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| 2. |
- 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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| 3. |
- Bentham, James, et al.
(författare)
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A century of trends in adult human height
- 2016
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Ingår i: eLIFE. - 2050-084X. ; 5
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Tidskriftsartikel (refereegranskat)abstract
- Being taller is associated with enhanced longevity, and higher education and earnings. We reanalysed 1472 population-based studies, with measurement of height on more than 18.6 million participants to estimate mean height for people born between 1896 and 1996 in 200 countries. The largest gain in adult height over the past century has occurred in South Korean women and Iranian men, who became 20.2 cm (95% credible interval 17.522.7) and 16.5 cm (13.319.7) taller, respectively. In contrast, there was little change in adult height in some sub-Saharan African countries and in South Asia over the century of analysis. The tallest people over these 100 years are men born in the Netherlands in the last quarter of 20th century, whose average heights surpassed 182.5 cm, and the shortest were women born in Guatemala in 1896 (140.3 cm; 135.8144.8). The height differential between the tallest and shortest populations was 19-20 cm a century ago, and has remained the same for women and increased for men a century later despite substantial changes in the ranking of countries.
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| 4. |
- Bentham, James, et al.
(författare)
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A century of trends in adult human height
- 2016
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Ingår i: eLIFE. - : eLife Sciences Publications Ltd. - 2050-084X. ; 5
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Tidskriftsartikel (refereegranskat)abstract
- Being taller is associated with enhanced longevity, and higher education and earnings. We reanalysed 1472 population-based studies, with measurement of height on more than 18.6 million participants to estimate mean height for people born between 1896 and 1996 in 200 countries. The largest gain in adult height over the past century has occurred in South Korean women and Iranian men, who became 20.2 cm (95% credible interval 17.5–22.7) and 16.5 cm (13.3– 19.7) taller, respectively. In contrast, there was little change in adult height in some sub-Saharan African countries and in South Asia over the century of analysis. The tallest people over these 100 years are men born in the Netherlands in the last quarter of 20th century, whose average heights surpassed 182.5 cm, and the shortest were women born in Guatemala in 1896 (140.3 cm; 135.8– 144.8). The height differential between the tallest and shortest populations was 19-20 cm a century ago, and has remained the same for women and increased for men a century later despite substantial changes in the ranking of countries.
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| 6. |
- Kehoe, Laura, et al.
(författare)
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Make EU trade with Brazil sustainable
- 2019
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Ingår i: Science. - : American Association for the Advancement of Science (AAAS). - 0036-8075 .- 1095-9203. ; 364:6438, s. 341-
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Tidskriftsartikel (övrigt vetenskapligt/konstnärligt)
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| 7. |
- Beal, Jacob, et al.
(författare)
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Robust estimation of bacterial cell count from optical density
- 2020
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Ingår i: Communications Biology. - : Springer Science and Business Media LLC. - 2399-3642. ; 3:1
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Tidskriftsartikel (refereegranskat)abstract
- Optical density (OD) is widely used to estimate the density of cells in liquid culture, but cannot be compared between instruments without a standardized calibration protocol and is challenging to relate to actual cell count. We address this with an interlaboratory study comparing three simple, low-cost, and highly accessible OD calibration protocols across 244 laboratories, applied to eight strains of constitutive GFP-expressing E. coli. Based on our results, we recommend calibrating OD to estimated cell count using serial dilution of silica microspheres, which produces highly precise calibration (95.5% of residuals <1.2-fold), is easily assessed for quality control, also assesses instrument effective linear range, and can be combined with fluorescence calibration to obtain units of Molecules of Equivalent Fluorescein (MEFL) per cell, allowing direct comparison and data fusion with flow cytometry measurements: in our study, fluorescence per cell measurements showed only a 1.07-fold mean difference between plate reader and flow cytometry data.
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| 8. |
- Melo, Clarissa L., et al.
(författare)
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CO2MOVE Project : The New Brazilian Field Lab Fully Dedicated to CO2 MMV Experiments
- 2017
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Ingår i: 13th International Conference on Greenhouse Gas Control Technologies, GHGT-13. - : Elsevier. ; , s. 3699-3715
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Konferensbidrag (refereegranskat)abstract
- After the Ressacada Project experience acquired from 2011 to 2015 when PUCRS, UNESP and other institutions conducted three controlled CO2 release experiments, PETROBRAS, the national oil company that is sponsoring the project, has launched a new challenge to its partners. The company stimulated the implementation of a new Brazilian experimental site where there will be a deepening of studies in geologically more complex conditions and more challenging from a technological point of view. The choice of an area inside PUCRS campus, in Viamao - Rio Grande do Sul state, was motivated by a predominantly clay subsoil and the privileged location of the site in terms of ease logistics and security, which is required for a project of this size that houses high-tech equipment with significant cost. The CO2MOVE project started at 2015 with the subsurface characterization of the site and the assembly and manufacture of an automated system for CO2 and gas tracers with injection capacity for 5 to 50 kg/ day. Based on physical characterization studies and on numerical modeling that is being developed, the site infrastructure will be completed in the next months with the positioning of vertical injection wells, monitoring wells, and other equipment and monitoring mesh. Monitoring tools should be arranged in an area of approximately 100m(2), occupying the entire region surrounding the injection wells. Fieldwork involving CO2 injection and monitoring should have a 60 days duration of which 15 days are for preliminary surveys (pre-injection), 30 days for injection and CO2 monitoring and the last 15 days for post-injection measurements. Following this work, the collected data will be analyzed in the university labs. Similarly to Ressacada Project, this experiment will run measurements of soil CO2 flux with accumulation chambers, CO2 turbulent fluxes with Eddy Covariance, subsurface gases and groundwater monitoring, and resistivity measurements. Other monitoring methods still not tested by the research team will be held as gas tracers monitoring and laser measurements. (C) 2017 The Authors. Published by Elsevier Ltd.
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| 9. |
- Melo, Clarissa L., et al.
(författare)
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Integration results of soil CO2 flux and subsurface gases in the Ressacada Pilot site, Southern Brazil
- 2017
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Ingår i: 13th International Conference on Greenhouse Gas Control Technologies, GHGT-13. - : Elsevier. ; , s. 3793-3804
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Konferensbidrag (refereegranskat)abstract
- The first CO2 monitoring field lab at the Ressacada Farm, in the Southern region of Brazil, started in 2011 and until 2015 offered an excellent opportunity to run controlled CO2 releases experiments in soil and shallow subsurface through vertical injection wells. This paper focus on the presentation and comparison of the results obtained at the last campaign realized at this site in August 2015. The results integrate a time-lapse monitoring experiment of CO2 migration in both saturated and unsaturated sand-rich sediments and soil, using soil CO2 flux measurements and subsurface gas analyses through CO2 concentrations (ppm) and carbon isotope ratios (delta C-13 of CO2). The CO2 flux results in the studied area showed an increase in the flux values according to the increasing of injection rate and along the campaign are directed to the southwest portion of the area. However, even by injecting large amounts of CO2, fluxes are greatly reduced when it rains. The gas analysis also showed an increase in CO2 concentrations according to the increasing of the injection rate mainly in the superficial levels of the monitoring wells (0.5m and 2m depth). The delta C-13 of CO2 found on the 3rd injection day showed the presence of CO2 injected and demonstrate that the sampling methodology with vacutainer vial was effective, since there is no atmospheric contamination. The correlation of isotopic analysis were consistent with the results of concentrations and CO2 fluxes and thus, it is clear that the CO2 breakthrough occurred from the 3rd day of injection, while were obtained the largest CO2 fluxes, the higher gas concentrations in the subsurface, as well as the industrial origin of delta C-13 of CO2.
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