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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 793 records · Page 44
All sourcesNASA NTRSDOE OSTI
DOE OSTI2018

ICON-A, the Atmosphere Component of the ICON Earth System Model: I. Model Description

ICON–A is the new icosahedral nonhydrostatic (ICON) atmospheric general circulation model in a configuration using the Max Planck Institute physics package, which originates from the ECHAM6 general circulation model, and has been adapted to account for the changed dynamical core framework. The coupling scheme between dynamics and physics employs a sequential updating by dynamics and physics, and a fixed sequence of the physical processes similar to ECHAM6. To allow a meaningful initial comparison between ICON–A and the established ECHAM6–LR model, a setup with similar, low resolution in terms of number of grid points and levels is chosen. The ICON–A model is tuned on the base of the Atmospheric Model Intercomparison Project (AMIP) experiment aiming primarily at a well balanced top–of atmosphere energy budget to make the model suitable for coupled climate and Earth system modeling. The tuning addresses first the moisture and cloud distribution to achieve the top–of–atmosphere energy balance, followed by the tuning of the parameterized dynamic drag aiming at reduced wind errors in the troposphere. The resulting version of ICON–A has overall biases, which are comparable to those of ECHAM6. Problematic specific biases remain in the vertical distribution of clouds and in the stratospheric circulation, where the winter vortices are too weak. Biases in precipitable water and tropospheric temperature are, however, reduced compared to the ECHAM6. As a result, ICON–A will serve as the basis of further development and as the atmosphere component to the coupled model, ICON–Earth system model (ESM).

54 ENVIRONMENTAL SCIENCES↗
DOE OSTI2016

Reaction paths of phosphine dissociation on silicon (001)

Using density functional theory and guided by extensive scanning tunneling microscopy (STM) image data, we formulate a detailed mechanism for the dissociation of phosphine (PH{sub 3}) molecules on the Si(001) surface at room temperature. We distinguish between a main sequence of dissociation that involves PH{sub 2}+H, PH+2H, and P+3H as observable intermediates, and a secondary sequence that gives rise to PH+H, P+2H, and isolated phosphorus adatoms. The latter sequence arises because PH{sub 2} fragments are surprisingly mobile on Si(001) and can diffuse away from the third hydrogen atom that makes up the PH{sub 3} stoichiometry. Our calculated activation energies describe the competition between diffusion and dissociation pathways and hence provide a comprehensive model for the numerous adsorbate species observed in STM experiments.

37 INORGANIC, ORGANIC, PHYSICAL, AND ANALYTICAL CH↗
DOE OSTI2021

Preliminary Experiences with the Rexon UL-320-FDR: An Automated Thermoluminescent Dosimeter Reader with Removable Contact Heating Planchets and an Infrared Temperature Feedback System

The Rexon UL-320 FDR is a novel resistive-heating thermoluminescent dosimeter reader with a unique temperature measurement system and an automated dosimeter processing mechanism. The removable contact heating planchets have black-body adhesives on the back for capturing temperature information with infrared sensors. A heating cycle feedback loop ensures accurate, precise, and reproducible heating sequences. Heating rates between 0.8 and 40°C s -1 for up to 1,000 s are possible. Photomultiplier tube sensitivity and drift, dark current counts, and planchet glow were measured experimentally. Additionally, 25 LiF:Mg,Ti dosimeters were calibrated to demonstrate reader performance. Sensitivity was optimized at 1,200 V, which produced the highest reference light count to dark current count ratio while extending photomultiplier tube life. Dark current counts measured with typical time-temperature profiles for LiF:Mg,Ti were below 10 counts per channel but increased by up to 2.5% for more extreme heating cycles. Reader sensitivity drifts of up to 10% were observed during extended automated operations with typical time-temperature profiles. Total counts resulting from planchet glow decreased with faster heating rates. Calibrations performed with LiF:Mg,Ti dosimeters yielded results comparable to more established reader designs. Spikes were observed in ~3% of the glow curves from planchet dust and oil burning off at elevated temperatures. The use of N 2 gas and sensitivity drift corrections are recommended to improve dosimetry performance for the UL-320 FDR reader.

61 RADIATION PROTECTION AND DOSIMETRY↗
DOE OSTI2019

Nonconforming Mesh Refinement for High-Order Finite Elements

In this study, we propose a general algorithm for nonconforming adaptive mesh refinement (AMR) of unstructured meshes in high-order finite element codes. Our focus is on $h$-refinement with a fixed polynomial order. The algorithm handles triangular, quadrilateral, hexahedral, and prismatic meshes of arbitrarily high-order curvature, for any order finite element space in the de Rham sequence. We present a flexible data structure for meshes with hanging nodes and a general procedure to construct the conforming interpolation operator, both in serial and in parallel. The algorithm and data structure allow anisotropic refinement of tensor product elements in two and three dimensions and support unlimited refinement ratios of adjacent elements. We report numerical experiments verifying the correctness of the algorithms and perform a parallel scaling study to show that we can adapt meshes containing billions of elements and run efficiently on 393,000 parallel tasks. Finally, we illustrate the integration of dynamic AMR into a high-order Lagrangian hydrodynamics solver.

97 MATHEMATICS AND COMPUTING↗
DOE OSTI2021

Exosomes secreted from mesenchymal stem cells mediate the regeneration of endothelial cells treated with rapamycin by delivering pro-angiogenic microRNAs

Highlights: • MSC-derived exosomes play an important role in promoting endothelial regeneration treated with rapamycin in vitro. • A distinct class of exosomal miRNAs is identified to be tightly related to endothelial regeneration. • The therapeutic effects of MSC-exosomes may be ascribed to the delivery of pro-angiogenic miRNAs to endothelial cells. • MSC-exosomes may serve as a cell-free therapy for clinical treatment of delayed endothelial healing after DES implantation. Delayed endothelial healing after drug eluting stent (DES) implantation is a critical clinical problem in treatment of coronary artery diseases. Exosomes exhibit proangiogenic potential in a variety of ischemic diseases. However, the association of exosomes with endothelial regeneration after DES implantation has been rarely reported. In this study, we aimed to investigate the therapeutic effects of mesenchymal stem cell (MSC)-derived exosomes on endothelial cells treated with rapamycin and explore the potential mechanisms of MSC-derived exosomes in promoting endothelial regeneration. Exosomes were isolated from MSCs by ultracentrifugation and identified by transmission electron microscopy, nanoparticle tracking analysis, and Western blot assay. The in vitro effects of MSC-derived exosomes on the proliferation and migration of endothelial cells treated with rapamycin were evaluated by integrated experiment, cell counting kit-8, scratch, tube formation, and transwell assays. And the apoptosis of rapamycin-induced endothelial cells loaded with MSC-derived exosomes was detected using TUNEL and Annexin-V FITC and PI double-staining assays. The microRNA (miRNA) cargo of MSC-derived exosomes was identified by high-throughput RNA sequencing. Pro-angiogenic miRNAs and key pathways were further characterized. Our results indicated that MSC-derived exosomes could be ingested into umbilical vein endothelial cells (HUVECs) and significantly enhanced cell proliferation rate, migratory and tube-forming capabilities in vitro. MSC-derived exosomes also inhibited the apoptosis of HUVECs induced by rapamycin. A distinct class of exosomal miRNAs was further identified, including six miRNAs tightly related to neovasculogenesis. Silencing the expression of exosomal miRNA-21–5p and let-7c-5p attenuated the pro-proliferative and pro-migratory capacity of MSC-derived exosomes. Moreover, functional enrichment analysis indicated that metabolic pathways might contribute to reendothelialization. This study highlights a proregenerative effect of MSC-derived exosomes in vitro, which may be partly explained by the delivery of pro-angiogenic miRNAs to endothelial cells.

60 APPLIED LIFE SCIENCES↗
DOE OSTI2017

The Dynameomics Entropy Dictionary: A Large-Scale Assessment of Conformational Entropy across Protein Fold Space

Molecular dynamics (MD) simulations contain considerable information with regard to the motions and fluctuations of a protein, the magnitude of which can be used to estimate conformational entropy. In this report we survey conformational entropy across protein fold space using the Dynameomics database, which represents the largest existing data set of protein MD simulations for representatives of essentially all known protein folds. We provide an overview of MD-derived entropies accounting for all possible degrees of dihedral freedom on an unprecedented scale. Although different side chains might be expected to impose varying restrictions on the conformational space that the backbone can sample, we found that the backbone entropy and side chain size are not strictly coupled. An outcome of these analyses is the Dynameomics Entropy Dictionary, the contents of which have been compared with entropies derived by other theoretical approaches and experiment. As might be expected, the conformational entropies scale linearly with the number of residues, demonstrating that conformational entropy is an extensive property of proteins. The calculated conformational entropies of folding agree well with previous estimates. Detailed assessment of specific cases identifies deviations in conformational entropy from the average values that highlight how conformational entropy varies with sequence, secondary structure, and tertiary fold. Of interest, α-helices have lower entropy on average than do β-sheets, and both are lower than coil regions.

37 INORGANIC, ORGANIC, PHYSICAL, AND ANALYTICAL CH↗
DOE OSTI2016

Ultrafast photodynamics of pyrazine in the vacuum ultraviolet region studied by time-resolved photoelectron imaging using 7.8-eV pulses

The ultrafast electronic dynamics of pyrazine (C{sub 4}N{sub 2}H{sub 4}) were studied by time-resolved photoelectron imaging (TRPEI) using the third (3ω, 4.7 eV) and fifth harmonics (5ω, 7.8 eV) of a femtosecond Ti:sapphire laser (ω). Although the photoionization signals due to the 5ω − 3ω and 3ω − 5ω pulse sequences overlapped near the time origin, we have successfully extracted their individual TRPEI signals using least squares fitting of the observed electron kinetic energy distributions. When the 5ω pulses preceded the 3ω pulses, the 5ω pulses predominantly excited the S{sub 4} (ππ{sup *}, {sup 1}B{sub 1u}+{sup 1}B{sub 2u}) state. The photoionization signal from the S{sub 4} state generated by the time-delayed 3ω pulses was dominated by the D{sub 3}({sup 2}B{sub 2g})←S{sub 4} photoionization process and exhibited a broad electron kinetic energy distribution, which rapidly downshifted in energy within 100 fs. Also observed were the photoionization signals for the 3s, 3p{sub z}, and 3p{sub y} members of the Rydberg series converging to D{sub 0}({sup 2}A{sub g}). The Rydberg signals appeared immediately within our instrumental time resolution of 27 fs, indicating that these states are directly photoexcited from the ground state or populated from S{sub 4} within 27 fs. The 3s, 3p{sub z}, and 3p{sub y} states exhibited single exponential decay with lifetimes of 94 ± 2, 89 ± 2, and 58 ± 1 fs, respectively. With the reverse pulse sequence of 3ω − 5ω, the ultrafast internal conversion (IC) from S{sub 2}(ππ{sup *}) to S{sub 1}(nπ{sup *}) was observed. The decay associated spectrum of S{sub 2} exhibited multiple bands ascribed to D{sub 0}, D{sub 1}, and D{sub 3}, in agreement with the 3ω-pump and 6ω-probe experiment described in our preceding paper [T. Horio et al., J. Chem. Phys. 145, 044306 (2016)]. The electron kinetic energy and angular distributions from S{sub 1} populated by IC from S{sub 2} are also discussed.

37 INORGANIC, ORGANIC, PHYSICAL, AND ANALYTICAL CH↗
DOE OSTI2014

Semiautomatic segmentation of aortic valve from sequenced ultrasound image using a novel shape-constraint GCV model

Purpose: Effective and accurate segmentation of the aortic valve (AV) from sequenced ultrasound (US) images remains a technical challenge because of intrinsic factors of ultrasound images that impact the quality and the continuous changes of shape and position of segmented objects. In this paper, a novel shape-constraint gradient Chan-Vese (GCV) model is proposed for segmenting the AV from time serial echocardiography. Methods: The GCV model is derived by incorporating the energy of the gradient vector flow into a CV model framework, where the gradient vector energy term is introduced by calculating the deviation angle between the inward normal force of the evolution contour and the gradient vector force. The flow force enlarges the capture range and enhances the blurred boundaries of objects. This is achieved by adding a circle-like contour (constructed using the AV structure region as a constraint shape) as an energy item to the GCV model through the shape comparison function. This shape-constrained energy can enhance the image constraint force by effectively connecting separate gaps of the object edge as well as driving the evolution contour to quickly approach the ideal object. Because of the slight movement of the AV in adjacent frames, the initial constraint shape is defined by users, with the other constraint shapes being derived from the segmentation results of adjacent sequence frames after morphological filtering. The AV is segmented from the US images by minimizing the proposed energy function. Results: To evaluate the performance of the proposed method, five assessment parameters were used to compare it with manual delineations performed by radiologists (gold standards). Three hundred and fifteen images acquired from nine groups were analyzed in the experiment. The area-metric overlap error rate was 6.89% ± 2.88%, the relative area difference rate 3.94% ± 2.63%, the average symmetric contour distance 1.08 ± 0.43 mm, the root mean square symmetric contour distance 1.37 ± 0.52 mm, and the maximum symmetric contour distance was 3.57 ± 1.72 mm. Conclusions: Compared with the CV model, as a result of the combination of the gradient vector and neighborhood shape information, this semiautomatic segmentation method significantly improves the accuracy and robustness of AV segmentation, making it feasible for improved segmentation of aortic valves from US images that have fuzzy boundaries.

62 RADIOLOGY AND NUCLEAR MEDICINE↗
DOE OSTI2024

Methane-cycling microbial communities from Amazon floodplains and upland forests respond differently to simulated climate change scenarios

Seasonal floodplains in the Amazon basin are important sources of methane (CH 4 ), while upland forests are known for their sink capacity. Climate change effects, including shifts in rainfall patterns and rising temperatures, may alter the functionality of soil microbial communities, leading to uncertain changes in CH 4 cycling dynamics. To investigate the microbial feedback under climate change scenarios, we performed a microcosm experiment using soils from two floodplains (i.e., Amazonas and Tapajós rivers) and one upland forest. We employed a two-factorial experimental design comprising flooding (with non-flooded control) and temperature (at 27 °C and 30 °C, representing a 3 °C increase) as variables. We assessed prokaryotic community dynamics over 30 days using 16S rRNA gene sequencing and qPCR. These data were integrated with chemical properties, CH 4 fluxes, and isotopic values and signatures. In the floodplains, temperature changes did not significantly affect the overall microbial composition and CH 4 fluxes. CH 4 emissions and uptake in response to flooding and non-flooding conditions, respectively, were observed in the floodplain soils. By contrast, in the upland forest, the higher temperature caused a sink-to-source shift under flooding conditions and reduced CH 4 sink capability under dry conditions. The upland soil microbial communities also changed in response to increased temperature, with a higher percentage of specialist microbes observed. Floodplains showed higher total and relative abundances of methanogenic and methanotrophic microbes compared to forest soils. Isotopic data from some flooded samples from the Amazonas river floodplain indicated CH 4 oxidation metabolism. This floodplain also showed a high relative abundance of aerobic and anaerobic CH 4 oxidizing Bacteria and Archaea. Taken together, our data indicate that CH 4 cycle dynamics and microbial communities in Amazonian floodplain and upland forest soils may respond differently to climate change effects. We also highlight the potential role of CH 4 oxidation pathways in mitigating CH 4 emissions in Amazonian floodplains.

16S rRNA sequencing↗
DOE OSTI2020

Frequent Fulcrum Functions: The Basics of SCALE’s Graphical User Interface [Slides]

This tutorial introduces the Fulcrum graphical user interface and the basic functions that enhance the common activities of creating, editing, navigating, executing, and visualizing SCALE input files. This tutorial will help you become familiar with the Fulcrum input file text editor and the integrated input development environment features of autocompletion, automatic checking, cursor context, and input navigation. In addition, the Fulcrum and SCALE runtime environment will be reviewed to improve the understanding of job execution workflow. This tutorial does not cover data and geometry plotting. Please see the Advanced User Interface Capabilities tutorial for details regarding plotting data and geometry. No prior experience with SCALE is required. You can follow along using SCALE 6.2 or 6.3-beta.

73 NUCLEAR PHYSICS AND RADIATION PHYSICS↗
DOE OSTI2020

9 Li($\textit{d,p}$) reaction as a specific probe of 10 Li, the paradigm of parity-inverted nuclei around the $\textit{N}$ = 6 closed shell

In this work, we show, within the framework of renormalized nuclear field theory and of the induced reaction surrogate formalism, that the highly debated 10 Li structure, studied in a recent high statistics 9 Li ($\textit{d,p}$) 10 Li one-neutron transfer experiment, is consistent with, or better, requires, the presence of a virtual 1/2 + state of similar single-particle strength than that of the 1/2 – resonance at 0.45 ± 0.03 MeV. Based on continuum spectroscopy self-energy techniques, we find that the physical mechanism responsible for parity inversion in $^{10}_3$Li is the same as that at the basis of the similar phenomenon observed in $^{11}_4$Be and as that needed in 11 Li to have an important $\textit{s}$-wave ground-state component. In particular the strong dynamical coupling between the $s_{1/2}$ and the $d_{5/2}$ states, mediated by the quadrupole vibration of the core 9 Li. A phenomenon which also affects the strength distribution of the $d_{5/2}$ state, in particular, in the energy range of 3–4.5 MeV. Furthermore, this mechanism is also consistent with the (normal) sequence of the $1_{p_{1/2}}$ and $2_{s_{1/2}}$ levels in the $\textit{N}$ = 7 isotones $^{12}_5$B and $^{13}_6$C. The main aim of the present Rapid Communication is that of treating structure and reactions on equal footing and in a common language. In other words, the calculation of the 9 Li ($\textit{d,p}$) 10 Li reaction as a single conceptual step from individual single-particle motion and collective vibrations to absolute double differential cross sections of renormalized virtual and resonant final states, which can be directly compared with experiment.

73 NUCLEAR PHYSICS AND RADIATION PHYSICS↗
DOE OSTI2020

APOGEE Net: Improving the Derived Spectral Parameters for Young Stars through Deep Learning

Machine learning allows for efficient extraction of physical properties from stellar spectra that have been obtained by large surveys. The viability of machine-learning approaches has been demonstrated for spectra covering a variety of wavelengths and spectral resolutions, but most often for main-sequence (MS) or evolved stars, where reliable synthetic spectra provide labels and data for training. Spectral models of young stellar objects (YSOs) and low-mass MS stars are less well-matched to their empirical counterparts, however, posing barriers to previous approaches to classify spectra of such stars. In this work, we generate labels for YSOs and low-mass MS stars through their photometry. We then use these labels to train a deep convolutional neural network to predict logg, T {sub eff}, and Fe/H for stars with Apache Point Observatory Galactic Evolution Experiment (APOGEE) spectra in the DR14 data set. This “APOGEE Net” has produced reliable predictions of logg for YSOs, with uncertainties of within 0.1 dex and a good agreement with the structure indicated by pre-MS evolutionary tracks, and it correlates well with independently derived stellar radii. These values will be useful for studying pre-MS stellar populations to accurately diagnose membership and ages.

79 ASTRONOMY AND ASTROPHYSICS↗
DOE OSTI2014

Comparisons of Shewanella strains based on genome annotations, modeling and experiments

Shewanella is a genus of facultatively anaerobic, Gram-negative bacteria that have highly adaptable metabolism which allows them to thrive in diverse environments. This quality makes them attractive target bacteria for research in bioremediation and microbial fuel cell applications. Constraint-based modeling is a useful tool for helping researchers gain insights into the metabolic capabilities of these bacteria. However, Shewanella oneidensis MR-1 is the only strain with a genome-scale metabolic model constructed out of the 22 sequenced Shewanella strains.

BINDING ENERGY↗
DOE OSTI2018

Transition of Site Programs and Implementation of Decommissioning Agent Oversight - 18653

San Onofre Nuclear Generating Station (SONGS), acting as the Decommissioning Agent (DA), retained its NRC License and contracted a Decommissioning General Contractor (DGC) to manage plant programs and execute the Demolition and Dismantlement (D and D) of the site. To support this effort, over twenty-one programs transitioned to the DGC, including Occupational Health and Safety, Radiation Protection, Maintenance, and Engineering. In addition, SONGS effected a cultural shift from an operating station performing work to one of overseeing it. The framework and road map for this kind of D and D model is new to the industry. This presentation shares the SONGS' experience and lessons learned associated with this transition. SONGS and the DGC entered an Agreement that established the contractual requirements and responsibilities of the parties, the Scope of Work, and the mechanisms to ensure effective transition of DA programs. As a part of defining the Scope of Work, the contract established functional areas and divisions of responsibilities divided into the roles of Governance, Oversight, Support, and Performance (GOSP). SONGS, as the site licensee, retained the Oversight Role, with exception of those areas that, as the licensee, would be considered 'non-transferrable'. Examples of those programs were Quality Assurance, Regulatory Affairs and the Employee Concerns Program. While the Company retained responsibility for those programs the DGC developed their own 'parallel' programs that the Company provided Oversight for. In 2017, SONGS completed program transition within one-year following the notice-to-proceed. The overall strategy was driven by three high-level principles: - Allow the DGC the most unfettered execution of the Scope of Work with limited interference and maximum self-governance. With the overriding principle that transitioned programs have a direct link to a basis in regulation or law. - Identify safety and compliance risks, and then bridge the transition of programs from the SONGS to the DGC such that identified risks are minimized and/or mitigated. - Allow the SONGS organization to transition from a Performance role to a primarily Oversight role as the DA. Working collaboratively with the DGC, programs were strategically grouped and sequenced for turnover. Central to the success of transition was fostering a collaborative environment with the DGC, facilitating knowledge transfer, applying schedule rigor, and keeping the team horizontally and vertically aligned to management expectations. SONGS achieved this alignment by embedding the formal process with management expectations for review and acceptance of proposed programs. SONGS' transitioned core programs to a general contractor and transition from a 'perform' organization to an 'oversight' organization. Lessons learned from this experience may benefit other nuclear generating station owners currently evaluating options for site D and D. (author)

12 MANAGEMENT OF RADIOACTIVE AND NON-RADIOACTIVE W↗
DOE OSTI2017

Prototype Design, Analysis, and Results for a Liquid Radiological Waste Control Room

Human factors researchers at Idaho National Laboratory are collaborating with a utility partner to address human factors in the modernization of their radiological waste control room. The collaborating utility, Palo Verde, plans to remove all control boards associated with the liquid radiological waste system, which include controls, indicators, and alarm systems, and replace them with modernized digital instrumentation and controls and displays. To be sure the new system either supports current operational performance or enhances it, researchers have carried out three planning and analysis activities: expert operator review, function allocation analysis, and human factor principles and design applications. Researchers utilized access to expert operators to gain information about the system. Operators were asked to detail a procedure exemplifying typical interactions with the liquid radiological waste system and provide it to Idaho National Laboratory with a list of functionalities to incorporate (Section 4.1). Later, operators were asked to provide additional feedback to inform a prototype with adequate realism to support sound analysis of the system design (Section 4.2). Other operators not associated with the utility partner were also involved in experiment design and prototype evaluation (Section 4.2). Due to the extent of the upgrade, care was given to measure the change in the operator’s role (Section 7). As part of the modernization, some plant systems are expected to be equipped with automation or sensors that send information directly to the control where previously operators were required to enter controlled areas to find the information. Such updates made slight changes to operator role requirements, but the impact was negligible. The way the system is operated will remain largely the same, but operator convenience and safety is expected to increase. Additionally, to map operator tasks during the selected procedure, an Operational Sequence Diagram was created (Section 7.1). The diagram helped to account for every interaction and piece of equipment needed to create the prototype design. Alternatively, the diagram can be created following the final design to identify any function reallocations due to redesign. Human factors principles were also applied to the design. An ergonomic assessment was performed on the workspace resulting in various recommendations for placing and designing the new workstation (Section 6). A 3 D mockup of the control room was created to depict the options available with in-depth descriptions of each. Furthermore the prototype design incorporates well known human factors principles. However, to be sure the principles are sound in the control room context, the researches have designed an experiment to measure the impact design decision has on operator performance. The experiment is described in detail in Section 5. Lastly, a tool emerged as this effort began called the NUREG 0711 Crosswalk (Section 8). The tool has multiple uses, but it was primarily intended to communicate how the researcher’s action directly mapped to specific results suggested in the Nuclear Regulatory Commission review guideline. The tool also maps how current results impact future decisions in the modernization process.

47 OTHER INSTRUMENTATION↗
DOE OSTI2018

Camelina sativa , an oilseed at the nexus between model system and commercial crop

The rapid assessment of metabolic engineering strategies in plants is aided by crops that provide simple, high throughput transformation systems, a sequenced genome, and the ability to evaluate the resulting plants in field trials. Camelina sativa provides all of these attributes in a robust oilseed platform. The ability to perform field evaluation of Camelina is a useful, and in some studies essential benefit that allows researchers to evaluate how traits perform outside the strictly controlled conditions of a greenhouse. In the field the plants are subjected to higher light intensities, seasonal diurnal variations in temperature and light, competition for nutrients, and watering regimes dictated by natural weather patterns, all which may affect trait performance. There are difficulties associated with the use of Camelina . The current genetic resources available for Camelina pale in comparison to those developed for the model plant Arabidopsis thaliana; however, the sequence similarity of the Arabidopsis and Camelina genomes often allows the use of Arabidopsis as a reference when additional information is needed. Camelina ’s genome, an allohexaploid, is more complex than other model crops, but the diploid inheritance of its three subgenomes is straightforward. The need to navigate three copies of each gene in genome editing or mutagenesis experiments adds some complexity but also provides advantages for gene dosage experiments. In conclusion, the ability to quickly engineer Camelina with novel traits, advance generations, and bulk up homozygous lines for small-scale field tests in less than a year, in our opinion, far outweighs the complexities associated with the crop.

59 BASIC BIOLOGICAL SCIENCES↗
DOE OSTI2018

Global identification of circular RNAs in chronic myeloid leukemia reveals hsa{sub c}irc{sub 0}080145 regulates cell proliferation by sponging miR-29b

Highlights: • A large number of circRNAs aberrantly expressed in chronic myeloid leukemia. • Top 20 aberrantly expressed interacted with leukemia-associated miRNAs. • hsa{sub c}irc{sub 0}080145 knockdown significantly suppressed CML cell proliferation. • hsa{sub c}irc{sub 0}080145 acts as an miR-29b sponge in CML. Circular RNAs (circRNAs) are a class of non-coding RNAs that participate in various biological processes and disease pathogenesis. However, the role of circRNAs in chronic myeloid leukemia (CML) remains largely unknown. In this study, high-throughput sequencing was performed to explore the expression profile of circRNAs in CML patients for the first time, and a large number of differentially expressed circRNAs were identified. In addition, we constructed potential circRNA-miRNA interaction networks in CML, including a detailed hsa{sub c}irc{sub 0}080145-mediated competing endogenous RNA (ceRNA) regulatory network. Furthermore, functional experiments demonstrated that hsa{sub c}irc{sub 0}080145 knockdown significantly suppressed CML cell proliferation and hsa{sub c}irc{sub 0}080145 regulated CML cell proliferation by acting as an miR-29b sponge.

60 APPLIED LIFE SCIENCES↗
DOE OSTI2020

QCD hidden-color hexadiquark in the core of nuclei

Hidden-color configurations are a key prediction of QCD with important physical consequences. In this work we examine a QCD color-singlet configuration in nuclei formed by combining six scalar [ud] diquarks in a strongly bound SU (3) C channel. The resulting hexadiquark state is a charge-2, spin-0, baryon number-4, isospin-0, color-singlet state. It contributes to alpha clustering in light nuclei and to the additional binding energy not saturated by ordinary nuclear forces in as well as the alpha-nuclei sequence of interest for nuclear astrophysics. We show that the strongly bound combination of six scalar isospin-0 [ud] diquarks within the nuclear wave function - relative to free nucleons - provides a natural explanation of the EMC effect measured by the CLAS collaboration's comparison of nuclear parton distribution function ratios for a large range of nuclei. Overall, these experiments confirmed that the EMC effect; i.e., the distortion of quark distributions within nuclei, is dominantly identified with the dynamics of neutron-proton (“isophobic”) short-range correlations within the nuclear wave function rather than proton-proton or neutron-neutron correlations.

73 NUCLEAR PHYSICS AND RADIATION PHYSICS↗