| 1. |
- Klionsky, Daniel J., et al.
(author)
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Guidelines for the use and interpretation of assays for monitoring autophagy
- 2012
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In: Autophagy. - : Informa UK Limited. - 1554-8635 .- 1554-8627. ; 8:4, s. 445-544
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Research review (peer-reviewed)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. |
- Akkoyun, S., et al.
(author)
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AGATA - Advanced GAmma Tracking Array
- 2012
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In: Nuclear Instruments and Methods in Physics Research, Section A: Accelerators, Spectrometers, Detectors and Associated Equipment. - : Elsevier BV. - 0168-9002 .- 0167-5087 .- 1872-9576. ; 668, s. 26-58
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Journal article (peer-reviewed)abstract
- The Advanced GAmma Tracking Array (AGATA) is a European project to develop and operate the next generation γ-ray spectrometer. AGATA is based on the technique of γ-ray energy tracking in electrically segmented high-purity germanium crystals. This technique requires the accurate determination of the energy, time and position of every interaction as a γ ray deposits its energy within the detector volume. Reconstruction of the full interaction path results in a detector with very high efficiency and excellent spectral response. The realisation of γ-ray tracking and AGATA is a result of many technical advances. These include the development of encapsulated highly segmented germanium detectors assembled in a triple cluster detector cryostat, an electronics system with fast digital sampling and a data acquisition system to process the data at a high rate. The full characterisation of the crystals was measured and compared with detector- response simulations. This enabled pulse-shape analysis algorithms, to extract energy, time and position, to be employed. In addition, tracking algorithms for event reconstruction were developed. The first phase of AGATA is now complete and operational in its first physics campaign. In the future AGATA will be moved between laboratories in Europe and operated in a series of campaigns to take advantage of the different beams and facilities available to maximise its science output. The paper reviews all the achievements made in the AGATA project including all the necessary infrastructure to operate and support the spectrometer. © 2011 Elsevier B.V. All rights reserved.
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| 3. |
- Crespi, F. C. L., et al.
(author)
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Isospin Character of Low-Lying Pygmy Dipole States in Pb-208 via Inelastic Scattering of O-17 Ions
- 2014
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In: Physical Review Letters. - 0031-9007 .- 1079-7114. ; 113:1, s. 012501-
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Journal article (peer-reviewed)abstract
- The properties of pygmy dipole states in Pb-208 were investigated using the Pb-208(O-17, O-17'gamma) reaction at 340 MeV and measuring the gamma decay with high resolution with the AGATA demonstrator array. Cross sections and angular distributions of the emitted gamma rays and of the scattered particles were measured. The results are compared with (gamma, gamma') and (p, p') data. The data analysis with the distorted wave Born approximation approach gives a good description of the elastic scattering and of the inelastic excitation of the 2(+) and 3(-) states. For the dipole transitions a form factor obtained by folding a microscopically calculated transition density was used for the first time. This has allowed us to extract the isoscalar component of the 1(-) excited states from 4 to 8 MeV.
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| 4. |
- Pellegri, L., et al.
(author)
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Pygmy dipole resonance in Sn-124 populated by inelastic scattering of O-17
- 2014
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In: Physics Letters B. - : Elsevier BV. - 0370-2693 .- 1873-2445. ; 738, s. 519-523
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Journal article (peer-reviewed)abstract
- The gamma decay from the high-lying states of Sn-124 was measured using the inelastic scattering of O-17 at 340 MeV. The emitted gamma rays were detected with high resolution with the AGATA demonstrator array and the scattered ions were detected in two segmented Delta E-E silicon telescopes. The angular distribution was measured both for the gamma rays and the scattered O-17 ions. An accumulation of E1 strength below the particle threshold was found and compared with previous data obtained with (gamma,gamma') and (alpha,alpha'gamma) reactions. The present results of elastic scattering, and excitation of E2 and E1 states were analysed using the DWBA approach. From this comprehensive description the isoscalar component of the 1-excited states was extracted. The obtained values are based on the comparison of the data with DWBA calculations including a form factor deduced using a microscopic transition density.
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| 5. |
- Söderström, Pär-Anders, et al.
(author)
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High-spin structure in K-40
- 2012
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In: Physical Review C. Nuclear Physics. - 0556-2813 .- 1089-490X. ; 86:5, s. 054320-
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Journal article (peer-reviewed)abstract
- High-spin states of K-40 have been populated in the fusion-evaporation reaction C-12(Si-30,np)K-40 and studied by means of gamma-ray spectroscopy techniques using one triple-cluster detector of the Advanced Gamma Tracking Array at the Istituto Nazionale di Fisica Nucleare, Laboratori Nazionali di Legnaro. Several states with excitation energy up to 8 MeV and spin up to 10(-) have been discovered. These states are discussed in terms of J = 3 and T = 0 neutron-proton hole pairs. Shell-model calculations in a large model space have shown good agreement with the experimental data for most of the energy levels. The evolution of the structure of this nucleus is here studied as a function of excitation energy and angular momentum.
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