| 1. |
- Klionsky, Daniel J., et al.
(författare)
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Guidelines for the use and interpretation of assays for monitoring autophagy
- 2012
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Ingår i: Autophagy. - : Informa UK Limited. - 1554-8635 .- 1554-8627. ; 8:4, s. 445-544
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Forskningsöversikt (refereegranskat)abstract
- In 2008 we published the first set of guidelines for standardizing research in autophagy. Since then, research on this topic has continued to accelerate, and many new scientists have entered the field. Our knowledge base and relevant new technologies have also been expanding. Accordingly, it is important to update these guidelines for monitoring autophagy in different organisms. Various reviews have described the range of assays that have been used for this purpose. Nevertheless, there continues to be confusion regarding acceptable methods to measure autophagy, especially in multicellular eukaryotes. A key point that needs to be emphasized is that there is a difference between measurements that monitor the numbers or volume of autophagic elements (e.g., autophagosomes or autolysosomes) at any stage of the autophagic process vs. those that measure flux through the autophagy pathway (i.e., the complete process); thus, a block in macroautophagy that results in autophagosome accumulation needs to be differentiated from stimuli that result in increased autophagic activity, defined as increased autophagy induction coupled with increased delivery to, and degradation within, lysosomes (in most higher eukaryotes and some protists such as Dictyostelium) or the vacuole (in plants and fungi). In other words, it is especially important that investigators new to the field understand that the appearance of more autophagosomes does not necessarily equate with more autophagy. In fact, in many cases, autophagosomes accumulate because of a block in trafficking to lysosomes without a concomitant change in autophagosome biogenesis, whereas an increase in autolysosomes may reflect a reduction in degradative activity. Here, we present a set of guidelines for the selection and interpretation of methods for use by investigators who aim to examine macroautophagy and related processes, as well as for reviewers who need to provide realistic and reasonable critiques of papers that are focused on these processes. These guidelines are not meant to be a formulaic set of rules, because the appropriate assays depend in part on the question being asked and the system being used. In addition, we emphasize that no individual assay is guaranteed to be the most appropriate one in every situation, and we strongly recommend the use of multiple assays to monitor autophagy. In these guidelines, we consider these various methods of assessing autophagy and what information can, or cannot, be obtained from them. Finally, by discussing the merits and limits of particular autophagy assays, we hope to encourage technical innovation in the field.
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| 2. |
- Takahashi, H., et al.
(författare)
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A thermal-neutron detector with a phoswich system of LiCaAlF6 and BGO crystal scintillators onboard PoGOLite
- 2010
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Ingår i: 2010 IEEE Nuclear Science Symposium, Medical Imaging Conference, NSS/MIC 2010 and 17th International Workshop on Room-Temperature Semiconductor X-ray and Gamma-ray Detectors, RTSD 2010. ; , s. 32-37
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Konferensbidrag (refereegranskat)abstract
- To measure the flux of atmospheric neutrons and study the neutron contribution to the background of the main detector of the PoGOLite (Polarized Gamma-ray Observer) balloon-borne experiment, a thermal-neutron detector with a phoswich system of LiCaAlF6 (Eu) and BGO crystal scintillators is developed. The performance to separate thermal-neutron events from those of gamma-rays and charged particles is validated with 252Cf on ground. The detector is attached to the PoGOLite instrument and is launched in 2011 from the Esrange facility in the North of Sweden. Although the emission wavelength of the LiCaAlF6 (Ce) is 300 nm and overlaps with the absorption wavelength of the BGO, the phoswich capability of the LiCaAlF6 (Ce) with the BGO is also confirmed with installing a waveform shifter.
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| 3. |
- Prokhorov, Dmitry, et al.
(författare)
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A high-resolution study of the X-ray emission and Sunyaev-Zel'dovich effect in the Bullet cluster (1E 0657-56)
- 2012
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Ingår i: Monthly notices of the Royal Astronomical Society. - : Oxford University Press (OUP). - 0035-8711 .- 1365-2966. ; 426:3, s. 2291-2299
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Tidskriftsartikel (refereegranskat)abstract
- High-resolution imaging of the SunyaevZel'dovich (SZ) effect opens new possibilities for testing the presence of various high-energy particle populations in clusters of galaxies. A detailed X-ray analysis of the Bullet cluster (1E 0657-56) with Chandra has revealed the presence of additional X-ray spectral components beyond a simple, single-temperature plasma in its X-ray spectra. X-ray methods alone are insufficient to elucidate the origins of these spectral components. We show that the morphology and magnitude of the SZ effect at high frequencies are critically dependent upon the mechanism by which the additional X-ray spectra are created. We examine the differences between the predicted SZ effect emission maps at 600?GHz assuming the X-ray spectra are composed of thermal gas with a steep power-law index component and also thermal gas with a significant contribution of strongly heated gas. A two-temperature model with a hot (kT ? 3040?keV) second component is the most consistent with existing SZ data at high frequencies. However, significant morphological differences remain. High-angular-resolution SZ intensity maps at high frequencies in combination with deep X-ray data provide a new window into understanding particle energization processes in the hottest, massive merging galaxy clusters.
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| 4. |
- Kawano, H., et al.
(författare)
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Pi 2 waves simultaneously observed by Cluster and CPMN ground-based magnetometers near the plasmapause
- 2011
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Ingår i: Annales Geophysicae. - : Copernicus GmbH. - 0992-7689 .- 1432-0576. ; 29:9, s. 1663-1672
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Tidskriftsartikel (refereegranskat)abstract
- We have analyzed an event on 14 February 2003 in which Cluster satellites and the CPMN ground magnetometer chain made simultaneous observations of a Pi 2 pulsation along the same meridian. Three of the four Cluster satellites were located outside the plasmasphere, while the other one was located within the plasmasphere. By combining the multipoint observations in space and the multipoint observations on the ground, we have obtained a detailed L-profile of the Pi 2 signatures, which has not been done in the past. In addition, we have used a method called Independent Component Analysis (ICA) to separate out other superposed waves with similar spectral components. The result shows that the wave phase of the Pi 2 was the same up to L similar to 3.9 (corresponding to the plasmasphere), became earlier up to L similar to 4.1 (corresponding to the plasmapause boundary layer), and showed a delaying tendency up to L similar to 5.9 (corresponding to the plasmatrough). This systematic phase pattern, obtained for the first time by a combination of a ground magnetometer chain and multisatellites along a magnetic meridian with the aid of ICA, supports the interpretation that a Pi 2 signal propagated from a farther source and reached the plasmasphere.
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| 5. |
- Prokhorov, Dmitry, et al.
(författare)
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A high-frequency study of the Sunyaev-Zel'dovich effect morphology in galaxy clusters
- 2011
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Ingår i: Monthly notices of the Royal Astronomical Society. - : Oxford University Press (OUP). - 0035-8711 .- 1365-2966. ; 416:1, s. 302-310
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Tidskriftsartikel (refereegranskat)abstract
- High-frequency, high-resolution imaging of the Sunyaev-Zel'dovich (SZ) effect is an important technique to study the complex structures of the atmospheres of merging galaxy clusters. Such observations are sensitive to the details of the electron spectrum. We show that the morphology of the SZ intensity maps in simulated galaxy clusters observed at 345, 600 and 857 GHz are significantly different because of SZ relativistic corrections. These differences can be revealed by high-resolution imaging instruments. We calculate relativistically corrected SZ intensity maps of a simulated, massive, merging galaxy cluster and of the massive, merging clusters 1E0657-558 (the Bullet cluster) and Abell 2219. The morphologies of the SZ intensity maps are remarkably different between 345 and 857 GHz for each merging cluster. We show that high-resolution imaging observations of the SZ intensity maps at these frequencies, obtainable with the LABOCA and HERSCHEL-SPIRE instruments, allow to fully exploit the astrophysical relevance of the predicted SZ morphological effect.
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| 6. |
- Schoehe, S., et al.
(författare)
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Free-charge carrier parameters of n-type, p-type and compensated InN:Mg determined by infrared spectroscopic ellipsometry
- 2014
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Ingår i: Thin Solid Films. - : Elsevier. - 0040-6090 .- 1879-2731. ; 571, s. 384-388
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Tidskriftsartikel (refereegranskat)abstract
- Infrared spectroscopic ellipsometry is applied to investigate the free-charge carrier properties of Mg-doped InN films. Two representative sets of In-polar InN grown by molecular beam epitaxy with Mg concentrations ranging from 1.2 x 10(17) cm(-3) to 8 x 10(20) cm(-3) are compared. P-type conductivity is indicated for the Mg concentration range of 1 x 10(18) cm(-3) to 9 x 10(19) cm(-3) from a systematic investigation of the longitudinal optical phonon plasmon broadening and the mobility parameter in dependence of the Mg concentration. A parameterized model that accounts for the phonon-plasmon coupling is applied to determine the free-charge carrier concentration and mobility parameters in the doped bulk InN layer as well as the GaN template and undoped InN buffer layer for each sample. The free-charge carrier properties in the second sample set are consistent with the results determined in a comprehensive analysis of the first sample set reported earlier [Schoche et al., J. Appl. Phys. 113, 013502 (2013)]. In the second set, two samples with Mg concentration of 2.3 x 10(20) cm(-3) are identified as compensated n-type InN with very low electron concentrations which are suitable for further investigation of intrinsic material properties that are typically governed by high electron concentrations even in undoped InN. The compensated n-type InN samples can be clearly distinguished from the p-type conductive material of similar plasma frequencies by strongly reduced phonon plasmon broadening.
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| 7. |
- Xie, Mengyao, et al.
(författare)
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Effect of Mg doping on the structural and free-charge carrier properties of InN
- 2014
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Ingår i: Journal of Applied Physics. - : AIP Publishing. - 0021-8979 .- 1089-7550. ; 115:16, s. 163504-
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Tidskriftsartikel (refereegranskat)abstract
- We study the structural and free-charge carrier properties of two sets of InN films grown by molecular beam epitaxy doped with different Mg concentrations from 1x1018 cm-3 to 3.9x1021 cm-3. We determine the effect of Mg doping on surface morphology, lattice parameters, structural characteristics and carrier properties. We show that infrared spectroscopic ellipsometry can be used to evidence successful p-type doping in InN, which is an important issue in InN. High resolution X-ray diffraction, combined with atomic force microscopy measurements reveals a drastic decrease in structural quality of the film for Mg concentrations above 1020 cm-3, accompanied with a significant increase in surface roughness. In addition, a decrease of the c-lattice parameter and an increase of the a-lattice parameter are found with increasing Mg concentration. Different contributions to the strain are discussed and it is suggested that the incorporation of Mg leads to a change of growth mode and generation of tensile growth strain. At high Mg concentrations zinc-blende InN inclusions appear which are suggested to originate from higher densities of stacking faults. Infrared spectroscopic ellipsometry analysis shows a reduced LPP-coupling, manifested as a characteristic dip in the IRSE data, and qualitatively different broadening behavior for Mg concentrations between 1.1x1018 cm−3 and 2.9x1019 cm−3 indicate the existence of a p-type conducting bulk InN layer for these Mg concentrations.
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| 8. |
- Prokhorov, Dmitry, et al.
(författare)
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Can electron distribution functions be derived through the Sunyaev-Zel'dovich effect?
- 2011
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Ingår i: Astronomy and Astrophysics. - : EDP Sciences. - 0004-6361 .- 1432-0746. ; 529
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Tidskriftsartikel (refereegranskat)abstract
- Aims. Measurements of the Sunyaev-Zel'dovich (hereafter SZ) effect distortion of the cosmic microwave background provide methods to derive the gas pressure and temperature of galaxy clusters. Here we study the ability of SZ effect observations to derive the electron distribution function (DF) in massive galaxy clusters. Methods. Our calculations of the SZ effect include relativistic corrections considered within the framework of the Wright formalism and use a decomposition technique of electron DFs into Fourier series. Using multi-frequency measurements of the SZ effect, we find the solution of a linear system of equations that is used to derive the Fourier coefficients; we further analyze different frequency samples to decrease uncertainties in Fourier coefficient estimations. Results. We propose a method to derive DFs of electrons using SZ multi-frequency observations of massive galaxy clusters. We found that the best frequency sample to derive an electron DF includes high frequencies nu = 375, 600, 700, 857 GHz. We show that it is possible to distinguish a Juttner DF from a Maxwell-Bolzman DF as well as from a Juttner DF with the second electron population by means of SZ observations for the best frequency sample if the precision of SZ intensity measurements is less than 0.1%. We demonstrate by means of 3D hydrodynamic numerical simulations of a hot merging galaxy cluster that the morphologies of SZ intensity maps are different for frequencies nu = 375, 600, 700, 857 GHz. We stress that measurements of SZ intensities at these frequencies are a promising tool for studying electron distribution functions in galaxy clusters.
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| 9. |
- Prokhorov, Dmitry, et al.
(författare)
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Unveiling the 3D temperature structure of galaxy clusters by means of the thermal Sunyaev-Zel'dovich effect
- 2011
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Ingår i: Monthly notices of the Royal Astronomical Society. - : Oxford University Press (OUP). - 0035-8711 .- 1365-2966. ; 415:3, s. 2505-2512
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Tidskriftsartikel (refereegranskat)abstract
- The Sunyaev-Zel'dovich (hereinafter SZ) effect is a promising tool to derive the gas temperature of galaxy clusters. Approximation of a spherically symmetric gas distribution is usually used to determine the temperature structure of galaxy clusters, but this approximation cannot properly describe merging galaxy clusters. The methods used so far, which do not assume the spherically symmetric distribution, permit us to derive 2D temperature maps of merging galaxy clusters. In this paper, we propose a method to derive the standard temperature deviation and temperature variance along the line of sight, which permits us to analyse the 3D temperature structure of galaxy clusters by means of the thermal SZ effect. We also propose a method to reveal merger shock waves in galaxy clusters by analysing the presence of temperature inhomogeneities along the line of sight.
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| 10. |
- Schöche, S., et al.
(författare)
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Infrared to vacuum-ultraviolet ellipsometry and optical Hall-effect study of free-charge carrier parameters in Mg-doped InN
- 2013
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Ingår i: Journal of Applied Physics. - : American Institute of Physics (AIP). - 0021-8979 .- 1089-7550. ; 113:1, s. 013502-
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Tidskriftsartikel (refereegranskat)abstract
- Infrared to vacuum-ultraviolet spectroscopic ellipsometry and far-infrared optical Hall-effect measurements are applied to conclude on successful p-type doping of InN films. A representative set of In-polar Mg-doped InN films with Mg concentrations ranging from 1.2 x 10(16) cm(-3) to 3.9 x 10(21) cm(-3) is investigated. The data are compared and discussed in dependence of the Mg concentration. Differences between n-type and p-type conducting samples are identified and explained. p-type conductivity in the Mg concentration range between 1.1 x 10(18) cm(-3) and 2.9 x 10(19) cm(-3) is indicated by the appearance of a dip structure in the infrared spectral region related to a loss in reflectivity of p-polarized light as a consequence of reduced LO phonon plasmon coupling, by vanishing free-charge carrier induced birefringence in the optical Hall-effect measurements, and by a sudden change in phonon-plasmon broadening behavior despite continuous change in the Mg concentration. By modeling the near-infrared-to-vacuum-ultraviolet ellipsometry data, information about layer thickness, electronic interband transitions, as well as surface roughness is extracted in dependence of the Mg concentration. A parameterized model that accounts for the phonon-plasmon coupling is applied for the infrared spectral range to determine the free-charge carrier concentration and mobility parameters in the doped bulk InN layer as well as the GaN template and undoped InN buffer layer. The optical Hall-effect best-match model parameters are consistent with those obtained from infrared ellipsometry analysis.
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