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
We investigate the timing of end of motion along the South Tibet Detachment System (STDS), a major normal fault system that runs parallel to the Himalayan range for more than 1500 km. Near Dinggye (similar to 28 degrees 10'N, 87 degrees 40'E), the STD dips similar to 10 +/- 5 degrees to the North and separates Paleozoic Tethyan series from Upper Himalayan Crystalline Series (UHCS). Immediately below the STD, the UHCS is highly deformed in the STD shear zone, lineations trend NNE and the shear senses are top to the NE. In micaschist, the P-T path constrained by pseudosection and garnet chemistry, shows successive metamorphic conditions of similar to 0.6 GPa and similar to 550 degrees C and 0.5 GPa and 625 degrees C. U/Pb dating of monazites and zircons in deformed and undeformed leucogranites suggests that ductile deformation lasted until at least similar to 16 Ma but ended prior to similar to 15 Ma in the STD shear zone similar to 100 m below the detachment. Ar/Ar micas ages in the footwall span between similar to 14.6 and 13.6 Ma, indicating rapid cooling down to similar to 320 degrees C, and suggesting persistence of normal faulting, at that time. The STDS is cut and offset by the N-S trending Dinggye active normal fault which initiated prior to 11 Ma thus providing a minimum bound for the end of STDS motion. These data are interpreted as reflecting 0.3 GPa (11 km) to 0.6 GPa (22 km) of exhumation along the STDS starting prior to similar to 16 Ma, ending between 13.6 and 11 Ma. The 1000 km long stretch of the STDS east of the Gurla Mandata probably stopped almost synchronously between 13 and 11 Ma ago, coevally with a sudden switch from NNE-SSW to E-W extension at the top of the accretionary prism, with a jump of the major thrust from the lower Main Central Thrust (MCTI) to the Main Boundary Thrust (MBT), and with a change in the India and Asia convergence direction. This synchronism is probably better explained in the frame of a thrust wedge or thrust system model than a lower channel flow model. West of the Gurla Mandata the STDS appears to stop 5 to 3 Ma earlier, possibly related to local interactions with the Karakorum fault in a way that needs to be understood.
ISSN: 0012-821X

hal-00475652
https://hal.archives-ouvertes.fr/hal-00475652
DOI : 10.1016/j.epsl.2009.12.035

Éditeur(s) : HAL CCSD American Association for the Advancement of Science
Résumé : International audience
Most eukaryotic organisms are arthropods. Yet, their diversity in rich terrestrial ecosystems is still unknown. Here we produce tangible estimates of the total species richness of arthropods in a tropical rainforest. Using a comprehensive range of structured protocols, we sampled the phylogenetic breadth of arthropod taxa from the soil to the forest canopy in the San Lorenzo forest, Panama. We collected 6144 arthropod species from 0.48 hectare and extrapolated total species richness to larger areas on the basis of competing models. The whole 6000-hectare forest reserve most likely sustains 25,000 arthropod species. Notably, just 1 hectare of rainforest yields >60% of the arthropod biodiversity held in the wider landscape. Models based on plant diversity fitted the accumulated species richness of both herbivore and nonherbivore taxa exceptionally well. This lends credence to global estimates of arthropod biodiversity developed from plant models.
ISSN: 0036-8075

hal-00817285
https://hal.archives-ouvertes.fr/hal-00817285
https://hal.archives-ouvertes.fr/hal-00817285/document
https://hal.archives-ouvertes.fr/hal-00817285/file/1226727Revisedtext.pdf
DOI : 10.1126/science.1226727

Éditeur(s) : HAL CCSD Elsevier
Résumé : International audience
Field evidence for syn-deformation migmatization and crystallization along the Karakorum fault contradicts the study of Wang et al. (2012). The ages of such magmatic rocks provide minimum ages for the onset of deformation at similar to 23 Ma in North Ayilari and similar to 19 Ma in Tangtse. The onset of deformation at 12 Ma in the Ayilari range inferred by Wang et al. (2012) from a muscovite Ar/Ar age is a cooling age, thus only a minimum age. The similar to 60 Ma granodiorite bodies, the ophiolitic rocks and the south Kailash thrust that are correlated across the fault to provide a 52 +/- 2 km finite offset do not define reliable piercing points. Such observations as well as our previous work concur to show that the Karakorum fault initiated in the Oligo-Miocene, and has a long-term dextral slip-rate between 7.5 and 13 mm/yr, approximately twice that proposed by Wang et al. (2012).
ISSN: 0012-821X

hal-00829469
https://hal.archives-ouvertes.fr/hal-00829469
DOI : 10.1016/j.epsl.2012.12.012

Éditeur(s) : HAL CCSD European Centre for Disease Prevention and Control
Résumé : International audience
In 2002, the French Food Safety Agency drew attention to the lack of information on the prevalence of human cryptosporidiosis in the country. Two years later, the ANOFEL Cryptosporidium National Network (ACNN) was set up to provide public health authorities with data on the incidence and epidemiology of human cryptosporidiosis in France. Constituted on a voluntary basis, ACNN includes 38 hospital parasitology laboratories (mainly in university hospitals). Each laboratory is engaged to notify new cases of confirmed human cryptosporidiosis, store specimens (e.g. stools, duodenal aspirates or biopsies) and related clinical and epidemiological data, using data sheet forms. From January 2006 to December 2009, 407 cryptosporidiosis cases were notified in France and 364 specimens were collected. Of the notified cases, 74 were children under four years of age, accounting for 18.2%. HIV-infected and immunocompetent patients represented 38.6% (n=157) and 28% (n=114) of cases, respectively. A marked seasonal pattern was observed each year, with increased number of cases in mid to late summer and the beginning of autumn. Genotyping of 345 isolates from 310 patients identified C. parvumin 168 (54.2%) cases, C. hominis in 113 (36.4%) and other species in 29 (9.4%), including C. felis (n=15), C. meleagridis (n=4), C. canis (n=4), Cryptosporidium chipmunk genotype (n=1), Cryptosporidium rabbit genotype (n=1) and new Cryptosporidium genotypes (n=4). These data represent the first multisite report of laboratory-confirmed cases of cryptosporidiosis in France.
ISSN: 1560-7917

hal-00926813
https://hal-unilim.archives-ouvertes.fr/hal-00926813
PUBMED : 20739000

Éditeur(s) : HAL CCSD Elsevier
Résumé : International audience
The eastern margin of the Tibetan Plateau is a key region to understand the formation and tectonic evolution of the plateau. Most studies concentrated on the Longmen Shan range that corresponds to the tectonically very active boundary between the Tibetan Plateau and the Sichuan Basin. This work addresses the deformation and exhumation pattern in the poorly understood metamorphic Danba dome situated at the conjunction between the southern Longmen Shan range and the major strike-slip Xian Shui He fault. The Early Mesozoic and Cenozoic evolution of the dome are then compared to the regional evolution of eastern Tibet. The about 830 Ma zircon U–Pb ages obtained on the Gezong and Gongcai gneiss as well as U–Pb ages on inherited zircons in the Early Mesozoic granites confirm the occurrence of Neo-Proterozoic magmatic episodes in the Danba basement at 800–900 Ma and 650–750 Ma. Following the closure of the Palaeotethys Ocean, granitoids were emplaced in the Danba metamorphic basement and Triassic cover from about 230 Ma to about 170 Ma. The western part of the Lian He Kau granitic massif, emplaced (between 210 and 200 Ma) within the Triassic cover sequence of the dome was only slightly affected by the Early Mesozoic deformation. However, in the eastern, deeper level compartment of the massif, ductile deformation occurred between 200 and 190 Ma, contemporaneous with the onset of the Barrovian-type metamorphism dated at 200–180 Ma. That deformation is compatible with the Early Mesozoic deformation observed in the Longmen Shan range and with the development of the large-scale décollement level in the Songpan Garzê area. Apatite fission track data then indicate that, following the Oligocene–Middle Eocene onset of eastward motion of the Songpan Garzê terrane, the Danba dome developed as a crustal-scale antiform during the Late Miocene–Early Pliocene (10–4 Ma). The exhumation was controlled by the Lian He Kau fault (a major transpressive structure parallel to the Xian Shui He fault) and the associated Manai thrust faults. Regionally, while the Oligocene–Middle Miocene exhumation phase seems to have been of regional extent, the Late Miocene to Present day phase is localised along the Longmen Shan range thrusts as well as along the back-thrusts formed by the Lian He Kau, Manai and associated faults.
ISSN: 0743-9547

insu-01117657
https://hal-insu.archives-ouvertes.fr/insu-01117657
DOI : 10.1016/j.jseaes.2015.02.009

Éditeur(s) : HAL CCSD Wiley
Résumé : International audience
ISSN: 0028-646X

hal-01092529
https://hal-agroparistech.archives-ouvertes.fr/hal-01092529