La Tour du Valat

Accounting for detection probability with overestimation by integrating double monitoring programs over 40 years [Article] / David Vallecillo, Auteur ; Matthieu Guillemain, Auteur ; Matthieu Authier, Auteur ; Colin Bouchard, Auteur ; Damien Cohez, Auteur ; Emmanuel Vialet, Auteur ; Gregoire Massez, Auteur ; Philippe Vandewalle, Auteur ; Jocelyn Champagnon, Auteur . - 2022 . - e0265730.Langues : Anglais (eng)in PLOS ONE > 17(3) (March, 2022) . - e0265730

Mots-clés :	TdV ; Animalia:Aves ; Dynamique population:Distribution ; Outil technique:Statistique:Modèle ; Animalia:Aves:Anseriformes:Anatidae:Anas:Anas crecca ; Oiseaux d'eau ; Conservation nature ; Suivi:Dénombrement ; Gestion milieu:Gestion faune
Mots-clés libres :	Birds  Conservation science  Ponds  Population dynamics  Population size  Waterfowl  Wetlands  Wildlife
Résumé :	In the context of wildlife population declines, increasing computer power over the last 20 years allowed wildlife managers to apply advanced statistical techniques that has improved population size estimates. However, respecting the assumptions of the models that consider the probability of detection, such as N-mixture models, requires the implementation of a rigorous monitoring protocol with several replicate survey occasions and no double counting that are hardly adaptable to field conditions. When the logistical, economic and ecological constraints are too strong to meet model assumptions, it may be possible to combine data from independent surveys into the modelling framework in order to understand population dynamics more reliably. Here, we present a state-space model with an error process modelled on the log scale to evaluate wintering waterfowl numbers in the Camargue, southern France, while taking a conditional probability of detection into consideration. Conditional probability of detection corresponds to estimation of a detection probability index, which is not a true probability of detection, but rather conditional on the difference to a particular baseline. The large number of sites (wetlands within the Camargue delta) and years monitored (44) provide significant information to combine both terrestrial and aerial surveys (which constituted spatially and temporally replicated counts) to estimate a conditional probability of detection, while accounting for false-positive counting errors and changes in observers over the study period. The model estimates abundance indices of wintering Common Teal, Mallard and Common Coot, all species abundant in the area. We found that raw counts were underestimated compared to the predicted population size. The model-based data integration approach as described here seems like a promising solution that takes advantage of as much as possible of the data collected from several methods when the logistic constraints do not allow the implementation of a permanent monitoring and analysis protocol that takes into account the detectability of individuals.
DOI :	DOI : 10.1371/journal.pone.0265730
En ligne :	https://journals.plos.org/plosone/article?id=10.1371/journal.pone.0265730
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Geometagenomics illuminates the impact of agriculture on the distribution and prevalence of plant viruses at the ecosystem scale [Article] / Pauline Bernardo, Auteur ; Tristan Charles-Dominique, Auteur ; Mohamed Barakat, Auteur ; Philippe Ortet, Auteur ; Emmanuel Fernandez, Auteur ; Denis Filloux, Auteur ; Penelope Hartnady, Auteur ; Tony A Rebelo, Auteur ; Stephen R Cousins, Auteur ; François Mesléard, Auteur ; Damien Cohez, Auteur ; Nicole Yavercovski, Auteur ; Arvind Varsani, Auteur ; Gordon W Harkins, Auteur ; Michel Peterschmitt, Auteur ; Carolyn M Malmstrom, Auteur ; Darren P Martin, Auteur ; Philippe Roumagnac, Auteur . - 2017 . - 12.Langues : Anglais (eng)in The ISME Journal > 12 (2017-10-20) . - 12

Mots-clés :	TdV
Résumé :	Disease emergence events regularly result from human activities such as agriculture, which frequently brings large populations of genetically uniform hosts into contact with potential pathogens. Although viruses cause nearly 50% of emerging plant diseases, there is little systematic information about virus distribution across agro-ecological interfaces and large gaps in understanding of virus diversity in nature. Here we applied a novel landscape-scale geometagenomics approach to examine relationships between agricultural land use and distributions of plant-associated viruses in two Mediterranean-climate biodiversity hotspots (Western Cape region of South Africa and Rhône river delta region of France). In total, we analysed 1725 geo-referenced plant samples collected over two years from 4.5 × 4.5 km2 grids spanning farmlands and adjacent uncultivated vegetation. We found substantial virus prevalence (25.8–35.7%) in all ecosystems, but prevalence and identified family-level virus diversity were greatest in cultivated areas, with some virus families displaying strong agricultural associations. Our survey revealed 94 previously unknown virus species, primarily from uncultivated plants. This is the first effort to systematically evaluate plant-associated viromes across broad agro-ecological interfaces. Our findings indicate that agriculture substantially influences plant virus distributions and highlight the extent of current ignorance about the diversity and roles of viruses in nature.
DOI :	DOI : 10.1038/ismej.2017.155
En ligne :	http://www.nature.com/doifinder/10.1038/ismej.2017.155
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Trends in management plans and guides: 25 years of experience from Southern France [Article] / Lisa Ernoul, Auteur ; Nicolas Beck, Auteur ; Damien Cohez, Auteur ; Christian Perennou, Auteur ; Marc Thibault, Auteur ; Loic Willm, Auteur ; Brigitte Poulin, Auteur . - 2015 . - 1096-1112.Langues : Anglais (eng)in Journal of Environmental Planning and Management > 58(6) (June 2015) . - 1096-1112

Mots-clés :	TdV ; Plan de gestion ; Conservation nature:Service écosystémique ; Outil technique:Indicateur ; Europe:Europe Occidentale:France:Provence-Alpes-Côte d'Azur:Camargue ; Protection environnement ; Gestion milieu
Résumé :	This study analysed 14 management plans and guidelines from a 25-year period to understand trends in conservation planning. A Rosetta Stone Analysis was used for the systematic comparison of plans and guidelines. Management plans incorporated management philosophies, management scenarios, opportunities for infrastructure, and plans for data collection by 2000. As of 2010, they incorporated ecosystem services, stakeholders’ objectives and methods for storing and analysing data. The results demonstrate the complex nature of management plans, with an important workload for site managers. Recommendations for future planning include adjustments in planning timeframes and a better identification of conservation targets from initial stages.
DOI :	DOI : 10.1080/09640568.2014.914021
Publisher :	Agricultural Systems, 6-2016
En ligne :	http://dx.doi.org/10.1080/09640568.2014.914021
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Dispersion post-nuptiale et hivernage de l'aigle de Bonelli Hieraeetus fasciatus en Camargue-Crau-Vallée des Baux [Article] / Christian Perennou ; F. Tron ; Damien Cohez ; Marc Thibault ; Anthony Olivier ; Michel Gauthier-Clerc ; C. Pin ; G. Paulus ; Yves Kayser ; Olivier Pineau ; G. Cheylan . - 2008.

Mots-clés :	TdV ; Dynamique population ; Europe:Europe Occidentale:France:Provence-Alpes-Côte d'Azur ; Europe:Europe Occidentale:France:Provence-Alpes-Côte d'Azur:Camargue ; Europe:Europe Occidentale:France:Provence-Alpes-Côte d'Azur:Crau ; Animalia:Aves ; Animalia:Aves:Falconiformes ; Animalia:Aves:Accipitriformes:Accipitridae ; Animalia:Aves:Accipitriformes:Accipitridae:Hieraaetus fasciatus ; Dynamique population:Dispersion ; Dynamique population:Densité population ; Dynamique population:Hivernage
Publisher :	Faune Provence 24/25 p51-59
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Un nid de marouette de Baillon Porzana pusilla découvert en Camargue en 2003 [Article] / Yves Kayser ; Damien Cohez ; Olivier Pineau . - 2006.

Mots-clés :	TdV ; Europe:Europe Occidentale:France:Provence-Alpes-Côte d'Azur:Camargue ; Animalia:Aves ; Animalia:Aves:Gruiformes ; Animalia:Aves:Gruiformes:Rallidae ; Animalia:Aves:Gruiformes:Rallidae:Porzana pusilla ; Ethologie:comportement:comportement reproducteur:nidification
Publisher :	Ornithos 13 p382-383
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Detection probability of nests of Squacco Herons in southern France [Article] / C. Barbraud ; Yves Kayser ; Damien Cohez ; Michel Gauthier-Clerc ; Heinz Hafner . - 2004.

Mots-clés :	Europe:Europe Occidentale:France:Provence-Alpes-Côte d'Azur:Camargue ; TdV ; Animalia:Aves ; Animalia:Aves:Ciconiiformes ; Animalia:Aves:Pelecaniformes:Ardeidae ; Animalia:Aves:Pelecaniformes:Ardeidae:Ardeola:Ardeola ralloides ; Suivi:Dénombrement ; Dynamique population:Densité population ; Ethologie:comportement:comportement reproducteur:nidification
Publisher :	J Field Ornithol 75 p172-175
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Fluctuations in chick diet of the Squacco Heron Ardeola ralloides in southern France: changes over the last 30 years [Article] / K. Delord ; Yves Kayser ; Damien Cohez ; S. Befeld ; Heinz Hafner . - 2004.

Mots-clés :	Europe:Europe Occidentale:France:Provence-Alpes-Côte d'Azur:Camargue ; TdV ; Animalia:Aves ; Animalia:Aves:Ciconiiformes ; Animalia:Aves:Pelecaniformes:Ardeidae ; Animalia:Aves:Pelecaniformes:Ardeidae:Ardeola:Ardeola ralloides ; Ecologie:Autoécologie:Autoécologie animale ; Physiologie animale:Métabolisme:Nutrition:régime alimentaire ; Développement biologique:Jeune
Publisher :	Bird Study 51 p69-75
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Compte-rendu ornithologique camarguais pour les années 1995-2000 [Article] / Yves Kayser, Auteur ; Cyril Girard, Auteur ; Gregoire Massez, Auteur ; Yves Chérain, Auteur ; Damien Cohez, Auteur ; Heinz Hafner, Auteur ; Alan Johnson, Auteur ; Nicolas Sadoul, Auteur ; Alain Tamisier, Auteur ; Paul Isenmann, Auteur . - 2003 . - 5–76.Langues : Anglais (eng)in La Terre et la Vie > 58(1) (2003) . - 5–76

Mots-clés :	TdV ; Animalia:Aves ; Europe:Europe Occidentale:France:Provence-Alpes-Côte d'Azur:Camargue ; Suivi:Dénombrement
En ligne :	https://hal.science/hal-03530082/document
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Variabilité des paramètres reproducteurs du crabier chevelu Ardeola ralloides en Camargue [Article] / Yves Kayser ; K. Delord ; Heinz Hafner ; Damien Cohez ; P. Delgado ; Michel Gauthier-Clerc . - 2003.

Mots-clés :	Europe:Europe Occidentale:France:Provence-Alpes-Côte d'Azur:Camargue ; TdV ; Animalia:Aves ; Animalia:Aves:Ciconiiformes ; Animalia:Aves:Pelecaniformes:Ardeidae ; Animalia:Aves:Pelecaniformes:Ardeidae:Ardeola:Ardeola ralloides ; Ecologie:Autoécologie:Autoécologie animale ; Physiologie animale:Métabolisme:Reproduction
Publisher :	Alauda 71 p289-290
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Compte rendu ornithologique camarguais pour les années 1995-2000 [Article] / Yves Kayser ; Cyril Girard ; Gregoire Massez ; Y. Cherain ; Damien Cohez ; Heinz Hafner ; Alan R. Johnson ; Nicolas Sadoul ; Alain Tamisier ; Paul Isenmann . - 2003.en hommage à Luc Hoffmann à l'occasion de son 80° anniversaire

Mots-clés :	TdV ; Europe:Europe Occidentale:France:Provence-Alpes-Côte d'Azur:Camargue ; Animalia:Aves ; Données environnementales:Inventaire faunistique ; Suivi:Dénombrement
Publisher :	Rev Ecol-Terre Vie 58 p5-76
En ligne :	https://doi.org/10.3406/revec.2003.5302
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