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At least 163 records · Page 9

Using peripheral blood circulating DNAs to detect CpG global methylation status and genetic mutations in patients with myelodysplastic syndrome

Highlights: Black-Right-Pointing-Pointer Circulating DNAs (CDs) can be used to detect genetic/epigenetic abnormalities in MDS. Black-Right-Pointing-Pointer Epigenetic changes can be detected more sensitively when using plasma DNA than PBMNC. Black-Right-Pointing-Pointer Mutation ratio in CDs may reflect the ratio in stem cell population in bone marrow. Black-Right-Pointing-Pointer Using CDs can be a safer alternate strategy compared to bone marrow aspiration. -- Abstract: Myelodysplastic syndrome (MDS) is a hematopoietic stem cell disorder. Several genetic/epigenetic abnormalities are deeply associated with the pathogenesis of MDS. Although bone marrow (BM) aspiration is a common strategy to obtain MDS cells for evaluating their genetic/epigenetic abnormalities, BM aspiration is difficult to perform repeatedly to obtain serial samples because of pain and safety concerns. Here, we report that circulating cell-free DNAs from plasma and serum of patients with MDS can be used to detect genetic/epigenetic abnormalities. The plasma DNA concentration was found to be relatively high in patients with higher blast cell counts in BM, and accumulation of DNA fragments from mono-/di-nucleosomes was confirmed. Using serial peripheral blood (PB) samples from patients treated with hypomethylating agents, global methylation analysis using bisulfite pyrosequencing was performed at the specific CpG sites of the LINE-1 promoter. The results confirmed a decrease of the methylation percentage after treatment with azacitidine (days 3-9) using DNAs from plasma, serum, and PB mono-nuclear cells (PBMNC). Plasma DNA tends to show more rapid change at days 3 and 6 compared with serum DNA and PBMNC. Furthermore, the TET2 gene mutation in DNAs from plasma, serum, and BM cells was quantitated by pyrosequencing analysis. The existence ratio of mutated genes in plasma and serum DNA showed almost equivalent level with that in the CD34+/38- stem cell population in BM. These data suggest that genetic/epigenetic analyses using PB circulating DNA can be a safer and painless alternative to using BM cells.

60 APPLIED LIFE SCIENCES↗

New candidates for regulated gene integrity revealed through precise mapping of integrative genetic elements

Abstract Integrative genetic elements (IGEs) are mobile multigene DNA units that integrate into and excise from host bacterial genomes. Each IGE usually targets a specific site within a conserved host gene, integrating in a manner that preserves target gene function. However, a small number of bacterial genes are known to be inactivated upon IGE integration and reactivated upon excision, regulating phenotypes of virulence, mutation rate, and terminal differentiation in multicellular bacteria. The list of regulated gene integrity (RGI) cases has been slow-growing because IGEs have been challenging to precisely and comprehensively locate in genomes. We present software (TIGER) that maps IGEs with unprecedented precision and without attB site bias. TIGER uses a comparative genomic, ping-pong BLAST approach, based on the principle that the IGE integration module (i.e. its int-attP region) is cohesive. The resultant IGEs from 2168 genomes, along with integrase phylogenetic analysis and gene inactivation tests, revealed 19 new cases of genes whose integrity is regulated by IGEs (including dut, eccCa1, gntT, hrpB, merA, ompN, prkA, tqsA, traG, yifB, yfaT and ynfE), as well as recovering previously known cases (in sigK, spsM, comK, mlrA and hlb genes). It also recovered known clades of site-promiscuous integrases and identified possible new ones.

59 BASIC BIOLOGICAL SCIENCES↗

A study of the nature of solid particle impact and shape on the erosion morphology of ductile metals

Impulsive versus steady jet impingement of spherical glass bead particles on metal surfaces was studied using a gas gun facility and a commercial sand blasting apparatus. Crushed glass particles were also used in the sand blasting apparatus as well as glass beads. Comparisons of the different types of erosion patterns were made. Scanning electron microscopy, surface profilometry and energy dispersive X-ray spectroscopy analysis were used to characterize erosion patterns. The nature of the wear can be divided into cutting and deformation, each with its own characteristic features. Surface chemistry analysis indicates the possibility of complex chemical and/or mechanical interactions between erodants and target materials.

Rao, P. V.↗

A study of the effect of solid particle impact and particle shape on the erosion morphology of ductile metals

Impulsive versus steady jet impingement of spherical glass bead particles on metal surfaces was studied using a gas gun facility and a commercial sand blasting apparatus. Crushed glass particles were also used in the sand blasting apparatus as well as glass beads. Comparisons of the different types of erosion patterns were made. Scanning electron microscopy, surface profilometry and energy dispersive X-ray spectroscopy analysis were used to characterize erosion patterns. The nature of the wear can be divided into cutting and deformation, each with its own characteristic features. Surface chemistry analysis indicates the possiblity of complex chemical and/or mechanical interactions between erodants and target materials.

Rao, P. V.↗

Gamma-Ray Burst Afterglows as Probes of Environment and Blast Wave Physics. II. The Distribution of rho and Structure of the Circumburst Medium

We constrain blast wave parameters and the circumburst media ofa subsample of 10 BeppoSAX gamma-ray bursts (GRBs). For this sample we derive the values of the injected electron energy distribution index, p, and the density structure index of the circumburst medium, k, from simultaneous spectral fits to their X-ray, optical, and NIR afterglow data. The spectral fits have been done in count space and include the effects ofmetallicity, and are compared with the previously reported optical and X-ray temporal behavior. Using the blast wave model and some assumptions which include on-axis viewing and standard jet structure, constant blast wave energy, and no evolution of the microphysical parameters, we find a mean value ofp for the sample as a whole of 9.... oa -0.003.0" 2 a_ statistical analysis of the distribution demonstrates that the p-values in this sample are inconsistent with a single universal value forp at the 3 _ level or greater, which has significant implications for particle acceleration models. This approach provides us with a measured distribution ofcircumburst density structures rather than considering only the cases of k ----0 (homogeneous) and k - 2 (windlike). We find five GRBs for which k can be well constrained, and in four of these cases the circumburst medium is clearly windlike. The fifth source has a value of 0 < k < 1, consistent with a homogeneous circumburst medium.

Starling, R. L. C.↗

Use of CaO as an activator for producing a price-competitive non-cement structural binder using ground granulated blast furnace slag

The use of calcium oxide (CaO) demonstrates a superior potential for the activation of ground granulated blast furnace slag (GGBFS), and it produces a higher mechanical strength than calcium hydroxide [Ca(OH){sub 2}]. The mechanical strength differences between CaO- and Ca(OH){sub 2}-activated GGBFS binders are explored using isothermal calorimetry, powder X-ray diffraction, thermogravimetric and differential thermal analysis (TGA and DTA) as well as compressive strength testing. Calcium silicate hydrate (C–S–H), Ca(OH){sub 2} and a hydrotalcite-like phase are found as reaction products in all samples. The TGA and DTA results indicate that the use of CaO produces more C–S–H, although this is not likely to be the primary cause of higher strength development in the CaO-activated GGBFS. Rather, other factors such as porosity may govern the strength at a higher order of magnitude. Significant reduction of Ca(OH){sub 2} occurs only with the use of Ca(OH){sub 2}, followed by the formation of carbonate (CaCO{sub 3}), indicating carbonation. -- Highlights: •CaO showed a better potential for the activation of GGBFS than Ca(OH){sub 2}. •Strength test, XRD, TGA/DTA and isothermal calorimetry are used. •C-S-H, Ca(OH){sub 2}, and a hydrotalcite-like phase are found in all samples. •The use of Ca(OH){sub 2} causes some degree of carbonation.

36 MATERIALS SCIENCE↗

Applying high resolution SyXRD analysis on sulfate attacked concrete field samples

High resolution synchrotron X-ray diffraction (SyXRD) was applied for a microstructural profile analysis of concrete deterioration after sulfate attack. The cement matrices consist of ordinary Portland cement and different amounts of supplementary cementitious materials, such as fly ash, natural pozzolana and granulated blast furnace slag. The changes of the phase composition were determined along the direction of sulfate ingress. This approach allows the identification of reaction fronts and zones of different phase compositions and conclusions about the mechanisms of sulfate attack. Two reaction fronts were localized in the initial 4 mm from the sample surface. The mechanism of deterioration caused by the exposition in the sulfate-bearing soil is discussed. SyXRD is shown to be a reliable method for investigation of cementitious materials with aggregates embedded in natural environments.

36 MATERIALS SCIENCE↗

Coronal and interplanetary Type 2 radio emission

Several observations suggest that the disturbances which generate coronal (meter wavelength) type II radio bursts are not driven by coronal mass ejections (CMEs). A new analysis using a large sample of metric radio bursts and associated soft X-ray events provides further support for the original hypothesis that type II-producing disturbances are blast waves generated at the time of impulsive energy release in flares. Interplanetary (IP) shocks, however, are closely associated with CMEs. The shocks responsible for IP type II events (observed at kilometer wavelengths) are associated with the most energetic CMEs.

Cane, H. V.↗

Explosion/Blast Dynamics for Constellation Launch Vehicles Assessment

An assessment methodology is developed to guide quantitative predictions of adverse physical environments and the subsequent effects on the Ares-1 crew launch vehicle associated with the loss of containment of cryogenic liquid propellants from the upper stage during ascent. Development of the methodology is led by a team at Sandia National Laboratories (SNL) with guidance and support from a number of National Aeronautics and Space Administration (NASA) personnel. The methodology is based on the current Ares-1 design and feasible accident scenarios. These scenarios address containment failure from debris impact or structural response to pressure or blast loading from an external source. Once containment is breached, the envisioned assessment methodology includes predictions for the sequence of physical processes stemming from cryogenic tank failure. The investigative techniques, analysis paths, and numerical simulations that comprise the proposed methodology are summarized and appropriate simulation software is identified in this report.

Baer, Mel↗

Surface analysis of grapite fiber reinforced polyimide composites. I

The results of experimental analyses of the effects of pretreatment on bonding between composite materials are reported. The materials comprised graphite fibers in a polyimide matrix. The surfaces were bonded as-received or subjected to grit blasting, bead blasting, hand sanding, washes with ethanolic KOH, NH2NH2-H2O or H2SO4 + 0.30 H2O2 or flashblasting. SEM and X-ray photoelectron spectroscopy revealed fluorine contents in the as-received samples. Contact angles were determined by means of five different liquids with various surface tensions. The flashblast technique removed all fluorine from the samples. Low critical surface tensions were found in the composite surfaces with high fluorine concentrations. The surface scanning techniques are concluded to be useful for studying factors influencing the strength and durability of adhesively bonded composites.

Messick, D. L.↗

Influence of limestone on the hydration of ternary slag cements

The hydration kinetics, microstructure and pore solution composition of ternary slag-limestone cement have been investigated. Commercial CEM I 52.5 R was blended with slag and limestone; maintaining a clinker to SCM ratio of 50:50 with up to 20% slag replaced by limestone. The sulphate content was maintained at 3% in all composite systems. Hydration was followed by a combination of isothermal calorimetry, chemical shrinkage, scanning electron microscopy, and thermogravimetric analysis. The hydration of slag was also followed by SEM image analysis and the QXRD/PONKCS method. The accuracy of the calibrated PONKCS phase was assessed on slag and corundum mixes of varying ratios, at different water/solid ratios. Thus, the method was used to analyse hydrated cement without dehydrating the specimens. The results show that the presence of limestone enhanced both clinker and slag hydration. The pore volume and pore solution chemistry were further examined to clarify the synergistic effects. The nucleation effects account for enhanced clinker hydration while the space available for hydrate growth plus the lowering of the aluminium concentration in the pore solution led to the improved slag hydration.

36 MATERIALS SCIENCE↗

Cost-Benefit Analysis For Alternative Low-Emission Surface Preparation/ Depainting Technologies for Structural Steel

Stennis Space Center (SSC), Kennedy Space Center (KSC) and Air Force Space Command (AFSPC) identified particulate emissions and waste generated from the depainting process of steel structures as hazardous materials to be eliminated or reduced. A Potential Alternatives Report, Potential Alternatives Report for Validation of Alternative Low Emission Surface Preparation/Depainting Technologies for Structural Steel, provided a technical analyses of identified alternatives to the current coating removal processes, criteria used to select alternatives for further analysis, and a list of those alternatives recommended for testing. The initial coating removal alternatives list was compiled using literature searches and stakeholder recommendations. The involved project participants initially considered approximately 13 alternatives. In late 2003, core project members selected the following depainting processes to be further evaluated: (1) Plastic Blast Media-Quickstrip(R)-A. (2) Hard Abrasive-Steel-Magic(R). (3) Sponge Blasting-Sponge-Jet(R). (4) Liquid Nitrogen-NItroJet(R). (5) Mechanical Removal with Vacuum Attachment-DESCO and OCM Clean-Air (6) Laser Coating Removal Alternatives were tested in accordance with the Joint Test Protocol for Validation of Alternative Low-Emission Surface Preparation/Depainting Technologies for Structural Steel, and the Field Evaluation Test Plan for Validation of Alternative Low-Emission Surface Preparation/Depainting Technologies for Structural Steel. Results of the testing are documented in the Joint Test Report. This Cost-Benefit Analysis (CBA) focuses on the three alternatives (Quickstrip(R)-A, SteelMagic (R), and Sponge-Jet(R)) that were considered viable alternatives for large area operations based on the results of the field demonstration and lab testing. This CBA was created to help participants determine if implementation of the candidate alternatives is economically justified. Each of the alternatives examined reduced Environmental Activity (EA) Costs-those costs associated with complying with environmental regulations. One alternative, Steel-Magic(R), also showed reduced Direct Costs and reduced total costs.

Lewis, Pattie↗

Poplar

SAND2025-00683O Poplar is a software tool that generates a phylogenetic tree from input gene and genome sequences. It integrates established tools to identify genes within genomes, group sequences, construct gene trees, and infer a species tree. Poplar processes nucleotide sequences, identifies similar sequences using Nucleotide BLAST, groups them with DBSCAN, aligns sequences with MAFFT, constructs gene trees with RAxML-NG, and infers a species tree using ASTRAL-Pro3. This pipeline provides a structured approach to phylogenetic analysis, facilitating the study of evolutionary relationships among species. Sandia National Laboratories is a multimission laboratory managed and operated by National Technology & Engineering Solutions of Sandia, LLC, a wholly owned subsidiary of Honeywell International Inc., for the U.S. Department of Energy’s National Nuclear Security Administration under contract DE-NA0003525.

Krishnakumar, Raga↗

Effect of the inherent alkalis of alkali activated slag on the risk of alkali silica reaction

Alkali silica reaction (ASR) occurred in the alkali activated slag (AAS) concrete was evaluated by a revised mortar prism method. The mortars were made of blast furnace slags activated by alkali silicate solution possessing different modulus (0.5, 0.75, 1 and 2) as well as cations (sodium and potassium) and standard sand with a volume replacement of 25 vol% by borosilicate glass beads. Their changes in length and dynamic elastic modulus were monitored up to 7 months. The results showed that ASR has taken place among some mortars, which were evident under both light microscopy and electron microscopy with EDX analysis. The results also revealed that high alkali content did promote the risk of ASR but the degradation due to ASR was affected in a much more complex way.

36 MATERIALS SCIENCE↗

Evolution of Chemical Conditions and Estimated Plutonium Solubility in the Residual Waste Layer During Post-Closure Aging of Tank 18

This document updates the Eh-pH transitions from grout aging simulations and the plutonium waste release model of Denham (2007, Rev. 1) based on new data. New thermodynamic data for cementitious minerals are used for the grout simulations. Newer thermodynamic data, recommended by plutonium experts (Plutonium Solubility Peer Review Report, LA-UR-12-00079), are used to estimate solubilities of plutonium at various pore water compositions expected during grout aging. In addition, a new grout formula is used in the grout aging simulations and apparent solubilities of coprecipitated plutonium are estimated using data from analysis of Tank 18 residual waste. The conceptual model of waste release and the grout aging simulations are done in a manner similar to that of Denham (2007, Rev. 1). It is assumed that the pore fluid composition passing from the tank grout into the residual waste layer controls the solubility, and hence the waste release concentration of plutonium. Pore volumes of infiltrating fluid of an assumed composition are reacted with a hypothetical grout block using The Geochemist's Workbench{reg_sign} and changes in pore fluid chemistry correspond to the number of pore fluid volumes reacted. As in the earlier document, this results in three states of grout pore fluid composition throughout the simulation period that are termed Reduced Region II, Oxidized Region II, and Oxidized Region III. The one major difference from the earlier document is that pyrite is used to account for reducing capacity of the tank grout rather than pyrrhotite. This poises Eh at -0.47 volts during Reduced Region II. The major transitions in pore fluid composition are shown. Plutonium solubilities are estimated for discrete PuO2(am,hyd) particles and for plutonium coprecipitated with iron phases in the residual waste. Thermodynamic data for plutonium from the Nuclear Energy Agency are used to estimate the solubilities of the discrete particles for the three stages of pore fluid evolution. In Denham (2007, Rev. 1), the solubilities in the oxidized regions were estimated at Eh values in equilibrium with dissolved oxygen. Here, these are considered to be maximum possible solubilities because Eh values are unlikely to be in equilibrium with dissolved oxygen. More realistic Eh values are estimated here and plutonium solubilities calculated at these are considered more realistic. Apparent solubilities of plutonium that coprecipitated with iron phases are estimated from Pu:Fe ratios in Tank 18 residual waste and the solubilities of the host iron phases. The estimated plutonium solubilities are shown. Uncertainties in the grout simulations and plutonium solubility estimates are discussed. The primary uncertainty in the grout simulations is that little is known about the physical state of the grout as it ages. The simulations done here are pertinent to a porous medium, which may or may not be applicable to fractured grout, depending on the degree and nature of the fractures. Other uncertainties that are considered are the assumptions about the reducing capacity imparted by blast furnace slag, the effects of varying dissolved carbon dioxide and oxygen concentrations, and the treatment of silica in the simulations. The primary uncertainty in the estimates of plutonium solubility is that little is known about the exact form of plutonium in the residual waste. Other uncertainties include those inherent in the thermodynamic data, pH variations from those estimated in the grout simulations, the effects of the treatment of silica in the grout simulations, and the effect of varying total dissolved carbonate concentrations. The objective of this document is to update the model for solubility controls on release of plutonium from residual waste in closed F-Area waste tanks. The update is based on new information including a new proposed grout formulation, chemical analysis of Tank 18 samples and more current thermodynamic data for plutonium and grout minerals. In addition, minor changes to the modeling of the grout chemical evolution have been made. It should be noted that the intent is to provide bounding solubilities for plutonium to be used in Performance Assessment modeling rather than trying to identify an exact concentration of plutonium in pore fluids released from a tank at any given time. This document also considers suggestions and opportunities for improvement regarding the plutonium modeling assumptions from the Plutonium Solubility Peer Review Report, LA-UR-12-00079.

12 MANAGEMENT OF RADIOACTIVE AND NON-RADIOACTIVE W↗

A fundamental approach to adhesion: Synthesis, surface analysis, thermodynamics and mechanics

The ability of SEM/EDAX to determine the physical and chemical composition of very small areas was used to study several diverse types of samples representative of NASA-LaRC technology. More systematic investigation was carried out on differences in the results of grit-blasting Ti 6-4 adherends and the presence of extraneous elements, primarily silicon, in some polymer/HT-S fiber composites. Initial results were obtained from a fractured (ILS) short-beam shear specimen, and from Ti 6-4 alloy, before and after a proprietary Boeing anodizing surface preparation for adhesive bonding. Photomicrographs and EDAX spectra were also obtained from new, fractured lap shear strength specimens that employed PPQ and LARC-13 adhesives.

Dwight, D. W.↗

Reduction Mechanism of Iron Oxide Briquettes by Carbonaceous Materials Extracted from Blast Furnace Dust

The reducibility of carbonaceous powder extracted from blast furnace dust was investigated. In this study, pickling treatment was used for BF bag dust and BF gravitational dust to extract the carbonaceous material. The structural characteristics of carbonaceous material were studied by X-ray diffraction, scanning electron microscope, and energy-dispersive spectrometer. The reduction of ferric oxide and carbon gasification experiments were researched by thermogravimetry. The results show that the pickled raw coal gives the highest reducibility, which is followed by BF bag dust and BF gravitational dust. The reason for this is that the higher disordered crystalline structure leads to stronger gasification reactivity, and further results in stronger reduction reactivity. Based on the randomized nucleation model, the kinetic analysis shows that the activation energies for the reduction reaction of BF gravitational dust, BF bag dust, and raw coal after pickling are 300.14, 180.43, and 124.62 kJ mol{sup −1}, respectively.

36 MATERIALS SCIENCE↗