Éditeur(s) : HAL CCSD
Résumé : For ecology scientists, spatial statistics are a set of tools allowing characterization of the structure of a point set, for instance a map of trees in a forest plot. This structure is defined implicitly as a departure from complete spatial randomness (CSR), the result of a Poisson point process. Inhomogeneity of the process and non-independence of points are its causes. As they cannot be disentangled by analyzing the data, so-called "spatial concentration" or "aggregation" (evenness due to repulsion also exists but is actually rare) usually concerns non-independence while intensity is assumed as known. The literature of point processes and measures of spatial structures is reviewed to clarify concepts and choices. The purpose of this thesis was to produce methodological enhancements. Its main results are: * A test for the most used statistic, Ripley's K function, against the null hypothesis of CSR. It can replace Monte-Carlo simulations used until now in the literature. * An extension of K to inhomogeneous processes, within a typology of available statistics (absolute, relative and topographic measures). When data is available as number of objects per zones (say a number of tree in each forest plot) rather than their exact position, information theory is used to define a general framework allowing to characterize spatial structure (of species) and diversity (of plots) as two aspects of a single measure of inequality. This framework is applied to Shannon's index of biodiversity to derive a self-sufficient definition of beta diversity, its calculation independently from the difference between gamma and alpha diversity, and a statistical test of significance against the null hypothesis that plots are samples of the same community. The way is paved for other applications to measures of diversity and spatial structures. As a conclusion, it appears clear that pattern characterization tools are a first step to deal with ecological questionings. Their development is still a matter of research. Yet, they are far from sufficient to address ecological processes as point processes ignore the temporal aspect of object locations.
Les statistiques spatiales sont pour les écologues un ensemble d'outils permettant de caractériser la structure d'un semis de points, par exemple une carte représentant des emplacements des arbres dans une parcelle de forêt. Cette structure est définie implicitement comme un écart à semis complètement aléatoire, résultat d'un processus de Poisson. L'hétérogénéité du processus ponctuel dont le semis de points est une réalisation et la non-indépendance des points en sont les causes indiscernables, ce qui amène généralement à supposer l'intensité du processus connu et nommer " concentration spatiale " ou " agrégation " (la régularité spatiale est possible, mais rare en pratique) la non-indépendance. Une revue de la littérature des processus ponctuels et des mesures de structures spatiales est fournie pour clarifier les concepts et les choix. L'objectif de ce travail de thèse était de produire des améliorations méthodologiques. Ses résultats principaux sont : * L'établissement d'un test pour la principale statistique utilisée, la fonction K de Ripley, permettant de s'affranchir de la méthode de Monte-Carlo utilisée dans la littérature pour rejeter l'hypothèse nulle d'un processus complètement aléatoire. * L'extension de K aux processus hétérogènes, dans le cadre d'une typologie claire des statistiques (absolues, relatives, topographiques). Lorsque la position exacte des objets n'est pas connue, mais que des effectifs par zone sont disponibles (par exemple des nombres d'arbres par parcelle), la théorie de l'information est utilisée pour définir un cadre général permettant de caractériser la structure spatiale (des espèces dans les parcelles) et la diversité (des parcelles, en termes d'espèces) comme deux aspects d'une même mesure d'inégalité. Ce cadre est appliqué à l'indice de biodiversité de Shannon pour définir clairement la mesure de diversité bêta, son calcul direct indépendamment de la différence entre diversités gamma et alpha, et fournir un test statistique de non nullité. La voie est ouverte pour l'application à d'autres mesures de diversité et de structure spatiale. En conclusion, il semble clair que ces outils de caractérisation sont un premier pas pour traiter les questions écologiques, leur développement étant toujours du domaine de la recherche. Ils sont cependant très insuffisants pour répondre à des questions liées aux processus écologiques, assez éloignés des processus ponctuels qui ignorent l'aspect temporel de l'installation des objets.
https://pastel.archives-ouvertes.fr/pastel-00540327

NNT : 2010AGPT0075
pastel-00540327
https://pastel.archives-ouvertes.fr/pastel-00540327
https://pastel.archives-ouvertes.fr/pastel-00540327/document
https://pastel.archives-ouvertes.fr/pastel-00540327/file/13_Marcon2010.pdf

Éditeur(s) : HAL CCSD Springer Verlag
Résumé : International audience
In a study of a 15-year-old pasture in Martinique (French West Indies), abundance and organization of microarthropod communities were correlated with the spatial distribution of the earthworm Polypheretima elongata (Megascolecidae). In patches of high earthworm density (133 individuals m-2), microarthropod density was significantly higher (80 000 individuals m-2) than in patches with few earthworms (31 worms m-2 and 49 000 microarthropods m-2). The diversity of microarthropod communities followed a similar pattern, the Shannon index for Collembola communities being, respectively, 3.12 and 1.82 in and outside earthworm patches. These results suggest that mesofauna abundance and diversity might be at least partly determined by the activity of larger invertebrates, as a result of the dramatic effects that the latter group exerts upon soil structure, pore distribution and food resources.
ISSN: 0178-2762

hal-00505427
https://hal.archives-ouvertes.fr/hal-00505427
https://hal.archives-ouvertes.fr/hal-00505427/document
https://hal.archives-ouvertes.fr/hal-00505427/file/Loranger_et_al._1998b.pdf
DOI : 10.1007/s003740050394

Éditeur(s) : HAL CCSD American Geophysical Union
Résumé : International audience
Giant earthquake (moment magnitude M-w >= 8.5) forecasts for subduction zones have been empirically related to both tectonic stresses and geometrical irregularities along the subduction interface. Both of these controls have been suggested as able to tune the ability of rupture to propagate laterally and, in turn, exert an important control on giant earthquake generation. Here we test these hypotheses, and their combined influence, by compiling a dataset of trench fill thickness (a proxy for smoothing of subducting plate relief by sediment input into the subduction channel) and upper plate strain (a proxy for the tectonic stresses applied to the subduction interface) for 44 segments of the global subduction network. We statistically compare relationships between upper plate strain, trench sediment thickness and maximal earthquake magnitude. We find that the combination of both large trench fill (>= 1 km) and neutral upper plate strain explains spatial patterns of giant earthquake occurrence to a statistically significant degree. In fact, the concert of these two factors is more highly correlated with giant earthquake occurrence than either factor on its own. Less frequent giant earthquakes of lower magnitude are also possible at subduction zones with thinner trench fill and compressive upper plate strain. Extensional upper plate strain and trench fill < 0.5 km appear to be unfavorable conditions, as giant earthquakes have not been observed in these geodynamical environments during the last 111 years. Citation: Heuret, A., C. P. Conrad, F. Funiciello, S. Lallemand, and L. Sandri (2012), Relation between subduction megathrust earthquakes, trench sediment thickness and upper plate strain, Geophys. Res. Lett., 39, L05304, doi: 10.1029/2011GL050712.
ISSN: 0094-8276

hal-00745636
https://hal.archives-ouvertes.fr/hal-00745636
https://hal.archives-ouvertes.fr/hal-00745636/document
https://hal.archives-ouvertes.fr/hal-00745636/file/heuretGRL2012.pdf
DOI : 10.1029/2011GL050712

Éditeur(s) : HAL CCSD MDPI
Résumé : International audience
Malaria remains one of the most common vector-borne diseases in the world and the definition of novel control strategies can benefit from the modeling of transmission processes. However, data-driven models are often difficult to build, as data are very often incomplete, heterogeneous in nature and in quality, and/or biased. In this context, a knowledge-based approach is proposed to build a robust and general landscape-based hazard index for malaria transmission that is tailored to the Amazonian region. A partial knowledge-based model of the risk of malaria transmission in the Amazonian region, based on landscape features and extracted from a systematic literature review, was used. Spatialization of the model was obtained by generating land use and land cover maps of the cross-border area between French Guiana and Brazil, followed by computing and combining landscape metrics to build a set of normalized landscape-based hazard indices. An empirical selection of the best index was performed by comparing the indices in terms of adequacy with the knowledge-based model, intelligibility and correlation with P. falciparum incidence rates. The selected index is easy to interpret and successfully represents the current knowledge about the role played by landscape patterns in malaria transmission within the study area. It was significantly associated with P. falciparum incidence rates, using the Pearson and Spearman correlation coefficients (up to 0.79 and 0.75, respectively; p-value < 0.001), and the linear regression coefficient of determination (reaching 0.63; p-values < 0.001). This study establishes a spatial knowledge-driven, landscape-based hazard malaria index using remote sensing that can be easily produced on a regular basis and might be useful for malaria prediction, surveillance, and control. Keywords: remote sensing; land use and land cover; landscape metric; knowledge-based hazard modeling; malaria; cross-border area between French Guiana and Brazil
ISSN: 2072-4292

hal-01355255
https://hal.archives-ouvertes.fr/hal-01355255
https://hal.archives-ouvertes.fr/hal-01355255/document
https://hal.archives-ouvertes.fr/hal-01355255/file/010066865.pdf
IRD : fdi:010066865

Résumé : La dengue constitue actuellement l'arbovirose la plus répandue sur la planète avec 40% de la population mondiale exposée, soit environ 2,5 milliards de personnes. La maladie est endémique dans tous les continents excepté l'Europe même si les premiers cas de transmission autochtone ont été observés en France métropolitaine et en Croatie en 2010. L'augmentation régulière de son incidence fait actuellement de la dengue un problème de santé publique majeur dans les pays tropicaux et une menace pour d'autres pays du monde. En raison de son mode de transmission, la dengue constitue une maladie étroitement liée à l'environnement. L'urbanisation constitue un facteur important dans l'émergence ou la réémergence d'épidémies de dengue dans les pays tropicaux. Cette étude menée a pour objet d'analyser les liens existant entre le domaine de la santé (situation sanitaire et épidémiologique de la dengue) et de celui de l'environnement (évolution de l'urbanisation) en Guadeloupe continentale entre 2000 et 2008.Pour ce faire, les cas suspects et confirmés de dengue ont été recueillis. L'incidence pour ces deux types de cas a été calculée puis représentée à deux échelles administratives différentes: communes et sections. Les facteurs environnementaux comprenant les variables physiques et socio-démographiques ont été pris en compte pour la définition, l'identification et l'analyse de l'évolution des contextes d'habitation durant la période étudiée. Deux méthodes ont été utilisées: la classification «Raster» consistant en une analyse régulière basée sur des mailles de taille identique et la classification « Vecteur» s'appuyant sur les limites administratives des sections. Ces classifications ont permis de décrire la répartition des différents contextes d'habitation sur le territoire de la Guadeloupe et d'obtenir des indicateurs qui ont été analysés en relation avec les données sanitaires. Il a été mis en évidence que la situation épidémiologique de la dengue dans le département s'est significativement aggravée au cours de la période étudiée. Des épidémies majeures sont apparues en 2001, 2005/2006 et 2007. Le nord Basse-Terre, la région Pointoise ainsi que le sud-est de la Grande-Terre, de la ville du Gosier à Saint-François le long de la côte, sont les régions les plus concernées par l'augmentation d'incidence de la maladie. Concernant les contextes d'habitation, huit contextes distincts ont été identifiés: touristique, naturel, intermédiaire, agricole, résidentiel, rural, périurbain et urbain. Le contexte intermédiaire correspond à des régions de transition entre les autres contextes d'habitation. La différence entre les contextes agricoles et ruraux réside dans la prédominance de surface agricole pour le premier alors que le contexte rural est caractérisé par les espaces cultivés habités. L'évolution surfacique de ces contextes au cours du temps a été analysée en relation avec les incidences. Les résultats montrent que les contextes d'habitation sont statistiquement.associés à l'incidence de la dengue en Guadeloupe. En particulier, les contextes touristiques, résidentiels et ruraux possèdent une association positive élevée avec l'incidence de la dengue.
At present, dengue fever has become the arbovirose the most wide-spread worldwide with 40 % ofthe exposed population, 2,5 billion people. The disease is endemie in all the continents excepted Europe even though the fust cases ofautochthonoustransmissionwere observedinmetropolitanFranceandCroatiain2010.Because oftherecentincrease of its incidence, dengue fever is now a major public health problem in the tropical countries and a threat for the other countries in the worldwide. Due to its mode oftransmission, the disease is closely linked to the environment. Urbanization is an important factor ofthe emergence or the re-emergence of dengue in the tropical countries. This study aims to analyze the links between health and environment domains, which correspond to the epidemiological situation of the dengue and the evolution ofthe urbanization in Guadeloupe.Information about suspect and confirmed cases of dengue were collected. The incidence of suspect and confirmed cases has been estimated, then represented at two different administrative boundaries: communes and sections. Environmental factors including the physical and socio-demographic variables were taken into account to the definition, the identification and the analyze ofevolution of the housing patterns during the studied period. Two methods were used: Il Raster" consisting of a regular analysis based on squares units and "Vector" based on the administrative limits of sections. These classifications allowed to describe the distribution ofthe different housing patterns ofGuadeloupe and to estimate indicators for the analyzing of sanitary data. The results highlight a worsening ofepidemiological situation ofthe dengue over the time in the department. Major outbreaks occurred in 2001,2005/2006 and 2007. The north Basse-Terre, the Pointe-à-Pitre urban area as weIl as the whole coast (frOID the city of Gosier to Saint-François) ofthe southeast ofGrande-Terre were the most affected regions by the increase ofincidence of dengue. Concerning the housing classes, eight different patterns were identified: tourist, natural, intermediate, agricultural, residential, rural, suburban and urban. The intermediate class corresponds to buffer regions between the other patterns. The difference between the agricultural and rural contexts lies in the predominance ofagricultural surface for the first one while the rural context is characterized by the inhabited farmland. The evolution over time of spatial extend ofthese patterns was described in relation with incidence. Results showed that the housing patterns are statically associated with the incidence ofdengue in Guadeloupe. In particular, the touristic, residential and rural patterns have a high positive association with dengue incidence.

http://www.theses.fr/2012AGUY0565/document

Éditeur(s) : Inter-Research
Résumé : The spatial structure of demersal fish assemblages on the continental shelf of the NW Mediterranean Sea was examined on a large scale between the Straits of Gibraltar and the Gulf of Lions. In contrast to its predominant role in the spatial distribution of species composition, described worldwide, it seems depth has only a limited effect on the distribution patterns of the total abundance and diversity of demersal fishes. In addition, evidence is provided for the division of the whole study area into 3 geographical fish assemblages. The influence of Atlantic inputs and the semi-permanent Almena-Oran hydrographic front play a key role in defining the Alboran Sea as a specific fish fauna area. Moreover, the clear differentiation between 2 distinct assemblages in the Gulf of Lions and the Catalan Sea could be partly linked to the North Balearic front. These results contribute to the current debate on the definition of spatial units for the purpose of demersal fisheries management. They also stress the complexity of developing an ecosystem approach which deals simultaneously with species composition and biodiversity aspects of ecosystems management.
Marine Ecology Progress Series (0171-8630) (Inter-Research), 2005-08 , Vol. 297 , P. 245-257

Droits : Inter-Research 2005
http://archimer.ifremer.fr/doc/2005/publication-3623.pdf
DOI:10.3354/meps297245
http://archimer.ifremer.fr/doc/00000/3623/

Éditeur(s) : HAL CCSD Elsevier
Résumé : International audience
We use a strike-slip fault analog model to study experimentally the role played by along-fault non-uniform and asymmetric applied normal stress on both coseismic slip and long-term fault behavior. Our model is based on a visco-elasto-plastic multi-layered rheology that allows to produce several hundreds of scaled analog microquakes and associated seismic cycles. Uniform or heterogeneous applied normal stress along the fault plane is imposed and maintained constant during the whole experiment durations. Our results suggest that coseismic slip patterns are strongly controlled by spatial normal stress variations and subsequent accumulated shear stress along fault strike. Major microquakes occur preferentially in zones of major shear stress asperities. Coseismic slip distributions exhibit a pattern similar to the along-fault applied normal stress distribution. The occurrence of isolated low to moderate microquakes where residual stresses persist around secondary stress asperities, indicates that stress conditions along the fault also control the whole variability of fault slip events. Moreover, when fault slip stability conditions are modulated by normal stress distribution, our experiments suggest that the along-fault stress heterogeneity influences the seismic cycle regularity and, consequently, long-term fault slip behavior. Uniform applied normal stress favors irregular seismic cycles and the occurrence of earthquakes clustering, whereas non-uniform normal stress with a single high amplitude stress asperity generates strong characteristic microquake events with stable return periods. Together our results strengthen the assumption that coseismic slip distribution and earthquake variability along an active fault may provide relevant information on long term tectonic stress and could thus improve seismic hazard assessment.
ISSN: 0012-821X

hal-01666379
https://hal.archives-ouvertes.fr/hal-01666379
DOI : 10.1016/j.epsl.2017.10.009

Éditeur(s) : Université des Antilles Études caribéennes
Résumé : Cette étude s’attache à rendre compte des difficultés auxquelles l’île de La Réunion est confrontée de longue date et qui ne trouvent, jusqu’à présent, aucune issue satisfaisante en termes de développement. De crises en conflits, récurrents dans leurs formes comme dans leurs schémas spatiaux, La Réunion demeure enfermée dans des impasses multiples, économiques et sociétales. Aucune issue réelle ne se dessine : la confusion des responsabilités perdure et permet à des schémas éculés, présentés comme des innovations, de se reproduire sans fin.
This study aims to realize the difficulties that the island of Reunion is facing a long time and without satisfactory outcome in terms of development. Crises to conflicts, recurring forms, as in their spatial patterns, Reunion remains locked in an impasse multiple, economic and societal. No actual outcome does is emerging: the responsibilities confusion continues and allows worn patterns, presented as innovations, reproduced endlessly.
Réunion

Droits : info:eu-repo/semantics/openAccess
urn:doi:10.4000/etudescaribeennes.4930
http://journals.openedition.org/etudescaribeennes/4930

Éditeur(s) : HAL CCSD Springer Verlag
Résumé : Geomorphic landscape features have been suggested as indicators of forest diversity. However, their explanatory power has not yet been explicitly tested at a regional scale in tropical rainforest. We used forest inventories conducted according to a stratified sampling design (3,132 plots in 111 transects at 33 sites) and holistic multi-scale geomorphological mapping derived from a Shuttle Radar Topography Mission digital elevation model to describe and explain spatial patterns in floristic composition across French Guiana (80,000 km2). We measured and identified 123,906 trees with DBH C20 cm and used constrained and unconstrained ordinations to analyze variations in the abundance of 221 taxa and 51 families. Variance partitioning and variograms were used to detect spatial patterns in species composition, compare the explanatory power of spatial and environmentalfactors, and select the variables that best explain forest composition. Strong floristic patterns corresponded to a major latitudinal gradient and significant sub-regional floristic structure. Geomorphological landscapes shaped by historic climate fluctuations and major geological events successfully captured these patterns and explained the variation in abundance of 80 taxa, corresponding to 65 % of the inventoried trees. Our findings suggest that long-term forest dynamics are under substantial ‘‘geomorphographic control’’. A geomorphological perspective on landscapes that incorporates current and past environmental filters and historical biogeographical processes could thus be used more systematically in tropical regions for regional planning and forest conservation
ISSN: 0960-3115

hal-01204224
https://hal.archives-ouvertes.fr/hal-01204224
DOI : 10.1007/s10531-014-0854-8
PRODINRA : 295767

Résumé : After a period of rapid development of the sites (an increase in both reared surface area and production), tropical shrimp aquaculture is currently being faced with critical problems due to economical and ecological constraints. In many countries with favourable conditions for shrimp aquaculture such as indonesia or Vietnam, sites are often badly selected and/or over-exploited. This conducts to sorne extent to decreases or collapses in the production due to the difficulty in predicting the maximum production capacity of the sites. Furthermore, it appears that production sustainability depends on many factors among which socio-economy and ecolo gy are of prime importance. The STD3 project titled « Assessment of tropical shrimp aquaculture impact on the environment in tropical countries using hydrobiology, ecology and remote sensing as helping tools for diagnosis )) was initiated in 1994, with the aim to study the sustainability of marine shrimp aquaculture in tropical areas, main! y Indonesia and Vietnam, through the following tasks: (i) improve site selection and study the impact of aquaculture on marine environments presenting a variable sensitivity to organic sewage, (ii) analyse the socio-economical aspects and profitability of the aquaculture industry and of common resources (iii) use remote sensing and geographical data bases for diagnosis and monitoring of site degradation (iv) reinforce the capacity of Asian scientists through training. Severa! aquaculture sites have been investigated in the Lampung region (South Sumatra, Indonesia), the Mekong delta (Vietnam) and on the West coast of New-Caledonia, providing a large range of typical ecosystems encountered in Asia and in the Pacifie, from coralline sites to coastal plains with mangrove and deltaic areas. The study concerned the spatial structure and seasonal influence of these ecosystems, the temporal variation during the course of the project (3 years) and the relation between the ecological structure and farm productions. Remote sensing provides a synoptic vision over large land expanses. Severa! scenes were processed for landuse mapping using conventional classification techniques. Concerning water quality assessment, a general relation for the Java sea was found between image and field data in terms of total suspended matter. Applying this relation to a new site in Sumatra has provided an initial approach to water type and, together with land use mapping, a preliminary assessment of the suitability of the area to shrimp aquaculture development. Socio-economic research has been focused on the identification ofneeds for collective action, including public policy, in the perspective of shrimp farming sustainability. The main concern is in the regulation of shrimp farming intensification and extensification at the scale of coastal ecosystemic entities in a common property resource management perspective. The common considered here is coastal water quality. Comparing the local development profiles and the institutional grounds for the design and implementation of collective management rules shows that variables such as land tenure system, farm owner socio-economic profile, social homogeneity or heterogeneity of the farmers are key factors to analyse the potential for sustainability. The defmition of water quality and the possible means to ensure its collective management are discussed. The main conclusion is that the economie incentives to farming development are strong but there is no significant difference among traditional, semi-intensive and intensive systems in terms of economie efficiency or wealth distribution. The description of the functioning of the different kinds of ecosystems make it possible to give an advice concerning the positioning of the activity inside the ecosystem, and furthermore to have a reference state in order to determine the impact of the activity on the coastal environnement. This impact can be summarized as an increase in the concentration of total suspended matt€?r, of particulate organic matter and of sulfate reducing bacterias. This organic ma~.er is either issued from rearing activities or from telluric origine, due to mangrove eradication when building the ponds. An evaluation of the relationship existing between productivity and characteristics of each ecosystem bas been conducted by correlating ecological indicators data (concentration of total suspended matter, particulate organic matter, chlorophyll, percentage of pheopigments in total pigments and cyanobacteria and sulfatereducing bacteria in water and sediments) with the average production of the farms. This comparison lead to the compilation of a scale of observed production integrating the range of these environmental parameters with shrimp production levels, bound to facilitate the positioning of shrimp farming in relation with the confmement leve! of each ecosystem. Lastly, ali geographie data originated from the various compartments of the study have been geo-referenced and loaded into a geographical information system. This allows to display any query made on spatial variables and their related statistical data, including the ir variations over the last few years and to reveal patterns and phenomena otherwise not obvious.
Le programme mis en oeuvre par la DRV (Paris, CREMA-L'Houmeau, DELIAO Brest, COP Tahiti, GIE/RA Nouvelle Calédonie), dans le cadre d'un projet européen STD3 «(Sciences et Technique au Service du Développement», en collaboration avec l'Université de Montpellier II, l'Ecole Nationale d'Agronomie de Rennes, l'ITC (Hollande), l'Institut Océanographique de Nha Trang (Vietnam), le BADC de Jepara et le BPPT de Jakarta (Indonésie), avait pour but la mise au point de méthodes permettant d'améliorer la sélection des sites ainsi que le suivi du développement et de l'impact de l'aquaculture des crevettes Péneides en milieu tropical pour éviter la surexploitation. Quatre axes de recherche ont été défmis : a) identifier la nature et quantifier les rejets de déchets issus de ce type d'aquaculture, b) définir les caractéristiques écologiques des écosystèmes susceptibles d'accueillir l'activité aquacole et suivre leur évolution sous l'influence des rejets, c) déterminer l'influence de la gestion des fermes et des ressources (aspects économiques) sur les performances de productivité, d) déterminer la capacité de la télédétection comme outil de diagnostic d'impact à l'échelle de la région, e) mener un programme de formation d'étudiants et jeunes chercheurs Vietnamiens et Indonésiens.

Droits : 1998 Ifremer
http://archimer.ifremer.fr/doc/00132/24357/22357.pdf
http://archimer.ifremer.fr/doc/00132/24357/

Éditeur(s) : HAL CCSD
Résumé : International audience
We present the principle and the main steps of a new method for the visuo-spatial analysis of geometrical sketches recorded online. Visuo-spatial analysis is a necessary step for multi-level analysis. Multi-level analysis simultaneously allows classification, comparison or clustering of the constituent parts of a pattern according to their visuo-spatial properties, their procedural strategies, their structural or temporal parameters, or any combination of two or more of those parameters. The first results provided by this method concern the comparison of sketches to some perfect patterns of simple geometrical figures and the measure of dissimilarity between real sketches. The mean rates of good decision higher than 95% obtained are promising in both cases.
Proceedings of the 2010 International Conference on Image Processing, Computer Vision, & Pattern Recognition

Droits : info:eu-repo/semantics/OpenAccess
hal-00514929
https://hal.archives-ouvertes.fr/hal-00514929
https://hal.archives-ouvertes.fr/hal-00514929/document
https://hal.archives-ouvertes.fr/hal-00514929/file/IPCV2010_-_RRP.pdf
ARXIV : 1305.1520

Éditeur(s) : HAL CCSD Elsevier
Résumé : International audience
A better understanding of the key ecological processes of marine organisms is fundamental to improving design and effective implementation of marine protected areas (MPAs) and marine biodiversity. The movement behavior of coral reef fish is a complex mechanism that is highly linked to species life-history traits, predation risk and food resources. We used passive acoustic telemetry to study monthly, daily and hourly movement patterns and space use in two species, Schoolmaster snapper (Lutjanus apodus) and Stoplight parrotfish (Sparisoma viride). We investigated the spatial overlap between the two species and compared intra-specific spatial overlap between day and night. Presence-absence models showed different diel presence and habitat use patterns between the two species. We constructed a spatial network of the movement patterns, which showed that for both species when fish were detected by the array of receivers most movements were made around the coral reef habitat while occasionally moving to silt habitats. Our results show that most individuals made predictable daily crepuscular migrations between different locations and habitat types, although individual behavioral changes were observed for some individuals across time. Our study also highlights the necessity to consider multiple species during MPA implementation and to take into account the specific biological and ecological traits of each species. The low number of fish detected within the receiver array, as well as the intraspecific variability observed in this study, highlight the need to compare results across species and individuals to be used for MPA management.
ISSN: 0141-1136

hal-01169390
https://hal-univ-perp.archives-ouvertes.fr/hal-01169390
DOI : 10.1016/j.marenvres.2015.06.004

Éditeur(s) : HAL CCSD Optical Society Optical Society - SOA Publishing
Résumé : International audience
We show that the canonical single frequency sarcomeric SHG intensity pattern (SHG-IP) of control muscles is converted to double frequency sarcomeric SHG-IP in preserved mdx mouse gastrocnemius muscles in the vicinity of necrotic fibers. These double frequency sarcomeric SHG-IPs are often spatially correlated to double frequency sarcomeric two-photon excitation fluorescence (TPEF) emitted from Z-line and I-bands and to one centered spot SHG angular intensity pattern (SHG-AIP) suggesting that these patterns are signature of myofibrillar misalignement. This latter is confirmed with transmission electron microscopy (TEM). Moreover, a good spatial correlation between SHG signature of myofibrillar misalignment and triad reduction is established. Theoretical simulation of sarcomeric SHG-IP is used to demonstrate the correlation between change of SHG-IP and -AIP and myofibrillar misalignment. The extreme sensitivity of SHG microscopy to reveal the submicrometric organization of A-band thick filaments is highlighted. This report is a first step toward future studies aimed at establishing live SHG signature of myofibrillar misalignment involving excitation contraction defects due to muscle damage and disease.
ISSN: 2156-7085

hal-00952823
https://hal.archives-ouvertes.fr/hal-00952823
https://hal.archives-ouvertes.fr/hal-00952823/document
https://hal.archives-ouvertes.fr/hal-00952823/file/boe-5-3-858_002.pdf
DOI : 10.1364/BOE.5.000858

Éditeur(s) : HAL CCSD Elsevier
Résumé : In this study, we assessed past and present influence of ancient mining activity on metal(loid) enrichment in sediments of a former mining watershed (Gardon River, SE France), that is now industrialized and urbanized. A sedimentary archive and current sediments were characterized combining geochemical analyses, zinc isotopic analyses and sequential extractions. The archive was used to establish local geochemical background and recorded (i) increasing enrichment factors (EFs) for Pb, Zn, Cd, Tl, Hg, As and Sb throughout the industrial era, (ii) a contamination peak in 1976 attributed to a tailings dam failure, and (iii) current levels in 2002 and 2011 similar to those of 1969, except for Sb and Hg, reflecting a persisting contamination pattern. Inter-element relationships and spatial distribution of EF values of current sediments throughout the watershed suggested that both ancient and current contamination had a common origin for Pb, Zn, Cd, Tl and As related to the exploitation of Pb/Zn mineralization while old Sb mines and coal extraction area were the main sources for Sb and Hg respectively. This prevailing mining origin was reflected for Zn by a relatively uniform isotopic composition at δ66Zn = 0.23 ± 0.03‰, although slight decrease from 0.23‰ to 0.18‰ was recorded from upstream to downstream sites along the river course in relation with the contribution of the lighter δ66Zn signature (~ 0.08‰) of acid mine drainage impacted tributaries. Results from sequential extractions revealed that the potential mobility of the studied metal(loid)s varied in the order Sb < Tl ≈ As < Zn < Pb < Cd, with an increase of the mobile pool for Cd, Pb, Zn and to a lesser extent for As and Tl associated to increased enrichment. Altogether, these results tend to demonstrate that ancient mining activity still contributes to metal enrichment in the sediments of the Gardon River and that some of these metals may be mobilized toward the water compartment.
ISSN: 0048-9697

hal-01054163
https://hal.archives-ouvertes.fr/hal-01054163
DOI : 10.1016/j.scitotenv.2014.02.078

Éditeur(s) : HAL CCSD Royal Society, The
Résumé :  
Plant phenology is concerned with the timing of recurring biological events. Though phenology has traditionally been studied using intensive surveys of a local flora, results from such surveys are difficult to generalize to broader spatial scales. In this study, contrastingly, we assembled a continental-scale dataset of herbarium specimens for the emblematic genus of Neotropical pioneer trees, Cecropia, and applied Fourier spectral and cospectral analyses to investigate the reproductive phenology of 35 species. We detected significant annual, sub-annual and continuous patterns, and discuss the variation in patterns within and among climatic regions. Although previous studies have suggested that pioneer species generally produce flowers continually throughout the year, we found that at least one third of Cecropia species are characterized by clear annual flowering behaviour. We further investigated the relationships between phenology and climate seasonality, showing strong associations between phenology and seasonal variations in precipitation and temperature. We also verified our results against field survey data gathered from the literature. Our findings indicate that herbarium material is a reliable resource for use in the investigation of large-scale patterns in plant phenology, offering a promising complement to local intensive field studies
ISSN: 0962-8452

hal-01032193
https://hal.archives-ouvertes.fr/hal-01032193
DOI : 10.1098/rspb.2010.2259

Éditeur(s) : Wiley-blackwell
Résumé : 1. Approximately 300 pelagic fish species naturally aggregate around floating objects (FOBs) at the surface of the oceans. Currently, more than 50% of the world catch of tropical tuna comes from the industrial tuna fisheries around drifting FOBs. Greater understanding of the complex decision-making processes leading to this aggregation pattern and the impact of the massive release of artificial FOBs by fishermen on the spatial distribution and management of tuna is needed. 2. We analyse how the interplay between social (relationships between individuals) and non-social (responses to the environment) behaviours may affect the spatial distribution of a population in a multi-FOB environment. Taking the example of tropical tunas associating with FOBs and using differential equations and stochastic simulations, we examine how, when increasing the number of FOBs, fish aggregation dynamics and the distribution of the population among patches are affected by the population size, level of sociality and the natural retentive and/or attractive forces of FOBs on individual tuna. 3. Our model predicts that, depending on the species' level of sociality, fish will be scattered among FOBs or aggregated around a single FOB based on the number of FOBs deployed in a homogeneous oceanic region. 4. For social species, we demonstrated that the total fish catch is reduced with increasing FOBs number. Indeed, for each size of population, there are a number of FOBs minimizing the total population of fish associated with FOBs and another number of FOBs maximizing the total population of associated fish. 5. Synthesis and applications. In terms of fisheries management, the total catch volume is directly linked to the total number of floating objects (FOBs) for non-social species, and any limit on the number of sets would then result in a limit on the total catch. For social species (e.g. tuna), however, increasing the number of FOBs does not necessarily lead to an increase in the total catch, which is a non-intuitive result. Indeed, our model shows that, for specific values of the parameters, deploying a greater number of FOBs in the water (all other parameters being constant) does not necessarily help fishermen to catch more tuna, but does increase the level of fishing effort and bycatch.
Journal Of Applied Ecology (0021-8901) (Wiley-blackwell), 2013-10 , Vol. 50 , N. 5 , P. 1081-1092

Droits : 2013 The Authors. Journal of Applied Ecology, 2013 British Ecological Society
http://archimer.ifremer.fr/doc/00151/26275/24439.pdf
DOI:10.1111/1365-2664.12140
http://archimer.ifremer.fr/doc/00151/26275/

Éditeur(s) : Pergamon-elsevier Science Ltd
Résumé : In the present work, a biophysical dispersal model is used to understand the role of the physical environment in determining reef fish larval dispersal patterns in the South-West Lagoon of New Caledonia. We focus on a reef fish species, the humbug damselfish Dascyllus aruanus, to investigate seasonal variability of simulated larval retention at the scale of a reef patch and at the scale of the lagoon, and to explore links between larval retention and wind variability. The model shows that retention exhibits considerable temporal variability and periodically reaches values much larger than anticipated. Non-zero larval settlement occurs over a large part of the lagoon. Nevertheless, settlement values decrease quickly away from the natal reef and mean dispersal distances are of order 25-35 km. Cross-correlation analyses indicate that weather conditions characterized by strong south east trade winds lead to low retention rates at both local (reef) and regional (lagoon) scales. By contrast, subtropical weather conditions characterized by weak winds result in high retention rates. These results suggest that large-scale weather regimes can be used as proxies for larval retention of the humbug damselfish in the South-West Lagoon of New Caledonia. Nevertheless, relatively small mean dispersal distances suggest that meta-population dynamics occur on relatively small spatial scales.
Progress In Oceanography (0079-6611) (Pergamon-elsevier Science Ltd), 2014-03 , Vol. 122 , P. 105-115

Droits : 2013 Elsevier Ltd. All rights reserved.
http://archimer.ifremer.fr/doc/00170/28115/26326.pdf
DOI:10.1016/j.pocean.2013.12.006
http://archimer.ifremer.fr/doc/00170/28115/

Éditeur(s) : HAL CCSD
Résumé : Over the last decade, distance-based methods have been introduced and then improved in the field of spatial economics to gauge the geographic concentration of activities. There is a growing literature on this theme including new tools, discussions on their specific properties and various applications. However, there is currently no typology of distance-based methods. This paper fills that gap. The proposed classification helps understand all the properties of distance-based methods and proves that they are variations on the same framework.
https://halshs.archives-ouvertes.fr/halshs-00679993

halshs-00679993
https://halshs.archives-ouvertes.fr/halshs-00679993
https://halshs.archives-ouvertes.fr/halshs-00679993v5/document
https://halshs.archives-ouvertes.fr/halshs-00679993/file/MARCON-PUECH-Hal%2000679993v5.pdf

Éditeur(s) : Université de Bretagne Occidentale
Résumé : Several small pelagic fish species contribute remarkably to world catch. Their populations are, however, characterized by large biomass fluctuations strongly affecting fisheries. The fishing gears and methods used to capture small pelagics have evolved to exploit the highly developed shoaling behavior of these species. Hence, faced to modern fishing this gregarious behavior becomes a disadvantage for fish. Fish behavior may be affected by environmental conditions and by fishing, at the same time that behavior impacts fishing. In this study, we seek to characterize the aggregative systems of small pelagic fishes inhabiting the Bay of Biscay by analyzing "acoustic images", defined as the group of echoes (planktonic layers, shoals, isolated targets) detected on a transect section of a given length. We analyzed the species composition, the spatial distribution and the evolution over time of acoustic images. We also studied the hydrological conditions of the bay, as well as the small pelagics French fishery in order to look for correlations between hydrology, commercial catch and fish aggregation patterns observed by acoustics. We observed the same species or group of species forming different types of aggregation according to habitat. Conversely, the same type of aggregation, associated with a particular habitat, can be produced by different species. The most notorious change observed during the studied period relates to small clupeoids aggregations in the vicinity of the Gironde estuary, whose structure evolved toward a greater fragmentation of shoals (a large number of small size detections) since 2000. Concerning commercial catches, pelagic trawlers fishing in pairs mainly seek for anchovy in the coastal areas, single pelagic trawlers capture mackerel and horse mackerel in deeper waters while purse seiners target mostly sardine near their fishing ports. Because of the coarse spatial resolution of commercial fishing data and the effect of the application of an international fisheries agreement limiting the fishing activity of French pelagic trawlers during spring, only small correlations between captures and types of aggregation were observed.
La participation des petits poissons pélagiques dans les captures est remarquable. Leurs populations sont cependant caractérisées par des importantes fluctuations de biomasse, impactant fortement les pêcheries. Les méthodes et appareils de pêche utilisés pour capturer ces espèces ont évolué dans le sens d'exploiter le comportement grégaire très développé des petits pélagiques. Cette tendance à former de bancs devient alors désavantageuse pour le poisson face à la pêche moderne. Les conditions environnementales et la pêche peuvent affecter le comportement du poisson, en même temps que ce dernier est susceptible d'affecter l'activité halieutique. Le but de cette étude est de caractériser les systèmes agrégatifs des petits poissons pélagiques dans le golfe de Gascogne en étudiant des « images acoustiques », définies comme l'ensemble des échos (couches planctoniques, bancs, cibles isolées) détectés sur une section de radiale de longueur donnée. Nous analysons leur composition en espèces ainsi que leur distribution spatiale et leur évolution au cours du temps. Nous étudions aussi les conditions hydrologiques du golfe, ainsi que la pêcherie française de ces espèces afin de chercher des corrélations entre l'hydrologie, la capture commerciale et les types d'agrégations observés par acoustique. Nous avons observé qu'une espèce est capable de former des agrégations différentes en fonction de l'habitat, et inversement, le même type d'agrégation, associé à un habitat particulier, peut être produit par des espèces différentes. Le changement observé le plus évident concerne les agrégations de petits clupéiformes, dont la structure a évolué vers une plus grande fragmentation des détections (des petits bancs plus nombreux) depuis 2000. Par rapport à la pêche des professionnels, les chalutiers pélagiques en boeufs recherchent en priorité l'anchois dans la zone côtière, les pélagiques simples capturent le chinchard et le maquereau au large et les senneurs recherchent principalement la sardine à proximité des ports de pêche. À cause de la résolution spatiale trop sommaire des données de pêche et l'effet de l'application des accords internationaux limitant l'activité des chalutiers pélagiques au printemps, nous n'avons observé que peu des corrélations entre les captures et les types d'agrégation établis à partir de données issues des campagnes scientifiques.

Droits : info:eu-repo/semantics/openAccess
http://archimer.ifremer.fr/doc/2008/these-6083.pdf
http://archimer.ifremer.fr/doc/00000/6083/

Éditeur(s) : HAL CCSD Hindawi Publishing Corporation
Résumé : International audience
We generalize Ripley's K function to get a new function, M, to characterize the spatial structure of a point pattern relatively to another one. We show that this new approach is pertinent in ecology when space is not homogenous and the size of objects matters. We present how to use the function and test the data against the null hypothesis of independence between points. In a tropical tree data set we detect intraspecific aggregation and interspecific competition.
ISSN: 1687-9708

hal-01502623
https://hal-agroparistech.archives-ouvertes.fr/hal-01502623
DOI : 10.1155/2012/619281