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2. The global spectrum of plant form and function: enhanced species-level trait dataset.

Author

Díaz, Sandra, Kattge, Jens, Cornelissen, Johannes HC, Wright, Ian J, Lavorel, Sandra, Dray, Stéphane, Reu, Björn, Kleyer, Michael, Wirth, Christian, Prentice, I Colin, Garnier, Eric, Bönisch, Gerhard, Westoby, Mark, Poorter, Hendrik, Reich, Peter B, Moles, Angela T, Dickie, John, Zanne, Amy E, Chave, Jérôme, Wright, S Joseph, Sheremetiev, Serge N, Jactel, Hervé, Baraloto, Christopher, Cerabolini, Bruno EL, Pierce, Simon, Shipley, Bill, Casanoves, Fernando, Joswig, Julia S, Günther, Angela, Falczuk, Valeria, Rüger, Nadja, Mahecha, Miguel D, Gorné, Lucas D, Amiaud, Bernard, Atkin, Owen K, Bahn, Michael, Baldocchi, Dennis, Beckmann, Michael, Blonder, Benjamin, Bond, William, Bond-Lamberty, Ben, Brown, Kerry, Burrascano, Sabina, Byun, Chaeho, Campetella, Giandiego, Cavender-Bares, Jeannine, Chapin, F Stuart, Choat, Brendan, Coomes, David Anthony, Cornwell, William K, Craine, Joseph, Craven, Dylan, Dainese, Matteo, de Araujo, Alessandro Carioca, de Vries, Franciska T, Domingues, Tomas Ferreira, Enquist, Brian J, Fagúndez, Jaime, Fang, Jingyun, Fernández-Méndez, Fernando, Fernandez-Piedade, Maria T, Ford, Henry, Forey, Estelle, Freschet, Gregoire T, Gachet, Sophie, Gallagher, Rachael, Green, Walton, Guerin, Greg R, Gutiérrez, Alvaro G, Harrison, Sandy P, Hattingh, Wesley Neil, He, Tianhua, Hickler, Thomas, Higgins, Steven I, Higuchi, Pedro, Ilic, Jugo, Jackson, Robert B, Jalili, Adel, Jansen, Steven, Koike, Fumito, König, Christian, Kraft, Nathan, Kramer, Koen, Kreft, Holger, Kühn, Ingolf, Kurokawa, Hiroko, Lamb, Eric G, Laughlin, Daniel C, Leishman, Michelle, Lewis, Simon, Louault, Frédérique, Malhado, Ana CM, Manning, Peter, Meir, Patrick, Mencuccini, Maurizio, Messier, Julie, Miller, Regis, Minden, Vanessa, Molofsky, Jane, and Montgomery, Rebecca

Abstract

Here we provide the 'Global Spectrum of Plant Form and Function Dataset', containing species mean values for six vascular plant traits. Together, these traits -plant height, stem specific density, leaf area, leaf mass per area, leaf nitrogen content per dry mass, and diaspore (seed or spore) mass - define the primary axes of variation in plant form and function. The dataset is based on ca. 1 million trait records received via the TRY database (representing ca. 2,500 original publications) and additional unpublished data. It provides 92,159 species mean values for the six traits, covering 46,047 species. The data are complemented by higher-level taxonomic classification and six categorical traits (woodiness, growth form, succulence, adaptation to terrestrial or aquatic habitats, nutrition type and leaf type). Data quality management is based on a probabilistic approach combined with comprehensive validation against expert knowledge and external information. Intense data acquisition and thorough quality control produced the largest and, to our knowledge, most accurate compilation of empirically observed vascular plant species mean traits to date.

Published
2022

4. Plant community structure and nitrogen inputs modulate the climate signal on leaf traits

Author

Borgy, Benjamin, Violle, Cyrille, Choler, Philippe, Denelle, Pierre, Munoz, François, Kattge, Jens, Lavorel, Sandra, Loranger, Jessy, Amiaud, Bernard, Bahn, Michael, van Bodegom, Peter M., Brisse, Henry, Debarros, Guilhem, Diquelou, Sylvain, Gachet, Sophie, Jolivet, Claudy, Lemauviel-Lavenant, Servane, Mikolajczak, Alexis, Olivier, Jean, Ordoñez, Jenny, de Ruffray, Patrice, Viovy, Nicolas, and Garnier, Eric

Published
2017

6. Towards a thesaurus of plant characteristics: an ecological contribution

Author

Garnier, Eric, Stahl, Ulrike, Laporte, Marie-Angélique, Kattge, Jens, Mougenot, Isabelle, Kühn, Ingolf, Laporte, Baptiste, Amiaud, Bernard, Ahrestani, Farshid S., Bönisch, Gerhard, Bunker, Daniel E., Cornelissen, J. Hans C., Díaz, Sandra, Enquist, Brian J., Gachet, Sophie, Jaureguiberry, Pedro, Kleyer, Michael, Lavorel, Sandra, Maicher, Lutz, Pérez-Harguindeguy, Natalia, Poorter, Hendrik, Schildhauer, Mark, Shipley, Bill, Violle, Cyrille, Weiher, Evan, Wirth, Christian, Wright, Ian J., and Klotz, Stefan

Published
2017

7. Faune entomologique du site de la Feuillane, Fos-sur-Mer (Bouches-du-Rhône, France)

Author

Solère, Jérémie, Meunier, Jean-Yves, Hébrard, Jean-Pierre, Grima, Laurent, Schurr, Lucie, Claude, Jocelyn, Lebard, Thomas, Gachet, Sophie, Nève, Gabriel, and Soldati, Fabien

Subjects
Lepidoptera, Coleoptera, Faunistics, Eucnemidae, Pipunculidae, food web, Diptera, Hippoboscidae, Conopidae, Syrphidae, Stratiomyidae, Formicidae
Abstract

Version en ligne des données présentées et discutées dans Solere J., Meunier J.-Y., Hebrard J.-P., Grima L., Schurr L., Claude J., Lebard T., Gachet S. et Neve G. 2022 Faune entomologique du site de la Feuillanne, Fos-sur-Mer (Bouches-du-Rhône) Bulletin de la Socété Linnéenne de Provence, 73 : 129–151. avec correction dans : Neve, G., Hebrard J.-P. et Soldati, F. 2023. Première mention de Microrhagus pyrenaeus Bonvouloir, 1872 en région Provence-Alpes-Côte-d’Azur (Coleoptera, Eucnemidae). Bulletin de la Société Linnéenne de Provence, 74 [sous presse]. Le fichier ci-joint donne la liste des espèces recensées sur le site de La Feuillanne à Fos-sur-Mer (Bouches-du-Rhône) entre 2009 et 2019. Encodage UTF-8 colonnes séparées par des tabulations Coordonnées du centre du site : 43,4758° N 4,8736° E Pour chaque espèce sont donnés successivement: ordre : l'ordre auquel appartient l'espèce citée famille : la famille à laquelle appartient l'espèce citée espèce : le nom scientifique de chaque espèce rencontrée Alimentation larvaire : pour les Coléoptères et les Syrphidae le mode d'alimentation larvaire EV 82 : 1 dans cette colonne indique que l'espèce est citée dans les synthèses publiées dans Etudes Vauclusiennes 82, 2014 Interception 2012 : 1 indique que l'espèce a été capturée à l'aide de pièges d'interception aérien, de type polytrap Malaise 2018-19: 1 indique que l'espèce a été capturée au piège Malaise en 2018-2019 CSR 2018-19: 1 indique que l'espèce a été capturée à l'aide de piège Cebo-Superficie-Rejilla (C.S.R.) en 2018-2019 Chasse à vue 2018-19 : 1 indique que l'espèce a été capturée lors de chasses à vue en 2018-2019 Les alimentations larvaires ont été caractérisées selon Getz (2011) en zoophage : consommateur d'animaux vivants nécrophage : consommateur d'animaux morts phytophage : consommateur de végétaux vivants saprophyte : consommateur direct ou indirect de végétaux morts (donc y compris les consommateurs de champignons, mycétophages) microphage : consommateur de petits organismes et particules organiques omnivore : consommateur à la fois de ressources végétales et animales, {"references":["Neve, G., Hebrard J.-P. et Soldati, F. 2023. Première mention de Microrhagus pyrenaeus Bonvouloir, 1872 en région Provence-Alpes-Côte-d'Azur (Coleoptera, Eucnemidae). Bulletin de la Société Linnéenne de Provence, 74 [sous presse]."]}

Published
2023
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9. Les Coléoptères Scarabaeoidea coprophages du Mas-de-Gonon (Fos-sur-Mer, Bouches-du-Rhône)

Author

Grima, Laurent, Meunier, Jean-Yves, Hébrard, Jean-Pierre, Gachet, Sophie, and Nève, Gabriel

Subjects
Coleoptera, Dehesa, Dung-beetles, Fos-sur-Mer, Scarabaeoidea, France, Insect diversity, Laparosticti
Abstract

Données de Grima, L., Meunier, J.-Y., Hébrard, J.-P., Gachet, S. & Nève, G. 2022 Les Coléoptères Scarabaeoidea coprophages du Mas-de-Gonon (Fos-sur-Mer, Bouches-du-Rhône) L’Entomologiste, tome 78, 2022, n° 6 : 405 – 413. Effectifs de chaque espèce, pour chaque piège et chaque session de capture. Les colonnes sont séparées par des points-virgules. Les six sessions sont : Session 1 : 16-IV-2019 au 03-V-2019 (17 jours); Session 2 : 03-V-2019 au 10-V-2019 (8 jours); Session 3 : 10-V-2019 au 23-V-2019 (13 jours); Session 4 : 23-V-2019 au 07-VI-2019 (16 jours); Session 5 : 07-VI-2019 au 21-VI-2019 (15 jours); Session 6 : 21-VI-2019 au 05-VII-2019 (15 jours). et les trois sites de captures sont : Prairie Nord : 43,4741°N 4,8752°E Roubine : 43,4686°N 4,8800°E Dehesa : 43,4681°N 4,8821°E

Published
2022
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12. To what extent is fennel crop dependent on insect pollination?

Author

UCL - SST/ELI/ELIA - Agronomy, Schurr, Lucie, Masotti, Véronique, Geslin, Benoît, Gachet, Sophie, Mahé, Prisca, Jeannerod, Léna, Affre, Laurence, UCL - SST/ELI/ELIA - Agronomy, Schurr, Lucie, Masotti, Véronique, Geslin, Benoît, Gachet, Sophie, Mahé, Prisca, Jeannerod, Léna, and Affre, Laurence

Abstract

The importance of insects for global food crop production is starting to be well-known but the level of dependence on insects is less referenced, especially for some aromatic crops. Fennel (Foeniculum vulgare, Mill.) is an aromatic mass-flowering crop cultivated in the south of France for its essential oil that contains anethole. This compound is of food and economical interest because of its anise flavour, which is used to elaborate anise drinks. Here, we have characterized the dependence of fennel on insect pollination. We used four controlled pollination treatments to compare the reproductive success (fruit initiation rate, fruit weight), and the fennel yield (fruit weight and amount of anethole per hectare) between insect pollinated flowers and bagged flowers. We also checked the ability of reproduction by self-pollination in this species, and the existence of a reproductive limitation linked to insect activity. We have shown that pollination without insects leads to reproductive failure in fennel. At the field level, insect pollination is fundamental to improve the fruit initiation rate, the fruit weight and the amount of anethole per hectare leading to an estimated 86 % dependence of fennel on insect pollination. Finally, we showed no reproductive limitation with the current state of insect activity. This study adds new evidence of the importance of insects in agroecosystems to sustain food production.

Published
2022

17. sPlotOpen – An environmentally balanced, open-access, global dataset of vegetation plots

Author

Sabatini, Francesco Maria, Lenoir, Jonathan, Hattab, Tarek, Arnst, Elise Aimee, De Ruffray, Patrice, Hennekens, Stephan M., Jandt, Ute, Jansen, Florian, Kattge, Jens, Levesley, Aurora, Purschke, Oliver, Sandel, Brody, Sultana, Fahmida, Aavik, Tsipe, A?i?, Svetlana, Acosta, Alicia T.R., Agrillo, Emiliano, Alvarez, Miguel, Apostolova, Iva, Arfin Khan, Mohammed A.S., Arroyo, Luzmila, Attorre, Fabio, Aubin, Isabelle, Banerjee, Arindam, Bauters, Marijn, Bergeron, Yves, Bergmeier, Erwin, Biurrun, Idoia, Bjorkman, Anne D., Bonari, Gianmaria, Bondareva, Viktoria, Casella, Laura, Cayuela, Luis, Chepinoga, Victor, De Bie, Els, De Sanctis, Michele, Dimopoulos, Panayotis, Dolezal, Jiri, Dziuba, Tetiana, El-Sheikh, Mohamed Abd El Rouf Mousa, Enquist, Brian, Fazayeli, Farideh, Field, Richard, Finckh, Manfred, Gachet, Sophie, Garbolino, Emmanuel, Gholizadeh, Hamid, Giorgis, Melisa, Golub, Valentin, Alsos, Inger Greve, Grytnes, John?Arvid, Guerin, Gregory Richard, Haider, Sylvia, Hatim, Mohamed Z., Hinojos Mendoza, Guillermo, Hubau, Wannes, Indreica, Adrian, Janssen, John A. M., Jedrzejek, Birgit, Jentsch, Anke, K?cki, Zygmunt, Kapfer, Jutta, Karger, Dirk Nikolaus, Kavgac?, Ali, Kearsley, Elizabeth, Kessler, Michael, Khanina, Larisa, Killeen, Timothy, Korolyuk, Andrey, Kreft, Holger, Kuzemko, Anna, Landucci, Flavia, Lengyel, Attila, Lens, Frederic, Liu, Hongyan, Lysenko, Tatiana, Mahecha, Miguel D., Martynenko, Vasiliy, Moeslund, Jesper Erenskjold, Monteagudo Mendoza, Abel, Mucina, Ladislav, Naqinezhad, Alireza, Noroozi, Jalil, Nowak, Arkadiusz, Onyshchenko, Viktor, Overbeck, Gerhard E., Peet, Robert K., Peyre, Gwendolyn, Phillips, Oliver L., Prokhorov, Vadim, Revermann, Rasmus, Rivas?Torres, Gonzalo, Rodwell, John S., Ruprecht, Eszter, R?si?a, Solvita, Samimi, Cyrus, Schmidt, Marco, Schrodt, Franziska, Shan, Hanhuai, Shirokikh, Pavel, Sparrow, Ben, Sperandii, Marta Gaia, Stan?i?, Zvjezdana, Svenning, Jens?Christian, Tang, Zhiyao, Tang, Cindy Q., Tsiripidis, Ioannis, Vassilev, Kiril, Venanzoni, Roberto, Vibrans, Alexander Christian, Violle, Cyrille, Virtanen, Risto, Wehrden, Henrik, Wagner, Viktoria, Walker, Donald A., Waller, Donald M., Wang, Hua?Feng, Wesche, Karsten, Whitfeld, Timothy J. S., Willner, Wolfgang, Wiser, Susan K., Wohlgemuth, Thomas, Yamalov, Sergey, Zobel, Martin, and Bruelheide, Helge

Subjects
Global and Planetary Change, Ecology, Geography: Geosciences, Ecology, Evolution, Behavior and Systematics
Abstract

Motivation: Assessing biodiversity status and trends in plant communities is critical for understanding, quantifying and predicting the effects of global change on ecosystems. Vegetation plots record the occurrence or abundance of all plant species co-occurring within delimited local areas. This allows species absences to be inferred, information seldom provided by existing global plant datasets. Although many vegetation plots have been recorded, most are not available to the global research community. A recent initiative, called ‘sPlot’, compiled the first global vegetation plot database, and continues to grow and curate it. The sPlot database, however, is extremely unbalanced spatially and environmentally, and is not open-access. Here, we address both these issues by (a) resampling the vegetation plots using several environmental variables as sampling strata and (b) securing permission from data holders of 105 local-to-regional datasets to openly release data. We thus present sPlotOpen, the largest open-access dataset of vegetation plots ever released. sPlotOpen can be used to explore global diversity at the plant community level, as ground truth data in remote sensing applications, or as a baseline for biodiversity monitoring. Main types of variable contained: Vegetation plots (n=95,104) recording cover or abundance of naturally co-occurring vascular plant species within delimited areas. sPlotOpen contains three partially overlapping resampled datasets (c.50,000 plots each), to be used as replicates in global analyses. Besides geographical location, date, plot size, biome, elevation, slope, aspect, vegetation type, naturalness, coverage of various vegetation layers, and source dataset, plot-level data also include community-weighted means and variances of 18 plant functional traits from the TRY Plant Trait Database. Spatial location and grain: Global, 0.01–40,000m². Time period and grain: 1888–2015, recording dates. Major taxa and level of measurement: 42,677 vascular plant taxa, plot-level records. Software format: Three main matrices (.csv), relationally linked.

Published
2021

19. Landscape and Local Drivers Affecting the Flower-Visitors of Fennel (Foeniculum vulgare, Apiaceae) and Implications for Its Yield

Author

Schurr, Lucie, Geslin, Benoit, Affre, Laurence, Gachet, Sophie, Delobeau, Marion, Brugger, Magdalena, Bourdon, Sarah, and Masotti, Véronique

Subjects
anatomy_morphology
Abstract

Agricultural landscapes are more and more characterized by intensification and habitat losses. Landscape composition and configuration are known to mediate insect abundance and richness. In the context of global insect decline, and despite 75% of crops being under insect’s dependence, there is still a gap of knowledge about the link between pollinators and aromatic crops. Fennel (Foeniculum vulgare) is an aromatic plant cultivated in South of France, for its essential oil which is of great economic interest. Using pan-traps, we investigated the influence of the surrounding habitats at landscape scale (semi-natural habitat proportion and vicinity, landscape configuration) and local scale agricultural practices (insecticides and patch size) on fennel-flower-visitor abundance and richness and their subsequent impact on fennel essential oil yield. We found that fennel may to be a generalist plant species. We did not find any effect of intense local management practices on insect abundance and richness. Landscape configuration and the proximity to semi-natural habitat were the main drivers of flying insect’s family richness. This richness positively influenced fennel essential oil yield. Maintaining a complex configuration of patches at the landscape scale are important to sustain insect diversity and crop yield.

Published
2021

21. TRY plant trait database – enhanced coverage and open access

Author

Kattge, Jens, Bönisch, Gerhard, Díaz, Sandra, Lavorel, Sandra, Prentice, Iain Colin, Leadley, Paul, Tautenhahn, Susanne, Werner, Gijsbert D. A., Aakala, Tuomas, Abedi, Mehdi, Acosta, Alicia T. R., Adamidis, George C., Adamson, Kairi, Aiba, Masahiro, Albert, Cécile H., Alcántara, Julio M., Alcázar C, Carolina, Aleixo, Izabela, Ali, Hamada, Amiaud, Bernard, Ammer, Christian, Amoroso, Mariano M., Anand, Madhur, Anderson, Carolyn, Anten, Niels, Antos, Joseph, Apgaua, Deborah Mattos Guimarães, Ashman, Tia-Lynn, Asmara, Degi Harja, Asner, Gregory P., Aspinwall, Michael, Atkin, Owen, Aubin, Isabelle, Baastrup-Spohr, Lars, Bahalkeh, Khadijeh, Bahn, Michael, Baker, Timothy, Baker, William J., Bakker, Jan P., Baldocchi, Dennis, Baltzer, Jennifer, Banerjee, Arindam, Baranger, Anne, Barlow, Jos, Barneche, Diego R., Baruch, Zdravko, Bastianelli, Denis, Battles, John, Bauerle, William, Bauters, Marijn, Bazzato, Erika, Beckmann, Michael, Beeckman, Hans, Beierkuhnlein, Carl, Bekker, Renee, Belfry, Gavin, Belluau, Michael, Beloiu, Mirela, Benavides, Raquel, Benomar, Lahcen, Berdugo-Lattke, Mary Lee, Berenguer, Erika, Bergamin, Rodrigo, Bergmann, Joana, Bergmann Carlucci, Marcos, Berner, Logan, Bernhardt-Römermann, Markus, Bigler, Christof, Bjorkman, Anne D., Blackman, Chris, Blanco, Carolina, Blonder, Benjamin, Blumenthal, Dana, Bocanegra-González, Kelly T., Boeckx, Pascal, Bohlman, Stephanie, Böhning-Gaese, Katrin, Boisvert-Marsh, Laura, Bond, William, Bond-Lamberty, Ben, Boom, Arnoud, Boonman, Coline C. F., Bordin, Kauane, Boughton, Elizabeth H., Boukili, Vanessa, Bowman, David M. J. S., Bravo, Sandra, Brendel, Marco Richard, Broadley, Martin R., Brown, Kerry A., Bruelheide, Helge, Brumnich, Federico, Bruun, Hans Henrik, Bruy, David, Buchanan, Serra W., Bucher, Solveig Franziska, Buchmann, Nina, Buitenwerf, Robert, Bunker, Daniel E., Bürger, Jana, Burrascano, Sabina, Burslem, David F. R. P., Butterfield, Bradley J., Byun, Chaeho, Marques, Marcia, Scalon, Marina C., Caccianiga, Marco, Cadotte, Marc, Cailleret, Maxime, Camac, James, Camarero, Jesús Julio, Campany, Courtney, Campetella, Giandiego, Campos, Juan Antonio, Cano-Arboleda, Laura, Canullo, Roberto, Carbognani, Michele, Carvalho, Fabio, Casanoves, Fernando, Castagneyrol, Bastien, Catford, Jane A., Cavender-Bares, Jeannine, Cerabolini, Bruno E. L., Cervellini, Marco, Chacón-Madrigal, Eduardo, Chapin, Kenneth, Chapin, F. Stuart, Chelli, Stefano, Chen, Si-Chong, Chen, Anping, Cherubini, Paolo, Chianucci, Francesco, Choat, Brendan, Chung, Kyong-Sook, Chytrý, Milan, Ciccarelli, Daniela, Coll, Lluís, Collins, Courtney G., Conti, Luisa, Coomes, David, Cornelissen, Johannes H. C., Cornwell, William K., Corona, Piermaria, Coyea, Marie, Craine, Joseph, Craven, Dylan, Cromsigt, Joris P. G. M., Csecserits, Anikó, Cufar, Katarina, Cuntz, Matthias, da Silva, Ana Carolina, Dahlin, Kyla M., Dainese, Matteo, Dalke, Igor, Dalle Fratte, Michele, Dang-Le, Anh Tuan, Danihelka, Jirí, Dannoura, Masako, Dawson, Samantha, de Beer, Arend Jacobus, De Frutos, Angel, De Long, Jonathan R., Dechant, Benjamin, Delagrange, Sylvain, Delpierre, Nicolas, Derroire, Géraldine, Dias, Arildo S., Diaz-Toribio, Milton Hugo, Dimitrakopoulos, Panayiotis G., Dobrowolski, Mark, Doktor, Daniel, Dřevojan, Pavel, Dong, Ning, Dransfield, John, Dressler, Stefan, Duarte, Leandro, Ducouret, Emilie, Dullinger, Stefan, Durka, Walter, Duursma, Remko, Dymova, Olga, E-Vojtkó, Anna, Eckstein, Rolf Lutz, Ejtehadi, Hamid, Elser, James, Emilio, Thaise, Engemann, Kristine, Erfanian, Mohammad Bagher, Erfmeier, Alexandra, Esquivel-Muelbert, Adriane, Esser, Gerd, Estiarte, Marc, Domingues, Tomas F., Fagan, William F., Fagúndez, Jaime, Falster, Daniel S., Fang, Jingyun, Farris, Emmanuele, Fazlioglu, Fatih, Feng, Yanhao, Fernandez-Mendez, Fernando, Ferrara, Carlotta, Ferreira, Joice, Fidelis, Alessandra, Finegan, Bryan, Firn, Jennifer, Flowers, Timothy J., Flynn, Dan F. B., Fontana, Veronika, Forey, Estelle, Forgiarini, Cristiane, François, Louis, Frangipani, Marcelo, Frank, Dorothea, Frenette-Dussault, Cedric, Freschet, Grégoire T., Fry, Ellen L., Fyllas, Nikolaos M., Mazzochini, Guilherme G., Gachet, Sophie, Gallagher, Rachael, Ganade, Gislene, Ganga, Francesca, García-Palacios, Pablo, Gargaglione, Verónica, Garnier, Eric, Garrido, Jose Luis, de Gasper, André Luís, Gea-Izquierdo, Guillermo, Gibson, David, Gillison, Andrew N., Giroldo, Aelton, Glasenhardt, Mary-Claire, Gleason, Sean, Gliesch, Mariana, Goldberg, Emma, Göldel, Bastian, Gonzalez-Akre, Erika, Gonzalez-Andujar, Jose L., González-Melo, Andrés, González-Robles, Ana, Graae, Bente Jessen, Granda, Elena, Graves, Sarah, Green, Walton A., Gregor, Thomas, Gross, Nicolas, Guerin, Greg R., Günther, Angela, Gutiérrez, Alvaro G., Haddock, Lillie, Haines, Anna, Hall, Jefferson, Hambuckers, Alain, Han, Wenxuan, Harrison, Sandy P., Hattingh, Wesley, Hawes, Joseph E., He, Tianhua, He, Pengcheng, Heberling, Jacob Mason, Helm, Aveliina, Hempel, Stefan, Hentschel, Jörn, Hérault, Bruno, Hereş, Ana-Maria, Herz, Katharina, Heuertz, Myriam, Hickler, Thomas, Hietz, Peter, Higuchi, Pedro, Hipp, Andrew L., Hirons, Andrew, Hock, Maria, Hogan, James Aaron, Holl, Karen, Honnay, Olivier, Hornstein, Daniel, Hou, Enqing, Hough-Snee, Nate, Hovstad, Knut Anders, Ichie, Tomoaki, Igić, Boris, Illa, Estela, Isaac, Marney, Ishihara, Masae, Ivanov, Leonid, Ivanova, Larissa, Iversen, Colleen M., Izquierdo, Jordi, Jackson, Robert B., Jackson, Benjamin, Jactel, Hervé, Jagodzinski, Andrzej M., Jandt, Ute, Jansen, Steven, Jenkins, Thomas, Jentsch, Anke, Jespersen, Jens Rasmus Plantener, Jiang, Guo-Feng, Johansen, Jesper Liengaard, Johnson, David, Jokela, Eric J., Joly, Carlos Alfredo, Jordan, Gregory J., Joseph, Grant Stuart, Junaedi, Decky, Junker, Robert R., Justes, Eric, Kabzems, Richard, Kane, Jeffrey, Kaplan, Zdenek, Kattenborn, Teja, Kavelenova, Lyudmila, Kearsley, Elizabeth, Kempel, Anne, Kenzo, Tanaka, Kerkhoff, Andrew, Khalil, Mohammed I., Kinlock, Nicole L., Kissling, Wilm Daniel, Kitajima, Kaoru, Kitzberger, Thomas, Kjøller, Rasmus, Klein, Tamir, Kleyer, Michael, Klimešová, Jitka, Klipel, Joice, Kloeppel, Brian, Klotz, Stefan, Knops, Johannes M. H., Kohyama, Takashi, Koike, Fumito, Kollmann, Johannes, Komac, Benjamin, Komatsu, Kimberly, König, Christian, Kraft, Nathan J. B., Kramer, Koen, Kreft, Holger, Kühn, Ingolf, Kumarathunge, Dushan, Kuppler, Jonas, Kurokawa, Hiroko, Kurosawa, Yoko, Kuyah, Shem, Laclau, Jean-Paul, Lafleur, Benoit, Lallai, Erik, Lamb, Eric, Lamprecht, Andrea, Larkin, Daniel J., Laughlin, Daniel, Le Bagousse-Pinguet, Yoann, le Maire, Guerric, le Roux, Peter C., le Roux, Elizabeth, Lee, Tali, Lens, Frederic, Lewis, Simon L., Lhotsky, Barbara, Li, Yuanzhi, Li, Xine, Lichstein, Jeremy W., Liebergesell, Mario, Lim, Jun Ying, Lin, Yan-Shih, Linares, Juan Carlos, Liu, Chunjiang, Liu, Daijun, Liu, Udayangani, Livingstone, Stuart, Llusià, Joan, Lohbeck, Madelon, López-García, Álvaro, Lopez-Gonzalez, Gabriela, Lososová, Zdeňka, Louault, Frédérique, Lukács, Balázs A., Lukeš, Petr, Luo, Yunjian, Lussu, Michele, Ma, Siyan, Maciel Rabelo Pereira, Camilla, Mack, Michelle, Maire, Vincent, Mäkelä, Annikki, Mäkinen, Harri, Malhado, Ana Claudia Mendes, Mallik, Azim, Manning, Peter, Manzoni, Stefano, Marchetti, Zuleica, Marchino, Luca, Marcilio-Silva, Vinicius, Marcon, Eric, Marignani, Michela, Markesteijn, Lars, Martin, Adam, Martínez-Garza, Cristina, Martínez-Vilalta, Jordi, Mašková, Tereza, Mason, Kelly, Mason, Norman, Massad, Tara Joy, Masse, Jacynthe, Mayrose, Itay, McCarthy, James, McCormack, M. Luke, McCulloh, Katherine, McFadden, Ian R., McGill, Brian J., McPartland, Mara Y., Medeiros, Juliana S., Medlyn, Belinda, Meerts, Pierre, Mehrabi, Zia, Meir, Patrick, Melo, Felipe P. L., Mencuccini, Maurizio, Meredieu, Céline, Messier, Julie, Mészáros, Ilona, Metsaranta, Juha, Michaletz, Sean T., Michelaki, Chrysanthi, Migalina, Svetlana, Milla, Ruben, Miller, Jesse E. 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Abstract

Plant traits-the morphological, anatomical, physiological, biochemical and phenological characteristics of plants-determine how plants respond to environmental factors, affect other trophic levels, and influence ecosystem properties and their benefits and detriments to people. Plant trait data thus represent the basis for a vast area of research spanning from evolutionary biology, community and functional ecology, to biodiversity conservation, ecosystem and landscape management, restoration, biogeography and earth system modelling. Since its foundation in 2007, the TRY database of plant traits has grown continuously. It now provides unprecedented data coverage under an open access data policy and is the main plant trait database used by the research community worldwide. Increasingly, the TRY database also supports new frontiers of trait-based plant research, including the identification of data gaps and the subsequent mobilization or measurement of new data. To support this development, in this article we evaluate the extent of the trait data compiled in TRY and analyse emerging patterns of data coverage and representativeness. Best species coverage is achieved for categorical traits-almost complete coverage for 'plant growth form'. However, most traits relevant for ecology and vegetation modelling are characterized by continuous intraspecific variation and trait-environmental relationships. These traits have to be measured on individual plants in their respective environment. Despite unprecedented data coverage, we observe a humbling lack of completeness and representativeness of these continuous traits in many aspects. We, therefore, conclude that reducing data gaps and biases in the TRY database remains a key challenge and requires a coordinated approach to data mobilization and trait measurements. This can only be achieved in collaboration with other initiatives.

Published
2020

25. FAIRness Literacy: The Achilles’ Heel of Applying FAIR Principles

Author

David, Romain, primary, Mabile, Laurence, additional, Specht, Alison, additional, Stryeck, Sarah, additional, Thomsen, Mogens, additional, Yahia, Mohamed, additional, Jonquet, Clement, additional, Dollé, Laurent, additional, Jacob, Daniel, additional, Bailo, Daniele, additional, Bravo, Elena, additional, Gachet, Sophie, additional, Gunderman, Hannah, additional, Hollebecq, Jean-Eudes, additional, Ioannidis, Vassilios, additional, Bras, Yvan Le, additional, Lerigoleur, Emilie, additional, and Cambon-Thomsen, Anne, additional

Published
2020
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26. Conflits environnementaux, milieux naturels et décisions publiques : Étude de deux cas industriels

Author

Boutin, Nathalie, Batteau, Pierre, Hernandez, Solange, Gachet, Sophie, Raynal, Jean-Claude, Institut méditerranéen de biodiversité et d'écologie marine et continentale (IMBE), Avignon Université (AU)-Aix Marseille Université (AMU)-Institut de recherche pour le développement [IRD] : UMR237-Centre National de la Recherche Scientifique (CNRS), Centre d'Études et de Recherche en Gestion d'Aix-Marseille (CERGAM), Aix Marseille Université (AMU)-Université de Toulon (UTLN), Institut de management public et de gouvernance territoriale (AMU IMPGT), Aix Marseille Université (AMU), Ecosystèmes continentaux et risques environnementaux (ECCOREV), Aix Marseille Université (AMU)-Centre National de la Recherche Scientifique (CNRS), and ANR-11-LABX-0010,DRIIHM / IRDHEI,Dispositif de recherche interdisciplinaire sur les Interactions Hommes-Milieux(2011)

Subjects
environmental conflicts, pollution industrielle, parties prenantes, OHM Bassin Minier de Provence, Labex DRIIHM, décision publique, [SHS.GESTION]Humanities and Social Sciences/Business administration, industrial pollution, public decision, conflits environnementaux, stakeholders
Abstract

International audience; Au travers d’études de cas, on explore ici la dynamique de deux conflits environnementaux portant sur des projets industriels affectant de manière significative des milieux naturels et on considère l’interaction des décisions publiques et privées. Le premier cas met en scène l’usine d’alumine ALTEO à Gardanne qui a rejeté des boues rouges dans la Méditerranée de 1967 à 2015 et qui a été autorisée ensuite à poursuivre un rejet d’eau sans éléments solides mais en dérogation à certaines normes. Le second cas concerne le projet d’une unité « biomasse » par le groupe E.ON pour alimenter une centrale électrique dans la même ville. Cette très grosse unité représente un enjeu pour les milieux terrestres car la ressource sera prélevée en partie dans un environnement subissant de multiples pressions. On décrit la dynamique des conflits, en identifiant les parties-prenantes et en mettant en exergue l’enchaînement de leurs décisions et en s’attachant particulièrement à celles des décisionnaires publics. On constate l’imbrication de niveaux décisionnels publics face à des enjeux liés aux milieux naturels car ceux-ci transcendent les découpages politiques et administratifs. On observe aussi que les attitudes des parties-prenantes, au-delà des intérêts avérés, expriment des « valeurs » accordées à la nature, dont les divergences sont amplifiées par la dispersion et la fragmentation des savoirs relatifs au fonctionnement des milieux naturels. Le recueil de 1 184 prises de position permet d’associer les attitudes envers les projets aux catégories de parties-prenantes. On examine aussi le rôle de la distance aux sites dans ces attitudes, en montrant que les déterminants des attitudes ne sont pas nécessairement liés à l’impact direct que peut ressentir chacune des parties-prenantes. On conclut en insistant sur la nécessité d’arènes de débat organisées par l’autorité publique pour favoriser la convergence des savoirs et de l’information.; Through case studies we explore the dynamics of two environmental conflicts about industrial projects that affect significantly the natural milieus, and we consider the interactions between public and private decisions. The first case stages an alumina plant run by a French company ALTEO in Gardanne (France), which has dumped wastes called “red muds” in the Mediterranean sea as of 1967 until 2015 and which has be authorized to continue rejecting water, without solid particles, but in derogation to legal norms. The second case bears on the project of “biomass” unit by the German group E.ON to provide energy for power plant, in the same city. This very big unit is a challenge because the raw material will be collected for a part in a nearby environment of forests affected by anthropogenic pressures. One describes first the dynamics of the two projects by identifying all the stakeholders and stressing the chain of their decisions, especially focusing on the public ones. One infers the intricate imbrication of several levels of public decision reflecting the discordance between administrative divisions and real natural milieus. One also infers that beyond vested interests the attitudes of the stakeholders reflect different “values” assigned to Nature and divergent because of the fragmentation of knowledge relative to natural milieus. The collection of 1184 public positions allows matching the attitudes with the stakeholder categories. The attitudes toward the projects are also considered as a function of the distance to the plant location, and it comes out that are not necessarily linked to the direct impact for the stakeholder. The conclusion stresses the need for arenas of debate to improve the circulation of information and the convergence of knowledge for an attenuation of the conflicts.

Published
2019

27. Historical ecology of Mediterranean forests: Land use legacies on current understorey plants differ with time since abandonment and former agricultural use.

Author

Abadie, Juliet, Dupouey, Jean‐Luc, Salvaudon, Aline, Gachet, Sophie, Videau, Noémie, Avon, Catherine, Dumont, Jérôme, Tatoni, Thierry, Bergès, Laurent, and Hédl, Radim

Subjects
FORESTS & forestry, LAND use, FOREST ecology, AFFORESTATION, COMMUNITY forests, PLANT ecology, FOREST biodiversity
Abstract

Questions: Land use legacies in current forest understorey vegetation, thoroughly studied in temperate regions, were investigated in a Mediterranean context. We tested the effect of three historical variables on current forest plant communities and traits: forest temporal continuity (ancient: forested before 1860, recent: reforested after 1860, and very recent forest: reforested after 1958) and type of land use in 1860 and 1958 (forest, pasture or arable land). Location: The Regional Natural Park of Luberon (southeastern France). Methods: We used a comprehensive vegetation plot database (473 species in 1,429 plots). Species' response to historical variables was tested with logistic regressions, and the relationship between plant traits and historical variables was analysed with RLQ and fourth‐corner analyses. Results: Among all studied species, 250 responded to forest temporal continuity, 208 to 1860 land use, and 246 to 1958 land use. Species associated with ancient forests were more frequently forest specialists or forest edge species, shade‐tolerant and perennials, while species associated with recent and very recent forests were more frequently annuals, anemochorous and heliophilous species. Species exhibited different traits and ecological preferences according to the type of land use prior to forest: therophytes were more frequent on former arable land while chamaephytes were more frequent on former pasture. Trait responses to 1860 and 1958 land uses were globally consistent. Conclusions: The effect of forest temporal continuity and past land use on forest understorey communities was consistent with other studies in northern Europe or northern America, which suggests that the same ecological processes apply in temperate lowland and Mediterranean regions. This study highlights a succession of plant communities in the long term and different trajectories of succession according to the type of former agricultural use. The long‐term legacies of past land use in current forest plant communities highlight the importance to preserve ancient forests, where typical forest species can be maintained. [ABSTRACT FROM AUTHOR]

Published
2021
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28. Results of IndexMed GRAIL Days 2016: How to use standards to build GRAphs and mIne data for environmentaL research? IndexMeed consortium for data mining in ecology

Author

David, Romain, Féral, Jean-Pierre, Archambeau, Anne-Sophie, Arnaud, Fanny, Auber, David, Bailly, Nicolas, Bernard, Loup, Blanpain, Cyrille, BRETON, Vincent, Couvet, Denis, Cohen-Nabeiro, Anna, Delavaud, Aurélie, Dias, Alrick, Gachet, Sophie, Goffaux, Robin, Gibert, Karina, Herrera, Manuel, Ienco, Dino, Julliard, Romain, Lecubin, Julien, Legre, Yannick, Leydet, Michelle, Lois, Grégoire, Méndez Muñoz, Víctor, Meunier, Jean-Charles, Mougenot, Isabelle, Pamerlon, Sophie, Raynal, Jean-Claude, Romier, Genevieve, Roux-Michollet, Dad, Specht, Alison, Surace, Christian, Tatoni, Thierry, Institut méditerranéen de biodiversité et d'écologie marine et continentale (IMBE), Avignon Université (AU)-Aix Marseille Université (AMU)-Institut de recherche pour le développement [IRD] : UMR237-Centre National de la Recherche Scientifique (CNRS), Patrimoine naturel (PatriNat), Muséum national d'Histoire naturelle (MNHN)-Centre National de la Recherche Scientifique (CNRS)-Office français de la biodiversité (OFB), Environnement, Ville, Société (EVS), École normale supérieure de Lyon (ENS de Lyon)-École des Mines de Saint-Étienne (Mines Saint-Étienne MSE), Institut Mines-Télécom [Paris] (IMT)-Institut Mines-Télécom [Paris] (IMT)-Université Lumière - Lyon 2 (UL2)-Université Jean Moulin - Lyon 3 (UJML), Université de Lyon-Université de Lyon-Institut National des Sciences Appliquées de Lyon (INSA Lyon), Université de Lyon-Institut National des Sciences Appliquées (INSA)-Institut National des Sciences Appliquées (INSA)-Université Jean Monnet - Saint-Étienne (UJM)-École Nationale des Travaux Publics de l'État (ENTPE)-École nationale supérieure d'architecture de Lyon (ENSAL)-Centre National de la Recherche Scientifique (CNRS), Laboratoire Bordelais de Recherche en Informatique (LaBRI), Université de Bordeaux (UB)-École Nationale Supérieure d'Électronique, Informatique et Radiocommunications de Bordeaux (ENSEIRB)-Centre National de la Recherche Scientifique (CNRS), Hellenic Centre for Marine Research (HCMR), Étude des Civilisations de l'Antiquité : de la Préhistoire à Byzance (ARCHIMEDE), Université de Haute-Alsace (UHA) Mulhouse - Colmar (Université de Haute-Alsace (UHA))-Université Marc Bloch - Strasbourg II-Centre National de la Recherche Scientifique (CNRS), Institut Pythéas (OSU PYTHEAS), Institut de Recherche pour le Développement (IRD)-Aix Marseille Université (AMU)-Institut national de recherche en sciences et technologies pour l'environnement et l'agriculture (IRSTEA)-Centre National de la Recherche Scientifique (CNRS), Laboratoire de Physique Corpusculaire - Clermont-Ferrand (LPC), Université Blaise Pascal - Clermont-Ferrand 2 (UBP)-Institut National de Physique Nucléaire et de Physique des Particules du CNRS (IN2P3)-Centre National de la Recherche Scientifique (CNRS), Centre National de la Recherche Scientifique (CNRS), Fondation pour la recherche sur la Biodiversité (FRB), Fondation pour la Recherche sur la Biodiversité, Universitat Politècnica de Catalunya [Barcelona] (UPC), Fouille de données environnementales (TATOO), Laboratoire d'Informatique de Robotique et de Microélectronique de Montpellier (LIRMM), Université de Montpellier (UM)-Centre National de la Recherche Scientifique (CNRS)-Université de Montpellier (UM)-Centre National de la Recherche Scientifique (CNRS), Centre d'Ecologie et des Sciences de la COnservation (CESCO), Muséum national d'Histoire naturelle (MNHN)-Université Pierre et Marie Curie - Paris 6 (UPMC)-Centre National de la Recherche Scientifique (CNRS), Department of Computer Architecture & Operating Systems (CAOS), Laboratoire d'Astrophysique de Marseille (LAM), Aix Marseille Université (AMU)-Institut national des sciences de l'Univers (INSU - CNRS)-Centre National d'Études Spatiales [Toulouse] (CNES)-Centre National de la Recherche Scientifique (CNRS), UMR 228 Espace-Dev, Espace pour le développement, Institut de Recherche pour le Développement (IRD)-Université de Perpignan Via Domitia (UPVD)-Avignon Université (AU)-Université de La Réunion (UR)-Université de Montpellier (UM)-Université de Guyane (UG)-Université des Antilles (UA), Institut de Recherche pour le Développement (IRD), Laboratoire de Physique Théorique d'Orsay [Orsay] (LPT), Université Paris-Sud - Paris 11 (UP11)-Centre National de la Recherche Scientifique (CNRS), Barcelona Supercomputing Center-Centro Nacional de Supercomputación (BSC-CNS) with the support of RDA Europe, Mathématiques, Informatique et STatistique pour l'Environnement et l'Agronomie (MISTEA), Institut national d’études supérieures agronomiques de Montpellier (Montpellier SupAgro)-Institut National de la Recherche Agronomique (INRA), Diversité, évolution et écologie fonctionnelle marine (DIMAR), Université de la Méditerranée - Aix-Marseille 2-Centre National de la Recherche Scientifique (CNRS), IRD-UMS PatriNat-GBIF, Environnement Ville Société (EVS), École normale supérieure - Lyon (ENS Lyon)-École des Mines de Saint-Étienne (Mines Saint-Étienne MSE), Université de Lyon-Institut National des Sciences Appliquées (INSA)-Institut National des Sciences Appliquées (INSA)-Université Jean Monnet [Saint-Étienne] (UJM)-École Nationale des Travaux Publics de l'État (ENTPE)-École nationale supérieure d'architecture de Lyon (ENSAL)-Centre National de la Recherche Scientifique (CNRS), Centre National de la Recherche Scientifique (CNRS)-École Nationale Supérieure d'Électronique, Informatique et Radiocommunications de Bordeaux (ENSEIRB)-Université Sciences et Technologies - Bordeaux 1-Université Bordeaux Segalen - Bordeaux 2, Hellenic Center for Marine Research (HCMR), Etude des Civilisations de l'Antiquité (UMR 7044), Université de Haute-Alsace (UHA) Mulhouse - Colmar (Université de Haute-Alsace (UHA))-Centre National de la Recherche Scientifique (CNRS), Aix Marseille Université (AMU)-Centre National de la Recherche Scientifique (CNRS)-Institut national de recherche en sciences et technologies pour l'environnement et l'agriculture (IRSTEA)-Institut de Recherche pour le Développement (IRD), Muséum national d'Histoire naturelle (MNHN), Centre National de la Recherche Scientifique (CNRS)-Institut national des sciences de l'Univers (INSU - CNRS)-Aix Marseille Université (AMU)-Centre National d'Études Spatiales [Toulouse] (CNES), Université des Antilles (UA)-Université de Guyane (UG)-Université de Montpellier (UM)-Université de La Réunion (UR)-Avignon Université (AU)-Université de Perpignan Via Domitia (UPVD)-Institut de Recherche pour le Développement (IRD), Centre National de la Recherche Scientifique (CNRS)-Institut de recherche pour le développement [IRD] : UMR237-Aix Marseille Université (AMU)-Avignon Université (AU), Institut National des Sciences Appliquées de Lyon (INSA Lyon), Institut National des Sciences Appliquées (INSA)-Université de Lyon-Institut National des Sciences Appliquées (INSA)-Université de Lyon-Centre National de la Recherche Scientifique (CNRS)-École nationale supérieure d'architecture de Lyon (ENSAL)-École des Mines de Saint-Étienne (Mines Saint-Étienne MSE), Institut Mines-Télécom [Paris] (IMT)-Institut Mines-Télécom [Paris] (IMT)-École Nationale des Travaux Publics de l'État (ENTPE)-Université Jean Monnet [Saint-Étienne] (UJM)-Université Jean Moulin - Lyon 3 (UJML), Université de Lyon-Université Lumière - Lyon 2 (UL2)-École normale supérieure - Lyon (ENS Lyon), Université de Bordeaux (UB)-Centre National de la Recherche Scientifique (CNRS)-École Nationale Supérieure d'Électronique, Informatique et Radiocommunications de Bordeaux (ENSEIRB), Centre National de la Recherche Scientifique (CNRS)-Université Marc Bloch - Strasbourg II-Université de Haute-Alsace (UHA) Mulhouse - Colmar (Université de Haute-Alsace (UHA)), Centre National de la Recherche Scientifique (CNRS)-Université de Montpellier (UM)-Centre National de la Recherche Scientifique (CNRS)-Université de Montpellier (UM), Centre National de la Recherche Scientifique (CNRS)-Université Pierre et Marie Curie - Paris 6 (UPMC)-Muséum national d'Histoire naturelle (MNHN), Université de Guyane (UG)-Université des Antilles (UA)-Institut de Recherche pour le Développement (IRD)-Université de Perpignan Via Domitia (UPVD)-Avignon Université (AU)-Université de La Réunion (UR)-Université de Montpellier (UM), Centre National de la Recherche Scientifique (CNRS)-Université Paris-Sud - Paris 11 (UP11), and Université de Lyon-Institut National des Sciences Appliquées (INSA)-Université de Lyon-Institut National des Sciences Appliquées (INSA)-Centre National de la Recherche Scientifique (CNRS)-École nationale supérieure d'architecture de Lyon (ENSAL)-École des Mines de Saint-Étienne (Mines Saint-Étienne MSE)

Subjects
[INFO.INFO-DB]Computer Science [cs]/Databases [cs.DB], [SDV.EE.ECO]Life Sciences [q-bio]/Ecology, environment/Ecosystems, 13. Climate action, 11. Sustainability, [INFO.INFO-ET]Computer Science [cs]/Emerging Technologies [cs.ET], [INFO.INFO-BI]Computer Science [cs]/Bioinformatics [q-bio.QM], [SDE.BE]Environmental Sciences/Biodiversity and Ecology, [SDE.ES]Environmental Sciences/Environmental and Society
Abstract

The 9th RDA Plenary Meeting has taken place from 5th to 7th April 2017 at the Barcelo Sants Hotel, Barcelona, Spain.Organised under the theme “Data Infrastructures for Open Science”, the event will bring together an international multi-disciplinary audience of data scientists, researchers, industry leaders, entrepreneurs, policymakers and data stewards. Plenary meetings and networking opportunities are all focused on exploring the best ways to exploit the data revolution to improve science and society through data-driven discovery and innovation.Plenary programme highlights75+ Working and Interest Group meetingsPlenary Sessions on RDA Recommendations and AdoptionLeading Industry Panel discussionsRDA Recommendation demos and networking opportunitiesThe plenary meeting is organised by the Barcelona Supercomputing Center-Centro Nacional de Supercomputación (BSC-CNS) with the support of RDA Europe.; International audience; Data produced by biodiversity research projects that evaluate and monitor Good Environmental Status have a high potential for use by stakeholders involved in [marine] environmental management. The lack of specific scientific objectives, poor organizational logic, and a characteristically disorganized collection of information leads to a decentralized data distribution, hampering environmental research. In such a heterogeneous system across different organizations and data formats, it is difficult to efficiently harmonize the outputs. There are few tools available to assist. The task of the newly created consortium of IndexMeed is to index biodiversity data (and to provide an index of qualified existing open datasets) and make it possible to build graphs to assist in the analysis and development of new ways to mine data. Standards (including TDWG recommendations) and specific protocols can be applied to interconnect databases. Such semantic approaches greatly increase data interoperability. The aim of this poster is to present the 2016 IndexMed workshop results (https://indexmed2016.sciencesconf.org) and recent actions of the consortium (renamed IndexMeed - Indexing for Mining Ecological and Environmental Data): new approaches to investigate complex research questions and support the emergence of new scientific hypotheses. With one day of plenary sessions and two days of practical workshops, this event was dedicated to the sharing of experience and expertise, the acquisition of practical methods to construct graphs and value data through metadata and ”data papers”. Recent developments in data mining based on graphs, the potential for important contributions to environmental research, particularly about strategic decision-making, and new ways of organizing data were also discussed at the workshop. In particular, this workshop promoted decisions on how (i) to analyze heterogeneous distributed data spread in different databases, (ii) to create matches and incorporate some approximations, (iii) to identify statistical relationships between observed data and the emergence of contextual patterns, and (iv) to encourage openness and the sharing of data, in order to value data and their utilization. The IndexMeed project participants are now exploring the ability of two scientific communities (ecology sensu lato and computer sciences) to work together. The uses of data from biodiversity research demonstrate the prototype functionalities and introduce new perspectives to analyze environmental and societal responses including decision-making. Output of the seminar lists scientific questions that can be resolved by the new data mining approaches and proposes new ways to investigate heterogeneous environmental data with graph mining.

Published
2017
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29. How bauxite residues affect soil biological components ? A preliminary experimental study

Author

Fourrier, Camille, Luglia, Mathieu, Gachet, Sophie, Hennebert, Pierre, Calvert, Virgile, Criquet, S., Institut méditerranéen de biodiversité et d'écologie marine et continentale (IMBE), Avignon Université (AU)-Aix Marseille Université (AMU)-Institut de recherche pour le développement [IRD] : UMR237-Centre National de la Recherche Scientifique (CNRS), Institut National de l'Environnement Industriel et des Risques (INERIS), Observatoire Hommes-Milieux du Bassin Minier de Provence (OHM-BMP), LabEx DRIIHM (CNRS-INEE), IMBE, ANR-11-LABX-0010,DRIIHM / IRDHEI,Dispositif de recherche interdisciplinaire sur les Interactions Hommes-Milieux(2011), and Centre National de la Recherche Scientifique (CNRS)-Institut de recherche pour le développement [IRD] : UMR237-Aix Marseille Université (AMU)-Avignon Université (AU)

Subjects
OHM Bassin Minier de Provence, Observatoires Hommes-Millieux, [SDV.EE.ECO]Life Sciences [q-bio]/Ecology, environment/Ecosystems, LabEx DRIIHM, [SDE.BE]Environmental Sciences/Biodiversity and Ecology, ComputingMilieux_MISCELLANEOUS
Abstract

International audience

Published
2016

30. The terrestrial red mud deposits in Provence : Ongoing researches in soil science

Author

Luglia, Mathieu, Fourrier, Camille, Keller, Catherine, Gachet, Sophie, Hennebert, Pierre, Ambrosi, Jean-Paul, Noack, Yves, Calvert, Virgile, Giffard, Isabelle, Pavon, Daniel, Angeletti, Bernard, Criquet, S., Institut méditerranéen de biodiversité et d'écologie marine et continentale (IMBE), Centre National de la Recherche Scientifique (CNRS)-Institut de recherche pour le développement [IRD] : UMR237-Aix Marseille Université (AMU)-Avignon Université (AU), Centre européen de recherche et d'enseignement des géosciences de l'environnement (CEREGE), Centre National de la Recherche Scientifique (CNRS)-Institut de Recherche pour le Développement (IRD)-Collège de France (CdF)-Institut national des sciences de l'Univers (INSU - CNRS)-Aix Marseille Université (AMU)-Institut National de la Recherche Agronomique (INRA), Institut National de l'Environnement Industriel et des Risques (INERIS), Ecosystèmes continentaux et risques environnementaux (ECCOREV), Aix Marseille Université (AMU)-Centre National de la Recherche Scientifique (CNRS), Observatoire Hommes-Milieux du Bassin Minier de Provence (OHM-BMP), LabEx DRIIHM (CNRS-INEE), IMBE, ANR-11-LABX-0010/11-LABX-0010,LabEx DRIIHM,Dispositif de recherche interdisciplinaire sur les Interactions Hommes-Milieux(2011), Avignon Université (AU)-Aix Marseille Université (AMU)-Institut de recherche pour le développement [IRD] : UMR237-Centre National de la Recherche Scientifique (CNRS), Aix Marseille Université (AMU)-Institut national des sciences de l'Univers (INSU - CNRS)-Collège de France (CdF (institution))-Institut de Recherche pour le Développement (IRD)-Centre National de la Recherche Scientifique (CNRS)-Institut National de la Recherche Agronomique (INRA), ANR-11-LABX-0010,DRIIHM / IRDHEI,Dispositif de recherche interdisciplinaire sur les Interactions Hommes-Milieux(2011), and Institut de Recherche pour le Développement (IRD)-Institut National de la Recherche Agronomique (INRA)-Aix Marseille Université (AMU)-Collège de France (CdF (institution))-Institut national des sciences de l'Univers (INSU - CNRS)-Centre National de la Recherche Scientifique (CNRS)

Subjects
[SDV.EE.ECO]Life Sciences [q-bio]/Ecology, environment/Ecosystems, enzyme activities, microbial functional diversity, red mud, plant-soil interaction, ETMM, Mediterranean soil, rhizotron, [SDE.BE]Environmental Sciences/Biodiversity and Ecology, mesocosm
Abstract

International audience; These researches fit into the works coordinated by the Observatoire Hommes-Milieux (OHM) of Bassin Minier de Provence (BMP) and dedicated to vegetal covers and microbial communities of soils. They aim to study the terrestrial deposits of red muds resulting from past and current activities of alumina extraction.Despite the red muds have been extensively studied about their industrial recycling potentials (Klauber et al., 2011), the studies on their environmental effects, especially on the biological component of soils, are far less numerous (Garau et al., 2007, 2011, 2014; Krishna et al., 2014; Lombi et al., 2002) and, furthermore, lacking in the context of BMP. To this date, the various studies available in the literature emphasize the importance of the soil matrix in the modulation of biological responses when it is mixed with red muds. Therefore, this aspect is important to invest at the local scale in the prospect of a potential use of red muds as improvement to soils or to the development of artificial soils for various valuations (agronomy, remediation, rehabilitation).Within this framework, the researches undertaken aim to study the impacts of red mud inputs to soils on their physico-chemical and biological qualities, and especially to test their harmlessness on the biological functions of soils. They also aim to determine, through a multi-scale approach (slag-heap, plot, mesocosm, rhizotron), how and to what extent these tailings modulate the structuring of vegetal and edaphic microbial communities through reciprocal functional relationships.

Published
2016

31. Effects of past land use on Mediterranean forest understory vegetation

Author

Abadie, J., Bergès, Laurent, Avon, C., Gachet, Sophie, Tatoni, Thierry, Risques, Ecosystèmes, Vulnérabilité, Environnement, Résilience (RECOVER), Institut national de recherche en sciences et technologies pour l'environnement et l'agriculture (IRSTEA), Institut méditerranéen de biodiversité et d'écologie marine et continentale (IMBE), Avignon Université (AU)-Aix Marseille Université (AMU)-Institut de recherche pour le développement [IRD] : UMR237-Centre National de la Recherche Scientifique (CNRS), IRSTEA AIX EN PROVENCE UR RECOVER FRA, UNIVERSITE AIX MARSEILLE III IMBE FRA, and Centre National de la Recherche Scientifique (CNRS)-Institut de recherche pour le développement [IRD] : UMR237-Aix Marseille Université (AMU)-Avignon Université (AU)

Subjects
FORET ANCIENNE, TRAIT BIOLOGIQUE, BIODIVERSITE, LUBERON, USAGE PASSE DU SOL, TRAITS DE VIE, soil flora, FORET RÉCENTE, HISTORIQUE, FLORE DU SOL, old-growth forest, [SDE]Environmental Sciences, FLORE FORESTIÈRE, history, biological trait, CONSERVATION DE LA BIODIVERSITÉ, biodiversity
Abstract

[Departement_IRSTEA]Territoires [TR1_IRSTEA]SEDYVIN; International audience; In the last twenty years, several studies have stressed the importance of including a historical approach in ecological studies. It helps understand structure and functioning of present ecosystems but also assess conservation objectives. In temperate regions, several studies showed that forest vascular plants differ according to forest temporal continuity. This difference is caused by a modification of forest habitats by past land use, especially soil physico-chemical properties, but is also conditioned by species colonisation potential. For instance, species more frequent in forests with a long temporal continuity, also known as ancient forest species, have life-history traits associated to poor dispersal abilities. However, the effect of past land use on the present flora has not yet been investigated in the Mediterranean. Our aim is thus to analyse floristic differences between ancient and recent forests and to identify life-history traits associated to those differences in the Natural Regional Park of Luberon. We also explore the effect of past land use on forest plant communities and soil physico-chemical properties. We hypothesised that: (1) species more frequent in ancient forests were typical forest species, more shade-tolerant and with poor dispersal ability (dispersal syndrome, soil seedbank); (2) ancient forest soils had less nutrients, more organic matter and are more superficial compared to recent forests; (3) those differences varied according to past land use (pastoral vs. cultural); (4) those differences are less pronounced than in temperate regions because former pasturelands were dominant in the Mediterranean. This study will enable us to better understand past land use effects on vegetation and soil dynamics in Mediterranean forests, and to compare our results with other biogeographical and sociological contexts.

Published
2016

32. IndexMed projects: new tools using the CIGESMED DataBase on Coralligenous for indexing, visualizing and data mining based on graphs

Author

David, Romain, Feral, Jean-Pierre, Archambeau, Anne, Bailly, Nicolas, Blanpain, Cyrille, Breton, Vincent, de Jode, Aurélie, Delavaud, Aurélie, Dias, Alrick, Gachet, Sophie, Guillemain, Dorian, Lecubin, Julien, Romier, Geneviève, Surace, Christian, Thierry de Ville d'Avray, Laure, Arvanitidis, Christos, Chenuil, Anne, Ertan Ҫinar, Melih, Koutsoubas, Drosos, Sartoretto, Stéphane, Tatoni, Thierry, Institut méditerranéen de biodiversité et d'écologie marine et continentale (IMBE), Centre National de la Recherche Scientifique (CNRS)-Institut de recherche pour le développement [IRD] : UMR237-Aix Marseille Université (AMU)-Avignon Université (AU), Global Biodiversity Information Facility France (GBIF France), Hellenic Center for Marine Research (HCMR), Institut Pythéas (OSU PYTHEAS), Aix Marseille Université (AMU)-Centre National de la Recherche Scientifique (CNRS)-Institut national de recherche en sciences et technologies pour l'environnement et l'agriculture (IRSTEA)-Institut de Recherche pour le Développement (IRD), Institut des Grilles et du Cloud (IDGC), Centre National de la Recherche Scientifique (CNRS), Fondation pour la recherche sur la Biodiversité (FRB), Laboratoire d'Astrophysique de Marseille (LAM), Centre National de la Recherche Scientifique (CNRS)-Institut national des sciences de l'Univers (INSU - CNRS)-Aix Marseille Université (AMU)-Centre National d'Études Spatiales [Toulouse] (CNES), Department of Hydrobiology, Faculty of Fisheries, Ege University, Department of Marine Sciences, University of the Aegean, Institut Français de Recherche pour l'Exploitation de la Mer, Institut Français de Recherche pour l'Exploitation de la Mer (IFREMER), VIGI-GEEK - VIsualisation of Graph In transdisciplinary Global Ecology, Economy and Sociology data-Kernel (Défi Imag'in, Financement MI du CNRS 2015)CHARLIE - CHAnger de Regard En Liant dans Indexmed l’Environnement et les Etoiles (PEPS Blanc, Financement 2015 INEE - CNRS)CIGESMED - Coralligenous based Indicators to evaluate and monitor the 'Good Environmental Status' of the MEDiterranean coastal waters (ANR conventions n° 12-SEAS-0001-01, 02 and 03 for France, GSRT - 12SEAS-12-C2 for Greece, TUBITAK Project No: 112Y393 for Turkey), Toulouse, France, Sabine Sauvage, José-Miguel Sánchez-Pérez, Andrea Rizzoli (Eds.), Toulouse, France, Sabine Sauvage, José-Miguel Sánchez-Pérez, Andrea Rizzoli (Eds.), ANR-05-PADD-0012,PRODDIG,Promotion du Développement Durable par les Indications Géographiques(2005), European Project: CIGESMED (SeasEra project, FP7), Avignon Université (AU)-Aix Marseille Université (AMU)-Institut de recherche pour le développement [IRD] : UMR237-Centre National de la Recherche Scientifique (CNRS), Global Biodiversity Information Facility (GBIF), Hellenic Centre for Marine Research (HCMR), Institut de Recherche pour le Développement (IRD)-Aix Marseille Université (AMU)-Institut national de recherche en sciences et technologies pour l'environnement et l'agriculture (IRSTEA)-Centre National de la Recherche Scientifique (CNRS), Aix Marseille Université (AMU)-Institut national des sciences de l'Univers (INSU - CNRS)-Centre National d'Études Spatiales [Toulouse] (CNES)-Centre National de la Recherche Scientifique (CNRS), Department of Marine Sciences [Aegean], Laboratoire Environnement Ressources Provence Azur Corse (LERPAC), LITTORAL (LITTORAL), and Institut Français de Recherche pour l'Exploitation de la Mer (IFREMER)-Institut Français de Recherche pour l'Exploitation de la Mer (IFREMER)

Subjects
thesaurus, [SDV.EE.ECO]Life Sciences [q-bio]/Ecology, environment/Ecosystems, data qualification, distributed information system, graph, [SDE.BE]Environmental Sciences/Biodiversity and Ecology, [SDE.ES]Environmental Sciences/Environmental and Society, coralligenous habitats
Abstract

http://www.iemss.org/sites/iemss2016/; International audience; Data produced by the SeasEra CIGESMED project (Coralligenous based Indicators to evaluate and monitor the "Good Environmental Status" of the MEDiterranean coastal waters) have a high potential to be used by several stakeholders involved in environmental management. A new consortium called IndexMed whose task is to index Mediterranean biodiversity data, makes it possible to build graphs in order to analyse the CIGESMED data and develop new ways for data mining of coralligenous data. This paper presents the prototypes under development that test the ability of graphs dataBases and tools to connect biodiversity objects with non-centralized data. This project explores the ability of two scientific communities to work together. The uses of data from coralligenous habitat demonstrate the prototype functionalities and introduce new perspectives to analyse environmental and societal responses.; Les données produites par le projet SeasEra CIGESMED (Indicateurs d'évaluation des habitats coralligènes et de surveillance du «Bon état écologique» des eaux côtières méditerranéennes) ont un fort potentiel d'utilisation par de nombreux acteurs impliqués dans la gestion environnementale. Un nouveau consortium appelé IndexMed dont la tâche est d'indexer les données sur la biodiversité méditerranéenne, permet de construire des graphes dans l'objectif d'analyser les données CIGESMED et développer de nouvelles méthodes pour l'extraction de données sur les habitats coralligènes. Cet article présente les prototypes en cours de développement qui testent la capacité des bases de données "graphe" et des outils permettant de relier des objets de biodiversité à partir de données non centralisées. Ce projet explore la capacité de deux communautés scientifiques à travailler ensemble. Les utilisations des données provenant de l'habitat coralligène permettent de présenter les fonctionnalités du prototype et proposent de nouvelles approches pour analyser les réponses environnementales et sociétales.

Published
2016

33. Towards a thesaurus of plant characteristics: an ecological contribution

Author

Garnier, Eric, Stahl, Ulrike, Laporte, Marie-Angelique, Kattge, Jens, Mougenot, Isabelle, Kuhn, Ingolf, Laporte, Baptiste, Amiaud, Bernard, Ahrestani, Farshid, Bonisch, Gerhard, Bunker, Daniel, Cornelissen, J. Hans, Diaz, Sandra, Enquist, Brian, Gachet, Sophie, Jaureguiberry, Pedro, Kleyer, Michael, Lavorel, Sandra, Maicher, Lutz, Perez-Harguindeguy, Natalia, Poorter, Hendrik, Schildhauer, Mark, Shipley, Bill, Violle, Cyrille, Weiher, Evan, Wirth, Christian, Wright, Ian, Klotz, Stefan, Centre d’Ecologie Fonctionnelle et Evolutive (CEFE), Université Paul-Valéry - Montpellier 3 (UPVM)-Institut National de la Recherche Agronomique (INRA)-Centre international d'études supérieures en sciences agronomiques (Montpellier SupAgro)-École Pratique des Hautes Études (EPHE), Université Paris sciences et lettres (PSL)-Université Paris sciences et lettres (PSL)-Université de Montpellier (UM)-Centre National de la Recherche Scientifique (CNRS)-Institut de Recherche pour le Développement (IRD [France-Sud])-Institut national d’études supérieures agronomiques de Montpellier (Montpellier SupAgro), Centre de Synthèse et d’Analyse sur la Biodiversité (CESAB), Fondation pour la recherche sur la Biodiversité (FRB), Max Planck Institute for Biogeochemistry (MPI-BGC), Max-Planck-Gesellschaft, German Centre for Integrative Biodiversity Research (iDiv), Helmholtz Zentrum für Umweltforschung = Helmholtz Centre for Environmental Research (UFZ), Bioversity International [Rome], Consultative Group on International Agricultural Research [CGIAR] (CGIAR), Département Environnement et Ressources [Montpellier] (ESPACE-DEV), Université des Antilles et de la Guyane (UAG)-Université de La Réunion (UR)-Université de Montpellier (UM), Ecologie et Ecophysiologie Forestières [devient SILVA en 2018] (EEF), Institut National de la Recherche Agronomique (INRA)-Université de Lorraine (UL), Department of Ecology, Evolution and Environmental Biology, Columbia University [New York], Frontier Wildlife Conservation [Mumbai], New Jersey Institute of Technology [Newark] (NJIT), Vrije Universiteit Amsterdam [Amsterdam] (VU), Instituto Multidisciplinario de Biología Vegetal [Córdoba] (IMBIV), Consejo Nacional de Investigaciones Científicas y Técnicas [Buenos Aires] (CONICET)-Facultad de Ciencias Exactas, Físicas y Naturales [Córdoba], Universidad Nacional de Córdoba [Argentina]-Universidad Nacional de Córdoba [Argentina], Department of Ecology and Evolutionary Biology [University of Arizona], University of Arizona, Institut méditerranéen de biodiversité et d'écologie marine et continentale (IMBE), Avignon Université (AU)-Aix Marseille Université (AMU)-Institut de recherche pour le développement [IRD] : UMR237-Centre National de la Recherche Scientifique (CNRS), Institute of Biology and Environmental Sciences [Oldenburg], University of Oldenburg, Laboratoire d'Ecologie Alpine (LECA ), Université Savoie Mont Blanc (USMB [Université de Savoie] [Université de Chambéry])-Centre National de la Recherche Scientifique (CNRS)-Université Grenoble Alpes [2016-2019] (UGA [2016-2019]), Friedrich-Schiller-Universität = Friedrich Schiller University Jena [Jena, Germany], Fraunhofer Center for International Management and Knowledge Economics (Fraunhofer MOEZ), Forschungszentrum Jülich GmbH | Centre de recherche de Juliers, Helmholtz-Gemeinschaft = Helmholtz Association, National Center for Ecological Analysis and Synthesis (NCEAS), Département de biologie [Sherbrooke] (UdeS), Faculté des sciences [Sherbrooke] (UdeS), Université de Sherbrooke (UdeS)-Université de Sherbrooke (UdeS), University of Wisconsin - Eau Claire (UWEC), Universität Leipzig, Dpt Biological Sciences, Macquarie University, Macquarie University, GDR 2574 (‘Traits’)of CNRS (France), the TraitNet Research Coordination Network (US NationalScience Foundation Grant No. 0639161), the SONet effort (US NSF Grant No.0753144), the project ‘Towards a unifying system of plant trait definition andmeasurement’ (the German Centre for Integrative Biodiversity Research (iDiv)Halle-Jena-Leipzig/Deutsche Forschungsgemeinschaft via Grant No. 50170649_#16), the German Federation for Biological Data - GFBio (DeutscheForschungsgemeinschaft via Grant No. KA 3323/2-2), FONCyT, CONICET,Universidad Nacional de Cordoba and Inter-American Institute for GlobalChange Research (CRN 2015 and SGP-CRA2015, supported by NS grantsGEO-0452325 and GEO-1138881), Université Paul-Valéry - Montpellier 3 (UPVM)-Institut National de la Recherche Agronomique (INRA)-Centre international d'études supérieures en sciences agronomiques (Montpellier SupAgro)-École pratique des hautes études (EPHE), Institut national d'enseignement supérieur pour l'agriculture, l'alimentation et l'environnement (Institut Agro)-Institut national d'enseignement supérieur pour l'agriculture, l'alimentation et l'environnement (Institut Agro), and Universität Leipzig [Leipzig]

Subjects
FUNCTIONAL TRAITS WORLDWIDE, DATA-INTENSIVE SCIENCE, ONTOLOGIES, DATABASE, HANDBOOK, FLORA, GENE, TOOL, [SDE.BE]Environmental Sciences/Biodiversity and Ecology
Abstract

International audience; Ecological research produces a tremendous amount of data, but the diversity in scales and topics covered and the ways in which studies are carried out result in large numbers of small, idiosyncratic data sets using heterogeneous terminologies. Such heterogeneity can be attributed, in part, to a lack of standards for acquiring, organizing and describing data. Here, we propose a terminological resource, a Thesaurus Of Plant characteristics (TOP), whose aim is to harmonize and formalize concepts for plant characteristics widely used in ecology. TOP concentrates on two types of plant characteristics: traits and environmental associations. It builds on previous initiatives for several aspects: (i) characteristics are designed following the entity-quality (EQ) model (a characteristic is modelled as the ‘Quality’ of an ‘Entity’ ) used in the context of Open Biological Ontologies; (ii) whenever possible, the Entities and Qualities are taken from existing terminology standards, mainly the Plant Ontology (PO) and Phenotypic Quality Ontology (PATO) ontologies; and (iii) whenever a characteristic already has a definition, if appropriate, it is reused and referenced. The development of TOP, which complies with semantic web principles, was carried out through the involvement of experts from both the ecology and the semantics research communities. Regular updates of TOP are planned, based on community feedback and involvement. TOP provides names, definitions, units, synonyms and related terms for about 850 plant characteristics. TOP is available online (www.top-thesaurus.org), and can be browsed using an alphabetical list of characteristics, a hierarchical tree of characteristics, a faceted and a free-text search, and through an Application Programming Interface. Synthesis. Harmonizing definitions of concepts, as proposed by TOP, forms the basis for better integration of data across heterogeneous data sets and terminologies, thereby increasing the potential for data reuse. It also allows enhanced scientific synthesis. TOP therefore has the potential to improve research and communication not only within the field of ecology, but also in related fields with interest in plant functioning and distribution.

Published
2016

34. Results of IndexMed GRAIL Days 2016: How to use standards to build GRAphs and mIne data for environmentaL research?

Author

David, Romain, Féral, Jean-Pierre, Anne-Sophie Archambeau, Auber, David, Bailly, Nicolas, Blanpain, Cyrille, Breton, Vincent, Dias, Alrick, Cohen-Nabeiro, Anna, Delavaud, Aurélie, Gachet, Sophie, Goffaux, Robin, Gibert, Karina, Herrera, Manuel, Ienco, Dino, Julliard, Romain, Lecubin, Julien, Legre, Yannick, Loïs, Grégoire, Muñoz, Victor Méndez, Jean-Charles Meunier, Mougenot, Isabelle, Pamerlon, Sophie, Romier, Geneviève, Specht, Alison, Surace, Christian, and Tatoni, Thierry

Published
2016
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36. IndexMEED cases studies using "Omics" data with graph theory

Author

David, Romain, primary, Féral, Jean-Pierre, additional, Archambeau, Anne-Sophie, additional, Arnaud, Fanny, additional, Auber, David, additional, Bailly, Nicolas, additional, Bernard, Loup, additional, Berti-Equille, Laure, additional, Blanpain, Cyrille, additional, Breton, Vincent, additional, Chenuil-Maurel, Anne, additional, Cohen Nabeiro, Anna, additional, Dias, Alrick, additional, Delavaud, Aurélie, additional, Goffaud, Robin, additional, Gachet, Sophie, additional, Gibert, Karina, additional, Herrera Fernandez, Manuel, additional, Hogie, Luc, additional, Ienco, Dino, additional, Julliard, Romain, additional, Le Bras, Yvan, additional, Lecubin, Julien, additional, Legre, Yannick, additional, Leydet, Michelle, additional, Lois, Grégoire, additional, Madon, Bénédicte, additional, Marchal, François, additional, Mendez Munoz, Victor, additional, Meunier, Jean-Charles, additional, Mihoub, Jean-Baptiste, additional, Mougenot, Isabelle, additional, Pamerlon, Sophie, additional, Peletier, Eric, additional, Romier, Geneviève, additional, Roux-Michollet, Dad, additional, Specht, Alison, additional, Surace, Christian, additional, Raynal, Jean-Claude, additional, and Tatoni, Thierry, additional

Published
2017
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38. A first prototype for indexing, visualizing and mining heterogeneous data in Mediterranean ecology: within the IndexMed consortium interdisciplinary framework

Author

David, Romain, Feral, Jean-Pierre, Gachet, Sophie, Dias, Alrick, Blanpain, Cyrille, Lecubin, Julien, Diaconu, Cristinel, Surace, Christian, Karina, Gibert, Institut méditerranéen de biodiversité et d'écologie marine et continentale (IMBE), Centre National de la Recherche Scientifique (CNRS)-Institut de recherche pour le développement [IRD] : UMR237-Aix Marseille Université (AMU)-Avignon Université (AU), Institut Pythéas (OSU PYTHEAS), Aix Marseille Université (AMU)-Centre National de la Recherche Scientifique (CNRS)-Institut national de recherche en sciences et technologies pour l'environnement et l'agriculture (IRSTEA)-Institut de Recherche pour le Développement (IRD), Centre de Physique des Particules de Marseille (CPPM), Centre National de la Recherche Scientifique (CNRS)-Institut National de Physique Nucléaire et de Physique des Particules du CNRS (IN2P3)-Aix Marseille Université (AMU), Laboratoire d'Astrophysique de Marseille (LAM), Centre National de la Recherche Scientifique (CNRS)-Institut national des sciences de l'Univers (INSU - CNRS)-Aix Marseille Université (AMU)-Centre National d'Études Spatiales [Toulouse] (CNES), Department of Statistics and Operations Research Universitat Politecnica de Catalunya Barcelona, Universitat Politècnica de Catalunya [Barcelona] (UPC), The construction of the first prototype for IndexMed consortium is funded by the CNRS défi 'VIGI-GEEK (VIsualisation of Graph In transdisciplinary Global Ecology, Economy and Sociology data-Kernel)' and CNRS INEE with the 'CHARLIEE' project. Data used for this article was obtained through the CIGESMED project [11] <www.cigesmed.eu>., Kokou Yetongnon, Albert Dipanda, University Of Bourgogne, France and Richard Chbeir, University of Pau, France, SITIS, ANR-12-SEAS-0001,CIGESMED,Coralligenous based indicators to evaluate and monitor the good ecological status of the Me-diterranean coastal waters(2012), Avignon Université (AU)-Aix Marseille Université (AMU)-Institut de recherche pour le développement [IRD] : UMR237-Centre National de la Recherche Scientifique (CNRS), Aix Marseille Université (AMU)-Institut National de Physique Nucléaire et de Physique des Particules du CNRS (IN2P3)-Centre National de la Recherche Scientifique (CNRS), Aix Marseille Université (AMU)-Institut national des sciences de l'Univers (INSU - CNRS)-Centre National d'Études Spatiales [Toulouse] (CNES)-Centre National de la Recherche Scientifique (CNRS), ANR-12-SEAS-0001,CIGESMED,Coralligenous based indicators to evaluate and monitor the 'good ecological status' of the Me-diterranean coastal waters(2012), and Institut de Recherche pour le Développement (IRD)-Aix Marseille Université (AMU)-Institut national de recherche en sciences et technologies pour l'environnement et l'agriculture (IRSTEA)-Centre National de la Recherche Scientifique (CNRS)

Subjects
data graphs, data-mining, data analysis, data cubes, [SDV.EE.ECO]Life Sciences [q-bio]/Ecology, environment/Ecosystems, data cubes, heterogeneous data, data indexing, data visualization, data mining, Mediterranean ecology, IndexMed consortium interdisciplinary framework, biodiversity, INEE, CNRS Institute of Ecology and Environment, data analysis, interoperability technologies, data graphs, data visualization, Mediterranean ecology, data traceability, biodiversity, Indexing data, IndexMed consortium interdisciplinary framework, [INFO.INFO-DB]Computer Science [cs]/Databases [cs.DB], data qualification, decentralized information systems, data indexing, data mining, heterogeneous data, [SDE.ES]Environmental Sciences/Environmental and Society, interoperability technologies, [INFO.INFO-ET]Computer Science [cs]/Emerging Technologies [cs.ET], INEE, CNRS Institute of Ecology and Environment, ecology, [SDE.BE]Environmental Sciences/Biodiversity and Ecology, [INFO.INFO-BI]Computer Science [cs]/Bioinformatics [q-bio.QM]
Abstract

International audience; Although biodiversity has been extensively studied over the last centuries, recent evidences suggest that links between collected data are still be missing. In order to fill this knowledge gap and at the initiative of the CNRS Institute of Ecology and Environment (INEE), IndexMed , a unique and multidisciplinary consortium consisting of ecologists, sociologists, economists, mathematicians, IT specialists and astronomers was created. Through exploratory projects, IndexMed develops new methods for analyzing data on Mediterranean biodiversity and implements solutions based on interoperability technologies already deployed in other disciplines. In particular, IndexMed aims to build a prototype of such data graphs and "data cubes". This paper will first explore the ability of tools and methods by means of graphs to connect biodiversity objects with non-centralized data. It will then introduce the use of algorithms and graphs to analyze environmental and societal responses and presents a prototype under development.

Published
2015

40. Vegetation groups from life-history traits for the management of savannah-forest mosaic

Author

Palla, Florence, Gachet, Sophie, Picard, Nicolas, and Riéra, Bernard

Subjects
Écologie, F40 - Écologie végétale, Composition botanique, Inventaire forestier, F70 - Taxonomie végétale et phytogéographie, forêt tropicale, Distribution des populations, Classification, Espèce, K01 - Foresterie - Considérations générales, Arbre forestier, Savane, Écosystème
Abstract

This study defined ecological groups of tree species based on species life-history traits within the savannah-forest mosaic of the Lopé National Park, Gabon in order to understand the connection between different types of forest within this study area. Three life-history traits were the most efficient at discriminating species groups within the floristic assemblage, namely, functional guild, dispersal type and phytogeographic type. The combination of dispersal potential and functional guild enabled us to rank the 169 studied species on gradient of forest types. A species classification into functional groups based on similar biological traits was proposed for the purpose of conservation management and development of new conservation areas. This first classification distinguished between canopy species and understorey species, thus suggesting the existence of two separate dynamics for tree species and three functional groups. These results are useful to set conservation priorities to achieve management plans.

Published
2013

42. Vegetation ecology meets ecosystem science: Permanent grasslands as a functional biogeography case study

Author

Violle, Cyrille, primary, Choler, Philippe, additional, Borgy, Benjamin, additional, Garnier, Eric, additional, Amiaud, Bernard, additional, Debarros, Guilhem, additional, Diquelou, Sylvain, additional, Gachet, Sophie, additional, Jolivet, Claudy, additional, Kattge, Jens, additional, Lavorel, Sandra, additional, Lemauviel-Lavenant, Servane, additional, Loranger, Jessy, additional, Mikolajczak, Alexis, additional, Munoz, François, additional, Olivier, Jean, additional, and Viovy, Nicolas, additional

Published
2015
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45. Crop genetic diversity benefits farmland biodiversity in cultivated fields

Author

Chateil, Carole, Goldringer, Isabelle, Tarallo, Léa, Kerbiriou, Christian, Le Viol, Isabelle, Ponge, Jean-François, Salmon, Sandrine, Gachet, Sophie, Porcher, Emmanuelle, Chateil, Carole, Goldringer, Isabelle, Tarallo, Léa, Kerbiriou, Christian, Le Viol, Isabelle, Ponge, Jean-François, Salmon, Sandrine, Gachet, Sophie, and Porcher, Emmanuelle

Abstract

This study tested whether increasing crop genetic diversity benefited farmland biodiversity in bread wheat (Triticum aestivum) fields, using an experimental approach in which arthropod and wild plant diversity were compared in a genetically homogeneous wheat variety vs. a variety mixture. The diversity of wild plant species was not affected by crop genetic diversity. However, we showed for the first time a positive impact of crop genetic diversity on below (collembola) and aboveground arthropod (spiders and predatory carabids) diversity at field scale in agroecosystems, which may be caused by a wider variety of food resources or more complex crop architecture. Increasing crop genetic diversity could therefore be an easy-to-implement scheme benefiting farmland biodiversity.

Published
2013

46. Maturation sylvigénétique en milieu montagnard méditerranéen. Poster

Author

Gachet, Sophie, Tatoni, Thierry, Dreyfus, Philippe, Ladier, Jean, Unité de Recherches Forestières Méditerranéennes (URFM), Institut National de la Recherche Agronomique (INRA), and ProdInra, Migration

Subjects
[SDV] Life Sciences [q-bio], PINUS NIGRA VAR AUSTRIACA, HETRE, [SDV]Life Sciences [q-bio], PIN NOIR D'AUTRICHE
Published
2001

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