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At least 685 records · Page 38

Available land for cellulosic biofuel production: a supply chain centered comparison

The land that is potentially available to produce dedicated cellulosic bioenergy crops, often referred to as 'marginal' land, depends heavily on the underlying assumptions used to classify and identify it. In this study we compare three definitions and types of marginal land to identify the interactions between the bioenergy landscape and the logistics networks needed for the biofuel supply chain. Typical studies of the scale, cost, and greenhouse gas (GHG) mitigation potential of cellulosic biofuel take a land-centered approach which may neglect to account for the trade-offs between establishing bioenergy crops and the supply chain design decisions needed to allow those crops to be converted to liquid fuel. A mathematical programming approach is used to minimize the total annualized cost of a large-scale field-to-product system producing bioethanol in the USA midwest. Results show that a high concentration of marginal land leads to efficient systems and that the bioenergy landscape design becomes increasingly important with a higher emphasis on GHG mitigation. Additionally, targeted landscape design (including fertilization) with a focus on fields with high soil carbon sequestration potential can greatly reduce the system-wide GHG emissions for only a small increase in the unit cost of biofuel.

09 BIOMASS FUELS↗

Theoretical evidence that root penetration ability interacts with soil compaction regimes to affect nitrate capture

Abstract Background and Aims Although root penetration of strong soils has been intensively studied at the scale of individual root axes, interactions between soil physical properties and soil foraging by whole plants are less clear. Here we investigate how variation in the penetration ability of distinct root classes and bulk density profiles common to real-world soils interact to affect soil foraging strategies. Methods We utilize the functional–structural plant model ‘OpenSimRoot’ to simulate the growth of maize (Zea mays) root systems with variable penetration ability of axial and lateral roots in soils with (1) uniform bulk density, (2) plow pans and (3) increasing bulk density with depth. We also modify the availability and leaching of nitrate to uncover reciprocal interactions between these factors and the capture of mobile resources. Key Results Soils with plow pans and bulk density gradients affected overall size, distribution and carbon costs of the root system. Soils with high bulk density at depth impeded rooting depth and reduced leaching of nitrate, thereby improving the coincidence of nitrogen and root length. While increasing penetration ability of either axial or lateral root classes produced root systems of comparable net length, improved penetration of axial roots increased allocation of root length in deeper soil, thereby amplifying N acquisition and shoot biomass. Although enhanced penetration ability of both root classes was associated with greater root system carbon costs, the benefit to plant fitness from improved soil exploration and resource capture offset these. Conclusions While lateral roots comprise the bulk of root length, axial roots function as a scaffold determining the distribution of these laterals. In soils with high soil strength and leaching, root systems with enhanced penetration ability of axial roots have greater distribution of root length at depth, thereby improving capture of mobile resources.

59 BASIC BIOLOGICAL SCIENCES↗

Information-incorporated gene network construction with FDR control

Abstract Motivation Large-scale gene expression studies allow gene network construction to uncover associations among genes. To study direct associations among genes, partial correlation-based networks are preferred over marginal correlations. However, FDR control for partial correlation-based network construction is not well-studied. In addition, currently available partial correlation-based methods cannot take existing biological knowledge to help network construction while controlling FDR. Results In this paper, we propose a method called Partial Correlation Graph with Information Incorporation (PCGII). PCGII estimates partial correlations between each pair of genes by regularized node-wise regression that can incorporate prior knowledge while controlling the effects of all other genes. It handles high-dimensional data where the number of genes can be much larger than the sample size and controls FDR at the same time. We compare PCGII with several existing approaches through extensive simulation studies and demonstrate that PCGII has better FDR control and higher power. We apply PCGII to a plant gene expression dataset where it recovers confirmed regulatory relationships and a hub node, as well as several direct associations that shed light on potential functional relationships in the system. We also introduce a method to supplement observed data with a pseudogene to apply PCGII when no prior information is available, which also allows checking FDR control and power for real data analysis. Availability and implementation R package is freely available for download at https://cran.r-project.org/package=PCGII.

59 BASIC BIOLOGICAL SCIENCES↗

The completed SDSS-IV extended baryon oscillation spectroscopic survey: pairwise-inverse probability and angular correction for fibre collisions in clustering measurements

ABSTRACT The completed extended Baryon Oscillation Spectroscopic Survey (eBOSS) catalogues contain redshifts of 344 080 quasars at 0.8 < z < 2.2, 174 816 luminous red galaxies between 0.6 < z < 1.0, and 173 736 emission-line galaxies over 0.6 < z < 1.1 in order to constrain the expansion history of the Universe and the growth rate of structure through clustering measurements. Mechanical limitations of the fibre-fed spectrograph on the Sloan telescope prevent two fibres being placed closer than 62 arcsec in a single pass of the instrument. These ‘fibre collisions’ strongly correlate with the intrinsic clustering of targets and can bias measurements of the two-point correlation function resulting in a systematic error on the inferred values of the cosmological parameters. We combine the new techniques of pairwise-inverse probability and the angular upweighting (PIP+ANG) to correct the clustering measurements for the effect of fibre collisions. Using mock catalogues, we show that our corrections provide unbiased measurements, within data precision, of both the projected $\rm {\mathit{ w}_p}\left(\mathit{ r}_p\right)$ and the redshift-space multipole ξ(ℓ = 0, 2, 4)(s) correlation functions down to $0.1\, h^{-1}{\rm Mpc}$, regardless of the tracer type. We apply the corrections to the eBOSS DR16 catalogues. We find that, on scales $s\gtrsim 20\, h^{-1}{\rm Mpc}$ for ξℓ, as used to make baryon acoustic oscillation and large-scale redshift-space distortion measurements, approximate methods such as nearest-neighbour upweighting are sufficiently accurate given the statistical errors of the data. Using the PIP method, for the first time for a spectroscopic program of the Sloan Digital Sky Survey, we are able to successfully access the one-halo term in the clustering measurements down to $\sim 0.1\, h^{-1}{\rm Mpc}$ scales. Our results will therefore allow studies that use the small-scale clustering to strengthen the constraints on both cosmological parameters and the halo occupation distribution models.

79 ASTRONOMY AND ASTROPHYSICS↗

Gap states and valley-spin filtering in transition metal dichalcogenide monolayers

The magnetically induced valley-spin filtering in transition metal dichalcogenide monolayers ($\textit{MX}_2$, where $\textit{M}$ = Mo, W and X = S, Se, Te) promises a new paradigm in information processing. However, the detailed understanding of this effect is still limited, regarding its underlying transport processes. As such, herein it is suggested that the filtering mechanism can be greatly elucidated by the concept of metal-induced gap states (MIGS), appearing in the electrode-terminated $\textit{MX}_2$ materials, i.e., the referential filter setup. In particular, the gap states are predicted here to mediate valley- and spin-resolved charge transport near the ideal electrode/$\textit{MX}_2$ interface, and therefore to initiate filtering. It is also argued that the role of MIGS increases when the channel length is diminished, as they begin to govern the overall valley-spin transport in the tunneling regime. In what follows, the presented study yields fundamental scaling trends for the valley-spin selectivity with respect to the intrinsic physics of the filter materials. As a result, it facilitates insight into the analyzed effects and provides design guidelines toward efficient valley-spin filter devices that are based on the discussed materials or other hexagonal monolayers with a broken inversion symmetry.

75 CONDENSED MATTER PHYSICS, SUPERCONDUCTIVITY AND↗

Nonlocal nucleon matrix elements in the rest frame

Extracting parton structure from lattice quantum chromodynamics (QCD) calculations requires studying the coordinate scale 𝑧 3 dependence of the matrix elements of bilocal operators. The most significant contribution comes from the 𝑧 3 dependence induced by ultraviolet (UV) renormalization of the Wilson line. We demonstrate that the next-to-leading order perturbative calculations of the renormalization factor can describe, to a few percent accuracy, the logarithm of the lattice QCD rest frame matrix elements with separations up to distances of 0.6 fm on multiple lattice spacings. The residual discrepancies can be modeled by a leading effect from the structure of the nucleon.

71 CLASSICAL AND QUANTUM MECHANICS, GENERAL PHYSIC↗

Towards Scalable 3D Integration of 2T-nC FeRAM with Hundreds of Layer Stacking

In this article, we study the limits of the number of capacitors and read history dependence in a 2T-nC ferroelectric random-access memory (FeRAM) cell, paving the way for its high-density integration toward hundreds of stacked layers. Through a comprehensive experimental and simulation study on the scaling behavior of the 2T-nC FeRAM architecture, we demonstrate: (i) successful fabrication of 2T-64C cells with robust memory operation and clearly distinguishable ‘0’ and ‘1’ states, even in 64- capacitor configurations; (ii) that the parasitic capacitance of the floating node originates predominantly from the linear component of the ferroelectric capacitor, and its impact on n-scaling—due to degraded sense margin—can be mitigated by floating unselected capacitors with enough TΩ isolation; (iii) that sharing write and read transistors among n capacitors introduces a read history dependence issue due to fluctuating floating node voltage (VFN); and (iv) that a proposed FN discharge scheme can effectively eliminate read-sequence dependence, at the cost of reduced read endurance.

36 MATERIALS SCIENCE↗

First Demonstration of Vertical 2T-nC FeRAM Hybrid Cell and its Scalability for High-Density 3D Ferroelectric Capacitor Memory

In this article, we perform a comprehensive experimental and modeling study into the scaling of vertical 2T-nC ferroelectric random-access memory (FeRAM) hybrid cell to demonstrate a high performance and high-density 3D capacitor memory. We demonstrate: i) first time successful integration of the vertical 2T-3C FeRAM cell by stacking the vertical metal-ferroelectricmetal (MFM) stack on top of Si CMOS transistors; ii) successful experimental operation of the memory cell, including the quasi-nondestructive read out (QNRO) of the polarization without write back after 106 read cycles; iii) the write bit line (WBL) heavily screens the coupling between neighboring strings, making it a minor concern; V ) aggressive stacking of the WBLs, i.e., number of MFMs in a string, could facilitate the self-boosting during write operation due to ferroelectric linear capacitance (CFE), which allows self-boosted inhibition for Vw/2 scheme and worsens the Vw/3 scheme as disturb increases to intolerable 2Vw/3; v) aggressive horizontal scaling significantly increases the read disturb to cells on neighboring planes due to capacitance between two WBLs (Cz).

42 ENGINEERING↗

Constraining the Multiscale Structure of Geophysical Fields in Machine Learning: The Case of Precipitation

The use of deep-learning algorithms for estimating the value of geophysical variables from remotely sensed information is rapidly expanding. The typical objective function minimized in such algorithms is the mean square error (MSE), which is known to lead to smooth estimates with compressed dynamical range as compared to the true distribution of the variable of interest. Here, we introduce and evaluate alternative objective functions, focusing on the retrieval of precipitation rates from satellite passive microwave radiometric measurements using a deep convolutional neural network. For this testbed application, the results show that explicitly imposing the preservation of the statistical distribution and spatial wavelet power spectrum of the target variable allows to accurately reproduce extreme values and sharp gradients across multiple scales in this study.

58 GEOSCIENCES↗

Demonstration of Vertical 2T-nC FeRAM Hybrid Cell and Its Scalability for High-Density 3-D Ferroelectric Capacitor Memory

In this work, we present a comprehensive experimental and modeling study on the scaling of vertical 2T-nC ferroelectric random access memory (FeRAM) hybrid cells, comprising n metal-ferroelectric–metal (MFM) capacitors, to demonstrate a high-performance and high-density 3-D capacitor memory. Our contributions include: 1) successful process integration of vertical 2T-3C FeRAM cells by stacking MFM structures on top of Si CMOS transistors; 2) experimental validation of memory cell functionality, confirming the feasibility of the vertical 2T-nC FeRAM architecture; 3) an analysis of scaling effects on parasitic capacitance in densely integrated 3-D arrays, using 3-D technology computer-aided design (TCAD) simulations; 4) exploration of aggressive stacking of write bitlines (WBLs) to enhance memory density, where ferroelectric linear capacitance ( C FE ) enables self-boosted inhibition under the V W /2 scheme, but renders the V W /3 scheme ineffective due to intolerable write disturbances; and 5) assessment of horizontal scaling, revealing significant increases in read disturbances caused by interplane capacitance between adjacent WBLs ( C Z ). This work represents an early exploration into the potential of 2T-nC FeRAM as a scalable and efficient 3-D memory solution.

42 ENGINEERING↗

Exploring Failure of Adhesively-Bonded Joints with Different Void Sizes at the Same Void Volume Fraction through A Micro-scale Numerical Modeling

This paper studied the effects of void sizes on the failure behavior of adhesively-bonded materials under global shear via micro-scale computational modeling. The numerical results indicate that large void sizes with increased distances between them at the same void volume fraction can alleviate the reduced joint strength of a weaker adherend-adhesive interface caused by interfacial voids. However, this is not the case for an adherend-adhesive interface with the interfacial tensile strength being sufficiently higher than the adhesive strength, showing the negligible effect on the joint strength due to various void sizes and the amount of interfacial voids. This preliminary investigation provides insightful information for scaling up the void size in the macro-scale computational modeling of joints, and enhances the understanding of the micro-mechanical adhesion in adherend-adhesive interfaces with different levels of bonding.

Qiao, Yao↗

Near-field probing of strong light-matter coupling in single IR antennae

Quantum well intersubband polaritons are traditionally studied in large scale ensembles, over many wavelengths in size.In this presentation, we demonstrate that it is possible to detect and investigate intersubband polaritons in a single sub-wavelength nanoantenna in the IR frequency range. We observe polariton formation using a scattering-type near-fieldmicroscope and nano-FTIR spectroscopy. In this work, we will discuss near-field spectroscopic signatures of plasmonic antennae withand without coupling to the intersubband transition in quantum wells located underneath the antenna. Evanescent fieldamplitude spectra recorded on the antenna surface show a mode anti-crossing behavior in the strong coupling case. Wealso observe a corresponding strong-coupling signature in the phase of the detected field. We anticipate that this near-fieldapproach will enable explorations of strong and ultrastrong light-matter coupling in the single nanoantenna regime,including investigations of the elusive effect of ISB polariton condensation.

36 MATERIALS SCIENCE↗

A package for renormalization group running in the SMEFT with sterile neutrinos

Abstract Sterile neutrinos are well-motivated beyond the Standard Model (BSM) particles. The Standard Model Effective Field Theory (SMEFT) augmented with these new fields is known as the $$\nu $$ ν SMEFT. We present the first code for solving the renormalization group equations (RGEs) of the $$\nu $$ ν SMEFT in an automated way. For this purpose, we have implemented the $$\nu $$ ν SMEFT as a new effective field theory (EFT) in the Wilson coefficient exchange format . Furthermore, we included anomalous dimensions depending on the gauge couplings and Yukawas in the python package . This novel version of allows a consistent inclusion of $$\nu $$ ν SMEFT renormalization group (RG) running effects above the electroweak (EW) scale in phenomenological studies involving sterile neutrinos. Moreover, this new release allows us to study EW, strong, and Yukawa running effects separately within the SMEFT.

72 PHYSICS OF ELEMENTARY PARTICLES AND FIELDS↗

Evaluating the Influence of Hemorheological Parameters on Circulating Tumor Cell Trajectory and Simulation Time

Extravasation of circulating tumor cells (CTCs) occurs primarily in the microvasculature, where flow and cell interactions significantly affect the blood rheology. Capturing cell trajectory at this scale requires the coupling of several interaction models, leading to increased computational cost that scales as more cells are added or the domain size is increased. In this work, we focus on micro-scale vessels and study the influence of certain hemorheological factors, including the presence of red blood cell aggregation, hematocrit level, microvessel size, and shear rate, on the trajectory of a circulating tumor cell. We determine which of the aforementioned factors significantly affect CTC motion and identify those which can potentially be disregarded, thus reducing simulation time. We measure the effect of these elements by studying the radial CTC movement and runtime at various combinations of these hemorheological parameters. To accurately capture blood flow dynamics and single cell movement, we perform high-fidelity hemodynamic simulations at a sub-micron resolution using our in-house fluid dynamics solver, HARVEY. We find that increasing hematocrit increases the likelihood of tumor cell margination, which is exacerbated by the presence of red blood cell aggregation. As microvessel diameter increases, there is no major CTC movement towards the wall; however, including aggregation causes the CTC to marginate quicker as the vessel size increases. Finally, as the shear rate is increased, the presence of aggregation has a diminished effect on tumor cell margination.

Roychowdhury, Sayan↗

mesoflow [SWR-22-56]

Mesoflow is a continuum scale simulation tool developed specifically for modeling transport and chemistry at the mesoscale. Our solver utilizes Cartesian block-structured adaptive mesh refinement to resolve complex surface morphologies (of catalysts/biomass particles among others) directly obtained from X-ray tomography data. An immersed boundary based formulation enables rapid representation of complex geometries prevalent in most mesoporous interfaces. The solver is developed on top of open-source performance portable library, AMReX, providing parallel execution capabilities on current and upcoming high-performance-computing (HPC) architectures. Our flexible software framework enables integration of complex chemical mechanisms at heterogenous interfaces and time-split algorithms for circumventing highly disparate reaction and flow time-scales. Our current studies indicate a ten-fold performance gain by using graphics-processing-units (GPU) compared to a single processor for representative problem sizes (2 million cell mesh).

Sitaraman, Hariswaran↗

Changing Trends in Drought Patterns over the Northeastern United States Using Multiple Large Ensemble Datasets

Since the infamous extreme drought of the 1960s, the climate of the northeastern United States (NEUS) has generally trended toward warmer and wetter conditions. Nonetheless, there is mounting evidence that short-term droughts will continue to pose a significant risk for this region. To better explore the processes governing events such as these, climate models have adopted more complex representations of the fully coupled atmosphere–land–ocean–sea ice system; however, large uncertainties in future projections still persist, with internal variability necessitating large ensembles to understand trends in both rare and high-impact extreme events such as rapidly developing droughts (a term here that includes flash droughts developing on monthly scales). In this study, seven large ensemble (LE) models are employed to answer the outstanding question: How are the frequency and character of drought in the NEUS changing under a warming climate? We find that most LE models indicate the NEUS will experience a long-term wetting trend with more “extremely wet” months, but also more frequent short-term extreme droughts. These changes are associated with increasing precipitation, atmospheric water demand, and climate variability. We also conclude that discrepant trends in precipitation and evapotranspiration variability will lead to increasing anticorrelation of these variables, which is relevant to the intensification of rapidly developing drought, particularly in the spring season. These changes are associated with an increase in evapotranspiration from plants, brought by an earlier emergence of the growing season and denser vegetation.

54 ENVIRONMENTAL SCIENCES↗

Comparative genomics reveals the high diversity and adaptation strategies of Polaromonas from polar environments

Abstract Background Bacteria from the genus Polaromonas are dominant phylotypes found in a variety of low-temperature environments in polar regions. The diversity and biogeographic distribution of Polaromonas have been largely expanded on the basis of 16 S rRNA gene amplicon sequencing. However, the evolution and cold adaptation mechanisms of Polaromonas from polar regions are poorly understood at the genomic level. Results A total of 202 genomes of the genus Polaromonas were analyzed, and 121 different species were delineated on the basis of average nucleotide identity (ANI) and phylogenomic placements. Remarkably, 8 genomes recovered from polar environments clustered into a separate clade (‘polar group’ hereafter). The genome size, coding density and coding sequences (CDSs) of the polar group were significantly different from those of other nonpolar Polaromonas . Furthermore, the enrichment of genes involved in carbohydrate and peptide metabolism was evident in the polar group. In addition, genes encoding proteins related to betaine synthesis and transport were increased in the genomes from the polar group. Phylogenomic analysis revealed that two different evolutionary scenarios may explain the adaptation of Polaromonas to cold environments in polar regions. Conclusions The global distribution of the genus Polaromonas highlights its strong adaptability in both polar and nonpolar environments. Species delineation significantly expands our understanding of the diversity of the Polaromonas genus on a global scale. In this study, a polar-specific clade was found, which may represent a specific ecotype well adapted to polar environments. Collectively, genomic insight into the metabolic diversity, evolution and adaptation of the genus Polaromonas at the genome level provides a genetic basis for understanding the potential response mechanisms of Polaromonas to global warming in polar regions.

54 ENVIRONMENTAL SCIENCES↗

AmeriFlux FLUXNET-1F US-Ton Tonzi Ranch

This is the AmeriFlux Management Project (AMP) created FLUXNET-1F version of the carbon flux data for the site US-Ton Tonzi Ranch. This is the FLUXNET version of the carbon flux data for the site US-Ton Tonzi Ranch produced by applying the standard ONEFlux (1F) software. Site Description - The Tonzi Ranch is located on the lower foothills of the Sierra Nevada Mountains. The site is classified as an oak savanna woodland (Davis et al, 2016) and is situated on privately owned land. This site is representative of the oak savanna ecosystem that rings the Great Central Valley of California and inhabits the lower reaches of the Sierra Nevada foothills. This ecosystem is a natural laboratory for studying how ecosystem scale carbon and water fluxes respond to environmental change. The temperatures range between 0 and 40 C, the autumn, winter and spring are wet and cool, while the summer growing season is hot, dry and rainless. The overstory is dominated by blue oak trees (40% of total vegetation) with intermittent grey pine trees (3 trees/ha). Understory species include a variety of grasses and herbs, including purple false brome, smooth cat's ear, and rose clover. These two distinctive layers operate in and out of phase from one another. Growing season of the understory is confined to the wet season only, typically from October to early May. In contrast, the deciduous blue oak trees are dormant and leafless during the rainy winter months. The trees tend to leaf out in March and reach maximum LAI in April. During the rainless summers, the grasses in the understory die and the leaves experience soil moisture deficit stress References Davis, F., et al. (2016). "Oak woodlands." Ecosystems of California: 509–529.

Ma, Siyan↗