids due to ultraviolet light is compared with the equilibrium concentration of amino acids produced in the sea from corona discharge in the atmosphere, deposition in water, and degradation by ultraviolet light. Comets could have been more important than endogenous agents for initial evolution of amino acids. Sites favorable for chemical evolution of amino acids are examined, and it is concluded that chemical evolution could have occurred at or above the surface even during periods of intense bombardment of earth before 3.8 billion years ago.

Oberbeck, Verne R.↗
NASA NTRS1998

Nitrogen Species in the Post-Pinatubo Stratosphere: Model Analysis Utilizing UARS Measurements

We present an analysis of the impact of heterogeneous chemistry on the partitioning of nitrogen species measured by the Upper Atmosphere Research Satellite (UARS) instruments. The UARS measurements utilized include: N2O, HNO3 and ClONO2 (Cryogen Limb Array Etalon Spectrometer (CLAES), version 7), temperature, methane, ozone, H2O, HCl, NO and NO2 (HALogen Occultation Experiment (HALOE), version 18). The analysis is carried out for the data from January 1992 to September 1994 in the 100-1 mbar (approx.17-47 km) altitude range and over 10 degree latitude bins from 70degS to 70degN. Temporal-spatial evolution of aerosol surface area density (SAD) is adopted according to the Stratospheric Aerosol and Gas Experiment (SAGE) 11 data. A diurnal steady-state photochemical box model, constrained by the temperature, ozone, H2O, CH4, aerosol SAD and columns of O2 and O3 above the point of interest, has been used as the main tool to analyze these data. Total inorganic nitrogen (NO(y)) is obtained by three different methods: (1) as a sum of the UARS measured NO, NO2, HNO3, and ClONO2; (2) from the N2O-NO(y) correlation, and (3) from the CH4-NO(y) correlation. To validate our current understanding of stratospheric heterogeneous chemistry for post-Pinatubo conditions, the model-calculated NO(x)/NO(y) ratios and the NO, NO2, and HNO3 profiles are compared to the UARS-derived data. In general, the UARS-constrained box model captures the main features of nitrogen species partitioning in the post-Pinatubo years. However, the model underestimates the NO2 content, particularly, in the 30-7 mbar (approx. 23-32 km) range. Comparisons of the calculated temporal behavior of the partial columns of NO2 and HNO3 and ground based measurements at 45degS and 45degN are also presented. Our analysis indicates that ground-based and HALOE v. 18 measurements of the NO2 vertical columns are consistent within the range of their uncertainties and are systematically higher (up to 50%) than the model results at mid-latitudes in both hemispheres. Reasonable agreement is obtained for HNO3 columns at 45degS suggesting some problems with nitrogen species partitioning in the model. Outstanding uncertainties are discussed.

Danilin, M. Y.↗
NASA NTRS1998

Nitrogen Species in the Post-Pinatubo Stratosphere: Model Analysis Utilizing UARS Measurements

We present an analysis of the impact of heterogeneous chemistry on the partitioning of nitrogen species measured by the Upper Atmosphere Research Satellite (UARS) instruments. The UARS measurements utilized include: N2O, HNO3 and ClONO2 (Cryogen Limb Array Etalon Spectrometer (CLAES), version 7), temperature, methane, ozone, H2O, HCI, NO and NO2 (HALogen Occultation Experiment (HALOE), version 18). The analysis is carried out for the data from January 1992 to September 1994 in the 100-1 mbar (approximately 17-47 km) altitude range and over 10 degree latitude bins from 70 deg S to 70 deg N. Temporal-spatial evolution of aerosol surface area density (SAD) is adopted according to the Stratospheric Aerosol and Gas Experiment (SAGE) II data. A diurnal steady-state photochemical box model, constrained by the temperature, ozone, H2O, CH4, aerosol SAD and columns of O2 and O3 above the point of interest, has been used as the main tool to analyze these data. Total inorganic nitrogen (NOy) is obtained by three different methods: (1) as a sum of the UARS measured NO, NO2, HNO3, and CIONO2; (2) from the N2O-NOy correlation, (3) from the CH4-NOy correlation. To validate our current understanding of stratospheric heterogeneous chemistry for post-Pinatubo conditions, the model-calculated NOx/NOy ratios and the NO, NO2, and HNO3 profiles are compared to the UARS-derived data. In general, the UARS-constrained box model captures the main features of nitrogen species partitioning in the post-Pinatubo years. However, the model underestimates the NO2 content, particularly, in the 30-7 mbar (approximately 23-32 km) range. Comparisons of the calculated temporal behavior of the partial columns of NO2 and HNO3 and ground based measurements at 45 deg S and 45 deg N are also presented. Our analysis indicates that ground-based and HALOE v.18 measurements of the NO2 vertical columns are consistent within the range of their uncertainties and are systematically higher (up to 50%) than the model results at mid-latitudes in both hemispheres. Reasonable agreement is obtained for HNO3 columns at 45 deg S suggesting some problems with nitrogen species partitioning in the model. Outstanding uncertainties are discussed.

Danilin, M. Y.↗
NASA NTRSDate not supplied

Updated assessment of TROPOMI NO2 and HCHO columns using airborne spectrometers during the MOOSE and TRACER-AQ field campaigns

Airborne spectrometer data offers the opportunity to evaluate satellite product performance without the impact of subpixel heterogeneity between the different satellite and ground-based measurement footprints. Previous measurements during the Long Island Sound Tropospheric Ozone Study were used to evaluate TROPOMI’s v1.3 NO2 product and found very strong relationships (r2=0.96) between the airborne spectrometer and TROPOMI with a systematic low bias mostly attributed to the coarse a priori profile assumption within the standard TROPOMI retrieval. This presentation will update that analysis using the most up-to-date version 2 TROPOMI NO2 product as well as expand analysis to the HCHO product. In summer 2021, NASA GeoCAPE Airborne Simulator (GCAS) collected measurements over southeast Michigan/western Ontario for the Michigan-Ontario Ozone Source Experiment (MOOSE) and Houston, Texas during the TRacking Aerosol Convection ExpeRiment – Air Quality (TRACER-AQ). Flight strategies for both deployments included repeated systematic sampling over common areas of interest coinciding with TROPOMI. During these flights, GCAS NO2 tropospheric columns are available at 250 m x 560 m resolution. Preliminary evaluation of GCAS NO2 retrievals with Pandora spectrometer data in Houston, Texas (3 sites) shows a median percent difference of 1.4% with an interquartile range of -15.5-14.9% (r2=0.72). Column HCHO was also retrieved at a slightly coarser resolution in Houston, Texas (750 m x 1680 m) showing distinct spatial patterns associated with secondary production through the oxidation of VOCs downwind of industrial facilities. Comparison to Pandora HCHO showed a low bias of ~25% (r2=0.29) with further investigation needed to identify the cause for this bias. This presentation will share how the GCAS/Pandora/TROPOMI NO2 and HCHO intercompare and will also extend analysis toward thinking about how these assets will contribute to the validation of future geostationary observations.

Laura Judd↗
DOE OSTI2022

An analysis of fluff formation in metallic fuel via data analyzes from EBR-II experiments and BISON fuel code modeling

During the operation of EBR-II, it was found that a highly porous structure (over 40% area fraction) formed at the top of several fuel columns. Previous work has shown that this structure, designated fluff in this paper, contains a significant fraction of fuel elements (e.g., U and Pu) which could potentially impact neutronics. This work aims in analyzing the formation mechanism of this microstructure so its impact can be incorporated into future metallic fuel modeling codes and algorithms. This paper details a preliminary examination into the formation mechanisms of fluff by performing qualitative and statistical analysis of EBR-II experimental data. Additionally, the operating conditions that have the greatest impact on fluff formation were determined based on this data set. Also, BISON fuel code simulations were used to help postulate potential fluff formation mechanisms. From this analysis it was found that the largest contributors to fluff formation were fuel burnup and composition, with fluff formation exhibiting a roughly linear positive correlation with increasing burnup and a negative correlation with increasing Pu content. It was also found that higher pin operating temperatures decreased fluff formation but only for U-10Zr fuels.

11 NUCLEAR FUEL CYCLE AND FUEL MATERIALS↗
DOE OSTI2022

Idealized Simulations of the Tropical Climate and Variability in the Single Column Atmosphere Model (SCAM): Radiative-Convective Equilibrium

To explore the interactions among column processes in the Community Atmosphere Model (CAM), the single-column version of CAM (SCAM) is integrated for 1000 days in radiative-convective equilibrium (RCE) with tropical values of boundary conditions, spanning a parameter or configuration space of model physics versions (v5 vs. v6), vertical resolution (standard and 60 levels), sea surface temperature (SST), and some interpretation-driven experiments. The simulated time-mean climate is reasonable, near observations and RCE of a cyclic cloud-resolving model. Updraft detrainment in the deep convection scheme produces distinctive grid-scale structures in humidity and cloud, which also interact with radiative transfer processes. These grid artifacts average out in multi-column RCE results reported elsewhere, illustrating the nuts-and-bolts interpretability that SCAM adds to the hierarchy of model configurations. Multi-day oscillations of precipitation arise from descent of warm convection-capping layers starting near the tropopause, eventually reset by a burst of convective deepening. Experiments reveal how these oscillations depend critically on an internal parameter that controls the number of neutral buoyancy levels allowed for determining cloud top and computing dilute convective available potential energy in the deep convection scheme, and merely modified a little by disabling cloud-base radiation (heating of cloud base). This strong dependence of transient behavior in 1D on this parameter will be tested in the second part of this work, in which SCAM is coupled to a parameterized dynamics of two-dimensional, linearized gravity wave, and in the 3D simulations in future study.

Meteorology & Atmospheric Sciences↗
DOE OSTI2025

MINE: maximally informative next experiment—toward a new GWAS experimental design and methodology

Abstract The computational methodology of Genome Wide Association Studies (GWAS) currently has several limitations: (i) the number of observations (rows) on a quantitative trait tends to be smaller than the number of single nucleotide polymorphisms (SNPs) (columns) in the design matrix; (ii) each SNP is usually modeled separately, failing to acknowledge interaction between each other (ie epistasis); (iii) there is implicit linkage disequilibrium (LD) between neighboring SNPs due to their linkage. To overcome these issues, we developed a tool that uses ensemble methods to fit mixed linear models to GWAS data, and these ensemble methods include the development of a new experimental design approach in GWAS, which uses the resultant models and data to select the next informative experiment over time. This new adaptive and staged approach for GWAS experimental design was developed and tested in a 3 yr adaptive model-guided discovery experiment against a fixed classical design. In Sorghum bicolor a total of 79, 86, and 78 accessions were tested in years 1, 2, and 3, respectively out of 343 accessions available in the Bioenergy Association Panel (BAP) each identified for 232,303 SNPs, 1 every 2–3 kb in the genomes. We demonstrated the feasibility of MINE enacted with 8 people in the field per year over 3 yr vs in 1 large classical design enacted with 20 people in 1 yr. The MINE results for chromosomal regions identified controlling dry weight were confirmed against results from previous sorghum GWAS experiments and 1 large classical design for the BAP panel.

Genetics & Heredity↗