Éditeur(s) : HAL CCSD Elsevier
Résumé : International audience
ISSN: 0043-1648

hal-01679411
https://hal.univ-antilles.fr/hal-01679411
DOI : 10.1016/j.wear.2004.11.019

Éditeur(s) : HAL CCSD Springer Verlag
Résumé : International audience
ISSN: 1023-8883

hal-01680425
https://hal.univ-antilles.fr/hal-01680425
DOI : 10.1007/s11249-014-0421-1

Éditeur(s) : HAL CCSD Springer Verlag
Résumé : International audience
ISSN: 1023-8883

hal-01685764
https://hal.univ-antilles.fr/hal-01685764
DOI : 10.1007/s11249-014-0421-1

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 Wiley/Blackwell
Résumé : International audience
This article documents the addition of 512 microsatellite marker loci and nine pairs of Single Nucleotide Polymorphism (SNP) sequencing primers to the Molecular Ecology Resources Database. Loci were developed for the following species: Alcippe morrisonia morrisonia, Bashania fangiana, Bashania fargesii, Chaetodon vagabundus, Colletes floralis, Coluber constrictor flaviventris, Coptotermes gestroi, Crotophaga major, Cyprinella lutrensis, Danaus plexippus, Fagus grandifolia, Falco tinnunculus, Fletcherimyia fletcheri, Hydrilla verticillata, Laterallus jamaicensis coturniculus, Leavenworthia alabamica, Marmosops incanus, Miichthys miiuy, Nasua nasua, Noturus exilis, Odontesthes bonariensis, Quadrula fragosa, Pinctada maxima, Pseudaletia separata, Pseudoperonospora cubensis, Podocarpus elatus, Portunus trituberculatus, Rhagoletis cerasi, Rhinella schneideri, Sarracenia alata, Skeletonema marinoi, Sminthurus viridis, Syngnathus abaster, Uroteuthis (Photololigo) chinensis, Verticillium dahliae, Wasmannia auropunctata, and Zygochlamys patagonica. These loci were cross-tested on the following species: Chaetodon baronessa, Falco columbarius, Falco eleonorae, Falco naumanni, Falco peregrinus, Falco subbuteo, Didelphis aurita, Gracilinanus microtarsus, Marmosops paulensis, Monodelphis Americana, Odontesthes hatcheri, Podocarpus grayi, Podocarpus lawrencei, Podocarpus smithii, Portunus pelagicus, Syngnathus acus, Syngnathus typhle,Uroteuthis (Photololigo) edulis, Uroteuthis (Photololigo) duvauceli and Verticillium albo-atrum. This article also documents the addition of nine sequencing primer pairs and sixteen allele specific primers or probes for Oncorhynchus mykiss and Oncorhynchus tshawytscha; these primers and assays were cross-tested in both species.
ISSN: 1755-098X

hal-01094222
https://hal-agroparistech.archives-ouvertes.fr/hal-01094222
DOI : 10.1111/j.1755-0998.2010.02916.x

Éditeur(s) : HAL CCSD Elsevier
Résumé : International audience
In intrauterine pregnancies of uncertain viability with a gestational sac without a yolk sac (with a mean of three orthogonal transvaginal ultrasound measurements <25 mm), the suspected pregnancy loss should only be confirmed after a follow-up scan at least 14 days later shows no embryo with cardiac activity (Grade C). In intrauterine pregnancies of uncertain viability with an embryo <7 mm on transvaginal ultrasound, the suspected pregnancy loss should only be confirmed after a follow-up scan at least 7 days later (Grade C). In pregnancies of unknown location after transvaginal ultrasound (i.e. not visible in the uterus), a threshold of at least 3510 IU/l for the serum human chorionic gonadotrophin assay is recommended; above that level, a viable intrauterine pregnancy can be ruled out (Grade C). Postponing conception after an early miscarriage in women who want a new pregnancy is not recommended (Grade A). A work-up for women with recurrent pregnancy loss should include the following: diabetes (Grade A), antiphospholipid syndrome (Grade A), hypothyroidism with anti-thyroid peroxidase (anti-TPO) and anti-thyroglobulin (anti-Tg) antibodies (Grade A), vitamin deficiencies (B9, B12) (Grade C), hyperhomocysteinaemia (Grade C), hyperprolactinaemia (Grade B), diminished ovarian reserve (Grade C), and a uterine malformation or an acquired uterine abnormality amenable to surgical treatment (Grade C). The treatment options recommended for women with a missed early miscarriage are vacuum aspiration (Grade A) or misoprostol (Grade B); and the treatment options recommended for women with an incomplete early miscarriage are vacuum aspiration (Grade A) or expectant management (Grade A). In the absence of both chorioamnionitis and rupture of the membranes, women with a threatened late miscarriage and an open cervix, with or without protrusion of the amniotic sac into the vagina, should receive McDonald cerclage, tocolysis with indomethacin, and antibiotics (Grade C). Among women with a threatened late miscarriage and an isolated undilated shortened cervix (<25 mm on ultrasound), cerclage is only indicated for those with a history of either late miscarriage or preterm delivery (Grade A). Among women with a threatened late miscarriage, an isolated undilated shortened cervix (<25 mm on ultrasound) and no uterine contractions, daily treatment with vaginal progesterone up to 34 weeks of gestation is recommended (Grade A). Hysteroscopic section of the septum is recommended for women with a uterine septum and a history of late miscarriage (Grade C). Correction of acquired abnormalities of the uterine cavity (e.g. polyps, myomas, synechiae) is recommended after three early or late miscarriages (Grade C). Prophylactic cerclage is recommended for women with a history of three late miscarriages or preterm deliveries (Grade B). Low-dose aspirin and low-molecular-weight heparin at a preventive dose are recommended for women with obstetric antiphospholipid syndrome (Grade A). Glycaemic levels should be controlled before conception in women with diabetes (Grade A)
ISSN: 0301-2115

hal-01295639
https://hal-univ-rennes1.archives-ouvertes.fr/hal-01295639
DOI : 10.1016/j.ejogrb.2016.02.015
PUBMED : 27039249

Éditeur(s) : HAL CCSD Elsevier Masson
Résumé : National audience
ISSN: 0761-8425

hal-01368337
https://hal.archives-ouvertes.fr/hal-01368337
PUBMED : 27209117

Éditeur(s) : HAL CCSD Public Library of Science
Résumé : International audience
The use of recombinant antigens has been shown to improve both the sensitivity and the standardization of the serological diagnosis of Farmer's lung disease (FLD). The aim of this study was to complete the panel of recombinant antigens available for FLD serodiagnosis with antigens of Lichtheimia corymbifera, known to be involved in FLD. L. corymbifera proteins were thus separated by 2D electrophoresis and subjected to western blotting with sera from 7 patients with FLD and 9 healthy exposed controls (HEC). FLD-associated immunoreactive proteins were identified by mass spectrometry based on a protein database specifically created for this study and subsequently produced as recombinant antigens. The ability of recombinant antigens to discriminate patients with FLD from controls was assessed by ELISA performed with sera from FLD patients (n = 41) and controls (n = 43) recruited from five university hospital pneumology departments of France and Switzerland. Forty-one FLD-associated immunoreactive proteins from L. corymbifera were identified. Six of them were produced as recombinant antigens. With a sensitivity and specificity of 81.4 and 77.3% respectively, dihydrolipoyl dehydrogenase was the most effective antigen for discriminating FLD patients from HEC. ELISA performed with the putative proteasome subunit alpha type as an antigen was especially specific (88.6%) and could thus be used for FLD confirmation. The production of recombinant antigens from L. corymbifera represents an additional step towards the development of a standardized ELISA kit for FLD diagnosis. © 2016 Rognon et al. This is an open access article distributed under the terms of the Creative Commons Attribution License, which permits unrestricted use, distribution, and reproduction in any medium, provided the original author and source are credited.
ISSN: 1932-6203

hal-01367148
https://hal-univ-rennes1.archives-ouvertes.fr/hal-01367148
DOI : 10.1371/journal.pone.0160888

Éditeur(s) : HAL CCSD
Résumé : National audience
[No abstract available]
Revue Des Maladies Respiratoires

hal-01406068
https://hal-univ-rennes1.archives-ouvertes.fr/hal-01406068
DOI : 10.1016/j.rmr.2016.04.002
PUBMED : 27209117

Éditeur(s) : HAL CCSD AGU and the Geochemical Society
Résumé : International audience
Peridotite xenoliths brought up to the surface by the volcanism of the Kerguelen Islands represent a mantle that has been affected by a high degree of partial melting followed by intense melt percolation above the Kerguelen plume. These xenoliths are therefore particularly suitable to investigate effects of melt-rock interaction on crystallographic fabrics (lattice-preferred orientation (LPO)) of peridotite minerals and on the LPO-induced seismic properties of peridotites above a mantle plume. We have studied a suite of 16 ultramafic samples representative of different degrees of partial melting and magma-rock interaction among which the protogranular harzburgites are the least metasomatised xenoliths and dunites are the ultimate stage of metasomatism. Olivine LPO is characterized by high concentration of [010] axes perpendicular to the foliation and [100] axes close to the lineation or distributed in the foliation plane in harzburgites, whereas the high concentration of [100] axes is parallel to the lineation and [010] axes is perpendicular to the assumed foliation in dunites. Olivine LPO in harzburgites is interpreted as being due to a deformation regime in axial compression or transpression. The fabric strength of olivine decreases progressively from protogranular to poikilitic harzburgites and finally to dunites, for which it remains nevertheless significant (J index 3.8). Seismic properties calculated from LPO of minerals indicate that metasomatism at higher melt/rock ratio lowers the P wave velocities. The most significant difference between harzburgites and dunites corresponds to the distribution of S wave anisotropy. Harzburgites display the maximum of anisotropy within the foliation plane and the minimum of anisotropy perpendicular to the foliation plane, whereas the lowest anisotropy is parallel to the lineation for dunites. These modifications of seismic properties as a result of metasomatic processes may induce seismic heterogeneities in the mantle above the Kerguelen plume. In addition, assuming a lithospheric mantle primarily harzburgitic and structured with a horizontal foliation, the seismic properties calculated for the Kerguelen xenoliths reconcile the rather high anisotropy evidenced by the horizontally propagating surface waves with the apparent isotropy revealed by the absence of splitting of vertically propagating teleseismic SKS waves recorded by the GEOSCOPE Kerguelen station.
ISSN: 1525-2027

hal-00366222
https://hal.archives-ouvertes.fr/hal-00366222
https://hal.archives-ouvertes.fr/hal-00366222/document
https://hal.archives-ouvertes.fr/hal-00366222/file/bascou_Kerguelen_2007GC001879_hal.pdf
DOI : 10.1029/2007GC001879

Éditeur(s) : HAL CCSD Elsevier
Résumé : International audience
A dense, local network of 30 geodetic markers covering a 50 × 60 km2 area in the southwestern European Alps (Briançon region) has been temporarily surveyed in 1996, 2006 and 2011 by GPS. The aim is to measure the current deformation in this seismically active area. The study zone is characterized by a majority of extensional and dextral focal mechanisms, along north–south to N160 oriented faults. The combined analysis of the three measurement campaigns over 15 years and up to 16 years of permanent GPS data from the French RENAG network now enables to assess horizontal velocities below 1 mm/year within the local network. The long observation interval and the redundancy of the dense campaign network measurement help to constrain a significant local deformation pattern in the Briançon region, yielding an average E–W extension of 16 ± 11 nanostrain/year. We compare the geodetic deformation field to the seismic deformation rate cumulated over 37 years, and obtain good coherencies both in amplitude and direction. Moreover, the horizontal deformation localized in the Briançon region represents a major part of the Adriatic-European relative plate motion. However, the average uplift of the network in an extensional setting needs the presence of buoyancy forces in addition to plate tectonics.
ISSN: 0264-3707

hal-01119724
https://hal.archives-ouvertes.fr/hal-01119724
DOI : 10.1016/j.jog.2015.02.001

Éditeur(s) : HAL CCSD Elsevier
Résumé : International audience
CMAS 3D, developed in MATLAB (R), is a program to support visualization of major element chemical data in three dimensions. Such projections are used to discuss correlations, metamorphic reactions and the chemical evolution of rocks, melts or minerals. It can also project data into 2D plots. The CMAS 3D interface makes it easy to use, and does not require any knowledge of Matlab (R) programming. CMAS 3D uses data compiled in a Microsoft Excel (TM) spreadsheet. Although useful for scientific research, the program is also a powerful tool for teaching.
ISSN: 0098-3004

hal-00413570
https://hal.archives-ouvertes.fr/hal-00413570
DOI : 10.1016/j.cageo.2008.07.002

Éditeur(s) : HAL CCSD INRA Editions
Résumé : International audience
The objective of this study was to examine the water relations and hydraulic architecture and vulnerability to cavitation in Virola surinamensis and V. michelii and to compare to similar measurements in Eperua falcata. In several previous reports Virola was seen to have a rather narrow range of xylem pressure potentials (Ψx) near zero in the course of a wet-season day while having water fluxes quite close to Eperua. We tested the hypothesis that the narrow range of Ψx might be consistent with very high hydraulic conductivities of stems, roots and shoots and high vulnerability to cavitation in Virola compared to Eperua. When this hypothesis proved false we concluded that the previous determinations of Ψx might be wrong in Virola due to latex. We re-examined the determination of Ψx in Virola by the pressure chamber technique and compared results to determination of Ψleaf by the thermocouple psychrometer technique and found that the likely range of Ψx are more negative than previously reported. Problems concerning the determination of Ψx in species with latex are discussed.
ISSN: 2268-4565

hal-01077475
https://hal.archives-ouvertes.fr/hal-01077475
https://hal.archives-ouvertes.fr/hal-01077475/document
https://hal.archives-ouvertes.fr/hal-01077475/file/JPH-1-e0002.pdf

Éditeur(s) : HAL CCSD
Résumé : Poster
International audience
BEMS 2013
Thessalonique, Greece

hal-00926804
https://hal.archives-ouvertes.fr/hal-00926804

Éditeur(s) : HAL CCSD Elsevier
Résumé : Siberian cratonic mantle
International audience
The processes that control water distribution in nominally anhydrous minerals from peridotites are twofold. Melt depletion will remove water while metasomatism can potentially add water to these minerals. These processes can lead to a wide range of outcomes in water contents, which in turn could play a role in mantle rheology and long-term cratonic root stability. To examine these complexities, water concentrations in minerals from well-characterized peridotites from the Udachnaya kimberlite in the central Siberian craton were analyzed by FTIR. The peridotites span a complete top to bottom cross-section of typical cratonic lithospheric mantle (2-7 GPa and 700-1400 °C). Diffusion modeling of water content profiles across olivine grains shows that water loss during decompression is limited to the 100 μm rims of olivines; the cores preserved their mantle water contents. Water contents range from 6 to 323 ppm wt H2O in olivine, 28-301 ppm H2O in orthopyroxene (opx), 100-272 ppm H2O in clinopyroxene (cpx) and 0-23 ppm H2O in garnet. Melting modeling cannot reproduce the high water contents of cratonic mantle peridotites and any potential partial melting trend must have been erased by later events. The water contents of minerals, however, are correlated with modal abundances of clinopyroxene and garnet, bulk rock FeO, TiO2 and SiO2 as well as with light and middle rare earth elements in clinopyroxene and garnet. These relationships are best interpreted as interaction of residual, melt-depleted peridotites with silicate melt, which produced modal and cryptic metasomatism. Importantly, the water enrichment in the Siberian cratonic mantle took place prior to kimberlite magmatism and eruption. Water addition by metasomatism occurred from pressures >4 GPa all the way to the base of the cratonic root below central Siberia, but was limited to shallower levels (<5 GPa) in the Kaapvaal cratonic lithosphere. The difference in olivine water contents at the deepest levels of the Kaapvaal (<5 ppm H2O) and Siberian (6-323 ppm H2O) cratonic roots may be linked to oxygen fugacity and resulting fluid speciation or, alternatively, to reaction with different metasomatic agents. Calculated viscosities for the deepest Udachnaya samples are similar to those inferred for the asthenosphere. If these xenoliths are representative of the deep cratonic lithosphere, water is not as important a parameter as previously thought in the strength of cratonic lithosphere, otherwise the cratonic root beneath Udachnaya would have been delaminated. Alternatively, the metasomatic xenoliths may not be representative of the Siberian cratonic root and kimberlites preferentially sample cratonic mantle lithosphere material located near, and metasomatized by, melt conduits, which served as channels for upward migration of water-rich melts and fluids including kimberlites. In that case, the cratonic root overall still may have relatively low water contents, which in addition to its less metasomatized (more refractory) and thereby buoyant nature, still play a role in making it strong enough to resist delamination by the surrounding asthenosphere.
ISSN: 0016-7037

hal-01053920
https://hal.archives-ouvertes.fr/hal-01053920
DOI : 10.1016/j.gca.2014.04.011

Éditeur(s) : HAL CCSD
Résumé : Poster
International audience
BEMS 2013
Thessalonique, Greece

hal-00926911
https://hal.archives-ouvertes.fr/hal-00926911

Éditeur(s) : HAL CCSD Nature Publishing Group
Résumé : International audience
High 3He/4He ratios in some basalts have generally been interpreted as originating in an incompletely degassed lower-mantle source1, 2, 3, 4, 5, 6, 7, 8, 9. This helium source may have been isolated at the core-mantle boundary region since Earth's accretion4, 5, 6. Alternatively, it may have taken part in whole-mantle convection and crust production over the age of the Earth7, 8, 9; if so, it is now either a primitive refugium at the core-mantle boundary8 or is distributed throughout the lower mantle7, 9. Here we constrain the problem using lavas from Baffin Island, West Greenland, the Ontong Java Plateau, Isla Gorgona and Fernandina (Galapagos). Olivine phenocryst compositions show that these lavas originated from a peridotite source that was about 20 per cent higher in nickel content than in the modern mid-ocean-ridge basalt source. Where data are available, these lavas also have high 3He/4He. We propose that a less-degassed nickel-rich source formed by core-mantle interaction during the crystallization of a melt-rich layer or basal magma ocean5, 6, and that this source continues to be sampled by mantle plumes. The spatial distribution of this source may be constrained by nickel partitioning experiments at the pressures of the core-mantle boundary.
ISSN: 0028-0836

hal-00941025
https://hal.archives-ouvertes.fr/hal-00941025
DOI : 10.1038/nature11771