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Development of three-dimensional models for WIPP performance assessment using PFLOTRAN - 15073

The Waste Isolation Pilot Plant (WIPP), located in southeastern New Mexico, has been developed by the U.S. Department of Energy (DOE) for the deep geologic disposal of transuranic (TRU) waste. WIPP performance assessment (PA) calculations estimate the probability and consequence of potential radionuclide releases from the repository to the accessible environment for a regulatory period of 10,000 years after facility closure. To date, WIPP PA calculations have employed multiple 2D numerical models requiring simplification of the mesh and processes. Introducing 3D numerical models within WIPP PA enables increasingly realistic representations of the WIPP subsurface domain and improved flexibility for incorporating relevant features. Furthermore, the increased computing capacity afforded by modern hardware architectures enables this 3D modeling. Modeling in 3D will be more flexible because less homogenization is required and better accuracy of the results can be obtained by making fewer assumptions and/or simplifications. The use of PFLOTRAN, a state-of-art massively parallel subsurface flow and reactive transport code, will enable this 3D modeling, and eliminate the need for multiple related, but decoupled 2D models. However, there are capabilities that PFLOTRAN must be demonstrated in order to fulfill requirements for WIPP PA. (authors)

12 MANAGEMENT OF RADIOACTIVE AND NON-RADIOACTIVE W↗

The volcanic signal in Goddard Institute for Space Studies three-dimensional model simulations

Transient calculations of the Goddard Institute for Space Studies general circulation model for the climatic signal of volcanic eruptions are analyzed. By compositing the output for two different volcanoes for scenario A and five different volcanoes for scenario B, the natural variability is suppressed and the volcanic signals are extracted. Significant global mean surface air temperature cooling and precipitation reduction are found for several years following the eruptions, with larger changes in the Northern Hemisphere (NH) than in the Southern Hemisphere. The global-average temperature response lasts for more than four years, but the precipitation response disappears after three years. The largest cooling in the model occurs in the NH summer of the year after spring eruptions. Significant zonal-average temperature reductions begin in the tropics immediately after the eruptions and extend to 45 deg S - 45 deg N in the year after the eruptions. In the second year, cooling is still seen from 30 deg S to 30 deg N. Because of the low variability in this model as compared to the real world, these signals may appear more significant here than they would by attempting to isolate them using real data. The results suggest that volcanoes can enhance the drought in the Sahel. No evidence was found that stratospheric aerosols from the low-atitude volcanic eruptions can trigger El Nino-Southern Oscillation (ENSO) events in this model.

Robock, Alan↗

Interleukin 22 early affects keratinocyte differentiation, but not proliferation, in a three-dimensional model of normal human skin

Interleukin (IL)-22 is a pro-inflammatory cytokine driving the progression of the psoriatic lesion with other cytokines, as Tumor Necrosis Factor (TNF)-alpha and IL-17. Our study was aimed at evaluating the early effect of IL-22 alone or in combination with TNF-alpha and IL-17 by immunofluorescence on i) keratinocyte (KC) proliferation, ii) terminal differentiation biomarkers as keratin (K) 10 and 17 expression, iii) intercellular junctions. Transmission electron microscopy (TEM) analysis was performed. A model of human skin culture reproducing a psoriatic microenvironment was used. Plastic surgery explants were obtained from healthy young women (n=7) after informed consent. Fragments were divided before adding IL-22 or a combination of the three cytokines, and harvested 24 (T24), 48 (T48), and 72 (T72) h later. From T24, in IL-22 samples we detected a progressive decrease in K10 immunostaining in the spinous layer paralleled by K17 induction. By TEM, after IL-22 incubation, keratin aggregates were evident in the perinuclear area. Occludin immunostaining was not homogeneously distributed. Conversely, KC proliferation was not inhibited by IL-22 alone, but only by the combination of cytokines. Our results suggest that IL-22 affects keratinocyte terminal differentiation, whereas, in order to induce a proliferation impairment, a more complex psoriatic-like microenvironment is needed.

60 APPLIED LIFE SCIENCES↗

Development and validation of a black carbon mixing state resolved three-dimensional model: Aging processes and radiative impact

: A new two-dimensional aerosol bin scheme, which resolves both aerosol size and black carbon (BC) mixing state for BC aging processes (e.g., condensation and coagulation), has been developed and implemented into the WRF-chem model (MS-resolved WRF-chem). The mixing state of BC simulated by this model is compared with direct measurements over the East Asian region in spring 2009. Model simulations generally reproduce the observed features of the BC mixing state, such as the size-dependent number fractions of BC-containing and BC-free particles and the coating thickness of BC-containing particles. Sensitivity simulations show that the condensation process is dominant for the growth of thinly coated BC particles, while the coagulation process is necessary to produce thickly coated BC particles. Off-line optical and radiative calculations assuming an average mixing state for each size bin show that the domain- and period-averaged absorption coefficient and heating rate by aerosols are overestimated by 30 – 40% in the boundary layer compared with a benchmark simulation with the detailed treatment of mixing state. The absolute value of aerosol radiative forcing is also overestimated (10%, 3 W m-2) at the surface. However, these overestimations are reduced considerably when all the parameters (including mass and number concentration) are calculated with the simple treatment of mixing state. This is because the overestimation of radiative parameters due to higher absorption efficiency (compared with the benchmark simulation) is largely canceled by the underestimation of BC concentrations due to efficient wet removal processes. The overall errors in radiative forcing can be much smaller because of this cancellation but for the wrong reasons.

Matsui, H.↗

Three-dimensional modeling of hyphal fusion, branching, and nutrient transport in filamentous fungi

Fungi exhibit behaviors distinct from other microbes. Filamentous fungi grow by extending complex networks of branched filaments collectively referred to as the mycelium. These networks can expand over large distances and traverse low-nutrient areas by translocating nutrients through the filament network. This spatial characteristic makes filamentous fungi crucial for soil ecosystems, supporting stable microbial communities and promoting plant growth. However, simulating these behaviors is complex. The elongated nature of fungal compartments results in different mechanical interactions compared to the commonly modeled spherical bacteria. These detailed hyphal mechanics require specialized consideration and are often excluded from conventional fungal simulation packages. Additionally, the extensive fungal networks in nature demand computationally intensive simulations, necessitating high-performance algorithms. Therefore, realistic fungi simulations require specialized software. Here, we introduce a fungal modeling expansion to the high-performance biological modelling and interface exchange (bmx) software suite. bmx leverages adaptive mesh refinement in AMReX for chemical diffusion and incorporates a full mechanical model for bacterial cells, accelerated by GPUs. By extending bmx to model filamentous particles, we demonstrate the formation of complex filament networks through interactions like hyphal branching and fusion (anastomosis). We show that the networks produced match real-world fungal structures through various metrics. This work supports computational studies of fungal growth dynamics and can be adapted to investigate the growth of other filamentous structures in biology or materials science. The expanded-BMX package is open-sourced and is available online.

Cell mechanics↗

A three-dimensional model of terrain-induced updrafts for movement ecology studies

Abstract Background Spatially explicit simulation models of animal movements through the atmosphere necessarily require a representation of the spatial and temporal variation of atmospheric conditions. In particular, for movements of soaring birds that rely extensively on vertical updrafts to avoid flapping flight, accurate and reliable estimation of the vertical component of wind is critical. The interaction between wind and complex terrain shapes both the horizontal and vertical wind fields, highlighting the need to model the coupling between local terrain features and atmospheric conditions at scales relevant to animal movement. Methods In this work, we propose a new empirical model for estimating the orographic updraft field. The model is developed using computational fluid dynamics simulations of canonical atmospheric conditions over moderately complex terrain. To isolate buoyancy and thermal effects, and focus on terrain-induced effects, we use only simulations of a neutrally stratified atmosphere to develop the model. The model, which we name Engineering Vertical Velocity Estimator (EVVE), is simple to implement and is a function of the underlying terrain elevation map, the desired height above ground level (AGL), and wind conditions at a reference height (80 m). We validate the model with data from the Alaiz mountain (Spain) field campaign. Results Compared to observations, the proposed improved model estimates the updrafts at 120 m AGL with a mean error of 0.11 m/s ( $$\sigma =0.28$$ σ = 0.28 m/s), compared to 0.85 m/s ( $$\sigma =0.58$$ σ = 0.58 m/s) for its baseline. For typical land-based wind turbine hub heights of 80 m AGL, the proposed model has a mean error of 0.04 m/s ( $$\sigma =0.25$$ σ = 0.25 m/s), compared to baseline 0.54 m/s ( $$\sigma =0.45$$ σ = 0.45 m/s) estimations. We illustrate an application of the model in movement ecology by comparing simulated tracks and presence maps of golden eagles ( Aquila chrysaetos ) moving across two distinct landscapes. The tracks and presence maps are obtained using a simple heuristic-based movement model, with the updraft field given by the proposed model and a wind vector-based estimation approach that is currently in wide use in movement ecology studies of raptors and other soaring birds. Conclusions We highlight that movement model results can be sensitive to the underlying orographic updraft model, especially in studies of fine-scale movements in regions of complex topography. We suggest adopting the proposed model rather than the wind vector estimation method for studies of soaring bird movements.

17 WIND ENERGY↗

Three-dimensional modeling of electric-field enhancement in multilayer dielectric gratings arising from inadvertent flaws

Pulse-compression gratings for high-power, short-pulse laser systems are exposed to high electric fields that are further enhanced locally due to their 2D nanostructured surface. This makes them vulnerable to laser-induced damage. The present work considers the effect on electric-field modulation caused by an array of commonly found inadvertent flaws in gratings including fabrication defects, contamination particles, and laser-induced–damage initiation. These defects affect the laser-damage performance characteristics of the grating. To understand the local field-enhancement distribution due these imperfections, 3D modeling of the electric-field distribution is performed with a sufficiently high resolution of 1/74 of the laser wavelength ( λ ) while considering a volume of ≈489 λ 3 . The results provide estimates for the ensuing electric-field intensification and projected reduction of the laser-damage thresholds, as well as the anticipated pattern of damage growth initiation.

47 OTHER INSTRUMENTATION↗

A THREE-DIMENSIONAL MODEL OF ACTIVE REGION 7986: COMPARISON OF SIMULATIONS WITH OBSERVATIONS

In the present study, we use a forward modeling method to construct a 3D thermal structure encompassing active region 7986 of 1996 August. The extreme ultraviolet (EUV) emissions are then computed and compared with observations. The heating mechanism is inspired by a theory on Alfvén wave turbulence dissipation. The magnetic structure is built from a Solar and Heliospheric Observatory (SOHO)/MDI magnetogram and an estimated torsion parameter deduced from observations. We found that the solution to the equations in some locations is in a thermal nonequilibrium state. The time variation of the density and temperature profiles leads to time dependent emissions, which appear as thin, loop-like structures with uniform cross-section. Their timescale is consistent with the lifetime of observed coronal loops. The dynamic nature of the solution also leads to plasma flows that resemble observed coronal rain. The computed EUV emissions from the coronal part of the fan loops and the high loops compare favorably with SOHO/EIT observations in a quantitative comparison. However, the computed emission from the lower atmosphere is excessive compared to observations, a symptom common to many models. Some factors for this discrepancy are suggested, including the use of coronal abundances to compute the emissions and the neglect of atmospheric opacity effects.

79 ASTRONOMY AND ASTROPHYSICS↗