Éditeur(s) : HAL CCSD Landes Bioscience
Résumé : International audience
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.
Autophagy

hal-00735751
https://hal.archives-ouvertes.fr/hal-00735751
PUBMED : 22966490

Éditeur(s) : HAL CCSD European Geosciences Union
Résumé : International audience
The seasonal climate drivers of the carbon cycle in tropical forests remain poorly known, although these forests account for more carbon assimilation and storage than any other terrestrial ecosystem. Based on a unique combination of seasonal pan-tropical data sets from 89 experimental sites (68 include aboveground wood productivity measurements and 35 litter productivity measurements), their associated canopy photosynthetic capacity (enhanced vegetation index, EVI) and climate, we ask how carbon assimilation and aboveground allocation are related to climate seasonality in tropical forests and how they interact in the seasonal carbon cycle. We found that canopy photosynthetic capacity seasonality responds positively to precipitation when rainfall is < 2000 mm yr(-1) (water-limited forests) and to radiation otherwise (light-limited forests). On the other hand, independent of climate limitations, wood productivity and litterfall are driven by seasonal variation in precipitation and evapotranspiration, respectively. Consequently, light-limited forests present an asynchronism between canopy photosynthetic capacity and wood productivity. First-order control by precipitation likely indicates a decrease in tropical forest productivity in a drier climate in water-limited forest, and in current light-limited forest with future rainfall < 2000 mm yr(-1).
ISSN: 1726-4170

hal-01557759
https://hal.univ-lorraine.fr/hal-01557759
https://hal.univ-lorraine.fr/hal-01557759/document
https://hal.univ-lorraine.fr/hal-01557759/file/bg-13-2537-2016.pdf
DOI : 10.5194/bg-13-2537-2016

Éditeur(s) : HAL CCSD American Geophysical Union
Résumé : International audience
The anisotropic single crystal seismic properties are reviewed in the light of recent experimental and theoretical determinations. Although considerable progress has been made on the determination of single crystal properties, data are still lacking, particularly for the temperature derivatives of transition zone and lower mantle phases. The common types of LPO of olivine, opx and cpx are presented together with their associated seismic properties. It is emphasized that simple seismic symmetry pattern of upper mantle rocks are a direct result of the interaction of olivine, opx and cpx. Using the standard structural frame (X lineation, Z pole to foliation) for typical LPOs of olivine, opx and cpx have the maximum Vp parallel to X, in the XZ plane and parallel to Y respectively. Destructive interference occurs between these minerals and hence P-wave anisotropy should be sensitive to the aggregate composition. For shear wave splitting (dVs) typical olivine and opx LPOs result in similar patterns with the maximum dVs in the YZ plane and the fast split shear wave (Vs1) polarized parallel to the foliation. A typical cpx LPO on the other hand produces destructive interference as the max dVs is close to X. By comparison with experiments and numerical simulations, it is estimated that upper mantle samples have an olivine LPO strength which recorded shear strain gamma of between 0.25 and 2.0. Pyrolite and piclogite models are compared with global transverse isotropic models. The slowly reducing P-wave anisotropy in the first 200 km can be explained by a model with constant composition and LPO strength. The sharp decrease in the observed anisotropy in the global models cannot be explained by the transformation of opx to cpx at 300 km, it is proposed that this decrease is due to a reduction in LPO strength from 200 to 350 km at the base of the lithosphere.
Earth's Deep Interior: Mineral Physics and Tomography From the Atomic Scale to the Global Scale

ISBN : 9780875909752
hal-01391524
http://hal.univ-reunion.fr/hal-01391524
http://hal.univ-reunion.fr/hal-01391524/document
http://hal.univ-reunion.fr/hal-01391524/file/Mainprice_AGUmonog_DM_GB_WBI_2000.pdf