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 Elsevier
Résumé : International audience
This manuscript reports on a novel field experiment carried out on a microtidal beach in Camargue, France. For the first time in the field, a comprehensive description of the groundwater dynamics under sandy beach swash zone is presented. A cross-shore network of 15 buried pressure sensors is combined with terrestrial LiDAR measurements to study the swash-groundwater dynamics. The presented data focus on the decay of a moderate storm which allows to monitor the evolution of the groundwater pressure field in response to the retreat of the swash zone. Both horizontal and vertical head gradients are measured within the porous sand soil to estimate the groundwater flow field using Darcy’s law. Time-averaged analysis demonstrates the presence of a rather consistent groundwater circulation pattern under the swash zone, shifting offshore with the swash zone. The main tendency is an offshore directed flow, with infiltration/exfiltration in the upper/lower parts of the swash zone. Time-resolved analysis highlights the typical groundwater response to swash events which consists mainly of an overall infiltration flow during the bed inundation by the swash tongue, a seaward flow during the swash retreat and, for long backwash events, a localized exfiltration flow under the next incoming uprush.
ISSN: 0309-1708

hal-01412450
https://hal.archives-ouvertes.fr/hal-01412450
DOI : 10.1016/j.advwatres.2016.09.009