Éditeur(s) : IEEE
Résumé : This paper aims at studying the quality of the sea surface salinity (SSS) retrieved from soil moisture and ocean salinity (SMOS) data in coastal areas. These areas are characterized by strong and variable SSS gradients [several practical salinity units (psu) on relatively small scales: the extent of river plumes is highly variable, typically at kilometric and daily scales. Monitoring this variability from SMOS measurements is particularly challenging because of their resolution (typically 30-100 km) and because of the contamination by the nearby land. A set of academic tests was conducted with a linear coastline and constant geophysical parameters, and more realistic tests were conducted over the Bay of Biscay. The bias of the retrieved SSS has been analyzed, as well as the root mean square (rms) of the bias, and the retrieved SSS compared to a numerical hydrodynamic model in the semirealistic case. The academic study showed that the Blackman apodization window provides the best compromise in terms of magnitude and fluctuations of the bias of the retrieved SSS. Whatever the type of vegetation cover, a strong negative bias, greater than 1 psu, was found when nearer than 36 km from the coast. Between 44 and 80 km, the type of vegetation cover has an impact of less than a factor 2 on the bias, and no influence further than 80 km from the coast. The semirealistic study conducted in the Bay of Biscay showed a bias over ten days lower than 0.2 psu for distances greater than 47 km, due to an averaging over various geometries (coastline orientation, swath orientation, etc.). The bias showed a weak dependence on the location of the grid point within the swath. Despite the noise on the retrieved SSS, contrasts due to the plume of the Loire River and the Gironde estuary remained detectable on ten-day averaged maps with an rms of 0.57 psu. Finally, imposing thresholds on the major axis of the measurements brought little improvement to the bias, whereas it increased the rms and- could lead to strong swath restriction: a 49-km threshold on the major axis resulted in an effective swath of 800-900 km instead of 1200 km. NOT CONTROLLED OCR
Transactions on geoscience an remote sensing IEEE (0196-2892) (IEEE), 2007-07 , Vol. 45 , N. 7 , P. 2061-2072

Droits : 2007 IEEE
http://archimer.ifremer.fr/doc/2007/publication-3643.pdf
DOI:10.1109/TGRS.2007.894934
http://archimer.ifremer.fr/doc/00000/3643/

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) : Elsevier
Résumé : The accumulation of nine heavy metals in fine-grained sediments from the mangrove fringed coast of French Guiana is evaluated. The dynamic features of the South American tropical coastline, from the Amazon to the Orinoco Rivers, result in mangrove sediments being alternately submitted to phases of erosion and net sedimentation a few tens of years long. This process influences the distribution of the heavy metals associated with these frequently re-mobilized deposits. Sedimentary cores and mangrove plant samples were collected, at different seasons, in various swamps characterized by different properties (content of sedimentary organic matter, distance from sea water and fresh water). The ranges of measured concentrations expressed in mu mol g(-1) were the following: Cu (0.06 to 0.61), Co (0.12 to 0.68), Pb (0.08 to 0.18), Ni (0.32 to 0.76), Cr (0.61 to 1.40), Zn (1.25 to 5.94), Mn (4.36 to 45.4) and Fe (441 to 1128). No differences were found between sediments from mangroves developing upstream and downstream of urban areas, i.e. Cayenne and Kourou. This suggests that the content of mangrove sediments in heavy metals along the coastline of French Guiana is essentially the result of the continuous alternation of accumulation and transport phases occurring upstream after departing from the Amazon watershed. The sources of this heavy metals content are thus difficult to identify. However it is well known that the alluvium produced by the natural erosion of the Amazonian soils is naturally enriched in mercury. Also, the run-off from gold mining activities is known to contribute to mercury pollution. Ranges in total Hg were between 0.15 and 2.57 nmol g(-1), with mean values close to 0.41 nmol g(-1), and were clearly correlated with total organic carbon except for some outstanding high values, which may be a result of rapid geochemical changes. Heavy metal concentrations showed variations with depth. The redox conditions and the decay processes affecting the organic matter control the cycling of iron and manganese, which in turn control the concentrations and associations of heavy metals. These preliminary results suggest that the variations in heavy metal content with depth or between mangrove areas result largely from diagenetic processes rather than changes in metal input resulting from local human activities. (c) 2005 Elsevier B.V. All rights reserved.
Marine Chemistry (0304-4203) (Elsevier), 2006 , Vol. 98 , N. 1 , P. 1-17

Droits : 2005 Elsevier B.V. All rights reserved
http://archimer.ifremer.fr/doc/2006/publication-1041.pdf
DOI:10.1016/j.marchem.2005.06.001
http://archimer.ifremer.fr/doc/00000/1041/

Éditeur(s) : HAL CCSD Elsevier
Résumé : The relationship between deformation and so-called fluid paleotransfers in minor faults has been analysed in an argillaceous formation located in the Causses Basin in France. The fluid paleotransfers are related to the fault activity to a large extent. We attempt to estimate the intensity of paleo-deviatoric stress magnitudes under which the fault activity may have occurred and consequently, the change in the structural fault permeability. The paleo-deviatoric stress magnitudes were calculated with the inverse method of Etchecopar applied to calcite twinning. The measured crystals are contained within the core zone of minor faults and this study is based on a previous complete microtectonic and microstructural analysis of the faults. In this paper, analysis of calcite twinning has been applied for the first time to vein fillings associated small faults in a context of relatively weak deformation, a condition ensured by the tectonic and structural analysis. Calculation and discussion of the paleo-deviatoric stress tensors in relation to the evolution of the structural fault permeability and to the hydraulic behaviour of the faults are the aim of this paper. The analysed faults, created and active during the same tectonic event, were permeable under a (;σ;1;–;σ;3;) mean value of 40–50 MPa. On the other hand, the reactivation of faults during a second tectonic event implies mean (;σ;1;–;σ;3;) value higher than 40–50 MPa, especially for the faults that are poorly oriented with respect to the principal tectonic stress directions. The core zone of these faults remained sealed and impermeable or became permeable by development of microcracks inside the pre-existing fillings.
ISSN: 0040-1951

hal-00407577
https://hal.archives-ouvertes.fr/hal-00407577
DOI : 10.1016/j.tecto.2006.09.014

Éditeur(s) : HAL CCSD Elsevier
Résumé : International audience
We review the evolution of concepts on and methods of estimating the state of stress from fault movements. Theories of failure in isotropic materials suggested a simple geometrical construction of optimal principal stress directions from a fault plane and its associated slip. These optimal directions align shear stress and slip directions and maximize the difference between shear stress and frictional resistance on the fault plane. Optimal stress directions for calcite twinning are obtained by a similar construction, with the difference that they maximize shear stress. Force representation of seismic sources independently introduced pressure, P, and tension, T, axes at positions that also maximize shear stress on both nodal planes. Frictional slip theory and the constraint that slip and shear stress directions be parallel allowed to address reactivation of pre-existing faults. This suggested that stress could also be inverted from reactivated fault and slip data or earthquake focal mechanisms. Early methods relied on geometrical constructions as a substitute for calculations, whereas later methods relied on software as these calculations became tractable with the help of computers. Similar methods were developed for the inversion of stress from crystal twin gliding with non-optimal geometry, with a different criterion that relies on a threshold of the component of shear stress along the gliding line. Even though these methods seek a common stress tensor compatible with fault and slip data, their main use is to separate polyphase data into homogeneous subsets and help deciphering complex tectonic histories. Fault and slip data can also be analyzed to constrain the strain rather than the stress tensor. In most cases this involves a summation and yields an average strain for the considered rock volume. Stress inversion thus appears better suited for differentiating heterogeneous data whereas strain analysis appears better suited for homogenizing them.
ISSN: 0040-1951

hal-00759043
https://hal.archives-ouvertes.fr/hal-00759043
DOI : 10.1016/j.tecto.2012.02.009