A genetic toolkit for the analysis of metabolic changes in Drosophila provides new insights into metabolic responses to stress and malignant transformation

Regulation of the energetic metabolism occurs fundamentally at the cellular level, so analytical strategies must aim to attain single cell resolution to fully embrace its inherent complexity. We have developed methods to utilize a toolset of metabolic FRET sensors for assessing lactate, pyruvate and 2-oxoglutarate levels of Drosophila tissues in vivo by imaging techniques. We show here how the energetic metabolism is altered by hypoxia: While some larval tissues respond to low oxygen levels by executing a metabolic switch towards lactic fermentation, the fat body and salivary glands do not alter their energetic metabolism. Analysis of tumor metabolism revealed that depending on the genetic background, some tumors undergo a lactogenic switch typical of the Warburg effect, while other tumors do not. This toolset allows for developmental and physiologic studies in genetically manipulated Drosophila individuals in vivo.Fil: Gándara, Lautaro. Consejo Nacional de Investigaciones Científicas y Técnicas. Oficina de Coordinación Administrativa Parque Centenario. Instituto de Investigaciones Bioquímicas de Buenos Aires. Fundación Instituto Leloir. Instituto de Investigaciones Bioquímicas de Buenos Aires; ArgentinaFil: Durrieu, Lucía. Consejo Nacional de Investigaciones Científicas y Técnicas. Oficina de Coordinación Administrativa Parque Centenario. Instituto de Investigaciones Bioquímicas de Buenos Aires. Fundación Instituto Leloir. Instituto de Investigaciones Bioquímicas de Buenos Aires; ArgentinaFil: Behrensen, C.. Consejo Nacional de Investigaciones Científicas y Técnicas. Oficina de Coordinación Administrativa Parque Centenario. Instituto de Investigaciones Bioquímicas de Buenos Aires. Fundación Instituto Leloir. Instituto de Investigaciones Bioquímicas de Buenos Aires; ArgentinaFil: Wappner, Pablo. Universidad de Buenos Aires. Facultad de Ciencias Exactas y Naturales. Departamento de Fisiología, Biología Molecular y Celular; Argentina. Consejo Nacional de Investigaciones Científicas y Técnicas. Oficina de Coordinación Administrativa Parque Centenario. Instituto de Investigaciones Bioquímicas de Buenos Aires. Fundación Instituto Leloir. Instituto de Investigaciones Bioquímicas de Buenos Aires; Argentin

Multi-level filtering segmentation to measure individual tree parameters based on Lidar data: Application to a mountainous forest with heterogeneous stands

This paper presents a method for individual tree crown extraction and characterisation from a canopy surface model (CSM). The method is based on a conventional algorithm used for localising LM on a smoothed version of the CSM and subsequently for modelling the tree crowns around each maximum at the plot level. The novelty of the approach lies in the introduction of controls on both the degree of CSM filtering and the shape of elliptic crowns, in addition to a multi-filtering level crown fusion approach to balance omission and commission errors. The algorithm derives the total tree height and the mean crown diameter from the elliptic tree crowns generated. The method was tested and validated on a mountainous forested area mainly covered by mature and even-aged black pine (Pinus nigra ssp. nigra [Arn.]) stands. Mean stem detection per plot, using this method, was 73.97%. Algorithm performance was affected slightly by both stand density and heterogeneity (i.e. tree diameter classes' distribution). The total tree height and the mean crown diameter were estimated with root mean squared error values of 1.83 m and 1.48 m respectively. Tree heights were slightly underestimated in flat areas and overestimated on slopes. The average crown diameter was underestimated by 17.46% on average. (C) 2011 Elsevier B.V. All rights reserved

Spatial quantification of vegetation density from terrestrial laser scanner data for characterization of 3D forest structure at plot level

International audiencePrecise description of forest 3D structure at plot level is required for sustainable ecosystem management. However, a detailed structure description from traditional field measurements is tedious. We propose an innovative method to quantify in 3D the spatial distribution of forest structure from terrestrial lidar data. The method rests on the hypothesis that the normalized number of laser returns within a given volume element is proportional to the density of vegetation material inside this volume. The developed model is based on analysis made inside Svoxels (spherical voxels) to compute a spatialized vegetation density index. The model was tested on two different scans of the same plot. The resulting vegetation density index well represents the vegetation structure as observed within the lidar point cloud. Quantitative analyses confirmed a global consistency of the results within and between scans. However, we observed a slight bias in the computed density indexes. It might be mainly explained by occlusions, which cause 1) a slight decrease of the density index with distance and 2) local differences in density index between scans.. Future work will focus on improving our algorithm and correcting biases. These results are promising for the development of quantitative measures of the 3D forest structure

Impact of natural (waves and currents) and anthropogenic (trawl) resuspension on the export of particulate matter to the open ocean: Application to the Gulf of Lion (NW Mediterranean)

Accepted manuscript version. Published version available at https://doi.org/10.1016/j.csr.2008.02.002. Licensed CC BY-NC-ND 4.0.Modern sediment deposits on continental margins form a vast reservoir of particulate matter that is regularly affected by resuspension processes. Resuspension by bottom trawling on shelves with strong fishing activity can modify the scale of natural disturbance by waves and currents. Recent field data show that the impact of bottom trawls on fine sediment resuspension per unit surface is comparable with that of the largest storms. We assessed the impact of both natural and anthropogenic processes on the dispersal of riverborne particles and shelf sediments on the Gulf of Lion shelf. We performed realistic numerical simulations of resuspension and transport forced by currents and waves or by a fleet of bottom trawlers. Simulations were conducted for a 16-month period (January 1998–April 1999) to characterise the seasonal variability. The sediment dynamics takes into account bed armoring, ripple geometry and the cohesive and non-cohesive characteristics of the sediments. Essential but uncertain parameters (clay content, erosion fluxes and critical shear stress for cohesive sediment) were set with existing data. Resuspension by waves and currents was controlled by shear stress, whereas resuspension by trawls was controlled by density and distribution of the bottom trawler fleet. Natural resuspension by waves and currents mostly occurred during short seasonal episodes, and was concentrated on the inner shelf. Trawling-induced resuspension, in contrast, occurred regularly throughout the year and was concentrated on the outer shelf. The total annual erosion by trawls (5.6×106 t y−1, t for metric tonnes) was four orders of magnitude lower than the erosion induced by waves and currents (35.3×109 t y−1). However the net resuspension (erosion/deposition budget) for trawling (0.4×106 t y−1) was only one order of magnitude lower than that for waves and currents (9.2×106 t y−1). Off-shelf export concerned the finest fraction of the sediment (clays and fine silts) and took place primarily at the southwestern end of the Gulf. Off-shelf transport was favoured during the winter 1999 by a very intense episode of dense shelf water cascading. Export of sediment resuspended by trawls (0.4×106 t y−1) was one order of magnitude lower than export associated with natural resuspension (8.5×106 t y−1). Trawling-induced resuspension is thought to represent one-third of the total export of suspended sediment from the shelf. A simulation combining both resuspension processes reveals no significant changes in resuspension and export rates compared with the sum of each individual process, suggesting the absence of interference between both processes.</p

Modelling full waveform Lidar data on forest structures at plot level : a sensitivity analysis of forest and sensor main characteristics on full-waveform simulated data

[Departement_IRSTEA]Territoires [TR1_IRSTEA]SYNERGIE [Axe_IRSTEA]TETIS-ATTOSSilviLaser, La Grande Motte, FRA, 28-/09/2015 - 30/09/2015International audienceA new approach for LIDAR altimetry mission for biomass applications (tree height measurement) is explored based on low emitted laser energy at high repetition frequency. Low energy approach drastical ly reduces the laser induced risks. Altimetry performances meet preliminary science requirements . The proposed instrument design is compatible with a space mission

Quantitative risk assessment of FMDV introduction in a FMD free country through bone-in beef and offal importation from a FMD free with vaccination country/zone

Quantitative risk assessment was used to estimate the risk of introducing foot-and-mouth disease (FMD) through bone-in beef from Argentina (FMD-free with vaccination status) into other FMD-free countries. A stochastic model was built to characterize all the steps from primary production to bone-in beef export and introduction into an FMD-free country. The probability that bone-in beef from at least one animal infected with the FMD virus (FMDV) was exported during a year was 5.27 × 10−3 (95% CI <10−10 – 5.19 x 10–2) or in other words one case in 190 years. The risk of FMDV introduction was sensitive to the probability of an outbreak occurring in Argentina (r [Spearman´s rank correlation] = 0.99) and the number of herds affected during an outbreak (r = 0.10). Additionally, the probability that susceptible animals in the importing country came into contact with infective material (bones) and generated an outbreak was 6.16 × 10−4 (95% CI <10−10 – 6.20 ×10−3) or one FMD outbreak every 1623 years on average. Based on the quantitative risk assessment results, the probability of FMDV introduction into a FMD-free country where vaccination is not practiced from a FMD-free country where vaccination is practiced associated with bone-in beef trade from Argentina was negligible. The risk of an FMD outbreak caused by the potential introduction of the FMDV was associated with the existing conditions in the country. Thus, maintaining the FMD-free status with or without vaccination would not be relevant.Fil: Brusa, Victoria. Consejo Nacional de Investigaciones Científicas y Técnicas. Centro Científico Tecnológico CONICET- La Plata. Instituto de Genética Veterinaria "Ing. Fernando Noel Dulout". Universidad Nacional de La Plata. Facultad de Ciencias Veterinarias. Instituto de Genética Veterinaria; ArgentinaFil: Durrieu, M.. No especifíca;Fil: Van Gelderen, C. J.. No especifíca;Fil: Signorini Porchietto, Marcelo Lisandro. Consejo Nacional de Investigaciones Cientificas y Tecnicas. Centro Cientifico Tecnologico Conicet - Santa Fe. Instituto de Investigacion de la Cadena Lactea. - Instituto Nacional de Tecnologia Agropecuaria. Centro Regional Santa Fe. Estacion Experimental Agropecuaria Rafaela. Instituto de Investigacion de la Cadena Lactea.; ArgentinaFil: Schudel, A.. No especifíca

Évaluation des risques écologiques causés par des matériaux de dragage: roposition d'une approche adaptée aux dépôts en gravière en eau

Une procédure d'évaluation des risques pour l'écosystème aquatique engendrés par un dépôt de matériaux de dragage dans une gravière type a été élaborée, et testée avec des échantillons de sédiments d'un canal du Nord-Est de la France. La procédure comporte une étape d'évaluation sommaire des risques, à partir de quotients des concentrations mesurées par les critères de danger correspondants, et une étape d'évaluation détaillée où des essais de toxicité et de lixiviation en colonnes sont mis en œuvre. Le scénario testé retient trois hypothèses, qui concernent (a) les effets sur les peuplements d'invertébrés benthiques, représentés notamment par Hyalella azteca et Chironomus riparius, (b) les effets sur les peuplements d'organismes pélagiques, représentés par Chlorella vulgaris, Ceriodaphnia dubia, et Brachionus calyciflorus, et (c) la pollution de la nappe alluviale associée. Différentes modalités d'exposition (essais normalisés, microcosmes) ont été testées. Dans le contexte particulier des trois sédiments étudiés, ces hypothèses se sont avérées plus ou moins discriminantes, la pollution de la nappe étant la plus sensible. Des améliorations de la procédure doivent être envisagées qui concernent à la fois la formulation des hypothèses (risques à court et long terme sur les organismes pélagiques), et les protocoles d'essai, tant pour les organismes du sédiment (rôle de la nourriture notamment) que pour les essais de lixiviation en colonnes.When contaminated by metals or synthetic organic compounds, dredged sediments may have negative impacts on receiving ecosystems. Therefore, there is a need for an operational risk assessment approach. Such a framework is proposed for dredged material deposits in open gravel quarries, which is a rather common means of disposal in France. The first step of the assessment relies upon chemical characterisation of the sediments; the resulting concentrations are divided by "probable effect concentrations" and pooled together, in order to calculate a global hazard quotient. According to the value of this quotient, several decisions can be taken: (a) undertake a detailed risk assessment, (b) dispose of the materials without further constraints, or (c) in case of uncertainty, do some biological testing (with Hyalella azteca and Chironomus riparius) in order to allow decisions. The second step is a detailed ecological risk assessment. Three different assessment endpoints have been proposed, which are (1) the deposit should have no effect on the structure and abundance of benthic invertebrates in the quarry, (2) it should have no long term effect on pelagic species, and (3) it should not cause groundwater pollution, as such quarries are in fact cross sections of shallow alluvial groundwater aquifers. A fourth assessment endpoint should be introduced, regarding health risks for recreational uses, including fishing, but this endpoint was not implemented in the current version of the approach. The analysis phase includes aquatic bioassays (bacteria - Metplate TM-, algae, microcrustaceans Ceriodaphnia dubia, rotifers Brachionus calyciflorus), and leaching assays in columns under ascendant flow.The proposed approach was tested with 3 sediments from a canal located in the north-eastern region of France. Microcosm assays were introduced in parallel to the proposed tests, in order to explore alternatives to standardised bioassays. According to their hazard quotient, the 3 sediments showed a contamination gradient; one of them should not have entered the detailed risk assessment phase, while another would have been further tested with H. azteca and C. riparius. In that case, this latter sediment would not have entered the detailed phase either, as it was not toxic to these species. However, the detailed risk assessment approach was applied to the three sediments, so as to test completely the relevance of the framework.The three sediments were not significantly toxic to either C. riparius or H. azteca. However, some effects were observed in microcosms, including genotoxicity to molluscs. In this case, no risk characterisation could be made. Pore waters extracted from the three sediments were not toxic or slightly toxic to bacteria, algae, and C. dubia; an EC10 value could be determined only for B. calyciflorus. Therefore, due to exposure calculations, it seems there is a risk to pelagic species. However, as 3 bioassays out of 4 were negative or inconclusive, a refinement step would seem to be necessary. The highest concentrations of cadmium, copper, chromium, nickel and zinc were measured in the first lixiviates of the most contaminated sediment. Yet, even in that case, the total extracted fraction remained less than 10% of the total load. This fraction was below 1% for the other sediments, whatever the metal. Maximum concentrations and predicted concentrations at 1 year were compared to drinking water standards. This comparison showed a real risk of degrading groundwater quality for that most contaminated sediment, and a transient risk due to cadmium and nickel for the following one on the contamination gradient.Considering these results, the design of the first step of the proposed assessment approach may be discussed, as one sediment which would not have been assessed in depth according to its hazard quotient did show a risk to pelagic species. This discrepancy underlines the fact that some sediment toxicity may exist below the lowest threshold. As it would be unrealistic to enter systematically into detailed risk assessments, the proposed thresholds in the decision diagram must be pragmatic compromises rather than absolutely safe boundaries. Moreover, protocol improvements are needed for sediment toxicity bioassays. Chronic endpoints are preferable, as they are more sensitive and more relevant. Another issue is related to the role of additional food: not adding food may increase the apparent toxicity, but the sediment organic content, which is an alternative food source, may also be a contaminant carrier. Furthermore, the second assessment endpoint (risk to pelagic species) should be reformulated, as it includes in fact two different questions. Short-term risks related to the deposition phase could be assessed with standardised bioassays like C. dubia survival and reproduction and algal growth, while longer term risks related to contaminant diffusion could be assessed with microcosms. Genotoxic effects were observed at rather high levels, as compared to published results. This result stresses the interest of introducing sensitive and early markers in the risk assessment process, although their real meaning for ecosystems is not yet fully elucidated. Finally, the leaching tests in columns are not completely satisfactory, as the column filling implies that one must first dry the sediments, which will alter their structure. Other application trials along with field validation studies should be carried out prior to the introduction of this scenario in operational or regulatory frameworks

Transfer of particulate matter from the Northwestern Mediterranean continental margin: Variability and controlling factors

International audienceLong-term observations of monthly downward particle fluxes and hourly currents and temperaturewere initiated in 1993 in two canyons of the continental margin of the Gulf of Lion. The goals of thissurvey were to estimate its contribution to the CO 2 global budget and to understand the role offorcing factors in the control of present-day particle exchange across this margin. A previousstatistical analysis of the long-term time series suggested that variability in the transfer of particulatematter to the deep ocean could be the result of the effect of the meandering of the Northern Currentand by dense water formation in winter rather than variations in the sources of matter. Numericalsimulations have been carried out to consider these hypotheses. A model is used to examine theimpact of local atmospheric forcing (wind stress, heat fluxes, precipitation–evaporation budget) onthe variability of the oceanic circulation and of mass fluxes within the canyons from December toApril, for five consecutive years between 1996 and 2001. Results show an east-west gradient of massexport on the shelf and a positive correlation between anomalies of dense water formation rates andinterannual variability of particle fluxes. However, in the eastern part of the Gulf, the simulated massexport from the shelf is not significant, even during a winter of strong convection, when the measuredparticle fluxes are at maxima. Moreover, although the model suggests that the dense water formationcould be the major hydrodynamic forcing factor, this process is not sufficient to completely explainthe space and time variations of observed particle fluxes, especially at depth