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 The Royal Society
Résumé : International audience
Conservation commonly requires trade-offs between social and ecological goals. For tropical small-scale fisheries, spatial scales of socially appropriate management are generally small— the median no-take locally managed marine area (LMMA) area throughout the Pacific is less than 1 km 2. This is of particular concern for large coral reef fishes, such as many species of grouper, which migrate to aggregations to spawn. Current data suggest that the catchment areas (i.e. total area from which individuals are drawn) of such aggregations are at spatial scales that preclude effective community-based management with no-take LMMAs. We used acoustic telemetry and tag-returns to examine reproductive migrations and catchment areas of the grouper Epinephelus fuscoguttatus at a spawning aggregation in Papua New Guinea. Protection of the resultant catchment area of approximately 16 km 2 using a no-take LMMA is socially untenable here and throughout much of the Pacific region. However, we found that spawning migrations were skewed towards shorter distances. Consequently, expanding the current 0.2 km 2 no-take LMMA to 1–2 km 2 would protect approximately 30–50% of the spawning population throughout the non-spawning season. Contrasting with current knowledge, our results demonstrate that species with moderate reproductive migrations can be managed at scales congruous with spatially restricted management tools.
ISSN: 2054-5703

Droits : http://creativecommons.org/licenses/by/
hal-01297717
https://hal-univ-perp.archives-ouvertes.fr/hal-01297717
https://hal-univ-perp.archives-ouvertes.fr/hal-01297717/document
https://hal-univ-perp.archives-ouvertes.fr/hal-01297717/file/150694.full.pdf
DOI : 10.1098/rsos.150694

Éditeur(s) : HAL CCSD Elsevier
Résumé : International audience
A subject of continuing debate is how the Earth's lithospheric portion of the upper mantle has remained the thickest (> 200 km) and oldest (> 3 Gy) beneath cratons and is yet surrounded by a vigorously convecting asthenosphere. It is generally admitted that water is a key parameter in the strength and longevity of cratonic roots, because olivine, the main phase of the lithospheric mantle, becomes stronger if its water content decreases. Expanding upon the work presented in Novella et al. (2015) and Taylor et al. (2016), we report new water contents for additional olivine inclusions in diamonds together with the trace-element composition for all olivine inclusions, as well as for mantle xenoliths from various kimberlite pipes located on the Siberian craton. The olivine diamond inclusions from this study have systematically low-water contents (< 50 ppmw H2O), moderate to high forsterite (e.g., Fo91–94) contents and low Ni, Co, and Zn ppm contents (e.g., < 2848, < 108, and < 47 ppm, respectively). In contrast, olivines from Siberian craton mantle xenoliths have a wide range of water contents (6–323 ppmw H2O) and extend to lower-Fo (91–92), Ni, Co, and Zn-rich compositions, compared to the diamond inclusions. Depleted incompatible trace-element concentrations in olivine (0.1–0.001 × Primitive Mantle) advance our hypothesis for the protogenetic origins for the majority of Siberian diamond inclusions. These observations are consistent with the peridotite xenoliths as representing a part of the cratonic lithosphere that has experienced melt re-fertilization, which has also transported water. The olivine diamond inclusions, on the other hand, preserve “micro-samples” of an initial, dry cratonic lithosphere, mostly resulting from melting events. These inclusions are likely sourced from the initial cratonic mantle lithosphere, which thereby, resisted delamination over time, due to its buoyancy and strength, imparted from melt and water depletion, respectively. And thus, our data provides a major argument that the kimberlite-hosted mantle xenoliths may be more metasomatized than common rocks at the base of the Siberian and other cratonic roots away from kimberlite fields.
ISSN: 0024-4937

hal-01467731
https://hal.archives-ouvertes.fr/hal-01467731
DOI : 10.1016/j.lithos.2016.07.023