1
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Swanson KJ, Jaar GS, Mayes DC, Mancini RC, Ivanov VV, Astanovitskiy AL, Dmitriev O, Klemmer AW, De La Cruz C, Dolan D, Porwitzky A, Loisel GP, Bailey JE. Development and integration of photonic Doppler velocimetry as a diagnostic for radiation driven experiments on the Z-machine. Rev Sci Instrum 2022; 93:043502. [PMID: 35489931 DOI: 10.1063/5.0084638] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Track Full Text] [Subscribe] [Scholar Register] [Received: 01/08/2022] [Accepted: 03/09/2022] [Indexed: 06/14/2023]
Abstract
Plasma density measurements are key to a wide variety of high-energy-density (HED) and laboratory astrophysics experiments. We present a creative application of photonic Doppler velocimetry (PDV) from which time- and spatially resolved electron density measurements can be made. PDV has been implemented for the first time in close proximity, ∼6 cm, to the high-intensity radiation flux produced by a z-pinch dynamic hohlraum on the Z-machine. Multiple PDV probes were incorporated into the photoionized gas cell platform. Two probes, spaced 4 mm apart, were used to assess plasma density and uniformity in the central region of the gas cell during the formation of the plasma. Electron density time histories with subnanosecond resolution were extracted from PDV measurements taken from the gas cells fielded with neon at 15 Torr. As well, a null shot with no gas fill in the cell was fielded. A major achievement was the low noise high-quality measurements made in the harsh environment produced by the mega-joules of x-ray energy emitted at the collapse of the z-pinch implosion. To evaluate time dependent radiation induced effects in the fiber optic system, two PDV noise probes were included on either side of the gas cell. The success of this alternative use of PDV demonstrates that it is a reliable, precise, and affordable new electron density diagnostic for radiation driven experiments and more generally HED experiments.
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Affiliation(s)
- K J Swanson
- Department of Physics, University of Nevada, Reno, Nevada 89557, USA
| | - G S Jaar
- Department of Physics, University of Nevada, Reno, Nevada 89557, USA
| | - D C Mayes
- Department of Physics, University of Nevada, Reno, Nevada 89557, USA
| | - R C Mancini
- Department of Physics, University of Nevada, Reno, Nevada 89557, USA
| | - V V Ivanov
- Department of Physics, University of Nevada, Reno, Nevada 89557, USA
| | - A L Astanovitskiy
- Department of Physics, University of Nevada, Reno, Nevada 89557, USA
| | - O Dmitriev
- Department of Physics, University of Nevada, Reno, Nevada 89557, USA
| | - A W Klemmer
- Department of Physics, University of Nevada, Reno, Nevada 89557, USA
| | - C De La Cruz
- Sandia National Laboratories, Albuquerque, New Mexico 87185, USA
| | - D Dolan
- Sandia National Laboratories, Albuquerque, New Mexico 87185, USA
| | - A Porwitzky
- Sandia National Laboratories, Albuquerque, New Mexico 87185, USA
| | - G P Loisel
- Sandia National Laboratories, Albuquerque, New Mexico 87185, USA
| | - J E Bailey
- Sandia National Laboratories, Albuquerque, New Mexico 87185, USA
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2
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Mayes DC, Mancini RC, Lockard TE, Hall IM, Bailey JE, Loisel GP, Nagayama T, Rochau GA, Liedahl DA. Observation of ionization trends in a laboratory photoionized plasma experiment at Z. Phys Rev E 2021; 104:035202. [PMID: 34654098 DOI: 10.1103/physreve.104.035202] [Citation(s) in RCA: 1] [Impact Index Per Article: 0.3] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 02/26/2021] [Accepted: 08/09/2021] [Indexed: 11/07/2022]
Abstract
We report experimental and modeling results for the charge state distribution of laboratory photoionized neon plasmas in the first systematic study over nearly an order of magnitude range of ionization parameter ξ∝F/N_{e}. The range of ξ is achieved by flexibility in the experimental platform to adjust either the x-ray drive flux F at the sample or the electron number density N_{e} or both. Experimental measurements of photoionized plasma conditions over such a range of parameters enable a stringent test of atomic kinetics models used within codes that are applied to photoionized plasmas in the laboratory and astrophysics. From experimental transmission data, ion areal densities are extracted by spectroscopic analysis that is independent of atomic kinetics modeling. The measurements reveal the net result of the competition between photon-driven ionization and electron-driven recombination atomic processes as a function of ξ as it affects the charge state distribution. Results from radiation-hydrodynamics modeling calculations with detailed inline atomic kinetics modeling are compared with the experimental results. There is good agreement in the mean charge and overall qualitative similarities in the trends observed with ξ but significant quantitative differences in the fractional populations of individual ions.
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Affiliation(s)
- D C Mayes
- Department of Physics, University of Nevada, Reno, Nevada 89557, USA
| | - R C Mancini
- Department of Physics, University of Nevada, Reno, Nevada 89557, USA
| | - T E Lockard
- Department of Physics, University of Nevada, Reno, Nevada 89557, USA
| | - I M Hall
- Department of Physics, University of Nevada, Reno, Nevada 89557, USA
| | - J E Bailey
- Sandia National Laboratories, Albuquerque, New Mexico 87185, USA
| | - G P Loisel
- Sandia National Laboratories, Albuquerque, New Mexico 87185, USA
| | - T Nagayama
- Sandia National Laboratories, Albuquerque, New Mexico 87185, USA
| | - G A Rochau
- Sandia National Laboratories, Albuquerque, New Mexico 87185, USA
| | - D A Liedahl
- Lawrence Livermore National Laboratory, Livermore, California 94550, USA
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3
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Dunham GS, Nagayama T, Bailey JE, Loisel GP. Background measurement methods for opacity experiments conducted at the Z facility. Rev Sci Instrum 2021; 92:083512. [PMID: 34470416 DOI: 10.1063/5.0057225] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Track Full Text] [Subscribe] [Scholar Register] [Received: 05/18/2021] [Accepted: 07/27/2021] [Indexed: 06/13/2023]
Abstract
Laboratory experiments typically test opacity models by measuring spectrally resolved transmission of a sample using bright backlight radiation. A potential problem is that any unaccounted background signal contaminating the spectrum will artificially reduce the inferred opacity. Methods developed to measure background signals in opacity experiments at the Sandia Z facility are discussed. Preliminary measurements indicate that backgrounds are 9%-11% of the backlight signal at wavelengths less than 10 Å. Background is thus a relatively modest correction for all Z opacity data published to date. Future work will determine how important background is at longer wavelengths.
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Affiliation(s)
- G S Dunham
- Sandia National Laboratories, Albuquerque, New Mexico 87123, USA
| | - T Nagayama
- Sandia National Laboratories, Albuquerque, New Mexico 87123, USA
| | - J E Bailey
- Sandia National Laboratories, Albuquerque, New Mexico 87123, USA
| | - G P Loisel
- Sandia National Laboratories, Albuquerque, New Mexico 87123, USA
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4
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Mancini RC, Lockard TE, Mayes DC, Hall IM, Loisel GP, Bailey JE, Rochau GA, Abdallah J, Golovkin IE, Liedahl D. X-ray heating and electron temperature of laboratory photoionized plasmas. Phys Rev E 2020; 101:051201. [PMID: 32575250 DOI: 10.1103/physreve.101.051201] [Citation(s) in RCA: 8] [Impact Index Per Article: 2.0] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 04/01/2019] [Accepted: 04/13/2020] [Indexed: 11/07/2022]
Abstract
We discuss the experimental and modeling results for the x-ray heating and temperature of laboratory photoionized plasmas. A method is used to extract the electron temperature based on the analysis of transmission spectroscopy data that is independent of atomic kinetics modeling. The results emphasized the critical role of x-ray heating and radiation cooling in determining the energy balance of the plasma. They also demonstrated the dramatic impact of photoexcitation on excited-state populations, line emissivity, and radiation cooling. Modeling calculations performed with astrophysical codes significantly overestimated the measured temperature.
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Affiliation(s)
- R C Mancini
- Department of Physics, University of Nevada, Reno, Nevada 89557, USA
| | - T E Lockard
- Department of Physics, University of Nevada, Reno, Nevada 89557, USA
| | - D C Mayes
- Department of Physics, University of Nevada, Reno, Nevada 89557, USA
| | - I M Hall
- Department of Physics, University of Nevada, Reno, Nevada 89557, USA
| | - G P Loisel
- Sandia National Laboratories, Albuquerque, New Mexico 87185, USA
| | - J E Bailey
- Sandia National Laboratories, Albuquerque, New Mexico 87185, USA
| | - G A Rochau
- Sandia National Laboratories, Albuquerque, New Mexico 87185, USA
| | - J Abdallah
- Los Alamos National Laboratory, Los Alamos, New Mexico 87544, USA
| | - I E Golovkin
- Prism Computational Sciences, Madison, Wisconsin 53711, USA
| | - D Liedahl
- Lawrence Livermore National Laboratory, Livermore, California 94550, USA
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5
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Nagayama T, Bailey JE, Loisel GP, Dunham GS, Rochau GA, Blancard C, Colgan J, Cossé P, Faussurier G, Fontes CJ, Gilleron F, Hansen SB, Iglesias CA, Golovkin IE, Kilcrease DP, MacFarlane JJ, Mancini RC, More RM, Orban C, Pain JC, Sherrill ME, Wilson BG. Systematic Study of L-Shell Opacity at Stellar Interior Temperatures. Phys Rev Lett 2019; 122:235001. [PMID: 31298873 DOI: 10.1103/physrevlett.122.235001] [Citation(s) in RCA: 13] [Impact Index Per Article: 2.6] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Track Full Text] [Subscribe] [Scholar Register] [Received: 03/07/2019] [Indexed: 06/10/2023]
Abstract
The first systematic study of opacity dependence on atomic number at stellar interior temperatures is used to evaluate discrepancies between measured and modeled iron opacity [J. E. Bailey et al., Nature (London) 517, 56 (2015)NATUAS0028-083610.1038/nature14048]. High-temperature (>180 eV) chromium and nickel opacities are measured with ±6%-10% uncertainty, using the same methods employed in the previous iron experiments. The 10%-20% experiment reproducibility demonstrates experiment reliability. The overall model-data disagreements are smaller than for iron. However, the systematic study reveals shortcomings in models for density effects, excited states, and open L-shell configurations. The 30%-45% underestimate in the modeled quasicontinuum opacity at short wavelengths was observed only from iron and only at temperature above 180 eV. Thus, either opacity theories are missing physics that has nonmonotonic dependence on the number of bound electrons or there is an experimental flaw unique to the iron measurement at temperatures above 180 eV.
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Affiliation(s)
- T Nagayama
- Sandia National Laboratories, Albuquerque, New Mexico 87185, USA
| | - J E Bailey
- Sandia National Laboratories, Albuquerque, New Mexico 87185, USA
| | - G P Loisel
- Sandia National Laboratories, Albuquerque, New Mexico 87185, USA
| | - G S Dunham
- Sandia National Laboratories, Albuquerque, New Mexico 87185, USA
| | - G A Rochau
- Sandia National Laboratories, Albuquerque, New Mexico 87185, USA
| | | | - J Colgan
- Los Alamos National Laboratory, Los Alamos, New Mexico 87545, USA
| | - Ph Cossé
- CEA, DAM, DIF, F-91297 Arpajon, France
| | | | - C J Fontes
- Los Alamos National Laboratory, Los Alamos, New Mexico 87545, USA
| | | | - S B Hansen
- Sandia National Laboratories, Albuquerque, New Mexico 87185, USA
| | - C A Iglesias
- Lawrence Livermore National Laboratory, Livermore, California 94550, USA
| | - I E Golovkin
- Prism Computational Sciences, Madison, Wisconsin 53711, USA
| | - D P Kilcrease
- Los Alamos National Laboratory, Los Alamos, New Mexico 87545, USA
| | - J J MacFarlane
- Prism Computational Sciences, Madison, Wisconsin 53711, USA
| | - R C Mancini
- University of Nevada, Reno, Nevada 89557, USA
| | - R M More
- Sandia National Laboratories, Albuquerque, New Mexico 87185, USA
| | - C Orban
- Ohio State University, Columbus, Ohio 43210, USA
| | - J-C Pain
- CEA, DAM, DIF, F-91297 Arpajon, France
| | - M E Sherrill
- Los Alamos National Laboratory, Los Alamos, New Mexico 87545, USA
| | - B G Wilson
- Lawrence Livermore National Laboratory, Livermore, California 94550, USA
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6
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Loisel GP, Lake PW, Nielsen-Weber LB, Wu M, Dunham GS, Bailey JE, Rochau GA. A compact multi-plane broadband (0.5-17 keV) spectrometer using a single acid phthalate crystal. Rev Sci Instrum 2018; 89:10F117. [PMID: 30399839 DOI: 10.1063/1.5039371] [Citation(s) in RCA: 2] [Impact Index Per Article: 0.3] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Track Full Text] [Subscribe] [Scholar Register] [Received: 05/07/2018] [Accepted: 06/22/2018] [Indexed: 06/08/2023]
Abstract
Acid phthalate crystals such as KAP crystals are a method of choice to record x-ray spectra in the soft x-ray regime (E ∼ 1 keV) using the large (001) 2d = 26.63 Å spacing. Reflection from many other planes is possible, and knowledge of the 2d spacing, reflectivity, and resolution for these reflections is necessary to evaluate whether they hinder or help the measurements. Burkhalter et al. [J. Appl. Phys., 52, 4379 (1981)] showed that the (013) reflection has efficiency comparable to the 2nd order reflection (002), and it can overlap the main first order reflection when the crystal bending axis ( b -axis) is contained in the dispersion plane, thus contaminating the main (001) measurement in a convex crystal geometry. We present a novel spectrograph concept that makes these asymmetric reflections helpful by setting the crystal b -axis perpendicular to the dispersion plane. In such a case, asymmetric reflections do not overlap with the main (001) reflection and each reflection can be used as an independent spectrograph. Here we demonstrate an achieved spectral range of 0.8-13 keV with a prototype setup. The detector measurements were reproduced with a 3D ray-tracing code.
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Affiliation(s)
- G P Loisel
- Sandia National Laboratories, Albuquerque 87185, New Mexico, USA
| | - P W Lake
- Sandia National Laboratories, Albuquerque 87185, New Mexico, USA
| | | | - M Wu
- Sandia National Laboratories, Albuquerque 87185, New Mexico, USA
| | - G S Dunham
- Sandia National Laboratories, Albuquerque 87185, New Mexico, USA
| | - J E Bailey
- Sandia National Laboratories, Albuquerque 87185, New Mexico, USA
| | - G A Rochau
- Sandia National Laboratories, Albuquerque 87185, New Mexico, USA
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7
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Abstract
AbstractMeasuring and managing user attitudes toward various aspects of computer systems is an important part of making those systems effective. In this paper, results of an effort to adapt and test a technique for measuring user satisfaction in hospitals are presented. These results include extensive empirical tests of the technique. Comparison norms for hospital computer user satisfaction are also presented and interpreted. Analysis software for using the technique as a management tool is presented. Finally, experiences using the concept are presented.
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8
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Loisel GP, Bailey JE, Liedahl DA, Fontes CJ, Kallman TR, Nagayama T, Hansen SB, Rochau GA, Mancini RC, Lee RW. Benchmark Experiment for Photoionized Plasma Emission from Accretion-Powered X-Ray Sources. Phys Rev Lett 2017; 119:075001. [PMID: 28949679 DOI: 10.1103/physrevlett.119.075001] [Citation(s) in RCA: 3] [Impact Index Per Article: 0.4] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Track Full Text] [Subscribe] [Scholar Register] [Received: 04/21/2017] [Indexed: 06/07/2023]
Abstract
The interpretation of x-ray spectra emerging from x-ray binaries and active galactic nuclei accreted plasmas relies on complex physical models for radiation generation and transport in photoionized plasmas. These models have not been sufficiently experimentally validated. We have developed a highly reproducible benchmark experiment to study spectrum formation from a photoionized silicon plasma in a regime comparable to astrophysical plasmas. Ionization predictions are higher than inferred from measured absorption spectra. Self-emission measured at adjustable column densities tests radiation transport effects, demonstrating that the resonant Auger destruction assumption used to interpret black hole accretion spectra is inaccurate.
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Affiliation(s)
- G P Loisel
- Sandia National Laboratories, Albuquerque, New Mexico 87185, USA
| | - J E Bailey
- Sandia National Laboratories, Albuquerque, New Mexico 87185, USA
| | - D A Liedahl
- Lawrence Livermore National Laboratory, Livermore, California 94550, USA
| | - C J Fontes
- Los Alamos National Laboratory, Los Alamos, New Mexico 87545, USA
| | - T R Kallman
- Goddard Space Flight Center NASA, Greenbelt, Maryland 20771, USA
| | - T Nagayama
- Sandia National Laboratories, Albuquerque, New Mexico 87185, USA
| | - S B Hansen
- Sandia National Laboratories, Albuquerque, New Mexico 87185, USA
| | - G A Rochau
- Sandia National Laboratories, Albuquerque, New Mexico 87185, USA
| | - R C Mancini
- University of Nevada, Reno, Nevada 89557, USA
| | - R W Lee
- University of California, Berkeley, California 94720, USA
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9
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Nagayama T, Bailey JE, Loisel GP, Rochau GA, MacFarlane JJ, Golovkin IE. Numerical investigations of potential systematic uncertainties in iron opacity measurements at solar interior temperatures. Phys Rev E 2017; 95:063206. [PMID: 28709238 DOI: 10.1103/physreve.95.063206] [Citation(s) in RCA: 1] [Impact Index Per Article: 0.1] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 02/23/2017] [Indexed: 06/07/2023]
Abstract
Iron opacity calculations presently disagree with measurements at an electron temperature of ∼180-195 eV and an electron density of (2-4)×10^{22}cm^{-3}, conditions similar to those at the base of the solar convection zone. The measurements use x rays to volumetrically heat a thin iron sample that is tamped with low-Z materials. The opacity is inferred from spectrally resolved x-ray transmission measurements. Plasma self-emission, tamper attenuation, and temporal and spatial gradients can all potentially cause systematic errors in the measured opacity spectra. In this article we quantitatively evaluate these potential errors with numerical investigations. The analysis exploits computer simulations that were previously found to reproduce the experimentally measured plasma conditions. The simulations, combined with a spectral synthesis model, enable evaluations of individual and combined potential errors in order to estimate their potential effects on the opacity measurement. The results show that the errors considered here do not account for the previously observed model-data discrepancies.
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Affiliation(s)
- T Nagayama
- Sandia National Laboratories, Albuquerque, New Mexico 87185, USA
| | - J E Bailey
- Sandia National Laboratories, Albuquerque, New Mexico 87185, USA
| | - G P Loisel
- Sandia National Laboratories, Albuquerque, New Mexico 87185, USA
| | - G A Rochau
- Sandia National Laboratories, Albuquerque, New Mexico 87185, USA
| | - J J MacFarlane
- Prism Computational Sciences, Madison, Wisconsin 53711, USA
| | - I E Golovkin
- Prism Computational Sciences, Madison, Wisconsin 53711, USA
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10
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Loisel GP, Wu M, Stolte W, Kruschwitz C, Lake P, Dunham GS, Bailey JE, Rochau GA. Measurement and models of bent KAP(001) crystal integrated reflectivity and resolution (invited). Rev Sci Instrum 2016; 87:11D502. [PMID: 27910652 DOI: 10.1063/1.4960149] [Citation(s) in RCA: 2] [Impact Index Per Article: 0.3] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 06/06/2023]
Abstract
The Advanced Light Source beamline-9.3.1 x-rays are used to calibrate the rocking curve of bent potassium acid phthalate (KAP) crystals in the 2.3-4.5 keV photon-energy range. Crystals are bent on a cylindrically convex substrate with a radius of curvature ranging from 2 to 9 in. and also including the flat case to observe the effect of bending on the KAP spectrometric properties. As the bending radius increases, the crystal reflectivity converges to the mosaic crystal response. The X-ray Oriented Programs (xop) multi-lamellar model of bent crystals is used to model the rocking curve of these crystals and the calibration data confirm that a single model is adequate to reproduce simultaneously all measured integrated reflectivities and rocking-curve FWHM for multiple radii of curvature in both 1st and 2nd order of diffraction.
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Affiliation(s)
- G P Loisel
- Sandia National Laboratories, Albuquerque, New Mexico 87185, USA
| | - M Wu
- Sandia National Laboratories, Albuquerque, New Mexico 87185, USA
| | - W Stolte
- National Security Technologies, LLC, Livermore, California 94551, USA
| | - C Kruschwitz
- National Security Technologies, LLC, Los Alamos, New Mexico 87544, USA
| | - P Lake
- Sandia National Laboratories, Albuquerque, New Mexico 87185, USA
| | - G S Dunham
- Sandia National Laboratories, Albuquerque, New Mexico 87185, USA
| | - J E Bailey
- Sandia National Laboratories, Albuquerque, New Mexico 87185, USA
| | - G A Rochau
- Sandia National Laboratories, Albuquerque, New Mexico 87185, USA
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11
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Nagayama T, Bailey JE, Loisel G, Rochau GA, MacFarlane JJ, Golovkin I. Calibrated simulations of Z opacity experiments that reproduce the experimentally measured plasma conditions. Phys Rev E 2016; 93:023202. [PMID: 26986427 DOI: 10.1103/physreve.93.023202] [Citation(s) in RCA: 2] [Impact Index Per Article: 0.3] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 11/04/2015] [Indexed: 06/05/2023]
Abstract
Recently, frequency-resolved iron opacity measurements at electron temperatures of 170-200 eV and electron densities of (0.7-4.0)×10(22)cm(-3) revealed a 30-400% disagreement with the calculated opacities [J. E. Bailey et al., Nature (London) 517, 56 (2015)]. The discrepancies have a high impact on astrophysics, atomic physics, and high-energy density physics, and it is important to verify our understanding of the experimental platform with simulations. Reliable simulations are challenging because the temporal and spatial evolution of the source radiation and of the sample plasma are both complex and incompletely diagnosed. In this article, we describe simulations that reproduce the measured temperature and density in recent iron opacity experiments performed at the Sandia National Laboratories Z facility. The time-dependent spectral irradiance at the sample is estimated using the measured time- and space-dependent source radiation distribution, in situ source-to-sample distance measurements, and a three-dimensional (3D) view-factor code. The inferred spectral irradiance is used to drive 1D sample radiation hydrodynamics simulations. The images recorded by slit-imaged space-resolved spectrometers are modeled by solving radiation transport of the source radiation through the sample. We find that the same drive radiation time history successfully reproduces the measured plasma conditions for eight different opacity experiments. These results provide a quantitative physical explanation for the observed dependence of both temperature and density on the sample configuration. Simulated spectral images for the experiments without the FeMg sample show quantitative agreement with the measured spectral images. The agreement in spectral profile, spatial profile, and brightness provides further confidence in our understanding of the backlight-radiation time history and image formation. These simulations bridge the static-uniform picture of the data interpretation and the dynamic-gradient reality of the experiments, and they will allow us to quantitatively assess the impact of effects neglected in the data interpretation.
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Affiliation(s)
- T Nagayama
- Sandia National Laboratories, Albuquerque, New Mexico 87185, USA
| | - J E Bailey
- Sandia National Laboratories, Albuquerque, New Mexico 87185, USA
| | - G Loisel
- Sandia National Laboratories, Albuquerque, New Mexico 87185, USA
| | - G A Rochau
- Sandia National Laboratories, Albuquerque, New Mexico 87185, USA
| | - J J MacFarlane
- Prism Computational Sciences, Madison, Wisconsin 53703, USA
| | - I Golovkin
- Prism Computational Sciences, Madison, Wisconsin 53703, USA
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12
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Harding EC, Ao T, Bailey JE, Loisel G, Sinars DB, Geissel M, Rochau GA, Smith IC. Analysis and implementation of a space resolving spherical crystal spectrometer for x-ray Thomson scattering experiments. Rev Sci Instrum 2015; 86:043504. [PMID: 25933859 DOI: 10.1063/1.4918619] [Citation(s) in RCA: 3] [Impact Index Per Article: 0.3] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Track Full Text] [Subscribe] [Scholar Register] [Received: 09/29/2014] [Accepted: 04/07/2015] [Indexed: 06/04/2023]
Abstract
The application of a space-resolving spectrometer to X-ray Thomson Scattering (XRTS) experiments has the potential to advance the study of warm dense matter. This has motivated the design of a spherical crystal spectrometer, which is a doubly focusing geometry with an overall high sensitivity and the capability of providing high-resolution, space-resolved spectra. A detailed analysis of the image fluence and crystal throughput in this geometry is carried out and analytical estimates of these quantities are presented. This analysis informed the design of a new spectrometer intended for future XRTS experiments on the Z-machine. The new spectrometer collects 6 keV x-rays with a spherically bent Ge (422) crystal and focuses the collected x-rays onto the Rowland circle. The spectrometer was built and then tested with a foam target. The resulting high-quality spectra prove that a spherical spectrometer is a viable diagnostic for XRTS experiments.
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Affiliation(s)
- E C Harding
- Sandia National Laboratory, Albuquerque, New Mexico 87185, USA
| | - T Ao
- Sandia National Laboratory, Albuquerque, New Mexico 87185, USA
| | - J E Bailey
- Sandia National Laboratory, Albuquerque, New Mexico 87185, USA
| | - G Loisel
- Sandia National Laboratory, Albuquerque, New Mexico 87185, USA
| | - D B Sinars
- Sandia National Laboratory, Albuquerque, New Mexico 87185, USA
| | - M Geissel
- Sandia National Laboratory, Albuquerque, New Mexico 87185, USA
| | - G A Rochau
- Sandia National Laboratory, Albuquerque, New Mexico 87185, USA
| | - I C Smith
- Sandia National Laboratory, Albuquerque, New Mexico 87185, USA
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13
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Nagayama T, Bailey JE, Loisel G, Rochau GA, Falcon RE. Parallax diagnostics of radiation source geometric dilution for iron opacity experiments. Rev Sci Instrum 2014; 85:11D603. [PMID: 25430179 DOI: 10.1063/1.4889776] [Citation(s) in RCA: 1] [Impact Index Per Article: 0.1] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 06/04/2023]
Abstract
Experimental tests are in progress to evaluate the accuracy of the modeled iron opacity at solar interior conditions [J. E. Bailey et al., Phys. Plasmas 16, 058101 (2009)]. The iron sample is placed on top of the Sandia National Laboratories z-pinch dynamic hohlraum (ZPDH) radiation source. The samples are heated to 150-200 eV electron temperatures and 7× 10(21)-4× 10(22) cm(-3) electron densities by the ZPDH radiation and backlit at its stagnation [T. Nagayama et al., Phys. Plasmas 21, 056502 (2014)]. The backlighter attenuated by the heated sample plasma is measured by four spectrometers along ±9° with respect to the z-pinch axis to infer the sample iron opacity. Here, we describe measurements of the source-to-sample distance that exploit the parallax of spectrometers that view the half-moon-shaped sample from ±9°. The measured sample temperature decreases with increased source-to-sample distance. This distance must be taken into account for understanding the sample heating.
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Affiliation(s)
- T Nagayama
- Sandia National Laboratories, Albuquerque, New Mexico 87185, USA
| | - J E Bailey
- Sandia National Laboratories, Albuquerque, New Mexico 87185, USA
| | - G Loisel
- Sandia National Laboratories, Albuquerque, New Mexico 87185, USA
| | - G A Rochau
- Sandia National Laboratories, Albuquerque, New Mexico 87185, USA
| | - R E Falcon
- Sandia National Laboratories, Albuquerque, New Mexico 87185, USA
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14
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Abstract
Modifying substrate uptake systems is a potentially powerful tool in metabolic engineering. This research investigates energetic and metabolic changes brought about by the genetic modification of the glucose uptake and phosphorylation system of Escherichia coli. The engineered strain PPA316, which lacks the E. coli phosphotransferase system (PTS) and uses instead the galactose-proton symport system for glucose uptake, exhibited significantly altered metabolic patterns relative to the parent strain PPA305 which retains PTS activity. Replacement of a PTS uptake system by the galactose-proton symport system is expected to lower the carbon flux to pyruvate in both aerobic and anaerobic cultivations. The extra energy cost in substrate uptake for the non-PTS strain PPA 316 had a greater effect on anaerobic specific growth rate, which was reduced by a factor of five relative to PPA 305, while PPA 316 reached a specific growth rate of 60% of that of the PTS strain under aerobic conditions. The maximal cell densities obtained with PPA 316 were approximately 8% higher than those of the PTS strain under aerobic conditions and 14% lower under anaerobic conditions. In vivo NMR results showed that the non-PTS strain possesses a dramatically different intracellular environment, as evidenced by lower levels of total sugar phosphate, NAD(H), nucleoside triphosphates and phosphoenolpyruvate, and higher levels of nucleoside diphosphates. The sugar phosphate compositions, as measured by extract NMR, were considerably different between these two strains. Data suggest that limitations in the rates of steps catalyzed by glucokinase, glyceraldehyde-3-phosphate dehydrogenase, phosphofructokinase, and pyruvate kinase may be responsible for the low overall rate of glucose metabolism in PPA316. (c) 1997 John Wiley & Sons, Inc. Biotechnol Bioeng 56: 583-590, 1997.
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Affiliation(s)
- R Chen
- Department of Chemical Engineering, California Institute of Technology, Pasadena, California 91125
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15
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Abstract
The classical method of metabolic engineering, identifying a rate-determining step in a pathway and alleviating the bottleneck by enzyme overexpression, has motivated much research but has enjoyed only limited practical success. Intervention of other limiting steps, of counterbalancing regulation, and of unknown coupled pathways often confounds this direct approach. Here the concept of inverse metabolic engineering is codified and its application is illustrated with several examples. Inverse metabolic engineering means the elucidation of a metabolic engineering strategy by: first, identifying, constructing, or calculating a desired phenotype; second, determining the genetic or the particular environmental factors conferring that phenotype; and third, endowing that phenotype on another strain or organism by directed genetic or environmental manipulation. This paradigm has been successfully applied in several contexts, including elimination of growth factor requirements in mammalian cell culture and increasing the energetic efficiency of microaerobic bacterial respiration. (c) 1996 John Wiley & Sons, Inc.
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Affiliation(s)
- J E Bailey
- Institute of Biotechnology, ETH Zürich, CH-8093 Zürich, Switzerland
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16
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Abstract
The concepts of artificial intelligence have been applied for the development of a software system for metabolic pathway synthesis (MPS). An easily expandable data base system for storing enzyme and substance descriptions is used by a search algorithm for the identification of possible ways to interconvert carbon-carrying metabolites. A versatile screening capability permits the user to identify all pathways which contain or exclude any combination of enzymes, substrates, and/or products. Information provided by MPS can be used to predict on a qualitative basis the effects of adding or deleting enzymatic activities to or from the cellular environment, to classify pathways with respect to cellular objectives, and to extract information about metabolic regulation. MPS can be used subsequently to aid the identification of appropriate genotypes or genetic modifications that will redirect metabolism towards amplified production of desirable bioproducts. Two examples illustrating the capabilities of MPS are presented. In the first example, which considers the conversion of glucose 6-phosphate to pyruvate, MPS synthesized the classical catabolic pathways (EMP, pentose phosphate and ED) along with possible variations. A route for the biosynthesis of L-alanine that does not incorporate the enzyme alanine aminotransferase was revealed by MPS during synthesis of alternative pathways which produce L-alanine from pyruvate.
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Affiliation(s)
- A Seressiotis
- Department of Chemical Engineering, California Institute of Technology, Pasadena, California 91125
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17
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Affiliation(s)
- A Seressiotis
- Chemical Engineering, California Institute of technology, Pasadena, California 91125
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18
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Abstract
The ability to switch metabolic flow from one pathway to another at a desired point in a bioprocess expands the horizons of metabolic engineering. Such an externally inducible switch can be realized by embedding synthetic operons behind tow corss-regulated promoters. This results in coordinated cessation of transcription of one operon while transcription of a second operon is simultaneously activated. The ability to effect such coordinated and inverse control of transcription of two operons has been illustrated experimentally using a model construct containing two different reporter genes, Vitreoscilla hemoglobin (VHb) and chloramphenicol acetyltransferase (CAT), fused to lambdaP(L) and tac promoters, respectively, along with corresponding repressor genes in a cross-regulation configuration. Only VHb production was observed preinduction, and postinduction only CAT was produced. The framework presented here and its obvious extensions can be used with different combinations of promoter systems and synthetic operon constructs to achieve complicated metabolic flux regulation in diverse host. (c) 1994 John Wiley & Sons, Inc.
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Affiliation(s)
- W Chen
- Department of Chemical Engineering, California Institute of Technology, Pasadena, California 91125
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19
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Tsai PS, Rao G, Bailey JE. Improvement of Escherichia coli microaerobic oxygen metabolism by Vitreoscilla hemoglobin: New insights from NAD(P)H fluorescence and culture redox potential. Biotechnol Bioeng 2012; 47:347-54. [PMID: 18623410 DOI: 10.1002/bit.260470309] [Citation(s) in RCA: 37] [Impact Index Per Article: 3.1] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/05/2022]
Abstract
On-line NAD(P)H fluorescence and culture redox potential (CRP) measurements were utilized to investigate the role of Vitreoscilla hemoglobin (VHb) in perturbing oxygen metabolism of microaerobic Escherichia coli Batch cultures of a VHb-synthesizing E. coli strain and the iso-genic control under fully aerated conditions were subject to several high/low oxygen transitions, and the NAD(P)H fluorescence and CRP were monitored during these passages. The presence of VHb decreased the rate of net NAD(P)H generation by 2.4-fold under diminishing oxygen tension. In the absence of aeration, the strain producing VHb maintained a steady NAD(P)H level 1.8-fold less than that of the control, indicating that the presence of VHb keeps E. coli in a more oxidized state under oxygen-limited conditions. Estimated from CRP, the oxygen uptake rates near anoxia were 25% higher for cells with VHb than those without. These results suggest that VHb-expressing cells have a higher microaerobic electron transport chain turnover rate. To examine how NAD(P)H utilization of VHb-expressing cells responds to rapidly changing oxygen tension, which is common in large-scale fermentations, we pulsed air intermittently into a cell suspension and recorded the fluorescence response to the imposed dissolved oxygen (DO) fluctuation. Relative to the control, cells containing VHb had a sluggish fluorescence response to sudden changes of oxygen tension, suggesting that VHb buffers intracellular redox perturbations caused by extracellular DO fluctuations.(c) John Wiley & Sons, Inc.
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Affiliation(s)
- P S Tsai
- Institute of Biotechnology, ETH-Hönggerberg, CH-8093 Zürich, Switzerland
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20
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Affiliation(s)
- N A da Silva
- Chemical Engineering Department, California Institute of Technology, Pasadena, California 91125
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21
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Loisel G, Bailey JE, Rochau GA, Dunham GS, Nielsen-Weber LB, Ball CR. A methodology for calibrating wavelength dependent spectral resolution for crystal spectrometers. Rev Sci Instrum 2012; 83:10E133. [PMID: 23126954 DOI: 10.1063/1.4740269] [Citation(s) in RCA: 3] [Impact Index Per Article: 0.3] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 06/01/2023]
Abstract
High quality absorption spectroscopy measurements were recently achieved at the Sandia National Laboratories Z facility in the soft x-ray range. Detailed spectral resolution knowledge is a key requirement for their interpretation. We present a methodology for measuring the wavelength dependent crystal spectral resolution, with a particular focus on the 7-17 Å range. We apply this procedure to the case of 1st order resolution of a potassium acid phthalate (KAP) convex crystal spectrometer. One calibration issue is that inferring the crystal resolution requires that the x-ray source emission feature widths and spectral profiles are known. To this aim, we resolve Manson x-ray source Si, Al, and Mg Kα line profiles using a KAP crystal spectrometer in 2nd order to achieve relatively high resolution. This information is exploited to measure 1st order KAP resolving powers λ∕Δλ∼1100-1300 in the 7-10 Å wavelength range.
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Affiliation(s)
- G Loisel
- Sandia National Laboratories, Albuquerque, New Mexico 87185, USA.
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22
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Gomez MR, Rochau GA, Bailey JE, Dunham GS, Kernaghan MD, Gard P, Robertson GK, Owen AC, Argo JW, Nielsen DS, Lake PW. Pinned, optically aligned diagnostic dock for use on the Z facility. Rev Sci Instrum 2012; 83:10D714. [PMID: 23126888 DOI: 10.1063/1.4732848] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 06/01/2023]
Abstract
The pinned optically aligned diagnostic dock (PODD) is a multi-configuration diagnostic platform designed to measure x-ray emission on the Z facility. The PODD houses two plasma emission acquisition (PEA) systems, which are aligned with a set of precision machined pins. The PEA systems are modular, allowing a single diagnostic housing to support several different diagnostics. The PEA configurations fielded to date include both time-resolved and time-integrated, 1D spatially resolving, elliptical crystal spectrometers, and time-integrated, 1D spatially resolving, convex crystal spectrometers. Additional proposed configurations include time-resolved, monochromatic mirrored pinhole imagers and arrays of filtered x-ray diodes, diamond photo-conducting diode detectors, and bolometers. The versatility of the PODD system will allow the diagnostic configuration of the Z facility to be changed without significantly adding to the turn-around time of the machine. Additionally, the PODD has been designed to allow instrument setup to be completed entirely off-line, leaving only a refined alignment process to be performed just prior to a shot, which is a significant improvement over the instrument the PODD replaces. Example data collected with the PODD are presented.
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Affiliation(s)
- M R Gomez
- Sandia National Labs, Albuquerque, New Mexico 87185, USA.
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23
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Nagayama T, Bailey JE, Rochau GA, Hansen SB, Mancini RC, MacFarlane JJ, Golovkin I. Investigation of iron opacity experiment plasma gradients with synthetic data analyses. Rev Sci Instrum 2012; 83:10E128. [PMID: 23126949 DOI: 10.1063/1.4738662] [Citation(s) in RCA: 1] [Impact Index Per Article: 0.1] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Track Full Text] [Subscribe] [Scholar Register] [Received: 05/08/2012] [Accepted: 07/05/2012] [Indexed: 06/01/2023]
Abstract
Experiments have been performed at Sandia National Laboratories Z-facility to validate iron opacity models relevant to the solar convection/radiation zone boundary. Sample conditions were measured by mixing Mg with the Fe and using Mg K-shell line transmission spectra, assuming that the plasma was uniform. We develop a spectral model that accounts for hypothetical gradients, and compute synthetic spectra to quantitatively evaluate the plasma gradient size that can be diagnosed. Two sample designs are investigated, assuming linear temperature and density gradients. First, Mg uniformly mixed with Fe enables temperature gradients greater than 10% to be detected. The second design uses Mg mixed into one side and Al mixed into the other side of the sample in an attempt to more accurately infer the sample gradient. Both temperature and density gradients as small as a few percent can be detected with this design. Experiments have successfully recorded spectra with the second design. In future research, the spectral model will be used to place bounds on gradients that exist in Z opacity experiments.
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Affiliation(s)
- T Nagayama
- Sandia National Laboratories, Albuquerque, New Mexico 87185, USA
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24
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Prescott A, Bailey JE, Kelly KJ, Munyombwe T, Gray A, Summers LKM. The effectiveness and cost of single and multi-factorial cardiovascular risk factor modification to guideline targets in type 2 diabetes. Prim Care Diabetes 2012; 6:67-73. [PMID: 22225755 DOI: 10.1016/j.pcd.2011.12.001] [Citation(s) in RCA: 1] [Impact Index Per Article: 0.1] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [MESH Headings] [Track Full Text] [Journal Information] [Submit a Manuscript] [Subscribe] [Scholar Register] [Received: 08/03/2011] [Revised: 12/03/2011] [Accepted: 12/04/2011] [Indexed: 11/22/2022]
Abstract
AIMS Cardiovascular disease is the main cause of morbidity and mortality in type 2 diabetes (T2DM), at huge cost to the NHS. We investigated the potential effect on population cardiovascular risk and associated costs of single and multi-factorial intervention, to target levels, in individuals with T2DM. METHODS Baseline population means and proportions for cardiovascular risk factors were calculated for 159 patients with T2DM from 3 general practices. Predicted 10year cardiovascular risk, and associated costs were calculated using the LIP2687 risk calculator, based on Framingham and UKPDS equations. Systolic blood pressure, HbA(1C), total cholesterol and HDL-cholesterol were altered to NICE and SIGN target levels and the model run again. The difference in outcomes was observed. RESULTS 45%, 76% and 38% of patients met NICE targets for cholesterol, systolic blood pressure and HbA1c, respectively. As expected, comparing the two guidelines, fewer patients met the 'stricter' targets (P=0.0001). Treatment-to-target produced no significant difference in cardiovascular risk or costs, although greater reductions in outcomes were seen with multi-factorial intervention. CONCLUSION This small study suggests that intervention in only those patients with the highest cardiovascular risk brings little reduction in population cardiovascular risk and associated health costs. Multi-factorial intervention in all patients with T2DM, regardless of baseline values, is likely to bring greater reductions. This raises the question as to whether the current emphasis on treatment to target should be modified to encourage multi-factorial intervention in all patients with T2DM, even those with baseline values below target levels.
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Affiliation(s)
- A Prescott
- Academic Unit of Primary Care, University of Leeds, United Kingdom
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25
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Jones B, Jennings CA, Bailey JE, Rochau GA, Maron Y, Coverdale CA, Yu EP, Hansen SB, Ampleford DJ, Lake PW, Dunham G, Cuneo ME, Deeney C, Fisher DV, Fisher VI, Bernshtam V, Starobinets A, Weingarten L. Doppler measurement of implosion velocity in fast Z-pinch x-ray sources. Phys Rev E Stat Nonlin Soft Matter Phys 2011; 84:056408. [PMID: 22181529 DOI: 10.1103/physreve.84.056408] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 12/08/2010] [Revised: 05/13/2011] [Indexed: 05/31/2023]
Abstract
The observation of Doppler splitting in K-shell x-ray lines emitted from optically thin dopants is used to infer implosion velocities of up to 70 cm/μs in wire-array and gas-puff Z pinches at drive currents of 15-20 MA. These data can benchmark numerical implosion models, which produce reasonable agreement with the measured velocity in the emitting region. Doppler splitting is obscured in lines with strong opacity, but red-shifted absorption produced by the cooler halo of material backlit by the hot core assembling on axis can be used to diagnose velocity in the trailing mass.
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Affiliation(s)
- B Jones
- Sandia National Laboratories, Albuquerque, New Mexico 87185, USA.
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26
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Fussenegger M, Moser S, Bailey JE. pQuattro vectors allow one-step multigene metabolic engineering and auto-selection of quattrocistronic artificial mammalian operons. Cytotechnology 2011; 28:229-35. [PMID: 19003423 DOI: 10.1023/a:1008014706196] [Citation(s) in RCA: 9] [Impact Index Per Article: 0.7] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/12/2022] Open
Abstract
Based on internal ribosomal entry sites (IRES) of picornaviral origin we constructed a novel family of mammalian expression vectors. pQuattro vectors contain quattrocistronic artificial eukaryotic operons which link, in a single transcript, the simultaneous and coordinated as well as adjustable expression of up to three independent genes of interest to a terminal neomycin (neo) resistance marker. Due to the strict genetic linkage of the transgenes and the terminal selection marker, this genetic configuration enables, by the selection on neomycin, multigene metabolic engineering of mammalian cells in a single step (one-step metabolic engineering). Furthermore, selection on the terminal cistron of multicistronic expression units enforces cocistronic expression of all upstream encoded genes and maximises genetic integrity of the eukaryotic operon in stable mammalian cell lines, since clones harbouring damaged multicistronic expression units become neomycin-sensitive and are automatically counterselected (auto-selection). The modular set-up and the abundance of restriction sites in pQuattro vectors facilitate the movement of individual genes between multicistronic expression vectors and guarantees high compatibility with genetic elements of a wide variety of existing mammalian expression vectors.
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Affiliation(s)
- M Fussenegger
- Swiss Federal Institute of Technology, ETH Zurich, Institute of Biotechnology, CH-8093, Zurich, Switzerland
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27
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Abstract
Contemporary basic research is rapidly revealing increasingly complex molecular regulatory networks which are often interconnected via key signal integrators. These connections among regulatory and catalytic networks often frustrate bioengineers as promising metabolic engineering strategies are bypassed by compensatory metabolic responses or cause unexpected, undesired outcomes such as apoptosis, product protein degradation or inappropriate post- translational modification. Therefore, for metabolic engineering to achieve greater success in mammalian cell culture processes and to become important for future applications such as gene therapy and tissue engineering, this technology must be enhanced to allow simultaneous, in cases conditional, reshaping of metabolic pathways to access difficult-to-attain cell states. Recent advances in this new territory of multigene metabolic engineering are intimately linked to the development of multicistronic expression technology which allows the simultaneous, and in some cases, regulated expression of several genes in mammalian cells. Here we review recent achievements in multicistronic expression technology in view of multigene metabolic engineering.
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Affiliation(s)
- M Fussenegger
- Swiss Federal Institute of Technology, ETH Zurich, Institute of Biotechnology, CH-8093, Zurich, Switzerland
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28
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Nash TJ, Rochau GA, Bailey JE. Design of dynamic Hohlraum opacity samples to increase measured sample density on Z. Rev Sci Instrum 2010; 81:10E518. [PMID: 21034046 DOI: 10.1063/1.3483230] [Citation(s) in RCA: 1] [Impact Index Per Article: 0.1] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 05/30/2023]
Abstract
We are attempting to measure the transmission of iron on Z at plasma temperatures and densities relevant to the solar radiation and convection zone boundary. The opacity data published by us to date has been taken at an electron density about a factor of 10 below the 9×10(22)/cm(3) electron density of this boundary. We present results of two-dimensional (2D) simulations of the heating and expansion of an opacity sample driven by the dynamic Hohlraum radiation source on Z. The aim of the simulations is to design foil samples that provide opacity data at increased density. The inputs or source terms for the simulations are spatially and temporally varying radiation temperatures with a Lambertian angular distribution. These temperature profiles were inferred on Z with on-axis time-resolved pinhole cameras, x-ray diodes, and bolometers. A typical sample is 0.3 μm of magnesium and 0.078 μm of iron sandwiched between 10 μm layers of plastic. The 2D LASNEX simulations indicate that to increase the density of the sample one should increase the thickness of the plastic backing.
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Affiliation(s)
- T J Nash
- Sandia National Laboratories, Albuquerque, New Mexico 87185, USA.
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29
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Hall IM, Durmaz T, Mancini RC, Bailey JE, Rochau GA. Data processing of absorption spectra from photoionized plasma experiments at Z. Rev Sci Instrum 2010; 81:10E324. [PMID: 21034022 DOI: 10.1063/1.3479007] [Citation(s) in RCA: 1] [Impact Index Per Article: 0.1] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 05/30/2023]
Abstract
We discuss the processing of x-ray absorption spectra from photoionized plasma experiments at Z. The data was recorded with an imaging spectrometer equipped with two elliptically bent potassium acid phthalate (KAP) crystals. Both time-integrated and time-resolved data were recorded. In both cases, the goal is to obtain the transmission spectra for quantitative analysis of plasma conditions.
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Affiliation(s)
- I M Hall
- Department of Physics, University of Nevada, Reno, Nevada 89557, USA.
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30
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Abstract
We analyzed intentional exposures to prescription opioids (buprenorphine, fentanyl, hydrocodone, hydromorphone, morphine, methadone and Oxycodone) using the Research Abuse, Diversion and Addiction-Related Surveillance System (RADARS) Poison Center data over a 5 year period 2003-2007 to see if there were temporal trends in the abuse and misuse of prescription drugs associated with (1) weekends vs. weekdays and (2) during select holiday periods vs. non-holiday periods. Over the study period 25 of 120 holiday period days showed a decrease of at least 1 SD from the mean and 9 of 120 holiday period days showed an increase of at least 1 SD from the mean. Over the study period there were 144,653 intentional exposures. Mean percent of cases by day of week ranged from 14.03% to 14.39%, with slightly higher use on weekend days. There was no significant difference when evaluating prevalence of intentional exposures by day of week (p = 0.99). There was no significant difference when evaluating weekend versus weekday (p > 0.05). In summary, the prevalence of abuse and misuse of prescription drugs was not impacted by day of the week or difference between weekday and weekend. The impact of 8 traditional holidays appeared to be associated with a minor decrease in abuse and misuse of prescription drugs. No temporally related increase in abuse and misuse of prescription drugs was noted and conversely a trend toward decreased abuse and misuse of prescription drugs was suggested.
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Affiliation(s)
- Henry Spiller
- Kentucky Regional Poison Center, Louisville, KY 40232-5070, USA.
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31
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Abstract
A quantitative assay of beta-galactosidase activity in single cells of Saccharomyces cerevisiae has been developed using a fluorogenic substrate and flow cytometry [reported in Wittrup & Bailey, Cytometry, 9,394 (1988)]. The beta-galactosidase activity is expressed in yeast from the Escherichia coli lacZ gene under the control of the yeast GAL10 promoter, and is used as a marker for multicopy plasmid content. A nonfluorescent fluorogenic substrate is enzymatically cleaved by intracellular beta-galactosidase to form a fluorescent product. The accumulation of fluorescent product in single cells was found to depend on bulk substrate concentration and single-cell enzyme activity in a fashion that could not be described by a Michaelis-Menten kinetic rate form. It has been demonstrated that diffusion limitation rather than enzyme activity can determine the level of single-cell fluorescence under certain assay conditions, and a mathematical model has; been formulated which accounts for substrate and product diffusion. Guided by the mathematical model, the assay conditions were modified to allow measurement of single-cell enzyme activity rather than diffusion rates.
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Affiliation(s)
- K D Wittrup
- Department of Chemical Engineering, California Institute of Technology, Pasadena, California 91125, USA
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32
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Licari P, Bailey JE. Modeling the population dynamics of baculovirus-infected insect cells: Optimizing infection strategies for enhanced recombinant protein yields. Biotechnol Bioeng 2010; 39:432-41. [PMID: 18600964 DOI: 10.1002/bit.260390409] [Citation(s) in RCA: 92] [Impact Index Per Article: 6.6] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/06/2022]
Abstract
The insect cell-baculovirus model presented here is capable of simulating cell population dynamics, extracellular virion densities, and heterologous product titers in reasonable agreement with experimental data for a wide rang of multiplicities of infection (MOI) and times of infection. The model accounts for the infection of a single cell by multiple virions and the consequences on the time course of infection. The probability of infection by more than one virion was approximated using the Poisson distribution, which proved to be a refinement over second-order kinetics. The model tracks initiation and duration of important events in the progression of infected cell development (virus replication, recombinant protein synthesis, and cell lysis) for subpopulations delineated by the time and extent of their initial infection. The model suggests infection strategies, weighing the importance of MOI and infection time. Maximum product titers result from infection in the early exponential growth phase with low MOI.
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Affiliation(s)
- P Licari
- Department of Chemical Engineering, California Institute of Technology, Pasadena, California 91125, USA
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33
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Diaz-Ricci JC, Regan L, Bailey JE. Effect of alteration of the acetic acid synthesis pathway on the fermentation pattern of escherichia coli. Biotechnol Bioeng 2010; 38:1318-24. [PMID: 18600733 DOI: 10.1002/bit.260381109] [Citation(s) in RCA: 66] [Impact Index Per Article: 4.7] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/07/2022]
Abstract
The glucose metabolism of an Escherichia coli strain bearing mutations abolishing both acetyl phosphotransferase (PTA) and acetate kinase (ACK) activities was studied under aerobic and anaerobic conditions. These studies were conducted in a complex medium with the mutant carrying no plasmid, the mutant carrying the common cloning vector pUC19, and the mutant carrying a plasmid bearing the "pet" operon that encodes Zymomonas mobilis pyruvate decarboxylase and alcohol dehydrogenase activities. The mutant carrying no plasmid showed lower specific growth and glucose uptake rates relative to the parent wild-type strain (K-12), Lactic acid was produced at higher levels than the wild type, and considerable amounts of pyruvic acid were secreted as an unusual byproduct. Analysis of other fermentation products showed low but significant amounts of acetic acid, no accumulation of formic acid, and lower secretion of succinate and ethanol. The maintenance of the plasmid pUC19 in the mutant negatively affected metabolism. Expression of the pet operon overcame the metabolic stress caused by the plasmid, enhancing growth and glucose uptake rates to the values observed in the plasmidfree mutant. Also, expression of the pet operon allowed consumption of pyruvate accumulated during the first hours of fermentation.
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Affiliation(s)
- J C Diaz-Ricci
- Department of Chemical Engineering, California Institute of Technology, Pasadena, California 91125, USA
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34
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Abstract
In metabolic engineering, systems which allow coordinated control of two metabolic pathways can be useful. We designed two expression systems and demonstrated their application by coordinating glycogen synthesis and degradation. The first expression vector pMSW2 expressed the glycogen synthesis genes in one operon and the glycogen degradation gene in a separate, coordinately regulated operon. The plasmid was designed to switch off expression of the first operon and activate expression of the second operon on addition of IPTG. As an alternative means to control glycogen synthesis and degradation pathways, we constructed expression vector pGTSD100, which contains the native Escherichia coli glycogen synthesis and degradation operon under control of the tac promoter. Both expression vectors work successfully to control the net synthesis and degradation of glycogen. In cultures of the E. coli strain TA3476 carrying the plasmid pMSW2, before the addition of IPTG, glycogen continued to accumulate in the culture. About three hours after IPTG was added, glycogen levels began to decrease. When no IPTG was added to cultures of TA3476:pMSW2, glycogen accumulated in the cells as before but the rate of degradation of glycogen was much lower. When IPTG was added to TA3476:pMSW2, the total cell protein at the end of batch cultivation was approximately 15% higher compared to cultures without IPTG addition. The extra biomass was formed during the glycogen degradation phase. (c) 1997 John Wiley & Sons, Inc. Biotechnol Bioeng 55: 419-426, 1997.
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Affiliation(s)
- N Dedhia
- Department of Chemical Engineering, California Institute of Technology, Pasadena, California 91125, USA
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35
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Licari P, Bailey JE. Factors influencing recombinant protein yields in an insect cell-bacuiovirus expression system: multiplicity of infection and intracellular protein degradation. Biotechnol Bioeng 2010; 37:238-46. [PMID: 18597361 DOI: 10.1002/bit.260370306] [Citation(s) in RCA: 84] [Impact Index Per Article: 6.0] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/09/2022]
Abstract
The insect cell (Sf9)-baculovirus (AcNPV) expression system was employed for the synthesis of beta-galactosidase, a model heterologous protein. In the recombinant virus studied, the lacZ gene is fused to a portion of the polyhedrin structural gene and is under the control of the polyhedrin promoter. The effect of the multiplicity of infection (MOI) on product titer was determined by infecting cells with MOI values ranging from 0 to 100 and monitoring the production of beta-galactosidase with time. The relationship between final product titer and MOI was dependent on the growth phase of the cells prior to infection. The final product titer from cells infected in the early exponential phase was relatively independent of MOI. For cells infected in late-exponential phase there was a logarithmic relationship between the final beta-galactosidase titer and the MOI used, with the highest MOI studied resulting in greatest protein synthesis. The synthesis and degradation rates of beta-galactosidase were investigated by a pulse-chase technique using L-[(35)S]-methionine. At 24 h postinfection, the degradation rate is of the same order of magnitude as the synthesis rate. However, the synthesis rate of beta-galactosidase increases dramatically at 96 h postinfection. During this later period, the degradation rate is negligible. Although degradation of recombinant protein occurs in this system, degradation activity declines as infection proceeds and is insignificant late in intention when recombinant protein expression is intense.
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Affiliation(s)
- P Licari
- Department of Chemical Engineering, California Institute of Technology, Pasadena, California 91125, USA
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Papadopoulos A, Rich A, Nutt DJ, Bailey JE. The effects of single dose anxiolytic medication on the CO2 models of anxiety: differentiation of subjective and objective measures. J Psychopharmacol 2010; 24:649-56. [PMID: 18832434 DOI: 10.1177/0269881108097716] [Citation(s) in RCA: 20] [Impact Index Per Article: 1.4] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [MESH Headings] [Track Full Text] [Journal Information] [Submit a Manuscript] [Subscribe] [Scholar Register] [Indexed: 11/15/2022]
Abstract
This was a double blind, placebo-controlled, 4-way cross-over study in 12 healthy volunteer subjects of the acute effects of three drugs each of which are used in the clinic to treat some forms of anxiety: propranolol 40 mg, hydroxyzine 25 mg, flupentixol 0.5 mg and placebo. Each test session consisted of inhalation of air for 20 min, 10-min rest, inhalation of CO2 7.5% for 20 min, 10-min rest, followed by a single vital capacity inhalation of 35% CO2. The CO2 7.5% was administered at peak drug effect. Subjective effects were measured using Visual Analogue Scales (VAS), the Panic Symptom Inventory and the Generalised Anxiety Disorder Assessment inventory. Twelve subjects participated (eight men), with a mean age of 25.9 years. The expected subjective effects of CO2 were seen and these were significantly different from effects of peak air. However, there were no statistically significant differences between the drugs or between drugs and placebo, indeed there was a trend for some VAS anxiety scores to be higher than placebo in the drug groups. There were some significant differences in cardiovascular responses to CO2, with propranolol significantly decreasing heart rate and flupentixol increasing blood pressure when compared with placebo. The lack of subjective anxiolytic actions of the three drugs contrasts with our previous findings with acute benzodiazepines and chronic selective serotonin reuptake inhibitor administration. It may be that prolonged treatment with these agents would be required to show anxiolytic effects, although it may also be that their efficacy is insufficient to be demonstrated in this model. The lack of anxiolytic actions of propranolol, despite a significant reduction in heart rate, is a further support for a central action of CO2 to produce anxiety.
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Affiliation(s)
- A Papadopoulos
- Psychopharmacology Unit, University of Bristol, Bristol, UK
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Shanks JV, Bailey JE. Elucidation of the cytoplasmic and vacuolar components in the inorganic phosphate region in the 31P NMR spectrum of yeast. Biotechnol Bioeng 2009; 35:1102-10. [PMID: 18592488 DOI: 10.1002/bit.260351105] [Citation(s) in RCA: 7] [Impact Index Per Article: 0.5] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/12/2022]
Abstract
Subcellular compartments, such as the vacuole in yeast, play important roles in cell metabolism and in cell response to external conditions. Concentrations of inorganic phosphate and pH values of the vacuole and cytoplasm were determined for anaerobic Saccharomyces cerevisiae cells based upon (31)P NMR spectroscopy. A new approach allows the determination of these values for the vacuole in cases when the resonance for inorganic phosphate in the cytoplasm overlaps with the resonance for inorganic phosphate in the vacuole. The intracellular inorganic phosphate resonance was first decomposed into two components by computer analysis. The assignments of the components were determined from in vivo correlations of P(i) chemical shift and the chemical shifts of the cytoplasmic sugar phosphates, and the pH dependency of the resonance of pyrophosphate and the terminal phosphate of poly-phosphate (PP(1)) which reside in the vacuole. An in vivo correlation relating PP(1) and P(i) (vac) chemical shifts was established from numerous evaluations of intracellular compositions for several strains of S. cerevisiae. This correlation will aid future analysis of (31)P NMR spectra of yeast and will extend NMR studies of compartmentation to cellular suspensions in phosphate-containing medium. Application of this method shows that both vacuolar and extracellular P(i) were phosphate reserves during glycolysis in anaerobic S. cerevisiae. Net transport of inorganic phosphate across the vacuolar membrane was not correlated with the pH gradient across the membrane.
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Affiliation(s)
- J V Shanks
- Department of Chemical Engineering, California Institute of Technology, Pasadena, California 91125, USA
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Bailey JE, Cho YK. Immobilization of glucoamylase and glucose oxidase in activated carbon: effects of particle size and immobilization conditions on enzyme activity and effectiveness. Biotechnol Bioeng 2009; 25:1923-35. [PMID: 18551539 DOI: 10.1002/bit.260250803] [Citation(s) in RCA: 52] [Impact Index Per Article: 3.5] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/08/2022]
Abstract
Glucoamylase and glucose oxidase have been immobilized on carbodiimide-treated activated carbon particles of various sizes. Loading data indicate nonuniform distribution of immobilized enzyme within the porous support particles. Catalysts with different enzyme loading and overall activities have been prepared by varying enzyme concentration in the immobilizing solution. Analysis of these results by a new method based entirely upon experimentally observable catalyst properties indicates that intrinsic catalytic activity is reduced by immobilization of both enzymes. Immobilized glucoamylase intrinsic activity decreases with increasing enzyme loading, and similar behavior is suggested by immobilized glucose oxidase data analysis. The overall activity data interpretation method should prove useful in other immobilized enzyme characterization research, especially in situations where the intraparticle distribution of immobilized enzyme is nonuniform and unknown.
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Affiliation(s)
- J E Bailey
- Department of Chemical Engineering, California Institute of Technology, Pasadena, California 91125, USA
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Shanks JV, Bailey JE. Estimation of intracellular sugar phosphate concentrations in Saccharomyces cerevisiae using 31P nuclear magnetic resonance spectroscopy. Biotechnol Bioeng 2009; 32:1138-52. [PMID: 18587832 DOI: 10.1002/bit.260320907] [Citation(s) in RCA: 31] [Impact Index Per Article: 2.1] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/09/2022]
Abstract
A systematic procedure has been formulated for estimating the relative intracellular concentrations of sugar phosphates in Saccharomyces cerevisiae based upon (31)P nuclear magnetic resonance (NMR) measurements. The sugar phosphate region of the (31)P NMR spectrum is first decomposed by computer analysis, and the decomposition consistency and identification of individual sugar phosphate resonances are established based on in vitro chemical shift calibrations determined in separate experiments. Numerous evaluations of intracellular S. cerevisiae compositions for different strains and different cell environments provide the basis for in vivocorrelations of inorganic phosphate chemical shift with the chemical shifts of 3-phosphoglycerate, beta;-fructose 1,6-diphosphate, fructose 6-phosphate, and glucose 6 phosphate. Relative intracellular sugar phosphate concentrations are obtained by correcting peak areas for partial saturation during transient in vivo experiments. In vivo concentrations estimated by this method agree well with estimates for similar systems based on other techniques. This approach does not require costly la belled compounds, and has the advantage that other important metabolic state variables such-as internal and external pH and intracellular levels of phosphate, ATP, ADP, NAD(H), and polyphosphate may be determined from the same (31)P spectrum. Extension of this strategy to other cellular systems should be straightforward.
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Affiliation(s)
- J V Shanks
- Department of Chemical Engineering, California Institute of Technology, Pasadena, California 91125, USA
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Galazzo JL, Bailey JE. Growing Saccharomyces cerevisiae in calcium-alginate beads induces cell alterations which accelerate glucose conversion to ethanol. Biotechnol Bioeng 2009; 36:417-26. [PMID: 18595096 DOI: 10.1002/bit.260360413] [Citation(s) in RCA: 96] [Impact Index Per Article: 6.4] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/10/2022]
Abstract
Nongrowing Saccharomyces cerevisiae cells previously grown in alginate exhibit ethanol production rates 1.5 times greater than cells previously grown in suspension. Analysis of glucose, ethanol, and glycerol formation data using quasi-steady-state pathway stoichiometry shows that alginate-grown cells possess phosphofructokinase (PFK), ATPase, and polysaccharide synthesis maximum activities which are approximately two-, two-, and ninefold larger, respectively, than in suspension-grown cells. The estimated change in PFK maximum velocity is consistent with in vitro assays of PFK activity in extracts of suspension- and alginate-grown yeast. Estimation of ethanol production flux control coefficients using in vivo nuclear magnetic resonance (NMR) spectroscopy measurements of intracellular metabolite concentrations and a previously proposed detailed kinetic model of ethanol fermentation in yeast shows that glucose uptake dominates flux control in alginate-grown cells in suspension while earlier research revealed that PFK and ATPase exert significant flux control in suspension-grown cells. When placed in a calcium alginate matrix, alginate-grown cells produced ethanol 1.8 times more rapidly and accumulated substantially more polyphosphate than suspension-grown cells placed in alginate. Cells growing in alginate elicit responses at the genetic level which substantially alter pathway rates and flux control when these cells are used as either a suspended or an immobilized biocatalyst. These responses in gene expression to growth in alginate serve to reconfigure flux controls in alginate to a pattern which is similar to that obtained for suspended-grown cells in suspension.
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Affiliation(s)
- J L Galazzo
- Department of Chemical Engineering, California Institute of Technology, Pasadena, California 91125, USA
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Abstract
The effects of NH(4)Cl addition on batch hybridoma cell growth at different external pH values (pH(e)) were investigated in a bioreactor at constant pH and dissolved oxygen concentration. In agreement with measurements in flasks, changes in pH(e) over the range 6.8-7.6 had minor effects on growth. Addition of 3 mM NH(4)Cl had little effect on cell growth while 10 mM NH(4)Cl caused a substantial growth inhibition, Measurements of the effects of pH(e) and NH(4)Cl concentration on cell metabolism gave similar results for cells grown in flasks in an incubator and in the bioreactor. As pH(e) decreases, the integral cell yield on glucose increases. There is a correlation between the effects of pH(e) on glycolysis and previous measurements of its effects on intracellular pH (pH(i)). Increases in NH(4)Cl concentration were previously determined to decrease pH(i) and are shown here to decrease the integral cell yield on glucose. At all pH(e) values in the absence of NH(4)Cl, glutamine is depleted at the time the maximum cell density is reached. Both pH(e) decreases and NH(4)Cl concentration increases lead to decreases in the integral cell yield on glutamine. Changes in pH(e) and in the NH(4)Cl concentration that cause growth inhibition have no effect on the specific antibody production rate for cells grown in flasks in an incubator or in the bioreactor. Changes in the NH(4)Cl concentration have no effect on the quality of the antibody produced, to a first level of characterization.
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Affiliation(s)
- A McQueen
- Department of Chemical Engineering, California Institute of Technology, Pasadena, California 91125, USA
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Abstract
We have established a novel production process which allows up to fourfold higher production of a model secreted protein, the human secreted alkaline phosphatase (SEAP), in Chinese hamster ovary (CHO) cells. A cytostatic production phase is established in which cell proliferation is inhibited or completely abolished. Such a cytostatic production phase is established by overexpression of the tumor suppressor genes p21, p27, or p53175P (a p53 mutant showing specific loss of apoptotic function) under transcriptional control of a tetracycline-repressible promoter (P(hCMV*-1)). In order to minimize complications due to possible clonal variation of selected, stable cell lines, our investigations are based on transiently transfected subpopulations, that have become a useful tool in industrial R&D. These subpopulations have been selected by flow cytometry for the expression of genes encoded on a dicistronic expression vector. These vectors contain a dicistronic expression unit consisting of the genes encoding the green fluorescent protein (GFP) or SEAP, followed by one of the cytostatic genes p21, p27 or p53175P encoded by the second cistron. p21, p27 as well as p53175P block the cell cycle of CHO cells in the G1-phase for a prolonged period. However, these G1-arrested cells remain viable and proliferation proficient upon repression of expression of the cytostatic gene. All three of the cytostatic genes studied provided similar regulation of proliferation, and also similar enhancements in SEAP production, suggesting that higher productivity may be a general and intrinsic feature of G1-phase arrested CHO cells. Overall productivity is most likely enhanced because growth-arrested cells do not need to devote cellular resources to biomass production.
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Affiliation(s)
- M Fussenegger
- Institute of Biotechnology, Swiss Federal Institute of Technology, ETH Zurich, CH-8093 Zurich, Switzerland
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Birnbaum S, Bailey JE. Plasmid presence changes the relative levels of many host cell proteins and ribosome components in recombinant Escherichia coli. Biotechnol Bioeng 2009; 37:736-45. [PMID: 18600670 DOI: 10.1002/bit.260370808] [Citation(s) in RCA: 136] [Impact Index Per Article: 9.1] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/08/2022]
Abstract
Relative levels of many individual proteins in Escherichia coli HB101 strains with 0, 37, 56, and 240 plasmids per chromosome were determined by computer image analysis of two-dimensional gel electrophoresis patterns. The plasmids investigated had very similar sequences except for small domains encoding the repressor of plasmid replication. At the intermediate plasmid copy number of 56, levels of several of the TCA cycle enzymes (oxoglutarate dehydrogenase complex, succinate thiokinase, and succinate dehydrogenase) as well as in aspartate transcarbamoylase increased. At a plasmid copy number of 240, higher amounts of PEP carboxylase as well as several of the heat shock proteins were observed. Furthermore, at high plasmid levels, significant decreases occurred in growth rate, pyruvate kinase I, pyruvate dehydrogenase complex, unadenylated glutamine synthetase, aspartate transcarbamoylase as well as in several of the proteins involved in translation. Decreases in ribosome content as well as in the free 30S and 50S ribosomal subunit pool fractions were also observed in separate analyses. These results indicate that recombinant DNA manipulations can cause major alterations in numerous host cell properties which could significantly influence cloned protein production or metabolic engineering endeavors.
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Affiliation(s)
- S Birnbaum
- Department of Chemical Engineering, California Institute of Technology, Pasadena, California 91125, USA
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Wittrup KD, Bailey JE, Ratzkin B, Patel A. Propagation of an amplifiable recombinant plasmid in Saccharomyces cerevisiae: flow cytometry studies and segregated modeling. Biotechnol Bioeng 2009; 35:565-77. [PMID: 18592552 DOI: 10.1002/bit.260350604] [Citation(s) in RCA: 13] [Impact Index Per Article: 0.9] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/06/2022]
Abstract
Efficient expression of a foreign protein product by the yeast Saccharomyces cerevisiae requires a stable recombinant vector present at a high number of copies per cell. A conditional centromere yeast plasmid was constructed which can be amplified to high copy number by a process of unequal partitioning at cell division, followed by selection for increased copy number. However, in the absence of selection pressure for plasmid amplification, copy number rapidly drops from 25 plasmids/cell to 6 plasmids/cell in less than 10 generations of growth. Copy number subsequently decreases from 6 plasmids/cell to 2 plasmids/cell over a span of 50 generations. A combination of flow cytometric measurement of copy number distributions and segregated mathematical modeling were applied to test the predictions of a conceptual model of conditional centromere plasmid propagation. Measured distributions of plasmid content displayed a significant subpopulation of cells with a copy number of 4-6, even in a population whose mean copy number was 13.5. This type of copy number distribution was reproduced by a mathematical model which assumes that a maximum of 4-6 centromere plasmids per cell can be stably partitioned at cell division. The model also reproduces the observed biphasic kinetics of plasmid number instability. The agreement between simulation and experimental results provides support for the proposed model and demonstrates the utility of the flow cytometry/segregated modeling approach for the study of multicopy recombinant vector propagation.
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Affiliation(s)
- K D Wittrup
- Department of Chemical Engineering, California Institute of Technology, Pasadena, California 91125, USA
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Abstract
For many metabolic systems, available experimental data allow description of the system by elasticities and control coefficients. The availability of information of this kind motivated the development of a (log)linear kinetic model of metabolic systems that is completely and explicitly determined by this information. It is shown here that this model can accurately describe the dynamic responses of metabolic systems that exhibit strong nonlinearities. Based on the excellent approximation provided by the (log)linear model, a method is developed for the estimation of the performance of metabolic systems subject to spatiotemporal variations of the system parameters and the process operating conditions. The method suggests experiments that can quantify the effect of these variations. Study of a model glycolytic pathway illustrates the applicability and the usefulness of this framework. Time-average flux control coefficients are shown to vary strongly and not monotonically as the period of the external variations changes.
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Affiliation(s)
- V Hatzimanikatis
- Institute of Biotechnology, ETH-Zurich, CH-8093 Zurich, Switzerland
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Bailey JE, Papadopoulos A, Seddon K, Nutt DJ. A comparison of the effects of a subtype selective and non-selective benzodiazepine receptor agonist in two CO(2) models of experimental human anxiety. J Psychopharmacol 2009; 23:117-22. [PMID: 18562427 DOI: 10.1177/0269881108089603] [Citation(s) in RCA: 32] [Impact Index Per Article: 2.1] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Track Full Text] [Journal Information] [Submit a Manuscript] [Subscribe] [Scholar Register] [Indexed: 11/15/2022]
Abstract
Studies in human volunteers that can demonstrate proof of concept are attractive in that possible mechanisms and potential new drug treatments can be examined. We have been developing models of anxiety disorders using the inhalation of 7.5% CO(2) for 20 min to model generalised anxiety disorder, as well as using the previously reported 35% CO(2) as a model for panic anxiety. In a double-blind, placebo-controlled, three-way crossover study in 12 healthy volunteer subjects, we compared a full agonist at the benzodiazepine receptor that binds to four alpha-subtypes of the receptor (alpha-1,-2,-3,-5) (alprazolam 1 mg), with zolpidem (5 mg), an agonist selective for the alpha-1 subtype of the gamma amino butyric acid-receptor subtype A (GABA-A) receptor, which is a widely used hypnotic drug. Compared with placebo, both drugs significantly attenuated peak CO(2)-induced changes in subjective feelings after the inhalation of 7.5% CO(2) for 20 min. However, there were fewer significant differences after a single vital capacity inhalation of 35% CO(2), where zolpidem was less efficacious than alprazolam at reducing CO(2)-induced symptoms. In conclusion, our results show that zolpidem shows some anxiolytic efficacy in the 7.5% CO(2) model, similar to alprazolam, and this is the first report of such an effect of zolpidem in a model of anxiety. These and other studies of benzodiazepines in clinical and volunteer studies suggest a definite role of the GABA-A receptor in CO(2)-induced anxiety, and it would be of interest to examine other GABA-A receptor subtype selective drugs, which are now in early phase clinical studies and are showing selective efficacy in pharmacodynamic studies.
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Affiliation(s)
- J E Bailey
- Psychopharmacology Unit, University of Bristol, Bristol, UK.
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Bailey JE, Rochau GA, Mancini RC, Iglesias CA, MacFarlane JJ, Golovkin IE, Pain JC, Gilleron F, Blancard C, Cosse P, Faussurier G, Chandler GA, Nash TJ, Nielsen DS, Lake PW. Diagnosis of x-ray heated Mg/Fe opacity research plasmas. Rev Sci Instrum 2008; 79:113104. [PMID: 19045886 DOI: 10.1063/1.3020710] [Citation(s) in RCA: 2] [Impact Index Per Article: 0.1] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 05/27/2023]
Abstract
Understanding stellar interiors, inertial confinement fusion, and Z pinches depends on opacity models for mid-Z plasmas in the 100-300 eV temperature range. These models are complex and experimental validation is crucial. In this paper we describe the diagnosis of the first experiments to measure iron plasma opacity at a temperature high enough to produce the charge states and electron configurations that exist in the solar interior. The dynamic Hohlraum x-ray source at Sandia National Laboratories' Z facility was used to both heat and backlight Mg/Fe CH tamped foils. The backlighter equivalent brightness temperature was estimated to be T(r) approximately 314 eV+/-8% using time-resolved x-ray power and imaging diagnostics. This high brightness is significant because it overwhelms the sample self-emission. The sample transmission in the 7-15.5 A range was measured using two convex potassium acid phthalate crystal spectrometers that view the backlighter through the sample. The average spectral resolution over this range was estimated to be lambda/deltalambda approximately 700 by comparing theoretical crystal resolution calculations with measurements at 7.126, 8.340, and 12.254 A. The electron density was determined to be n(e)=6.9+/-1.7 x 10(21) cm(-3) using the Stark-broadened Mg Hebeta, Hegamma, and Hedelta lines. The temperature inferred from the H-like to He-like Mg line ratios was T(e)=156+/-6 eV. Comparisons with three different spectral synthesis models all have normalized chi(2) that is close to unity, indicating quantitative consistency in the inferred plasma conditions. This supports the reliability of the results and implies the experiments are suitable for testing iron opacity models.
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Affiliation(s)
- J E Bailey
- Sandia National Laboratories, Albuquerque, New Mexico 87185-1196, USA
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Rochau GA, Bailey JE, Maron Y, Chandler GA, Dunham GS, Fisher DV, Fisher VI, Lemke RW, Macfarlane JJ, Peterson KJ, Schroen DG, Slutz SA, Stambulchik E. Radiating shock measurements in the Z-pinch dynamic hohlraum. Phys Rev Lett 2008; 100:125004. [PMID: 18517878 DOI: 10.1103/physrevlett.100.125004] [Citation(s) in RCA: 1] [Impact Index Per Article: 0.1] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Track Full Text] [Subscribe] [Scholar Register] [Received: 10/23/2007] [Indexed: 05/26/2023]
Abstract
The Z-pinch dynamic hohlraum is an x-ray source for high energy-density physics studies that is heated by a radiating shock to radiation temperatures >200 eV. The time-dependent 300-400 eV electron temperature and 15-35 mg/cc density of this shock have been measured for the first time using space-resolved Si tracer spectroscopy. The shock x-ray emission is inferred from these measurements to exceed 50 TW, delivering >180 kJ to the hohlraum.
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Affiliation(s)
- G A Rochau
- Sandia National Laboratories, Albuquerque, New Mexico 87185, USA
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Bailey JE, Rochau GA, Iglesias CA, Abdallah J, Macfarlane JJ, Golovkin I, Wang P, Mancini RC, Lake PW, Moore TC, Bump M, Garcia O, Mazevet S. Iron-plasma transmission measurements at temperatures above 150 eV. Phys Rev Lett 2007; 99:265002. [PMID: 18233582 DOI: 10.1103/physrevlett.99.265002] [Citation(s) in RCA: 11] [Impact Index Per Article: 0.6] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Track Full Text] [Subscribe] [Scholar Register] [Received: 07/26/2007] [Indexed: 05/25/2023]
Abstract
Measurements of iron-plasma transmission at 156+/-6 eV electron temperature and 6.9+/-1.7 x 10(21) cm(-3) electron density are reported over the 800-1800 eV photon energy range. The temperature is more than twice that in prior experiments, permitting the first direct experimental tests of absorption features critical for understanding solar interior radiation transport. Detailed line-by-line opacity models are in excellent agreement with the data.
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Affiliation(s)
- J E Bailey
- Sandia National Laboratories, Albuquerque, New Mexico 87185, USA
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Bailey JE, Papadopoulos A, Lingford-Hughes A, Nutt DJ. D-Cycloserine and performance under different states of anxiety in healthy volunteers. Psychopharmacology (Berl) 2007; 193:579-85. [PMID: 17510758 DOI: 10.1007/s00213-007-0817-9] [Citation(s) in RCA: 25] [Impact Index Per Article: 1.5] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [MESH Headings] [Track Full Text] [Journal Information] [Submit a Manuscript] [Subscribe] [Scholar Register] [Received: 02/09/2007] [Accepted: 04/27/2007] [Indexed: 10/23/2022]
Abstract
RATIONALE There is interest in the development of augmentation therapy in the treatment of anxiety disorders. Recent publications have shown that D-cycloserine can benefit exposure therapy in a group of acrophobic (height phobic) subjects and in patients with social anxiety disorder. These studies were based on the animal data suggesting that drugs acting to enhance glutamate function may be developed to accelerate the behavioural treatment of anxiety disorders. Perhaps by enhancing glutamate/N-methyl-D-aspartate receptor function, learning is thus enhanced. This study examines the effects of D-cycloserine 50 mg on a task that involves learning. We manipulated anxiety levels to model the effects of high anxiety. OBJECTIVES To evaluate performance and learning, we used the Manikin task. Two groups of 24 healthy volunteers participated in a double-blind, placebo-controlled study. One group received the inhalation of CO(2) 7.5% to model high anxiety, and the second group received air to represent lower anxiety. Subjects received D-cycloserine 50 mg or placebo, and the Manikin task was performed during the gas inhalation. RESULTS There were significant differences in the group inhaling air, but not CO(2), with the D-cycloserine group showing an increase in correct responses. This difference was apparent at several time blocks during the 20-min task. These findings were supported by subjective measures in that participants who received D-cycloserine reported that the task was easier. CONCLUSIONS We have shown that at lower anxiety levels, D-cycloserine 50 mg improved the performance of this challenging visuospatial cognitive task. This increase in performance was not seen when anxiety was higher, and D-cycloserine did not appear to increase subjective anxiety. These data lend support to the use of D-cycloserine and related glutamate enhancers as cognitive modulators and suggest that the actions of D-cycloserine are not simply related to increased arousal or anxiety.
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Affiliation(s)
- J E Bailey
- Psychopharmacology Unit, University of Bristol, UK.
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