Éditeur(s) : HAL CCSD Springer Verlag
Résumé : International audience
Coral reefs are increasingly being altered by a myriad of anthropogenic activities and natural disturbances. Long-term studies offer unique opportunities to understand how multiple and recurrent disturbances can influence coral reef resilience and long-term dynamics. While the long-term dynamics of coral assemblages have been extensively documented, the long-term dynamics of coral reef fish assemblages have received less attention. Here, we describe the changes in fish assemblages on Tiahura reef, Moorea, from 1979 to 2011. During this 33-yr period, Tiahura was exposed to multiple disturbances (crown-of-thorns seastar outbreaks and cyclones) that caused recurrent declines and recoveries of coral cover and changes in the dominant coral genera. These shifts in coral composition were associated with long-term cascading effects on fish assemblages. The composition and trophic structure of fish assemblages continuously shifted without returning to their initial composition, whereas fish species richness remained stable, albeit with a small increase over time. We detected nonlinear responses of fish density when corals were most degraded. When coral cover dropped below 10 % following a severe crown-of-thorns sea star outbreak, the density of most fish trophic groups sharply decreased. Our study shows that historical contingency may potentially be an important but largely underestimated factor explaining the contemporary structure of reef fish assemblages and suggests that temporal stability in their structure and function should not necessarily be the target of management strategies that aim at increasing or maintaining coral reef resilience.
ISSN: 0722-4028

hal-01282725
https://hal-univ-perp.archives-ouvertes.fr/hal-01282725
DOI : 10.1007/s00338-015-1371-2

Éditeur(s) : HAL CCSD Springer Verlag
Résumé : absent
ISSN: 0029-8549

hal-01032379
https://hal.archives-ouvertes.fr/hal-01032379

Éditeur(s) : HAL CCSD Springer/Terra Scientific Publishing Company
Résumé : geomagnetism
International audience
Preface
ISSN: 1343-8832

hal-00413106
https://hal.archives-ouvertes.fr/hal-00413106

Éditeur(s) : HAL CCSD Springer Verlag
Résumé : International audience
Random walk (RW) or Continuous Time Random Walk (CTRW) are recurring Monte Carlo methods used to model convective and diffusive transport in complex heterogeneous media. Many applications can be found, including fluid mechanic, hydrology, and chemical reactors modeling. These methods are easy to implement, very versatile and flexible enough to become appealing for many applications because they generally overlook of deeply simplify the building of explicit complex meshes required by deterministic methods. RW and CTRW provide a good physical understanding of the interactions between the space scales of het-erogeneities and the transport phenomena under consideration. In addition, they can result in efficient up-scaling methods, especially in context of flow and transport in fractured media. In the present study, we review the applications of RW or CTRW for several situations coping with various spatial scales, and different insights into up-scaling applications. RW and CTRW advantages and downsides are also discussed, thus providing a few avenues for further works and applications.
ISSN: 0169-3913

hal-01449131
https://hal.archives-ouvertes.fr/hal-01449131
https://hal.archives-ouvertes.fr/hal-01449131/document
https://hal.archives-ouvertes.fr/hal-01449131/file/0025972-02.pdf
DOI : 10.1007/s11242-016-0693-z

Éditeur(s) : HAL CCSD Springer Verlag
Résumé : International audience
The genus Nasutitermes is among the most abundant wood-feeding Termitidae and an extremely diverse and heterogeneous group in terms of its biogeography and morphology. Despite the major role of several Nasutitermes species as structural pests, the phylogenetic status of this genus is still unclear, along with a confused taxonomy and species identification remaining difficult. The first aim of this review was thus to gather and discuss studies concerning the taxonomic status of the genus Nasutitermes in order to clarify this crucial point. Then, our goal was to gain new insights into the management of N. corniger, considered to be the most economically detrimental pest of this genus in South America and a Nasutitermes model species, while filtering available information concerning its biology through the prism of termite control, as well as critically examine the existing methods. We indeed strongly believe that increasing our knowledge of this species’ biological strategies is the key to progress in the challenging question of their sustainable management.
ISSN: 1612-4758

hal-01467356
http://hal.upmc.fr/hal-01467356
http://hal.upmc.fr/hal-01467356/document
http://hal.upmc.fr/hal-01467356/file/Boulogne_2017_Ecologysur termites.pdf
DOI : 10.1007/s10340-016-0796-x

Éditeur(s) : HAL CCSD Springer Verlag
Résumé : International audience
A hallmark of living systems is the management and the storage of information through genetic and epigenetic mechanisms. Although the notion of epigenetics was originally given to any regulation beyond DNA sequence, it has often been restricted to chromatin modifications, supposed to behave as cis-markers, specifying the sets of genes to be expressed or repressed. This definition does not take into account the initial view of epigenetics, based on nonlinear interaction networks whose "attractors" can remain stable without need for any chromatin mark. In addition, most chromatin modifications are the steady state resultants of highly dynamic modification and de-modification activities and, as such, seem poorly appropriate to work as long-term memory keepers. Instead, the basic support of epigenetic memory could remain the attractors, to which chromatin modifications belong as do many other components. The influence of chromatin modifications in memory is highly questionable when envisioned as static structural marks, but can be recovered under the dynamic circuitry perspective, thanks to their self-templating properties. Beside their standard repressive or permissive functions, chromatin modifications can also influence transcription in multiple ways such as: (1) by randomizing or inversely stabilizing gene expression, (2) by mediating cooperativity between pioneer and secondary transcription factors, and (3) in the hysteresis and the ultrasensitivity of gene expression switches, allowing the cells to take unambiguous transcriptional decisions.
ISSN: 1420-682X

hal-01063617
https://hal.archives-ouvertes.fr/hal-01063617
DOI : 10.1007/s00018-012-0923-7
PUBMED : 22331281

Éditeur(s) : HAL CCSD Springer
Résumé : In this work, we present an analysis of one-year period measured wind speed in the atmospheric boundary layer from a wind energy production site. We employ a Hilbert-based methodology, namely arbitrary-order Hilbert spectral analysis to characterize the intermittent property of the wind speed in a joint amplitudefrequency space. The measured scaling exponents implies intermittent nature of the wind on mesoscales.
Wind Energy: Impact of Turbulence

ISBN : 978-3642546952
hal-00958512
https://hal.archives-ouvertes.fr/hal-00958512

Éditeur(s) : HAL CCSD Springer Verlag
Résumé : International audience
Smoking only partly explains the higher lung cancer incidence observed among socially deprived people. Occupational exposures may account for part of these inequalities, but this issue has been little investigated. We investigated the extent to which smoking and occupational exposures to asbestos, silica and diesel motor exhaust mediated the association between education and lung cancer incidence in men. We analyzed data from a large French population-based case–control study (1976 lung cancers, 2648 controls). Detailed information on lifelong tobacco consumption and occupational exposures to various carcinogens was collected. We conducted inverse probability-weighted marginal structural models. A strong association was observed between education and lung cancer. The indirect effect through smoking varied by educational level, with the strongest indirect effect observed for those with the lowest education (OR = 1.34 (1.14–1.57)). The indirect effect through occupational exposures was substantial among men with primary (OR = 1.22 (1.15–1.30) for asbestos and silica) or vocational secondary education (OR = 1.18 (1.12–1.25)). The contribution of smoking to educational differences in lung cancer incidence ranged from 22 % (10–34) for men with primary education to 31 % (−3 to 84) for men with a high school degree. The contribution of occupational exposures to asbestos and silica ranged from 15 % (10–20) for men with a high school degree to 20 % (13–28) for men with vocational secondary education. Our results highlight the urgent need for public health policies that aim at decreasing exposure to carcinogens at work, in addition to tobacco control policies, if we want to reduce socioeconomic inequalities in the cancer field.
ISSN: 0393-2990

hal-01360240
http://hal.upmc.fr/hal-01360240
http://hal.upmc.fr/hal-01360240/document
http://hal.upmc.fr/hal-01360240/file/Menvielle_2016_Quantifying_the.pdf
PUBMED : 27417979

Éditeur(s) : HAL CCSD Springer
Résumé : International audience
It is known that a locally Lipschitz function f is approximately convex if, and only if, its Clarke subdifferential ∂C f is a submonotone operator. The main object of this work is to extend the above characterization to the class of lower semicontinuous functions. To this end, we establish a new approximate mean value inequality involving three points. We also show that an analogue of the Rockafellar maximal monotonicity theorem holds for this class of functions and we discuss the case of arbitrary subdifferentials
Mathematical Programming B

hal-00694605
https://hal.archives-ouvertes.fr/hal-00694605

Éditeur(s) : HAL CCSD SPRINGER
Résumé : International audience
A key question in evolutionary biology is the reproducibility of adaptation. This question can now be quantitatively analyzed using experimental evolution coupled to whole genome sequencing (WGS). With complete sequence data, one can assess convergence among replicate populations. In turn, convergence reflects the action of natural selection and also the breadth of the field of possible adaptive solutions. That is, it provides insight into how many genetic solutions or adaptive paths may lead to adaptation in a given environment. Convergence is both a property of an adaptive landscape and, reciprocally, a tool to study that landscape. In this chapter we present the links between convergence and the properties of adaptive landscapes with respect to two types of microbial experimental evolution. The first tries to reconstruct a full adaptive landscape using a handful of carefully identified mutations (the reductionist approach), while the second uses WGS of replicate experiments to infer properties of the adaptive landscape. Reductionist approaches have highlighted the importance of epistasis in shaping the adaptive landscape, but have also uncovered a wide diversity of landscape architectures. The WGS approach has uncovered a very high diversity of beneficial mutations that affect a limited set of genes or functions and also suggests some shortcomings of the reductionist approach. We conclude that convergence may be better defined at an integrated level, such as the genic level or even at a phenotypic level, and that integrated mechanistic models derived from systems biology may offer an interesting perspective for the analysis of convergence at all levels.
ECOLOGICAL GENOMICS: ECOLOGY AND THE EVOLUTION OF GENES AND GENOMES

ISBN : 978-94-007-7347-9; 978-94-007-7346-2
hal-01544757
https://hal.archives-ouvertes.fr/hal-01544757
DOI : 10.1007/978-94-007-7347-9__11

Éditeur(s) : HAL CCSD Springer Verlag
Résumé : International audience
Bone Morphogenetic Protein 9 (BMP9) has been recently found to be the physiological ligand for the activin receptor-like kinase 1 (ALK1), and to be a major circulating vascular quiescence factor. Moreover, a soluble chimeric ALK1 protein (ALK1-Fc) has recently been developed and showed powerful anti-tumor growth and anti-angiogenic effects. However, not much is known concerning BMP9. This prompted us to investigate the human endogenous sources of this cytokine and to further characterize its circulating form(s) and its function. Analysis of BMP9 expression reveals that BMP9 is produced by hepatocytes and intrahepatic biliary epithelial cells. Gel filtration analysis combined with ELISA and biological assays demonstrate that BMP9 circulates in plasma (1) as an unprocessed inactive form that can be further activated by furin a serine endoprotease, and (2) as a mature and fully active form (composed of the mature form associated with its prodomain). Analysis of BMP9 circulating levels during mouse development demonstrates that BMP9 peaks during the first 3 weeks after birth and then decreases to 2 ng/mL in adulthood. We also show that circulating BMP9 physiologically induces a constitutive Smad1/5/8 phosphorylation in endothelial cells. Taken together, our results argue for the role of BMP9 as a hepatocyte-derived factor, circulating in inactive (40%) and active (60%) forms, the latter constantly activating endothelial cells to maintain them in a resting state.
ISSN: 1420-682X

hal-00681969
https://hal.archives-ouvertes.fr/hal-00681969
DOI : 10.1007/s00018-011-0751-1
PUBMED : 21710321

Éditeur(s) : HAL CCSD Springer Verlag
Résumé : International audience
Seasonal climate forecasts mainly rely on the atmospheric sensitivity to its lower boundary conditions and on their own predictability. Besides sea surface temperature (SST), soil moisture (SM) may be an additional source of climate predictability particularly during boreal summer in the mid-latitudes. In this work, we investigate the role of SM initial conditions on near-surface climate predictability during ten boreal summer seasons using three complementary ensembles of AMIP-type simulations performed with the Arpège-Climat atmospheric general circulation model. First we have conducted an assessment of the SM predictability itself through a comparison of simple empirical SM models with Arpège-Climat. The statistical and dynamical models reveal similar SM prediction skill patterns but the Arpège-Climat reaches higher scores suggesting that it is at least suitable to explore the influence of SM initialization on atmospheric predictability. Then we evaluate the relationships between SM predictability and some near surface atmospheric predictability. While SM initialization obviously improves the predictability of land surface evaporation, it has no systematic influence on the precipitation and near surface temperature skills. Nevertheless, the summer hindcast skill is clearly improved during specific years and over certain regions (mainly north America and eastern Europe in the Arpège-Climat model), when and where the SM forcing is sufficiently widespread and strong. In this case, a significant impact is also found on the occurrence of heat waves and heavy rains, whose predictability at the seasonal timescale is a crucial challenge for years to come.
ISSN: 0930-7575

meteo-00346948
https://hal-meteofrance.archives-ouvertes.fr/meteo-00346948
DOI : 10.1007/s00382-008-0375-9

Éditeur(s) : HAL CCSD Springer Verlag
Résumé : International audience
ISSN: 0944-1344

hal-01658924
https://hal.univ-antilles.fr/hal-01658924
https://hal.univ-antilles.fr/hal-01658924/document
https://hal.univ-antilles.fr/hal-01658924/file/Dromard%20et%20al.%20GFP2016-Manuscrit-HAL.pdf
DOI : 10.1007/s11356-017-8924-6

Éditeur(s) : HAL CCSD Springer
Résumé : International audience
NWA2268 is a polymict eucrite discovered in the Sahara, at southwest Algeria, close to the region of Tindouf. This meteorite weighs 65 g and presents a thin black fusion crust. The rock is fine- to medium-grained breccia and contains mineral fragments of plagioclases, pyroxenes, spinel, olivine and silica. The rock contains some basaltic fragments with sub-ophitic or cumulative textures, constituted by plagioclases and exsolved pigeonite. Pyroxferroite grains are present and locally destabilised in an association of hedenbergite, fayalite and silica. It also presents unequilibrated eucritic clast with heterogeneous pyroxenes and plagioclases compositions. Pyroxenes in the all of the other clasts have equilibrated composition, with exolved pigeonites with augite lamellaes. This polymict eucrite contains also partially devitrified glass that represents impact melts linked to impact event. None recrystallization of this glass confirms a lack of post-brecciation metamorphism. Diogenitic fragments are less abundant than 10 %. The oxygen isotopic composition of NWA2268 is Δ17O (−0.43). This meteorite is interpreted as belonging to the HED group attributed to the 4-Vesta asteroid.
ISSN: 1866-7411

hal-00903591
https://hal.archives-ouvertes.fr/hal-00903591
DOI : 10.1007/s12517-012-0624-4

Éditeur(s) : HAL CCSD Springer
Résumé : International audience
Total genomic DNA of eight colonies for each of the two species, Acropora muricata and Porites lutea, sampled on the west coast of Reunion Island, was isolated using DNeasy Blood & Tissue kit (Qiagen™) following the manufacturer’s instructions and sent to GenoScreen, Lille, France (www.genoscreen.fr).
ISSN: 1877-7252

hal-01254248
https://hal.archives-ouvertes.fr/hal-01254248
https://hal.archives-ouvertes.fr/hal-01254248/document
https://hal.archives-ouvertes.fr/hal-01254248/file/G%C3%A9lin%20et%20al.%20-%202015%20-%20Isolation%20and%20characterization%20of%2022%20microsatellit_hal.pdf
DOI : 10.1007/s12686-015-0493-8

Éditeur(s) : HAL CCSD Springer Verlag (Germany)
Résumé :  
We present a plant trait database covering autecology for rain forest trees of French Guiana. The database comprises more than thirty traits including autecology (e.g., habitat associations and reproductive phenology), wood structure (e.g., density and tension characteristics) and physiology at the whole plant (e.g., carbon and nitrogen isotopes) and leaf level (e.g., specific leaf area, photosynthetic capacity). The current database describes traits for about nine hundred species from three hundred genera in one hundred families. For more than sixty species, data on twelve morphological and ecophysiological traits are provided for individual plants under different environmental conditions and at different ontogenetic stages. The database is thus unique in permitting intraspecific analyses, such as the effects of ontogenetic stages or environmental conditions on trait values and their relationships.
Annals of Forest Science

hal-01032196
https://hal.archives-ouvertes.fr/hal-01032196
DOI : 10.1051/forest:2007058

Éditeur(s) : HAL CCSD Springer Verlag
Résumé : International audience
This article is intended as a preliminary report on the implementation of a finite volume multilevel scheme for the discretization of the incompressible Navier-Stokes equations. As is well known, the use of staggered grids (e.g., MAC grids [M. Perić, R. Kessler and G. Scheuerer, Comput. & Fluids 16 (1988), no. 4, 389-403; Zbl 0672.76018]) is a serious impediment for the implementation of multilevel schemes in the context of finite differences. This difficulty is circumvented here by the use of a colocated finite volume discretization [S. Faure, J Laminie and R. Temam, "Colocated finite volume schemes for fluid flows'', submitted; M. Perić, R. Kessler and G. Scheuerer, op. cit.], for which the algebra of multilevel methods is much simpler than in the context of MAC type finite differences. The general ideas and the numerical simulations are presented in this article in the simplified context of a two-dimensional Burgers equation; the two- and three-dimensional Navier-Stokes equations, which introduce new difficulties related to the incompressibility condition and the time discretization, will be considered elsewhere [see S. Faure, J Laminie and R. Temam, op. cit.; "Finite volume discretization and multilevel methods for the Navier-Stokes equations'', in preparation].
ISSN: 0885-7474

hal-00730193
https://hal.archives-ouvertes.fr/hal-00730193

Éditeur(s) : HAL CCSD Springer Verlag
Résumé : International audience
Selected high-resolution seismic-reflection profiles and multibeam bathymetry acquired along the convergent Ecuador margin during the ATACAMES cruise on onboard the R/V L’Atalante (Jan.15–Feb.18, 2012) allow a preliminary evaluation of the neotectonic development and stratigraphic evolution of the margin based on the sismo-stratigraphic analysis of Quaternary sediment preserved on the margin shelf and upper slope. We present three major preliminary results. (1) The evolution of the Esmeraldas, Guayaquil and Santa Elena canyons. The head of the Esmeraldas canyon is the location of a continuous significant sediment transport. The Guayaquil canyon shows several episodes of deposition and incision. Aggrading sedimentation pattern in the canyon records several changes in relative sea-level. The subsidence of the Gulf of Guayaquil probably contributes to the good preservation of the canyon filling stages. The Santa Elena canyon is controlled by a SW–NE trending normal fault. (2) Variations of sediment accumulation and relative vertical motions are shown along-strike the shelf edge. Offshore the uplifted Manta peninsula, a pronounced subsidence of the shelf edge is documented by sedimentary clinoforms that have deposited in a morphological reentrant, and have migrated upslope testifying of a local subsidence meanwhile the adjacent La Plata Island area underwent uplift. In the Esmeraldas canyon area, a local uplift of the shelf is documented. (3) Two neotectonic fault systems with a possible transcurrent component are imaged across the shelf edge and upper margin slope offshore Jama, and Cape Galera. This possible transcurrent motion could be related to the reactivation of ancient faults of the upper plate by the subduction. These preliminary results indicate that the ATACAMES data set has a strong potential to evaluate the spatial and temporal contribution of tectonic and climate changes on the structural development and stratigraphic evolution of the Ecuador continental margin.
ISSN: 0025-3235

insu-01131151
https://hal-insu.archives-ouvertes.fr/insu-01131151
DOI : 10.1007/s11001-014-9231-y

Éditeur(s) : HAL CCSD Springer Verlag
Résumé : Though the root biomass of tropical rainforest trees is concentrated in the upper soil layers, soil water uptake by deep roots has been shown to contribute to tree transpiration. A precise evaluation of the relationship between tree dimensions and depth of water uptake would be useful in tree-based modelling approaches designed to anticipate the response of tropical rainforest ecosystems to future changes in environmental conditions. We used an innovative dual-isotope labelling approach (deuterium in surface soil and oxygen at 120-cm depth) coupled with a modelling approach to investigate the role of tree dimensions in soil water uptake in a tropical rainforest exposed to seasonal drought. We studied 65 trees of varying diameter and height and with a wide range of predawn leaf water potential (I-pd) values. We confirmed that about half of the studied trees relied on soil water below 100-cm depth during dry periods. I-pd was negatively correlated with depth of water extraction and can be taken as a rough proxy of this depth. Some trees showed considerable plasticity in their depth of water uptake, exhibiting an efficient adaptive strategy for water and nutrient resource acquisition. We did not find a strong relationship between tree dimensions and depth of water uptake. While tall trees preferentially extract water from layers below 100-cm depth, shorter trees show broad variations in mean depth of water uptake. This precludes the use of tree dimensions to parameterize functional models.
ISSN: 0029-8549

hal-01032433
https://hal.archives-ouvertes.fr/hal-01032433
DOI : 10.1007/s00442-013-2724-6

Éditeur(s) : HAL CCSD Springer
Résumé : International audience
Thiswork examines the relevance of the inclusion of ground-based gravity data in the calibration process of a global rainfall-discharge reservoir model. The analysis is performed for the Durzon karst system (Larzac, France). The first part of the study focuses on the hydrological interpretation of the ground-based gravity measurements. The second part of the study investigates further the information content of the gravity data with respect to water storage dynamics modelling.The gravity-derived information is found unable to either reduce equifinality of the single-objective, dischargebased model calibration process or enhance model performance through assimilation.
ISSN: 1866-6280

hal-00812624
https://hal-brgm.archives-ouvertes.fr/hal-00812624
DOI : 10.1007/s12665-012-1856-z