Article on heterodimeric geranyl(geranyl)diphosphate synthase from hop (Humulus lupulus) and the evolution of monoterpene biosynthesis.

In heated tunnels such as those designated for emplacementof radioactive waste at Yucca Mountain, axial temperature gradients maycause natural convection processes that can significantly influence themoisture conditions in the tunnels and in the surrounding fractured rock.Large-scale convection cells would provide an effective mechanism foraxial vapor transport, driving moisture out of the formation away fromthe heated tunnel section into cool end sections (where no waste isemplaced). To study such processes, we have developed and applied anenhanced version of TOUGH2 (Pruess et al., 1999) adding a new module thatsolves for natural convection in open cavities. The new TOUGH2 simulatorsimultaneously handles (1) the flow and energy transport processes in thefractured rock; (2) the flow and energy transport processes in thecavity; and (3) the heat and mass exchange at the rock-cavity interface.The new module is applied to simulate the future thermal-hydrological(TH) conditions within and near a representative waste emplacement tunnelat Yucca Mountain. Particular focus is on the potential for condensationalong the emplacement section, a possible result of heat outputdifferences between individual waste packages.

One of the emerging computational approaches in nuclear physics is the full configuration interaction (FCI) method for solving the many-body nuclear Hamiltonian in a sufficiently large single-particle basis space to obtain exact answers - either directly or by extrapolation. The lowest eigenvalues and correspondingeigenvectors for very large, sparse and unstructured nuclear Hamiltonian matrices are obtained and used to evaluate additional experimental quantities. These matrices pose a significant challenge to the design and implementation of efficient and scalable algorithms for obtaining solutions on massively parallel computer systems. In this paper, we describe the computational strategies employed in a state-of-the-art FCI code MFDn (Many Fermion Dynamics - nuclear) as well as techniques we recently developed to enhance the computational efficiency of MFDn. We will demonstrate the current capability of MFDn and report the latest performance improvement we have achieved. We will also outline our future research directions.

Reflection of a seismic wave from a plane interface betweentwo elastic media does not depend on the frequency. If one of the mediais poroelastic and fluid-saturated, then the reflection becomesfrequency-dependent. This paper presents a low-frequency asymptoticformula for the reflection of seismic plane p-wave from a fluid-saturatedporous medium. The obtained asymptotic scaling of the frequency-dependentcomponent of the reflection coefficient shows that it is asymptoticallyproportional to the square root of the product of the reservoir fluidmobility and the frequency of the signal. The dependence of this scalingon the dynamic Darcy's law relaxation time is investigated as well.Derivation of the main equations of the theory of poroelasticity from thedynamic filtration theory reveals that this relaxation time isproportional to Biot's tortuosity parameter.

In contrast to previous analyses, we demonstrate a Bayesian approach to the estimation of the CKM phase {alpha} that is invariant to parameterization. We also show that in addition to computing the marginal posterior in a Bayesian manner, the distribution must also be interpreted from a subjective Bayesian viewpoint. Doing so gives a very natural interpretation to the distribution. We also comment on the effect of removing information about {beta}{sup 00}.

We study the Collins mechanism contribution to the single transverse spin asymmetry in inclusive hadron production in pp scattering p{up_arrow}p {yields} {pi}X from the leading jet fragmentation. The azimuthal asymmetric distribution of hadron in the jet leads to a single spin asymmetry for the produced hadron in the Lab frame. The effect is evaluated in a transverse momentum dependent model that takes into account the transverse momentum dependence in the fragmentation process. We find the asymmetry is comparable in size to the experimental observation at RHIC at {radical}s = 200GeV.

The reaction of ozone with the (100) plane of solid potassium iodide (KI) was investigated using atomic force microscopy (AFM). The reaction forming potassium iodate (KIO{sub 3}) initiates at step edges prior to reacting on the flat terraces. Small domains of KIO{sub 3}, initially 3.8 {angstrom} in height are formed on the top of step edges. Following reaction at the step edge, domains of KIO{sub 3} are formed across the terraces. With prolonged exposure to ozone, KIO{sub 3} domains nucleate further growth until the surface is evenly covered with KIO{sub 3} particles that are 4-6 nm in height, at which point the surface is passivated and the reaction terminates.

The U.S. LHC Accelerator Research Program (LARP), a collaboration between BNL, FNAL, LBNL, and SLAC, has among its major objectives the development of advanced magnet technology for an LHC luminosity upgrade. The LBNL Superconducting Magnet Group supports this program with a broad effort involving design studies, Nb{sub 3}Sn conductor development, mechanical models, and basic prototypes. This paper describes the development of a large aperture Nb{sub 3}Sn racetrack quadrupole magnet using four racetrack coils from the LBNL Subscale Magnet (SM) Program. The magnet provides a gradient of 95 T/m in a 110 mm bore, with a peak field in the conductor of 11.2 T. The coils are prestressed by a mechanical structure based on a pre-tensioned aluminum shell, and axially supported with aluminum rods. The mechanical behavior has been monitored with strain gauges and the magnetic field has been measured. Results of the test are reported and analyzed.

The development of radiological consequence lookup tables for postulated releases of radionuclides commonly used at Savannah River Site (SRS) and other Department of Energy (DOE) facilities requires the use of the MELCOR Accident Consequence Code System (MACCS)/MACCS2. MACCS2 users input site-specific data: such as stack or ground release, building wake effects, boundary distance from release source, and site-specific meteorological data. MACCS2 also allows the input of more general data such as plume rise and wet and/or dry deposition. The acceptance of such inputs gives the MACCS2 program a broad spectrum of uses at participating DOE facilities. The MACCS2 outputs are converted to an excel spreadsheet to facilitate fast and accurate results for various accident scenarios. Consequence lookup tables can be employed to determine the effects of radiological accident scenarios before they occur. The data is then used by DOE facilities to create regulations and controls to prepare for worst-case scenarios.

Nephtys longosetosa is a carnivorous polychaete worm that lives in the intertidal and subtidal zones with worldwide distribution (pleijel&rouse2001). Its mitochondrial genome has the characteristics typical of most metazoans: 37 genes; circular molecule; almost no intergenic sequence; and no significant gene rearrangements when compared to other annelid mtDNAs (booremoritz19981995). Ubiquitous features as small intergenic regions and lack of introns suggested that metazoan mtDNAs are under strong selective pressures to reduce their genome size allowing for faster replication requirements (booremoritz19981995Lynch2005). Yet, in 1996 two type I introns were found in the mtDNA of the basal metazoan Metridium senile (FigureX). Breaking a long-standing rule (absence of introns in metazoan mtDNA), this finding was later supported by the further presence of group I introns in other cnidarians. Interestingly, only the class Anthozoa within cnidarians seems to harbor such introns. Although several hundreds of triploblastic metazoan mtDNAs have been sequenced, this study is the first evidence of mitochondrial introns in triploblastic metazoans. The cox1 gene of N. longosetosa has an intron of almost 2 kbs in length. This finding represents as well the first instance of a group II intron (anthozoans harbor group I introns) in all metazoan lineages. Opposite trends are observed within …

We update a discussion of the relation between the weak phase and the rates and CP asymmetries of several K{pi} decays of B{sup +}, B{sup 0}, and B{sub s}. We emphasize the impact of measurements of B{sub s} {yields} K{pi}. Current data indicate large SU(3) breaking in the strong phases or failure of factorization (including its application to penguin amplitudes) in K{pi} modes of B{sup 0} and B{sub s}. SU(3) and factorization only remain approximately valid if the branching ratio for B{sub s} {yields} K{sup -}{pi}{sup +} exceeds its current value of (5.00 {+-} 1.25) x 10{sup -6} by at least 50%, or if a parameter {zeta} describing ratios of form factors and decay constants is shifted from its nominal value by more than twice its estimated error.

Heterogeneous high-energy explosives are morphologically, mechanically and chemically complex. As such, their ab-initio modeling, in which well-characterized phenomena at the scale of the microstructure lead to a rationally homogenized description at the scale of observation, is a subject of active research but not yet a reality. An alternative approach is to construct phenomenological models, in which forms of constitutive behavior are postulated with an eye on the perceived picture of the micro-scale phenomena, and which are strongly linked to experimental calibration. Most prominent among these is the ignition-and-growth model conceived by Lee and Tarver. The model treats the explosive as a homogeneous mixture of two distinct constituents, the unreacted explosive and the products of reaction. To each constituent is assigned an equation of state, and a single reaction-rate law is prescribed for the conversion of the explosive to products. It is assumed that the two constituents are always in pressure and temperature equilibrium. The purpose of this paper is to investigate in detail the behavior of the model in situations where a detonation turns a corner and undergoes diffraction. A set of parameters appropriate for the explosive LX-17 is selected. The model is first examined analytically for steady, planar, 1-D …

In two separate shallow field experiments, at two distancescales, we have used continuous monitoring to estimate the effect ofbarometric pressure on crosswell travel time and thereby calibrated thestress sensitivity of the rock volume between the wells. In a 3 mexperiment we found a stress sensitivity of 10-6/Pa while in a 30 mexperiment the sensitivity was 5 x 10-8 /Pa. Results from a deeper (1km), 2 month experiment at the San Andreas fault observation boreholeswill be presented if analysis is completed.

The fracture toughness properties of Type 21-6-9 stainless steel were measured for forgings in the unexposed, hydrogen-exposed, and tritium-exposed-and-aged conditions. Fracture toughness samples were cut from conventionally-forged and high-energy-rate-forged forward-extruded cylinders and mechanically tested at room temperature using ASTM fracture-toughness testing procedures. Some of the samples were exposed to either hydrogen or tritium gas (340 MPa, 623 K) prior to testing. Tritium-exposed samples were aged for up to seven years and tested periodically in order to measure the effect on fracture toughness of {sup 3}He from radioactive tritium decay. The results show that hydrogen-exposed and tritium-exposed samples had lower fracture- toughness values than unexposed samples and that fracture toughness decreased with increasing decay {sup 3}He content. Forged steels were more resistant to the embrittling effects of tritium and decay {sup 3}He than annealed steels, although their fracture-toughness properties depended on the degree of sensitization that occurred during processing. The fracture process was dominated by microvoid nucleation, growth and coalescence; however, the size and spacing of microvoids on the fracture surfaces were affected by hydrogen and tritium with the lowest-toughness samples having the smallest microvoids and finest spacing.

Petascale systems will present several new challenges to performance and correctness tools. Such machines may contain millions of cores, requiring that tools use scalable data structures and analysis algorithms to collect and to process application data. In addition, at such scales, each tool itself will become a large parallel application--already, debugging the full Blue-Gene/L (BG/L) installation at the Lawrence Livermore National Laboratory requires employing 1664 tool daemons. To reach such sizes and beyond, tools must use a scalable communication infrastructure and manage their own tool processes efficiently. Some system resources, such as the file system, may also become tool bottlenecks. In this paper, we present challenges to petascale tool development, using the Stack Trace Analysis Tool (STAT) as a case study. STAT is a lightweight tool that gathers and merges stack traces from a parallel application to identify process equivalence classes. We use results gathered at thousands of tasks on an Infiniband cluster and results up to 208K processes on BG/L to identify current scalability issues as well as challenges that will be faced at the petascale. We then present implemented solutions to these challenges and show the resulting performance improvements. We also discuss future plans to meet the debugging …

The targets used in the Hot Halfraum Campaign at OMEGA create many hot electrons, which result in a large flux of hard x-rays. The hard x-rays produce a high background in the streak camera. The background was significantly reduced by wrapping the streak camera with a high-Z material; in this case, 1/8' of Pb. The large hard x-ray flux also adds noise to images from framing cameras which use CCDs.

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We describe a model of damage in rf cavities and show how this damage can limit cavity operation. We first present a review of mechanisms that may or may not affect the ultimate fields that can be obtained in rf cavities, assuming that mechanical stress explains the triggers of rf breakdown events. We present a method of quantifying the surface damage caused by breakdown events in terms of the spectrum of field enhancement factors, Beta, for asperities on the surface. We then model an equilibrium that can develop between damage and conditioning effects, and show how this equilibrium can determine cavity performance and show experimental evidence for this mechanism. We define three functions that quantify damage, and explain how the parameters that determine this performance can be factored out and measured. We then show how this model can quantitatively explain the dependence of cavity performance on material, frequency, pulse length, gas, power supply and other factors. The examples given in this paper are derived from a variety of incomplete data sets, so we outline an experimental program that should improve these predictions, provide mechanisms for comparing data from different facilities, and fill in many gaps in the existing data.

Three two body and two resonance decays of the B mesons have been measured using data from the BABAR detector: B{sup 0} {yields} {pi}{sup {+-}}, K{sup {-+}}, K{sup +}K{sup -}, K{sub S}{sup 0}{pi}{sup +}{pi}{sup -} and B{sup 0} {yields} a{sub 1}{sup +}(1260){pi}{sup -}. The branching ratio and that of some intermediate resonances are presented along with the Cp asymmetry of the decay B{sup 0} {yields} K*{sup +}{pi}{sup -}.

Bikini Island was contaminated March 1, 1954 by the Bravo detonation (U.S nuclear test series, Castle) at Bikini Atoll. About 90% of the estimated dose from nuclear fallout to potential island residents is from cesium-137 ({sup 137}Cs) transferred from soil to plants that are consumed by residents. Thus, radioecology research efforts have been focused on removing {sup 137}Cs from soil and/or reducing its uptake into vegetation. Most effective was addition of potassium (K) to soil that reduces {sup 137}Cs concentration in fruits to 3-5% of pretreatment concentrations. Initial observations indicated this low concentration continued for some time after K was last applied. Long-term studies were designed to evaluate this persistence in more detail because it is very important to provide assurance to returning populations that {sup 137}Cs concentrations in food (and, therefore, radiation dose) will remain low for extended periods, even if K is not applied annually or biennially. Potassium applied at 300, 660, 1260, and 2070 kg ha{sup -1} lead to a {sup 137}Cs concentration in drinking coconut meat that is 34, 22, 10, and about 4% of original concentration, respectively. Concentration of {sup 137}Cs remains low 8 to 10 y after K is last applied. An explanation for …

In this article we introduce approximation spaces for parabolic problems which are based on the tensor product construction of a multiscale basis in space and a multiscale basis in time. Proper truncation then leads to so-called space-time sparse grid spaces. For a uniform discretization of the spatial space of dimension d with O(N{sup d}) degrees of freedom, these spaces involve for d > 1 also only O(N{sup d}) degrees of freedom for the discretization of the whole space-time problem. But they provide the same approximation rate as classical space-time Finite Element spaces which need O(N{sup d+1}) degrees of freedoms. This makes these approximation spaces well suited for conventional parabolic and for time-dependent optimization problems. We analyze the approximation properties and the dimension of these sparse grid space-time spaces for general stable multiscale bases. We then restrict ourselves to an interpolatory multiscale basis, i.e. a hierarchical basis. Here, to be able to handle also complicated spatial domains {Omega}, we construct the hierarchical basis from a given spatial Finite Element basis as follows: First we determine coarse grid points recursively over the levels by the coarsening step of the algebraic multigrid method. Then, we derive interpolatory prolongation operators between the respective coarse …

The wavefront control strategy for the proposed Gemini Planet Imager, an extreme adaptive optics coronagraph for planet detection, is presented. Two key parts of this strategy are experimentally verified in a testbed at the Laboratory for Adaptive Optics, which features a 32 x 32 MEMS device. Detailed analytic models and algorithms for Shack-Hartmann wavefront sensor alignment and calibration are presented. It is demonstrated that with these procedures, the spatially filtered WFS and the Fourier Transform reconstructor can be used to flatten to the MEMS to 1 nm RMS in the controllable band. Performance is further improved using the technique of modifying the reference slopes using a measurement of the static wavefront error in the science leg.

We present a direct measurement of the quenching of nonlocal heat transport in a laser produced plasma by high external magnetic fields. Temporally resolved measurements of the electron temperature profile transverse to a high power laser beam were obtained using imaging Thomson scattering. The results are simulated with the 2D hydrodynamic code LASNEX with a recently included magnetic field model that self-consistently evolves the fields in the plasma.

We present BABAR experiment studies to measure the CKM angle {alpha} of the Unitarity Triangle. The measurements are based on the B meson decays into the two-body state ({pi}{pi}), the quasi two-body state ({rho}{rho}), and the three-body state ({pi}{sup +}{pi}{sup -}{pi}{sup 0}). The results are obtained from data samples of about 230 million {Upsilon}(4S) {yields} B{bar B} decays collected between 1999 and 2004 with the BABAR detector at the PEP-II asymmetric-energy B Factory at SLAC.