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
Recent sedimentary facies and processes along the offshore slope of east Taiwan are investigated using a large set of geophysical and sedimentological data. The Taiwan orogen is often considered as one of the most tectonically active regions in the world and also suffers important climatic activity with an average of four typhoons per year. We have mapped in details the morphosedimentary features and characterized the sedimentary facies along offshore eastern Taiwan. There, we show that the slope is driven by a variety of erosional processes from mass wasting to turbidity current. Mass movements such as slides or mass transport deposits (MTDs) are ubiquitous and affect the whole east coast off Taiwan. Detailed core investigations, such as grain size analysis, chemical and mineralogical composition, revealed that turbidite facies range from thin fine-grained turbidites to thick massive turbidite facies. The detailed analysis of turbidite beds allow us to discuss the controlling factors of turbidity current generation. Turbidity currents represent an important sedimentary process that governs the slope morphology off east Taiwan. Triggering mechanisms likely range from slope instabilities related to earthquakes shaking to failure relative to climatic-controlled pulses of sediment supply. We propose that at least two end-members are characteristics in our turbidite records in term of controlling factor:1) Turbidity currents likely generated by tectonic activity and earthquakes shaking in particular; and2) Turbidity currents likely generated by climatic activity such as typhoon-induced floods.
ISSN: 0025-3227

hal-01277768
https://hal.archives-ouvertes.fr/hal-01277768
DOI : 10.1016/j.margeo.2015.05.013

Éditeur(s) : HAL CCSD Elsevier
Résumé : International audience
The Taiwan area, where the Philippine Sea Plate collides with Eurasia, is one of the most seismically active areas in the world and has been consequently struck repeatedly by destructive earthquakes. To better constrain the occurrence of large earthquakes, we have conducted two cruises in 2012 and 2013 from which five piston, gravity and box-cores were retrieved from selected sites in targeted areas that contain continuous and accurate turbidite deposition offshore eastern Taiwan. Forty-seven turbidite layers deposited between 675 BC and 2012 AD have been described in the cores with facies varying from silty clay to coarse sand. We modeled each turbidite layer using the sedimentation rate deduced from radiocarbon age measurements performed on planktonic foraminifers. Precise dating based on 210Pb–137Cs chronology provided ages for the XXth century turbidites. Coring sites' locations, biotic association within turbidites beds and seismic calibration over the instrumental period, suggest that earthquakes are the most likely triggering mechanisms of turbidity currents over the last 2700 years. Calibration of correlations between turbidites and instrumental earthquakes allowed us to determine the minimum magnitude of recorded events (Mw = 6.8) and the maximum distance between the epicenter and the slope failure. Turbidites' synchroneity between cores has been tested but results showed that this criterion cannot be used in our study area because of the high level of seismicity, i.e., a M > 6.8 earthquake recurrence interval much smaller than the uncertainty on radiocarbon ages. The excellent accuracy of dating allows correlating all the turbidites deposited since 1920 with instrumental earthquakes. For each core, we established a return time ranging between 112 and 147 years for the period pre-1900 and ~ 27 and 34 years for the period post-1900. The discrepancy between pre-1900 and post-1900 recurrence either suggests, that slope stability varies, with higher slope instability after 1900 possibly due to increased sediment delivery by rivers.
ISSN: 0040-1951

hal-01467627
https://hal.archives-ouvertes.fr/hal-01467627
DOI : 10.1016/j.tecto.2016.04.030