Author: "Pascal-Jean Lopez" - Searchworks@Jio Institute Digital Library Search Results

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27 results on '"Pascal-Jean Lopez"'

1. eDNA-based survey of the marine vertebrate biodiversity off the west coast of Guadeloupe (French West Indies)

Author: Rachel Haderlé, Laurent Bouveret, Jordane Chazal, Justine Girardet, Samuel Iglésias, Pascal-Jean Lopez, Cédric Millon, Alice Valentini, Visotheary Ung, and Jean-Luc Jung
Subjects: environmental-DNA, marine mammals, fish, West Indi, Biology (General), QH301-705.5
Abstract: In the marine environment, knowledge of biodiversity remains incomplete for many taxa, requiring assessments to understand and monitor biodiversity loss. Environmental DNA (eDNA) metabarcoding is a powerful tool for monitoring marine biodiversity, as it enables several taxa to be characterised simultaneously in a single sample. However, the data generated by environmental DNA metabarcoding are often not easily reusable. Implementing FAIR principles and standards for eDNA-derived data can facilitate data-sharing within the scientific community.This study focuses on the detection of marine vertebrate biodiversity using eDNA metabarcoding on the leeward coast of Guadeloupe, a known hotspot for marine biodiversity in the French West Indies. Occurrences and DNA-derived data are shared here using DarwinCore standards combined with MIMARKS standards.
Published: 2024
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2. Physical properties of epilithic river biofilm as a new lead to perform pollution bioassessments in overseas territories

Author: Dominique Monti, Cedric Hubas, Xavier Lourenço, Farid Begarin, Alexandre Haouisée, Laurence Romana, Estelle Lefrançois, Alexandra Jestin, Hélène Budzinski, Nathalie Tapie, Théo Risser, Jean-Louis Mansot, Philippe Keith, Olivier Gros, Pascal-Jean Lopez, and Béatrice Lauga
Subjects: Medicine, Science
Abstract: Abstract Chlordecone (CLD) levels measured in the rivers of the French West Indies were among the highest values detected worldwide in freshwater ecosystems, and its contamination is recognised as a severe health, environmental, agricultural, economic, and social issue. In these tropical volcanic islands, rivers show strong originalities as simplified food webs, or numerous amphidromous migrating species, making the bioindication of contaminations a difficult issue. The objective of this study was to search for biological responses to CLD pollution in a spatially fixed and long-lasting component of the rivers in the West Indies: the epilithic biofilm. Physical properties were investigated through complementary analyses: friction, viscosity as well as surface adhesion were analyzed and coupled with measures of biofilm carbon content and exopolymeric substance (EPS) production. Our results have pointed out a mesoscale chemical and physical reactivity of the biofilm that can be correlated with CLD contamination. We were able to demonstrate that epilithic biofilm physical properties can effectively be used to infer freshwater environmental quality of French Antilles rivers. The friction coefficient is reactive to contamination and well correlated to carbon content and EPS production. Monitoring biofilm physical properties could offer many advantages to potential users in terms of effectiveness and ease of use, rather than more complex or time-consuming analyses.
Published: 2020
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3. Eye Development in Sepia officinalis Embryo: What the Uncommon Gene Expression Profiles Tell Us about Eye Evolution

Author: Boudjema Imarazene, Aude Andouche, Yann Bassaglia, Pascal-Jean Lopez, and Laure Bonnaud-Ponticelli
Subjects: eye development, Sepia officinalis, dac, six, eya, rhodopsin, Physiology, QP1-981
Abstract: In metazoans, there is a remarkable diversity of photosensitive structures; their shapes, physiology, optical properties, and development are different. To approach the evolution of photosensitive structures and visual function, cephalopods are particularly interesting organisms due to their most highly centralized nervous system and their camerular eyes which constitute a convergence with those of vertebrates. The eye morphogenesis in numerous metazoans is controlled mainly by a conserved Retinal Determination Gene Network (RDGN) including pax, six, eya, and dac playing also key developmental roles in non-retinal structures and tissues of vertebrates and Drosophila. Here we have identified and explored the role of Sof-dac, Sof-six1/2, Sof-eya in eye morphogenesis, and nervous structures controlling the visual function in Sepia officinalis. We compare that with the already shown expressions in eye development of Sof-otx and Sof-pax genes. Rhodopsin is the pigment responsible for light sensitivity in metazoan, which correlate to correlate visual function and eye development. We studied Sof-rhodopsin expression during retina differentiation. By in situ hybridization, we show that (1) all of the RDGN genes, including Sof-pax6, are expressed in the eye area during the early developmental stages but they are not expressed in the retina, unlike Sof-otx, which could have a role in retina differentiation; (2) Sof-rhodopsin is expressed in the retina just before vision gets functional, from stage 23 to hatching. Our results evidence a role of Sof-six1/2, Sof-eya, and Sof-dac in eye development. However, the gene network involved in the retinal photoreceptor differentiation remains to be determined. Moreover, for the first time, Sof-rhodopsin expression is shown in the embryonic retina of cuttlefish suggesting the evolutionary conservation of the role of rhodopsin in visual phototransduction within metazoans. These findings are correlated with the physiological and behavioral observations suggesting that S. officinalis is able to react to light stimuli from stage 25 of organogenesis on, as soon as the first retinal pigments appear.
Published: 2017
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4. Les Observatoires Hommes-Milieux et le LabEx DRIIHM

Author: Corinne Pardo, Anne-Lise Boyer, Dominique Badariotti, Carole Barthélémy, Jean-Philippe Bedell, Najat Birhy, Eduardo Ferreira da Silva, Damien Davy, Armelle Decaulne, Priscilla Duboz, Larry Fisher, Didier Galop, Fabien Hein, Pascal-Jean Lopez, Patrick Monfort, Y. Noack, Papa Ibnou Ndiaye, François-Michel Le Tourneau, Alejandro Salazar-Burrows, Ecosystèmes continentaux et risques environnementaux (ECCOREV), Aix Marseille Université (AMU)-Centre National de la Recherche Scientifique (CNRS), Institut Ecologie et Environnement (INEE), Centre National de la Recherche Scientifique (CNRS), LabEx DRIIHM - ANR-11-LABX-0010, 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 Image, Ville, Environnement (LIVE), Université de Strasbourg (UNISTRA)-Centre National de la Recherche Scientifique (CNRS), OHM Fessenheim, Centre National de la Recherche Scientifique (CNRS)-Centre National de la Recherche Scientifique (CNRS), Laboratoire Population-Environnement-Développement (LPED), Institut de Recherche pour le Développement (IRD)-Aix Marseille Université (AMU), OHM vallée du Rhône, Laboratoire d'Ecologie des Hydrosystèmes Naturels et Anthropisés (LEHNA), Université Claude Bernard Lyon 1 (UCBL), Université de Lyon-Université de Lyon-École Nationale des Travaux Publics de l'État (ENTPE)-Centre National de la Recherche Scientifique (CNRS), OHMi Estarreja, Université de Laval, Département de Géographie, OHMi Nunavik, Centre National de la Recherche Scientifique (CNRS)-Centre National de la Recherche Scientifique (CNRS)-Université Laval, Quebec, QC, Canada, Université d'Aveiro, Portugal, Laboratoire Ecologie, Evolution, Interactions des Systèmes amazoniens (LEEISA), Institut Français de Recherche pour l'Exploitation de la Mer (IFREMER)-Université de Guyane (UG)-Centre National de la Recherche Scientifique (CNRS), OHM Oyapock, Littoral, Environnement, Télédétection, Géomatique (LETG - Nantes ), Université de Brest (UBO)-Université de Rennes 2 (UR2)-Centre National de la Recherche Scientifique (CNRS)-Nantes Université (Nantes Univ)-Littoral, Environnement, Télédétection, Géomatique UMR 6554 (LETG), Université de Brest (UBO)-Université de Rennes 2 (UR2)-Centre National de la Recherche Scientifique (CNRS)-Institut de Géographie et d'Aménagement Régional de l'Université de Nantes (Nantes Univ - IGARUN), Nantes Université - pôle Humanités, Nantes Université (Nantes Univ)-Nantes Université (Nantes Univ)-Nantes Université - pôle Humanités, Nantes Université (Nantes Univ)-Nantes Université (Nantes Univ)-Institut de Géographie et d'Aménagement Régional de l'Université de Nantes (Nantes Univ - IGARUN), Nantes Université (Nantes Univ), Unité Mixte Internationale 'Environnement Santé Sociétés' (ESS), OHMi Tessekere, Centre National de la Recherche Scientifique (CNRS)-Centre National de la Recherche Scientifique (CNRS)-Université Cheikh Anta Diop [Dakar, Sénégal] (UCAD), Interdisciplinary and Global Environmental Studies (iGLOBES), University of Arizona-Centre National de la Recherche Scientifique (CNRS), Observatoire Homme-Milieu International Pima County Labex DRIIM (OHMI Pima County), Géographie de l'environnement (GEODE), Université Toulouse - Jean Jaurès (UT2J), Université de Toulouse (UT)-Université de Toulouse (UT)-Centre National de la Recherche Scientifique (CNRS), OHM Pyrénées - haut Vicdessos, Laboratoire Lorrain de Sciences Sociales (2L2S), Université de Lorraine (UL), OHM Pays de Bitche, Biologie des Organismes et Ecosystèmes Aquatiques (BOREA), Université de Caen Normandie (UNICAEN), Normandie Université (NU)-Normandie Université (NU)-Muséum national d'Histoire naturelle (MNHN)-Institut de Recherche pour le Développement (IRD)-Sorbonne Université (SU)-Centre National de la Recherche Scientifique (CNRS)-Université des Antilles (UA), OHM Littoral Caraïbe, Hydrosciences Montpellier (HSM), Institut de Recherche pour le Développement (IRD)-Institut national des sciences de l'Univers (INSU - CNRS)-Centre National de la Recherche Scientifique (CNRS)-Université de Montpellier (UM), OHM Littoral méditerranéen, Centre européen de recherche et d'enseignement des géosciences de l'environnement (CEREGE), 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), Observatoire Hommes-Milieux du Bassin Minier de Provence (OHM-BMP), Université Cheikh Anta Diop [Dakar, Sénégal] (UCAD), Pôle de recherche pour l'organisation et la diffusion de l'information géographique (PRODIG (UMR_8586 / UMR_D_215 / UM_115)), Université Paris 1 Panthéon-Sorbonne (UP1)-Institut de Recherche pour le Développement (IRD)-AgroParisTech-Sorbonne Université (SU)-Centre National de la Recherche Scientifique (CNRS)-Université Paris Cité (UPCité), Pontificia Universidad Católica de Chile (UC), Observatoire Hommes Milieux international Patagonia - Bahia Exploradores (OHMi Patagonia), Institut d'écologie et environnement, CNRS-INEE, INRAe, BRGM, ANR-11-LABX-0010,DRIIHM / IRDHEI,Dispositif de recherche interdisciplinaire sur les Interactions Hommes-Milieux(2011), Littoral, Environnement, Télédétection, Géomatique UMR 6554 (LETG), and Nantes Université (Nantes Univ)-Nantes Université (Nantes Univ)
Subjects: Sciences de l'environnement, Observatoire Hommes Milieux, [SDE]Environmental Sciences, Environmental Sciences, domain_sde, OHM
Abstract: International audience
Published: 2023
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5. Local Food Systems under Global Influence: The Case of Food, Health and Environment in Five Socio-Ecosystems

Author: Michael Rapinski, Richard Raymond, Damien Davy, Thora Herrmann, Jean-Philippe Bedell, Abdou Ka, Guillaume Odonne, Laine Chanteloup, Pascal Jean Lopez, Éric Foulquier, Eduardo Ferreira da Silva, Nathalie El Deghel, Gilles Boëtsch, Véronique Coxam, Fabienne Joliet, Anne-Marie Guihard-Costa, Laurence Tibère, Julie-Anne Nazare, Priscilla Duboz, Éco-Anthropologie (EA), Muséum national d'Histoire naturelle (MNHN)-Centre National de la Recherche Scientifique (CNRS), Laboratoire Ecologie, Evolution, Interactions des Systèmes amazoniens (LEEISA), Institut Français de Recherche pour l'Exploitation de la Mer (IFREMER)-Université de Guyane (UG)-Centre National de la Recherche Scientifique (CNRS), Helmholtz Zentrum für Umweltforschung = Helmholtz Centre for Environmental Research (UFZ), German Centre for Integrative Biodiversity Research (iDiv), University of Oulu, Laboratoire d'Ecologie des Hydrosystèmes Naturels et Anthropisés (LEHNA), Université Claude Bernard Lyon 1 (UCBL), Université de Lyon-Université de Lyon-École Nationale des Travaux Publics de l'État (ENTPE)-Centre National de la Recherche Scientifique (CNRS), Unité Mixte Internationale 'Environnement Santé Sociétés' (ESS), Centre National de la Recherche Scientifique (CNRS), Université de Lausanne = University of Lausanne (UNIL), Biologie des Organismes et Ecosystèmes Aquatiques (BOREA), Université de Caen Normandie (UNICAEN), Normandie Université (NU)-Normandie Université (NU)-Muséum national d'Histoire naturelle (MNHN)-Institut de Recherche pour le Développement (IRD)-Sorbonne Université (SU)-Centre National de la Recherche Scientifique (CNRS)-Université des Antilles (UA), Littoral, Environnement, Télédétection, Géomatique (LETG - Brest), Université de Brest (UBO)-Université de Rennes 2 (UR2)-Institut Universitaire Européen de la Mer (IUEM), Institut de Recherche pour le Développement (IRD)-Institut national des sciences de l'Univers (INSU - CNRS)-Université de Brest (UBO)-Centre National de la Recherche Scientifique (CNRS)-Institut de Recherche pour le Développement (IRD)-Institut national des sciences de l'Univers (INSU - CNRS)-Centre National de la Recherche Scientifique (CNRS)-Centre National de la Recherche Scientifique (CNRS)-Nantes Université (Nantes Univ)-Littoral, Environnement, Télédétection, Géomatique UMR 6554 (LETG), Université de Brest (UBO)-Université de Rennes 2 (UR2)-Centre National de la Recherche Scientifique (CNRS)-Institut de Géographie et d'Aménagement Régional de l'Université de Nantes (Nantes Univ - IGARUN), Nantes Université - pôle Humanités, Nantes Université (Nantes Univ)-Nantes Université (Nantes Univ)-Nantes Université - pôle Humanités, Nantes Université (Nantes Univ)-Nantes Université (Nantes Univ)-Institut de Géographie et d'Aménagement Régional de l'Université de Nantes (Nantes Univ - IGARUN), Nantes Université (Nantes Univ), Departamento de Geociencias, Ambiente e Ordenamento do Territorio (DGAOT), Universidade do Porto = University of Porto, Unité de Nutrition Humaine (UNH), Institut National de Recherche pour l’Agriculture, l’Alimentation et l’Environnement (INRAE)-Université Clermont Auvergne (UCA), Espaces et Sociétés (ESO), Normandie Université (NU)-Normandie Université (NU)-Le Mans Université (UM)-Université d'Angers (UA)-Université de Rennes 2 (UR2)-Centre National de la Recherche Scientifique (CNRS)-Institut de Géographie et d'Aménagement Régional de l'Université de Nantes (Nantes Univ - IGARUN), Nantes Université (Nantes Univ)-Nantes Université (Nantes Univ)-Institut Agro Rennes Angers, 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), Biologie, anthropologie, biométrie, épigénétique, lignées : De la diversité des populations à l'individu, de l'identification à l'identité (BABEL), Centre National de la Recherche Scientifique (CNRS)-Université Paris Cité (UPCité), Centre d'Etude et de Recherche Travail Organisation Pouvoir (CERTOP), Université Toulouse - Jean Jaurès (UT2J), Université de Toulouse (UT)-Université de Toulouse (UT)-Université Toulouse III - Paul Sabatier (UT3), Université de Toulouse (UT)-Centre National de la Recherche Scientifique (CNRS), Centre de Recherche en Nutrition Humaine Rhône-Alpes (CRNH-RA), Centre Hospitalier Universitaire de Saint-Etienne [CHU Saint-Etienne] (CHU ST-E)-Université Claude Bernard Lyon 1 (UCBL), Université de Lyon-Université de Lyon-CHU Grenoble-Hospices Civils de Lyon (HCL)-Université Jean Monnet - Saint-Étienne (UJM)-Institut National de la Santé et de la Recherche Médicale (INSERM)-Institut National de Recherche pour l’Agriculture, l’Alimentation et l’Environnement (INRAE)-Université Grenoble Alpes (UGA), Cardiovasculaire, métabolisme, diabétologie et nutrition (CarMeN), Université de Lyon-Université de Lyon-Hospices Civils de Lyon (HCL)-Institut National de la Santé et de la Recherche Médicale (INSERM)-Institut National de Recherche pour l’Agriculture, l’Alimentation et l’Environnement (INRAE), ANR-11-LABX-0010,DRIIHM / IRDHEI,Dispositif de recherche interdisciplinaire sur les Interactions Hommes-Milieux(2011), UNH Space Science Center [Durham] (SSC), University of New Hampshire (UNH), Lyvet, Nathalie, Dispositif de recherche interdisciplinaire sur les Interactions Hommes-Milieux - - DRIIHM / IRDHEI2011 - ANR-11-LABX-0010 - LABX - VALID, Université de Brest (UBO)-Université de Rennes 2 (UR2)-Centre National de la Recherche Scientifique (CNRS)-Institut de Géographie et d'Aménagement Régional de l'Université de Nantes (NantesUniv – IGARUN), Nantes Université (Nantes Univ)-Nantes Université (Nantes Univ)-Institut de Géographie et d'Aménagement Régional de l'Université de Nantes (NantesUniv – IGARUN), Normandie Université (NU)-Normandie Université (NU)-Le Mans Université (UM)-Université d'Angers (UA)-Université de Rennes 2 (UR2)-Centre National de la Recherche Scientifique (CNRS)-Institut de Géographie et d'Aménagement Régional de l'Université de Nantes (NantesUniv – IGARUN), Université Toulouse - Jean Jaurès (UT2J)-Université Toulouse III - Paul Sabatier (UT3), Université Fédérale Toulouse Midi-Pyrénées-Université Fédérale Toulouse Midi-Pyrénées-Centre National de la Recherche Scientifique (CNRS), and Université de Lyon-Université de Lyon-CHU Grenoble-Hospices Civils de Lyon (HCL)-CHU Saint-Etienne-Université Jean Monnet - Saint-Étienne (UJM)-Institut National de la Santé et de la Recherche Médicale (INSERM)-Institut National de Recherche pour l’Agriculture, l’Alimentation et l’Environnement (INRAE)-Université Grenoble Alpes (UGA)
Subjects: [SDE] Environmental Sciences, Canada, Portugal, Renewable Energy, Sustainability and the Environment, Geography, Planning and Development, Building and Construction, Management, Monitoring, Policy and Law, Senegal, epidemiologic transition, French Guiana, chronic diseases, [SDE]Environmental Sciences, One Health, nutrition and food transition, Guadeloupe, globalization
Abstract: International audience; Globalization is transforming food systems around the world. With few geographical areas spared from nutritional, dietary and epidemiological transitions, chronic diseases have reached pandemic proportions. A question therefore arises as to the sustainability of local food systems. The overall purpose of this article is to put in perspective how local food systems respond to globalization through the assessment of five different case studies stemming from an international research network of Human-Environment Observatories (OHM), namely Nunavik (Québec, Canada), Oyapock (French Guiana, France), Estarreja (Portugal), Téssékéré (Senegal) and Littoral-Caraïbes (Guadeloupe, France). Each region retains aspects of its traditional food system, albeit under different patterns of influence modelled by various factors. These include history, cultural practices, remoteness and accessibility to and integration of globalized ultra-processed foods that induce differential health impacts. Furthermore, increases in the threat of environmental contamination can undermine the benefits of locally sourced foods for the profit of ultra-processed foods. These case studies demonstrate that: (i) the influence of globalization on food systems can be properly understood by integrating sociohistorical trajectories, socioeconomic and sociocultural context, ongoing local environmental issues and health determinants; and (ii) long-term and transverse monitoring is essential to understand the sustainability of local food systems vis-à-vis globalization.
Published: 2023
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6. Arsenic and chlordecone contamination and decontamination toxicokinetics in Sargassum sp

Author: Franck Dolique, Damien A. Devault, Alexandre Baylet, Félix Massat, and Pascal-Jean Lopez
Subjects: Pollution, Health, Toxicology and Mutagenesis, media_common.quotation_subject, chemistry.chemical_element, 010501 environmental sciences, 01 natural sciences, Arsenic, Mesocosm, Algae, Environmental Chemistry, Ecotoxicology, Decontamination, 0105 earth and related environmental sciences, media_common, biology, Sargassum, General Medicine, Human decontamination, Contamination, biology.organism_classification, Toxicokinetics, chemistry, Chlordecone, Environmental chemistry, Environmental science
Abstract: Massive Sargassum sp. beachings have been occurring on Caribbean shores since 2011. The sargassum involved in such events are S. fluitans and S. natans, two drifting species whose proliferation has been observed in the southern North Atlantic Ocean. Both for reasons of environmental and sanitary assessment and repurposing, Sargassum sp. that is ashore piled up on beaches and decaying must be studied. Studies are required because of the concerning content of pelagic arsenic reported in the literature. They are also needed owing to Sargassum sp. contamination subsequent to historical pollution in the French West Indies by chlordecone, an insecticide used against the banana weevil Cosmopolites sordidus. The present study aims to describe the contamination and decontamination toxicokinetics of arsenic and chlordecone for Sargassum sp. stranding on shores and shallows in the Caribbean, in order to support the decision-making of the authorities involved. In situ and in mesocosm experiments performed in the present study show that Sargassum sp. contamination by chlordecone is mainly done after 2 h of exposition and reaches equilibrium after a day of exposure in polluted water, but BCF study suggests that the phenomenon is not actively supported (passive soption only). Arsenic transudation is intense in the case of immerged algae both. Half of the arsenic content is transudated after 13 h at sea and will transudate until vestigial arsenic concentration. Sargassum sp. contamination by arsenic, due to phytoaccumulation offshore, is broadly homogeneous before decay, and then leaks lead rapidly to a decrease in concentration in Sargassum sp. necromass, questioning the subsequent contamination of the coastal environment.
Published: 2021
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7. The mangroves in Guadeloupe: a suspended ecosystem under anthropic pressures

Author: Valérie Angeon, Fred Burner, Aurélie Colomb, Sébastien Cordonnier, Didier Galop, Silvina Gonzalez-Rizzo, Vincent Hervé, Daniel Imbert, Patrick Jean-Louis, Josie Lambourdière, Pascal-Jean Lopez, Gladys Loranger-Merciris, Corinne Pardo, Malika René-Trouillefou, Alain Maurice Adolphe Antoine Rousteau, Mickael Vaitilingom, Institut National de Recherche pour l’Agriculture, l’Alimentation et l’Environnement (INRAE), Université des Antilles (Pôle Guadeloupe), Université des Antilles (UA), Biologie des Organismes et Ecosystèmes Aquatiques (BOREA), Université de Caen Normandie (UNICAEN), Normandie Université (NU)-Normandie Université (NU)-Muséum national d'Histoire naturelle (MNHN)-Institut de Recherche pour le Développement (IRD)-Sorbonne Université (SU)-Centre National de la Recherche Scientifique (CNRS)-Université des Antilles (UA), Géographie de l'environnement (GEODE), Université Toulouse - Jean Jaurès (UT2J), Université de Toulouse (UT)-Université de Toulouse (UT)-Centre National de la Recherche Scientifique (CNRS), Labex DRIIHM, Observatoire Hommes-Milieux Pyrenees (OHM), Toulouse, Institut de Systématique, Evolution, Biodiversité (ISYEB ), Muséum national d'Histoire naturelle (MNHN)-École Pratique des Hautes Études (EPHE), Université Paris sciences et lettres (PSL)-Université Paris sciences et lettres (PSL)-Sorbonne Université (SU)-Centre National de la Recherche Scientifique (CNRS)-Université des Antilles (UA), LabEx DRIIHM - ANR-11-LABX-0010, Ecosystèmes continentaux et risques environnementaux (ECCOREV), Aix Marseille Université (AMU)-Centre National de la Recherche Scientifique (CNRS), Institut Ecologie et Environnement (INEE), Centre National de la Recherche Scientifique (CNRS), Laboratoire de Recherche en Géosciences et Energies [UR2_1] (LARGE), DRIIHM / IRDHEI - ANR-11-LABX-0010, LabEx DRIIHM OHMi Nunavik CNRS-InEE, and ANR-11-LABX-0010,DRIIHM / IRDHEI,Dispositif de recherche interdisciplinaire sur les Interactions Hommes-Milieux(2011)
Subjects: Sciences de l'environnement, OHM Littoral Caraïbe, [SDV]Life Sciences [q-bio], [SDE]Environmental Sciences, Mangroves, Interdisciplinarity, France, Guadeloupe, Environmental Sciences, domain_sde, Anthropic pressures, [SHS]Humanities and Social Sciences
Abstract: International audience
Published: 2022
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8. Temporal pesticide dynamics alter specific eukaryotic taxa in a coastal transition zone

Author: Vincent Hervé, Pierre Sabatier, Josie Lambourdière, Jérôme Poulenard, and Pascal Jean Lopez
Subjects: Environmental Engineering, Environmental Chemistry, Pollution, Waste Management and Disposal
Abstract: Land use change and anthropogenic forcing can drastically alter the rates and patterns of sediment transport and modify biodiversity and ecosystem functions in coastal transition zones, such as the coastal ecosystems. Molecular studies of sediment extracted DNAs provide information on currently living organisms within the upper layers or buried from various periods of time, but might also provide knowledge on species dynamics, replacement and turnover. In this study, we evaluated the eukaryotic communities of a marine core that present a shift in soil erosion that was linked to glyphosate usage and correlated to chlordecone resurgence since 2000. We show differences in community composition between samples from the second half of the last century and those from the last two decades. Temporal analyses of the relative abundance, alpha diversity, and beta diversity for the two periods demonstrated different temporal dynamics depending on the considered taxonomic group. In particular, Ascomycetes showed a decrease in abundance over the most recent period associated with changes in community membership but not community structure. Two photosynthetic groups, Bacillariophyceae and Prasinophytes clade VII, showed a different pattern with an increase in abundance since the beginning of the 21st century with a decrease in diversity and evenness to form more heterogeneous communities dominated by a few abundant OTUs. Altogether, our data reveal that agricultural usages such as pesticide use can have long-term and species-dependent implications for microeukaryotic coastal communities on a tropical island.
Published: 2023
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9. Kakila database: Towards a FAIR community approved database of cetacean presence in the waters of the Guadeloupe Archipelago, based on citizen science

Author: Etienne Jeannesson, Romain David, Nadège Gandilhon, Iwan Le Berre, Laurent Bouveret, Jean-Luc Jung, Pascal Jean Lopez, Julien Sananikone, Yvan Le Bras, Emilie Lerigoleur, Maxime Sèbe, Bénédicte Madon, Elie Arnaud, Eric Foulquier, Lorraine Coché, Institut Universitaire Européen de la Mer (IUEM), Institut de Recherche pour le Développement (IRD)-Institut national des sciences de l'Univers (INSU - CNRS)-Université de Brest (UBO)-Centre National de la Recherche Scientifique (CNRS), Littoral, Environnement, Télédétection, Géomatique UMR 6554 (LETG), Université de Caen Normandie (UNICAEN), Normandie Université (NU)-Normandie Université (NU)-Université d'Angers (UA)-École Pratique des Hautes Études (EPHE), Université Paris sciences et lettres (PSL)-Université Paris sciences et lettres (PSL)-Université de Brest (UBO)-Université de Rennes 2 (UR2)-Centre National de la Recherche Scientifique (CNRS)-Institut de Géographie et d'Aménagement Régional de l'Université de Nantes (IGARUN), Université de Nantes (UN)-Université de Nantes (UN), Patrimoine naturel (PatriNat), Muséum national d'Histoire naturelle (MNHN)-Centre National de la Recherche Scientifique (CNRS)-Office français de la biodiversité (OFB), Observatoire des Mammiferes Marins de l'Archipel Guadeloupeen (OMMAG), European Research Infrastructure on Highly Pathogenic Agents (ERINHA-AISBL), Mathématiques, Informatique et STatistique pour l'Environnement et l'Agronomie (MISTEA), Institut National de Recherche pour l’Agriculture, l’Alimentation et l’Environnement (INRAE)-Institut Agro - Montpellier SupAgro, 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), Littoral, Environnement, Télédétection, Géomatique (LETG - Brest), Université de Nantes (UN)-Université de Nantes (UN)-Université de Caen Normandie (UNICAEN), Biologie des Organismes et Ecosystèmes Aquatiques (BOREA), Normandie Université (NU)-Normandie Université (NU)-Muséum national d'Histoire naturelle (MNHN)-Institut de Recherche pour le Développement (IRD)-Sorbonne Université (SU)-Centre National de la Recherche Scientifique (CNRS)-Université des Antilles (UA), Sanctuaire Agoa, Géographie de l'environnement (GEODE), Université Toulouse - Jean Jaurès (UT2J), Université de Toulouse (UT)-Université de Toulouse (UT)-Centre National de la Recherche Scientifique (CNRS), Aménagement des Usages des Ressources et des Espaces marins et littoraux - Centre de droit et d'économie de la mer (AMURE), Institut Français de Recherche pour l'Exploitation de la Mer (IFREMER)-Université de Brest (UBO)-Institut Universitaire Européen de la Mer (IUEM), Institut de Recherche pour le Développement (IRD)-Institut national des sciences de l'Univers (INSU - CNRS)-Université de Brest (UBO)-Centre National de la Recherche Scientifique (CNRS)-Institut de Recherche pour le Développement (IRD)-Institut national des sciences de l'Univers (INSU - CNRS)-Centre National de la Recherche Scientifique (CNRS)-Centre National de la Recherche Scientifique (CNRS), Université de Toulon - UFR Sciences et Techniques (UTLN UFR ScT), Université de Toulon (UTLN), Institut méditerranéen d'océanologie (MIO), Institut de Recherche pour le Développement (IRD)-Aix Marseille Université (AMU)-Institut national des sciences de l'Univers (INSU - CNRS)-Université de Toulon (UTLN)-Centre National de la Recherche Scientifique (CNRS), Institut de Systématique, Evolution, Biodiversité (ISYEB ), Muséum national d'Histoire naturelle (MNHN)-École Pratique des Hautes Études (EPHE), Université Paris sciences et lettres (PSL)-Université Paris sciences et lettres (PSL)-Sorbonne Université (SU)-Centre National de la Recherche Scientifique (CNRS)-Université des Antilles (UA), Université de Brest (UBO), The Kakila database exists because volunteers invested their personal time and competences on the study of marine mammals at sea and this over years. We are particularly grateful to Caroline Azzinari (BREACH) and to all the volunteers of the OMMAG NPOs who collated the observation data contained in the Kakila database. We also warmly thank the whale watchers who decided to share their own and precious data and, in particular, Cedric Millon (whale-watching Cétacés Caraïbes), Claire Freriks (Evasion Marine and Guadeloupe Evasion Découverte) and Jean-Pierre Concaud (Guadeloupe Evasion Découverte).Ellen Feunteun (Agoa Sanctuary) effectively helped us analysing the data from the Agoa Sanctuary.This research was funded by the LabEx DRIIHM French programme 'Investissements d’Avenir' (ANR-11-LABX-0010), which is managed by the ANR. It has been awarded in the OHM Littoral Caraïbe 2019 call for proposal. Lorraine Coché was recruited with the support of the Fondation de France, within the framework of the TRAFIC project, laureate of its research programme 'The future of the coastal and sea worlds' (project N° 1940). The last step of the process, the Darwinisation of the Kakila database, was partially funded by the SO-DRIIHM project (ANR-19-DATA-0022) from the Flash call on Open Science.During his ERINHA AISBL involvement, Romain David was supported by the EOSC-Life European Programme under grant agreement N°824087 and ERINHA-Advance European Programme under grant agreement N° 824061.The Kakila database was used as a case study during the ecoinfofair2020 workshop (Concarneau, 19-21 octobre, organised by Yvan Le Bras, PNDB, MNHN). We are grateful to all the workshop participants, who helped in the FAIRisation process of Kakila and, in particular, to Guillaume Body (OFB), Claudia Lavalley (UMR TETIS), Sophie Pamerlon (GBIF) and Sarah Valentin (OFB)., ANR-19-DATA-0022,SO-DRIIHM,Impulser la science ouverte au sein du Dispositif de Recherche Interdisciplinaire sur les Interactions Hommes-Milieux (DRIIHM) : co-design d'une e-infrastructure intégrant les principes FAIR(2019), ANR-11-LABX-0010,DRIIHM / IRDHEI,Dispositif de recherche interdisciplinaire sur les Interactions Hommes-Milieux(2011), European Project: 824087,EOSC-Life, European Project: 824061,ERINHA-Advance, Normandie Université (NU)-Normandie Université (NU)-Université d'Angers (UA)-École pratique des hautes études (EPHE), Université Paris sciences et lettres (PSL)-Université Paris sciences et lettres (PSL)-Université de Brest (UBO)-Université de Rennes 2 (UR2), Université de Rennes (UNIV-RENNES)-Université de Rennes (UNIV-RENNES)-Centre National de la Recherche Scientifique (CNRS)-Institut de Géographie et d'Aménagement Régional de l'Université de Nantes (IGARUN), Pôle national de données de Biodiversité (PNDB), Observatoire des Mammiferes Marins de lArchipel Guadeloupeen (OMMAG), Institut National de Recherche pour l’Agriculture, l’Alimentation et l’Environnement (INRAE)-Institut national d’études supérieures agronomiques de Montpellier (Montpellier SupAgro), Centre National de la Recherche Scientifique (CNRS)-Université des Antilles (UA)-Muséum national d'Histoire naturelle (MNHN)-Institut de Recherche pour le Développement (IRD)-Sorbonne Université (SU)-Université de Caen Normandie (UNICAEN), Normandie Université (NU)-Normandie Université (NU), BREACH NPO, Pôle national de données de biodiversité (PNDB), Centre National de la Recherche Scientifique (CNRS)-Université Toulouse - Jean Jaurès (UT2J), Centre National de la Recherche Scientifique (CNRS), Muséum national d'Histoire naturelle (MNHN), Centre National de la Recherche Scientifique (CNRS)-Université de Brest (UBO)-Institut Français de Recherche pour l'Exploitation de la Mer (IFREMER)-Institut Universitaire Européen de la Mer (IUEM), Institut de Recherche pour le Développement (IRD)-Institut national des sciences de l'Univers (INSU - CNRS)-Université de Brest (UBO)-Centre National de la Recherche Scientifique (CNRS)-Institut de Recherche pour le Développement (IRD)-Institut national des sciences de l'Univers (INSU - CNRS)-Centre National de la Recherche Scientifique (CNRS), PNDB (Pôle national de données de Biodiversité), Centre de recherche en gestion i3 (i3-CRG), École polytechnique (X)-Université Paris-Saclay-Centre National de la Recherche Scientifique (CNRS), and Muséum national d'Histoire naturelle (MNHN)-École pratique des hautes études (EPHE)
Subjects: 0106 biological sciences, observation, QH301-705.5, Biodiversity & Conservation, Biodiversity, Context (language use), computer.software_genre, OHM Littoral Caraibe, 01 natural sciences, cetaceans, 03 medical and health sciences, Marine mammal, [SDV.EE.ECO]Life Sciences [q-bio]/Ecology, environment/Ecosystems, Marine Biota & Ecosystems, biology.animal, citizen science, French West Indies, Ecology & Environmental sciences, Citizen science, Animalia, 14. Life underwater, Biology (General), Ecology, Evolution, Behavior and Systematics, database, 030304 developmental biology, FAIR, Caribbean, 0303 health sciences, geography, geography.geographical_feature_category, [INFO.INFO-DB]Computer Science [cs]/Databases [cs.DB], Ecology, Database, biology, Labex DRIIHM, Whale, 010604 marine biology & hydrobiology, Exclusive economic zone, Data Paper (Biosciences), Mammalia, Zoology & Animal Biology, Archipelago, Marine protected area, [SDE.BE]Environmental Sciences/Biodiversity and Ecology, computer
Abstract: In the French West Indies, more than 20 species of cetaceans have been observed over the last decades. The recognition of this hot spot of biodiversity of marine mammals observed in the French Exclusive Economic Zone of the West Indies motivated the French government to create in 2010 a marine protected area (MPA) dedicated to the conservation of marine mammals: the Agoa sanctuary. Threats that cetacean populations face are multiple but well-documented. Cetacean conservation can only be achieved if relevant and reliable data are available, starting by occurrence data. In the Guadeloupe archipelago, and in addition to some data collected by the Agoa sanctuary, occurrence data are mainly available through the contribution of citizen science and of local stakeholders (i.e., non-profit organizations (NPO) and whale-watchers). However, no observation network has been coordinated and no standards exist for cetacean presence data collection and management.In recent years, several whale watchers and NPOs regularly collected cetacean observation data around the Guadeloupe archipelago. These observations are highly valuable, often made by experienced observers able to accurately distinguish between species, and some of them were used for scientific targeted studies Stevick et al. 2016, Heenehan et al. 2019, Stevick et al. 2018, Kennedy et al. 2014. Our objective was to gather datasets from three Guadeloupean whale watchers, two NPOs and the Agoa sanctuary, that agreed to share their data. These heterogeneous data went through a careful process of curation and standardization in order to create a new extended database, using a newly designed metadata set. This aggregated dataset contains a total of 4,704 records of 21 species collected in the Guadeloupe Archipelago from 2000 to 2019. The database was called Kakila ("who is there?" in Guadeloupean Creole). The Kakila database was developed following the FAIR principles with the ultimate objective of ensuring sustainability. All these data were transferred into the PNDB repository (Pole National de Données de Biodiversité, Biodiversity French Data Hub, https://www.pndb.fr).In the Agoa sanctuary and surrounding waters, marine mammals have to interact with increasing anthropogenic pressure from growing human activities. In this context, the Kakila database fulfils the need for an organised system to structure marine mammal occurrences collected by multiple local stakeholders with a common objective: contribute to the knowledge and conservation of cetaceans living in the French Antilles waters. Much needed data analysis will enable to identify high cetacean presence areas, to document the presence of rarer species, and to determine areas of possible negative interactions with anthropogenic activities.
Published: 2021
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10. Pairing AIS data and underwater topography to assess maritime traffic pressures on cetaceans: Case study in the Guadeloupean waters of the Agoa sanctuary

Author: Bénédicte Madon, Damien Le Guyader, Jean-Luc Jung, Benjamin De Montgolfier, Pascal Jean Lopez, Eric Foulquier, Laurent Bouveret, Iwan Le Berre, Littoral, Environnement, Télédétection, Géomatique (LETG - Brest), Université de Brest (UBO)-Université de Rennes 2 (UR2)-Institut Universitaire Européen de la Mer (IUEM), Institut de Recherche pour le Développement (IRD)-Institut national des sciences de l'Univers (INSU - CNRS)-Université de Brest (UBO)-Centre National de la Recherche Scientifique (CNRS)-Institut de Recherche pour le Développement (IRD)-Institut national des sciences de l'Univers (INSU - CNRS)-Centre National de la Recherche Scientifique (CNRS)-Centre National de la Recherche Scientifique (CNRS)-Nantes Université (Nantes Univ)-Littoral, Environnement, Télédétection, Géomatique UMR 6554 (LETG), Université de Brest (UBO)-Université de Rennes 2 (UR2)-Centre National de la Recherche Scientifique (CNRS)-Institut de Géographie et d'Aménagement Régional de l'Université de Nantes (Nantes Univ - IGARUN), Nantes Université - pôle Humanités, Nantes Université (Nantes Univ)-Nantes Université (Nantes Univ)-Nantes Université - pôle Humanités, Nantes Université (Nantes Univ)-Nantes Université (Nantes Univ)-Institut de Géographie et d'Aménagement Régional de l'Université de Nantes (Nantes Univ - IGARUN), Nantes Université (Nantes Univ), Geo4Seas Society, Institut de Systématique, Evolution, Biodiversité (ISYEB ), Muséum national d'Histoire naturelle (MNHN)-École Pratique des Hautes Études (EPHE), Université Paris sciences et lettres (PSL)-Université Paris sciences et lettres (PSL)-Sorbonne Université (SU)-Centre National de la Recherche Scientifique (CNRS)-Université des Antilles (UA), Université de Brest (UBO), Aquasearch, Biologie des Organismes et Ecosystèmes Aquatiques (BOREA), Université de Caen Normandie (UNICAEN), Normandie Université (NU)-Normandie Université (NU)-Muséum national d'Histoire naturelle (MNHN)-Institut de Recherche pour le Développement (IRD)-Sorbonne Université (SU)-Centre National de la Recherche Scientifique (CNRS)-Université des Antilles (UA), Observatoire des Mammiferes Marins de l'Archipel Guadeloupeen (OMMAG), Fondation de France research program 'The future of the coastal and sea worlds' (project TRAFIC No 1940), and ANR-11-LABX-0010,DRIIHM / IRDHEI,Dispositif de recherche interdisciplinaire sur les Interactions Hommes-Milieux(2011)
Subjects: Economics and Econometrics, Cetaceans, Wider Caribbean Region, [SHS.GEO]Humanities and Social Sciences/Geography, Management, Monitoring, Policy and Law, Aquatic Science, Marine spatial planning, Underwater topography, Automated Information System (AIS), Maritime traffic, Shipping, Habitat, OHM Littoral Caraïbe, Marine Protected Area (MPA), Marine mammals, Pressure, Cumulative effect assessment (CEA), Agoa sanctuary, Law, General Environmental Science
Abstract: International audience; Maritime transportation forecasts project an increase in shipping. In this context, interactions with cetaceans are of growing concern especially when relevant biological data are not available to monitor the impacts. The Agoa sanctuary in the Wider Caribbean region faces this situation. To overcome this issue, we used AIS data to estimate three pressure types from maritime traffic associated with known impacts for cetaceans: (1) “intensity” corresponding to the frequency of vessel presence, (2) “occupancy” corresponding to the duration of ship presence, known to lead to disturbance and noise-related impacts and (3) “speed” presenting the risk of physical injuries from collisions. A simplified approach of the Cumulative Effect Assessment framework was used. We mapped species underwater topographic preferences as a proxy for their distribution to link habitat features with traffic pressure maps to evaluate pressure levels and types. Results showed that three species were more at risk from intensity and speed in the plains: the bottlenose dolphins, the Fraser’s dolphins and the short-finned pilot whales. The speed pressure had the highest score over the habitat types slopes, canyons and valleys, placing sperm whales, Cuvier, Blainville’s and Gervais’s beaked whales at higher risk of collision in these areas. Humpback whales and pantropical spotted dolphins faced a higher risk of disturbance over the continental shelf along the West coast. We recommend a precautionary approach in the Agoa sanctuary: speed reduction in the Pointe-à-Pitre-Marie-Galante route and displacement of shipping lanes to move maritime traffic away from the West Coast.
Published: 2022
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11. L'Observatoire Hommes-Milieux Littoral Caraïbe, un dispositif de recherche participative sur le fait portuaire en Guadeloupe (Antilles françaises)

Author: Iwan Le Berre, Eric Foulquier, Pascal Jean Lopez, Yvez Montouroy, Damien Le Guyader, Foulquier, Eric, Dispositif de recherche interdisciplinaire sur les Interactions Hommes-Milieux - - DRIIHM / IRDHEI2011 - ANR-11-LABX-0010 - LABX - VALID, Fondation SEFACIL, Yann Alix, Littoral, Environnement, Télédétection, Géomatique UMR 6554 (LETG), Université de Caen Normandie (UNICAEN), Normandie Université (NU)-Normandie Université (NU)-Université d'Angers (UA)-École pratique des hautes études (EPHE), Université Paris sciences et lettres (PSL)-Université Paris sciences et lettres (PSL)-Université de Brest (UBO)-Université de Rennes 2 (UR2), Université de Rennes (UNIV-RENNES)-Université de Rennes (UNIV-RENNES)-Centre National de la Recherche Scientifique (CNRS)-Institut de Géographie et d'Aménagement Régional de l'Université de Nantes (IGARUN), Université de Nantes (UN)-Université de Nantes (UN), Laboratoire caribéen de sciences sociales (LC2S), Université des Antilles (UA)-Centre National de la Recherche Scientifique (CNRS), Biologie des Organismes et Ecosystèmes Aquatiques (BOREA), Centre National de la Recherche Scientifique (CNRS)-Université des Antilles (UA)-Muséum national d'Histoire naturelle (MNHN)-Institut de Recherche pour le Développement (IRD)-Sorbonne Université (SU)-Université de Caen Normandie (UNICAEN), Normandie Université (NU)-Normandie Université (NU), Centre National de la Recherche Scientifique (CNRS), Muséum national d'Histoire naturelle (MNHN), Littoral, Environnement, Télédétection, Géomatique (LETG - Brest), Université de Nantes (UN)-Université de Nantes (UN)-Université de Caen Normandie (UNICAEN), Fondation de France, OHM Littoral Caraïbe, ANR-11-LABX-0010,DRIIHM / IRDHEI,Dispositif de recherche interdisciplinaire sur les Interactions Hommes-Milieux(2011), Normandie Université (NU)-Normandie Université (NU)-Université d'Angers (UA)-École Pratique des Hautes Études (EPHE), Université Paris sciences et lettres (PSL)-Université Paris sciences et lettres (PSL)-Université de Brest (UBO)-Université de Rennes 2 (UR2)-Centre National de la Recherche Scientifique (CNRS)-Institut de Géographie et d'Aménagement Régional de l'Université de Nantes (IGARUN), Centre National de la Recherche Scientifique (CNRS)-Université des Antilles (UA), Normandie Université (NU)-Normandie Université (NU)-Muséum national d'Histoire naturelle (MNHN)-Institut de Recherche pour le Développement (IRD)-Sorbonne Université (SU)-Centre National de la Recherche Scientifique (CNRS)-Université des Antilles (UA), Geo4Seas Society, and TRAFIC Transport Maritime, Fréquentations Portuaires et Inégalités Environnementales dans les Caraïbes
Subjects: Ports, Inégalité environnementale, [SHS.GEO] Humanities and Social Sciences/Geography, vulnerability, Interdisciplinarity, [SHS.GEO]Humanities and Social Sciences/Geography, Transport maritime, [SDE.ES]Environmental Sciences/Environmental and Society, marine traffic, air quality, [SHS]Humanities and Social Sciences, ecological transition, OHM Littoral Caraïbe, [SDE]Environmental Sciences, Interdisciplinarité, Environmental Inequities, Vulnérabilité, atmospheric emission, [SDE.ES] Environmental Sciences/Environmental and Society, shipping, Ports de commerce
Abstract: International audience; Our contribution intends to describe an example of collaborations between scientific actors and actors of the territory, within the framework of a so-called participatory research. With the so-called "citizen" and "community" science, participatory research is one of the forms of collaboration between the academic and non-academic spheres. It involve upstream and downstream of the scientific research process. The “Observatoires Hommes-Milieux” (Human-Environment Observatories), created by the CNRS (French National Science Research Center) in the mid-2000s, are scientific production systems based in the territories. They offer the possibility of a fruitful dialogue between fundamental science and territorial issues. The OHM Littoral Caraïbe, centered on the Guadeloupe archipelago, is partly interested in the interactions between the maritime and port world and the environment. The functioning of the OHM has enabled the construction of a partnership with numerous stakeholders from the territory, such as the Maritime and Port Union of Guadeloupe, the French Maritime Department (Direction de la Mer, DM), various local authorities and non-profit associations . These collaborations have led to the development of a research project, co-financed by the “Fondation de France”: TRAFIC, Maritime Transport, Port Visits and Environmental Inequalities in the Caribbean. This project which is based on AIS data processing, would like to address the question of port vulnerability and of ecological transitions in the shipping sector.; La contribution entend décrire un exemple de collaboration entre acteurs scientifiques et acteurs du territoire, dans le cadre d’une recherche dite participative. Avec la science dite « citoyenne » et celle dite « communautaire », la recherche participative fait partie des trois formes de collaboration entre sphère académique et non académique. Elle se distingue des deux autres par l’implication en amont et en aval du processus de recherche scientifique engagé. Les Observatoires Hommes- Milieux, crée par le CNRS au milieu des années 2000, constitue des dispositifs de production scientifique inscrits dans des territoires. Ils offrent les possibilités d’un dialogue fécond entre science fondamentale et problématiques territoriales. L’OHM Littoral Caraïbe, centré sur l’archipel guadeloupéen, s’intéresse en partie aux interactions entre le monde maritime et portuaire et l’environnement. Le fonctionnement de l’OHM a permis la construction d’un partenariat avec des acteurs du territoire, telles que l’Union Maritime et Portuaire de Guadeloupe, la Direction de la Mer, les différentes collectivités locales et autres associations présentes sur le territoire. Ces collaborations ont permis le développement d’un programme de recherche, soutenu par la Fondation de France : TRAFIC, Transports Maritimes, Fréquentations portuaires et Inégalités environnementales dans les Caraïbes qui, sur la base du traitement de données AIS, pose l’hypothèse de l’existence d’une vulnérabilité portuaire, dès lors qu’il s’agit d’organiser la transition écologique dans le secteur du shipping.
Published: 2021

12. Sargassum Differentially Shapes the Microbiota Composition and Diversity at Coastal Tide Sites and Inland Storage Sites on Caribbean Islands

Author: Vincent Hervé, Josie Lambourdière, Malika René-Trouillefou, Damien Alain Devault, Pascal Jean Lopez, Institut de recherche sur la biologie de l'insecte UMR7261 (IRBI), Université de Tours (UT)-Centre National de la Recherche Scientifique (CNRS), Biologie des Organismes et Ecosystèmes Aquatiques (BOREA), Université de Caen Normandie (UNICAEN), Normandie Université (NU)-Normandie Université (NU)-Muséum national d'Histoire naturelle (MNHN)-Institut de Recherche pour le Développement (IRD)-Sorbonne Université (SU)-Centre National de la Recherche Scientifique (CNRS)-Université des Antilles (UA), Centre National de la Recherche Scientifique (CNRS), ADEME, ANR-11-LABX-0010,DRIIHM / IRDHEI,Dispositif de recherche interdisciplinaire sur les Interactions Hommes-Milieux(2011), Université de Tours-Centre National de la Recherche Scientifique (CNRS), Centre National de la Recherche Scientifique (CNRS)-Université des Antilles (UA)-Muséum national d'Histoire naturelle (MNHN)-Institut de Recherche pour le Développement (IRD)-Sorbonne Université (SU)-Université de Caen Normandie (UNICAEN), and Normandie Université (NU)-Normandie Université (NU)
Subjects: 0106 biological sciences, Microbiology (medical), macroalgae, Meiobenthos, microbial communities, Biology, 01 natural sciences, Microbiology, OHM Littoral Caraibe, 03 medical and health sciences, sulfate-reducing bacteria (SRB), Ecosystem, 14. Life underwater, Original Research, 030304 developmental biology, Trophic level, protists, 0303 health sciences, Ecology, 010604 marine biology & hydrobiology, Sargassum, Pelagic zone, 15. Life on land, biology.organism_classification, methanogenic archaea (MA), QR1-502, [SDV.MP]Life Sciences [q-bio]/Microbiology and Parasitology, Microbial population biology, 13. Climate action, nematodes, Species richness, [SDE.BE]Environmental Sciences/Biodiversity and Ecology, epibiont, Martinique, [SDV.EE.IEO]Life Sciences [q-bio]/Ecology, environment/Symbiosis
Abstract: Rafts of drifting pelagic Sargassum that are circulating across the Atlantic Ocean are complex ecosystems composed of a large number of associated species. Upon massive stranding, they lead to various socio-environmental issues including the inflow of contaminants and human health concerns. In this study, we used metabarcoding approaches to examine the differences in both the eukaryotic- and prokaryotic-associated communities from Sargassum present in two islands of the Lesser Antilles, namely Guadeloupe and Martinique. We detected significant differences in microbial community structure and composition between landing Sargassum, the surrounding seawater, and Sargassum from inland storage sites. In total we identified 22,214 prokaryotic and 17,679 eukaryotic OTUs. Among them, functional prediction analyses revealed a number of prokaryotes that might contribute to organic matter decomposition, nitrogen cycling and gas production, including sulfate-reducing bacteria at coastal landing sites, and methanogenic archaea at inland storage sites. We also found that Metazoan was the most abundant group in Sargassum samples, with nematode clades that presented exclusive or specific richness and abundance patterns depending on their Sargassum substrate. Together, these molecular inventories of the micro- and meiofauna communities provide baseline information for further characterization of trophic interactions, algal organic matter decomposition and nutrient transfers at coastal and inland storage sites.
Published: 2021
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13. Baleines et dauphins : des belles espèces sentinelles à étudier dans le cadre d'un OHM littoral, mais d'un abord bien complexe

Author: J-L Jung, Iwan Le Berre, Lorraine Coché, Bénédicte Madon, Eric Foulquier, Romain David, Yvan Le Bras, Elie Arnaud, Julien Sananikone, Emilie Lerigoleur, Pascal Jean Lopez, Laurent Bouveret, Nadège Gandilhon, Cédric Millon, Claire Freriks, and Jean-Pierre Concaud
Subjects: Sciences de l'environnement, Données, Suivi, Trafic maritime, OHM littoral caraibe, Cétacés, Environmental Sciences, domain_sde, FAIR
Published: 2021
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14. De la conflictualité sociale à la controverse environnementale. Les mutations récentes des relations port-territoire à Pointe-à-Pitre (2004-2018)

Author: Eric Foulquier, Le Berre, Iwan I., Richard Raymond, Pascal Jean Lopez, Le Berre, Iwan, Dispositif de recherche interdisciplinaire sur les Interactions Hommes-Milieux - - DRIIHM / IRDHEI2011 - ANR-11-LABX-0010 - LABX - VALID, Littoral, Environnement, Télédétection, Géomatique (LETG - Brest), Littoral, Environnement, Télédétection, Géomatique UMR 6554 (LETG), Université de Caen Normandie (UNICAEN), Normandie Université (NU)-Normandie Université (NU)-Université d'Angers (UA)-École pratique des hautes études (EPHE), Université Paris sciences et lettres (PSL)-Université Paris sciences et lettres (PSL)-Université de Brest (UBO)-Université de Rennes 2 (UR2), Université de Rennes (UNIV-RENNES)-Université de Rennes (UNIV-RENNES)-Centre National de la Recherche Scientifique (CNRS)-Institut de Géographie et d'Aménagement Régional de l'Université de Nantes (IGARUN), Université de Nantes (UN)-Université de Nantes (UN)-Université de Caen Normandie (UNICAEN), Université de Nantes (UN)-Université de Nantes (UN), Biologie des Organismes et Ecosystèmes Aquatiques (BOREA), Centre National de la Recherche Scientifique (CNRS)-Université des Antilles (UA)-Muséum national d'Histoire naturelle (MNHN)-Institut de Recherche pour le Développement (IRD)-Sorbonne Université (SU)-Université de Caen Normandie (UNICAEN), Normandie Université (NU)-Normandie Université (NU), Centre National de la Recherche Scientifique (CNRS), Muséum national d'Histoire naturelle (MNHN), Fondation de France, programme 'Les futurs du littoral et de la mer', Projet N° 1940 - TRAFIC, Université Le Havre, Normandie, ANR-11-LABX-0010,DRIIHM / IRDHEI,Dispositif de recherche interdisciplinaire sur les Interactions Hommes-Milieux(2011), Normandie Université (NU)-Normandie Université (NU)-Université d'Angers (UA)-École Pratique des Hautes Études (EPHE), Université Paris sciences et lettres (PSL)-Université Paris sciences et lettres (PSL)-Université de Brest (UBO)-Université de Rennes 2 (UR2)-Centre National de la Recherche Scientifique (CNRS)-Institut de Géographie et d'Aménagement Régional de l'Université de Nantes (IGARUN), and Normandie Université (NU)-Normandie Université (NU)-Muséum national d'Histoire naturelle (MNHN)-Institut de Recherche pour le Développement (IRD)-Sorbonne Université (SU)-Centre National de la Recherche Scientifique (CNRS)-Université des Antilles (UA)
Subjects: Controverses, [SHS.GEO] Humanities and Social Sciences/Geography, Transition écologique, Gouvernance, [SHS.GEO]Humanities and Social Sciences/Geography, Ports -- France, OHM Littoral Caraibe, Conflit d'environnement, Guadeloupe
Abstract: The aim of the presentation is to show the significant evolution of the relationship between the port and its territory under the effect of the change of governance regime linked to the attribution of the status of Grand Port Maritime in 2012, driven by the French port reform of 2008. It aims to discuss the relationship between port development and ecological transition., L'objet de l'intervention est de présenter l'évolution sensible du rapport entre le port et son territoire sous l'effet du changement de régime de gouvernance lié à l'obtention en 2012 du statut de Grand Port Maritime, impulsé par la réforme portuaire de 2008. Elle vise à mettre en discussion les relations entre développement portuaire et transition écologique.
Published: 2020

15. Three-dimensional structural evolution of the cuttlefish Sepia officinalis shell from embryo to adult stages

Author: Charles Le Pabic, Laure Bonnaud-Ponticelli, Gilles Luquet, Julien Derr, and Pascal-Jean Lopez
Subjects: 0106 biological sciences, Cuttlefish, Embryo, Nonmammalian, Sepia, Biomedical Engineering, Biophysics, Shell (structure), Bioengineering, Biology, 01 natural sciences, Biochemistry, Tortuosity, Biomaterials, 03 medical and health sciences, Animal Shells, Liquid diffusion, Animals, 14. Life underwater, Process (anatomy), 030304 developmental biology, 0303 health sciences, 010604 marine biology & hydrobiology, Embryo, Life Sciences–Physics interface, Structural evolution, sense organs, Tomography, X-Ray Computed, Biotechnology
Abstract: Article type: Full length article Three-dimensional structural evolution of the cuttlefish Sepia officinalis shell from embryo to adult stagesThe cuttlefish shell is an internal structure with a composition and general organization unique among molluscs. Its formation and the structure-function relation are explored during Sepia officinalis development, using Computerized Axial Tomography Scanning (CAT-scan) 3D analyses coupled to physical measurements and modelling. In addition to the evolution of the overall form, modifications of the internal structure were identified from the last third embryonic stages to adult. Most of these changes can be correlated to life cycle stages and environmental constraints. Protected by the capsule during embryonic life, the first internal chambers are sustained by isolated pillars formed from the dorsal to the ventral septum. After hatching, formation of pillars appears to be a progressive process from isolated points to interconnected pillars forming a wall-delineated labyrinthine structure. We analysed the interpillar space, the connectivity and the tortuosity of the pillar network. The labyrinthine pillar network is complete just prior to the wintering migration, probably to sustain the need to adapt to high pressure and to allow buoyancy regulation. At that time, the connectivity in the labyrinth is compensated by an increase in tortuosity, most probably to reduce liquid diffusion in the shell. Altogether these results suggest adjustment of internal calcified structure development to both external forces and physiological needs.
Published: 2019

16. Supplementary Figures from Three-dimensional structural evolution of the cuttlefish Sepia officinalis shell from embryo to adult stages

Author: Pabic, Charles Le, Derr, Julien, Luquet, Gilles, Pascal-Jean Lopez, and Bonnaud-Ponticelli, Laure
Subjects: sense organs
Abstract: The cuttlefish shell is an internal structure with a composition and general organization unique among molluscs. Its formation and the structure–function relation are explored during Sepia officinalis development, using Computerized Axial Tomography Scanning (CAT-scan) 3D analyses coupled to physical measurements and modelling. In addition to the evolution of the overall form, modifications of the internal structure were identified from the last third embryonic stages to adult. Most of these changes can be correlated to life cycle stages and environmental constraints. Protected by the capsule during embryonic life, the first internal chambers are sustained by isolated pillars formed from the dorsal to the ventral septum. After hatching, the formation of pillars appears to be a progressive process from isolated points to interconnected pillars forming a wall-delineated labyrinthine structure. We analysed the interpillar space, the connectivity and the tortuosity of the labyrinth. The labyrinthine pillar network is complete just prior to the wintering migration, probably to sustain the need to adapt to high pressure and to allow buoyancy regulation. At that time, the connectivity in the labyrinth is compensated by an increase in tortuosity, most probably to reduce liquid diffusion in the shell. Altogether these results suggest adjustment of internal calcified structure development to both external forces and physiological needs.
Published: 2019
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17. Eye Development in Sepia officinalis Embryo: What the Uncommon Gene Expression Profiles Tell Us about Eye Evolution

Author: Aude Andouche, Pascal-Jean Lopez, Boudjema Imarazene, Laure Bonnaud-Ponticelli, Yann Bassaglia, Biologie des Organismes et Ecosystèmes Aquatiques (BOREA), Université de Caen Normandie (UNICAEN), Normandie Université (NU)-Normandie Université (NU)-Muséum national d'Histoire naturelle (MNHN)-Institut de Recherche pour le Développement (IRD)-Sorbonne Université (SU)-Centre National de la Recherche Scientifique (CNRS)-Université des Antilles (UA), and Université Paris-Est Créteil Val-de-Marne - Paris 12 (UPEC UP12)
Subjects: 0301 basic medicine, Evolution of the eye, genetic structures, Physiology, Gene regulatory network, Biology, Sepia officinalis, lcsh:Physiology, 03 medical and health sciences, Physiology (medical), medicine, Sepia, six, Original Research, Retina, eya, Eye morphogenesis, lcsh:QP1-981, Anatomy, eye diseases, Cell biology, 030104 developmental biology, medicine.anatomical_structure, [SDV.BDD.EO]Life Sciences [q-bio]/Development Biology/Embryology and Organogenesis, rhodopsin, Rhodopsin, eye development, Eye development, biology.protein, dac, sense organs, Visual phototransduction
Abstract: International audience; In metazoans, there is a remarkable diversity of photosensitive structures; their shapes, physiology, optical properties, and development are different. To approach the evolution of photosensitive structures and visual function, cephalopods are particularly interesting organisms due to their most highly centralized nervous system and their camerular eyes which constitute a convergence with those of vertebrates. The eye morphogenesis in numerous metazoans is controlled mainly by a conserved Retinal Determination Gene Network (RDGN) including pax, six, eya, and dac playing also key developmental roles in non-retinal structures and tissues of vertebrates and Drosophila. Here we have identified and explored the role of Sof-dac, Sof-six1/2, Sof-eya in eye morphogenesis, and nervous structures controlling the visual function in Sepia officinalis. We compare that with the already shown expressions in eye development of Sof-otx and Sof-pax genes. Rhodopsin is the pigment responsible for light sensitivity in metazoan, which correlate to correlate visual function and eye development. We studied Sof-rhodopsin expression during retina differentiation. By in situ hybridization, we show that (1) all of the RDGN genes, including Sof-pax6, are expressed in the eye area during the early developmental stages but they are not expressed in the retina, unlike Sof-otx, which could have a role in retina differentiation; (2) Sof-rhodopsin is expressed in the retina just before vision gets functional, from stage 23 to hatching. Our results evidence a role of Sof-six1/2, Sof-eya, and Sof-dac in eye development. However, the gene network involved in the retinal photoreceptor differentiation remains to be determined. Moreover, for the first time, Sof-rhodopsin expression is shown in the embryonic retina of cuttlefish suggesting the evolutionary conservation of the role of rhodopsin in visual phototransduction within metazoans. These findings are correlated with the physiological and behavioral observations suggesting that S. officinalis is able to react to light stimuli from stage 25 of organogenesis on, as soon as the first retinal pigments appear.
Published: 2017
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18. Physiological adjustments and transcriptome reprogramming are involved in the acclimation to salinity gradients in diatoms

Author: Adrien, Bussard, Erwan, Corre, Cédric, Hubas, Evelyne, Duvernois-Berthet, Gildas, Le Corguillé, Laurent, Jourdren, Fanny, Coulpier, Pascal, Claquin, and Pascal Jean, Lopez
Subjects: Diatoms, Salinity, Silicon, Acclimatization, Down-Regulation, Seawater, Photosynthesis, Estuaries, Transcriptome, Carbon
Abstract: Salinity regimes in estuaries and coastal areas vary with river discharge patterns, seawater evaporation, the morphology of the coastal waterways and the dynamics of marine water mixing. Therefore, microalgae have to respond to salinity variations at time scales ranging from daily to annual cycles. Microalgae may also have to adapt to physical alterations that induce the loss of connectivity between habitats and the enclosure of bodies of water. Here, we integrated physiological assays and measurements of morphological plasticity with a functional genomics approach to examine the regulatory changes that occur during the acclimation to salinity in the estuarine diatom Thalassiosira weissflogii. We found that cells exposed to different salinity regimes for a short or long period presented adjustments in their carbon fractions, silicon pools, pigment concentrations and/or photosynthetic parameters. Salinity-induced alterations in frustule symmetry were observed only in the long-term (LT) cultures. Whole transcriptome analyses revealed a down-regulation of nuclear and plastid encoded genes during the LT response and identified only a few regulated genes that were in common between the ST and LT responses. We propose that in diatoms, one strategy for acclimating to salinity gradients and maintaining optimal cellular fitness could be a reduction in the cost of transcription.
Published: 2016

19. RNA-polymerase de T7 : étude du moteur moléculaire par technique de molécule unique

Author: Thomen, P., Pascal Jean Lopez, Bockelmann, U., Guillerez, J., Dreyfus, M., Heslot, F., Laboratoire Pierre Aigrain (LPA), Université Pierre et Marie Curie - Paris 6 (UPMC)-Université Paris Diderot - Paris 7 (UPD7)-Fédération de recherche du Département de physique de l'Ecole Normale Supérieure - ENS Paris (FRDPENS), École normale supérieure - Paris (ENS Paris), Université Paris sciences et lettres (PSL)-Université Paris sciences et lettres (PSL)-Centre National de la Recherche Scientifique (CNRS)-École normale supérieure - Paris (ENS Paris), Université Paris sciences et lettres (PSL)-Université Paris sciences et lettres (PSL)-Centre National de la Recherche Scientifique (CNRS)-Centre National de la Recherche Scientifique (CNRS), Fédération de recherche du Département de physique de l'Ecole Normale Supérieure - ENS Paris (FRDPENS), École normale supérieure - Paris (ENS-PSL), Université Paris sciences et lettres (PSL)-Université Paris sciences et lettres (PSL)-Centre National de la Recherche Scientifique (CNRS)-École normale supérieure - Paris (ENS-PSL), Université Paris sciences et lettres (PSL)-Université Paris sciences et lettres (PSL)-Centre National de la Recherche Scientifique (CNRS)-Université Pierre et Marie Curie - Paris 6 (UPMC)-Université Paris Diderot - Paris 7 (UPD7)-Centre National de la Recherche Scientifique (CNRS), and Berroir, Jean-Marc
Subjects: [PHYS.COND.CM-GEN] Physics [physics]/Condensed Matter [cond-mat]/Other [cond-mat.other], [PHYS.COND.CM-GEN]Physics [physics]/Condensed Matter [cond-mat]/Other [cond-mat.other]
Published: 2008

20. Silicon Biomineralization

Author: Pascal Jean Lopez
Published: 2003
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21. Biogenic Silica Patterning: Simple Chemistry or Subtle Biology?

Author: Thibaud Coradin and Pascal Jean Lopez
Published: 2003
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22. Together throughout the year: seasonal patterns of bacterial and eukaryotic microbial communities in a macrotidal estuary

Author: Vincent Hervé, Jérôme Morelle, Josie Lambourdière, Pascal Jean Lopez, and Pascal Claquin
Subjects: Metabarcoding, Seine River, Longitudinal gradient, Season, Trophic interactions, Environmental sciences, GE1-350, Microbiology, QR1-502
Abstract: Abstract Background Estuaries are complex ecosystems linking river and marine environments, where microorganisms play a key role in maintaining ecosystem functions. In the present study, we investigated monthly 8 sites at two depth layers and over a one-year period the bacterial and eukaryotic community dynamics along the Seine macrotidal estuary (Normandy, France). To date, the taxonomy of the microbial diversity present in this anthropized estuary remains elusive and the drivers of the microbial community structure are still unknown. Results The metabarcoding analysis of 147 samples revealed both a high bacterial and eukaryotic diversity, dominated by Proteobacteria, Bacteriodota, Actinobacteriota and Bacillariophyta, Spirotrichea, Dinophyceae, respectively. Along the estuary we only detected significant spatial patterns in the bacterial and eukaryotic community compositions for three and two months out of twelve, respectively. However, we found a clear seasonal effect on the diversity of both microbial communities driven by physical and chemical variables that were fluctuating over the year (temperature, irradiance, river flow). Biotic associations were also significant drivers of both alpha and beta diversity. Throughout the year, we identified a diverse and abundant core microbiota composed of 74 bacterial and 41 eukaryotic OTUs. These regionally abundant species include habitat generalists encompassing heterotrophs, phototrophs and consumers. Yet, many of these core OTUs remain taxonomically and functionally poorly assigned. Conclusions This molecular survey represents a milestone in the understanding of macrotidal estuary dynamics and the Seine ecosystem, through the identification of putative markers of ecosystem functioning. It also identifies seasons and biotic associations as main drivers of the Seine estuary microbiota and reveals the importance of a core microbiota throughout the year.
Published: 2025
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23. Diversity and evolution of tyrosinase enzymes involved in the adhesive systems of mussels and tubeworms

Author: Emilie Duthoo, Jérôme Delroisse, Barbara Maldonado, Fabien Sinot, Cyril Mascolo, Ruddy Wattiez, Pascal Jean Lopez, Cécile Van de Weerdt, Matthew J. Harrington, and Patrick Flammang
Subjects: Zoology, Biochemistry, Evolutionary biology, Phylogenetics, Science
Abstract: Summary: Mussels and tubeworms have evolved similar adhesive systems to cope with the hydrodynamics of intertidal environments. Both secrete adhesive proteins rich in DOPA, a post-translationally modified amino acid playing essential roles in their permanent adhesion. DOPA is produced by the hydroxylation of tyrosine residues by tyrosinase enzymes, which can also oxidize it further into dopaquinone. We have compiled a catalog of the tyrosinases potentially involved in the adhesive systems of Mytilus edulis and Sabellaria alveolata. Some were shown to be expressed in the adhesive glands, with a high gland specificity in mussels but not in tubeworms. The diversity of tyrosinases identified in the two species suggests the coexistence of different enzymatic activities and substrate specificities. However, the exact role of the different enzymes needs to be further investigated. Phylogenetic analyses support the hypothesis of independent expansions and parallel evolution of tyrosinases involved in DOPA-based adhesion in both lineages.
Published: 2024
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24. De l’emprise à l’empreinte : cartographier la donnée AIS pour qualifier l’occupation de l’espace maritime caribéen

Author: Iwan Le Berre, Eric Foulquier, Damien Le Guyader, Clément Iphar, Manuel Sahuquet, and Pascal Jean Lopez
Subjects: cartography, sea shipping and transportation, disaggregated approach, human pressure, Geography (General), G1-922
Abstract: This article introduces the inaugural utilization of an extensive database designed to characterize the presence of merchant ships in the Caribbean maritime region. The occupation of this space by merchant vessels is highly diverse, reflecting a wide range of maritime activities and ship types. To capture the varied geographies that emerge from this diversity, our study employs a detailed analysis facilitated by AIS (Automatic Identification System) data on maritime traffic. Through the development of a comprehensive database that integrates AIS data with ship identification and port terminal profiles, we have conducted an in-depth examination of ship movements throughout an entire year within the Greater Caribbean Region, mapping their primary routes and ports of call. Our findings demonstrate that the spatial footprint of maritime transportation varies according to the type of goods being traded (such as dry or liquid bulk, containers, inter-island cruises and passengers, or service vessels). This database serves as a valuable tool for enhancing our understanding of the environmental impacts associated with different maritime sectors, both at sea, along coastlines, and in port regions, on ecosystems, coastal areas, and local communities.
Published: 2024
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25. Kakila database: Towards a FAIR community approved database of cetacean presence in the waters of the Guadeloupe Archipelago, based on citizen science

Author: Lorraine Coché, Elie Arnaud, Laurent Bouveret, Romain David, Eric Foulquier, Nadège Gandilhon, Etienne Jeannesson, Yvan Le Bras, Emilie Lerigoleur, Pascal Jean Lopez, Bénédicte Madon, Julien Sananikone, Maxime Sèbe, Iwan Le Berre, and Jean-Luc Jung
Subjects: cetaceans, citizen science, observation, database, Biology (General), QH301-705.5
Abstract: In the French West Indies, more than 20 species of cetaceans have been observed over the last decades. The recognition of this hot spot of biodiversity of marine mammals observed in the French Exclusive Economic Zone of the West Indies motivated the French government to create in 2010 a marine protected area (MPA) dedicated to the conservation of marine mammals: the Agoa sanctuary. Threats that cetacean populations face are multiple but well-documented. Cetacean conservation can only be achieved if relevant and reliable data are available, starting by occurrence data. In the Guadeloupe archipelago, and in addition to some data collected by the Agoa sanctuary, occurrence data are mainly available through the contribution of citizen science and of local stakeholders (i.e., non-profit organizations (NPO) and whale-watchers). However, no observation network has been coordinated and no standards exist for cetacean presence data collection and management.In recent years, several whale watchers and NPOs regularly collected cetacean observation data around the Guadeloupe archipelago. These observations are highly valuable, often made by experienced observers able to accurately distinguish between species, and some of them were used for scientific targeted studies Stevick et al. 2016, Heenehan et al. 2019, Stevick et al. 2018, Kennedy et al. 2014. Our objective was to gather datasets from three Guadeloupean whale watchers, two NPOs and the Agoa sanctuary, that agreed to share their data. These heterogeneous data went through a careful process of curation and standardization in order to create a new extended database, using a newly designed metadata set. This aggregated dataset contains a total of 4,704 records of 21 species collected in the Guadeloupe Archipelago from 2000 to 2019. The database was called Kakila ("who is there?" in Guadeloupean Creole). The Kakila database was developed following the FAIR principles with the ultimate objective of ensuring sustainability. All these data were transferred into the PNDB repository (Pole National de Données de Biodiversité, Biodiversity French Data Hub, https://www.pndb.fr).In the Agoa sanctuary and surrounding waters, marine mammals have to interact with increasing anthropogenic pressure from growing human activities. In this context, the Kakila database fulfils the need for an organised system to structure marine mammal occurrences collected by multiple local stakeholders with a common objective: contribute to the knowledge and conservation of cetaceans living in the French Antilles waters. Much needed data analysis will enable to identify high cetacean presence areas, to document the presence of rarer species, and to determine areas of possible negative interactions with anthropogenic activities.
Published: 2021
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26. Multiparametric analyses reveal the pH-dependence of silicon biomineralization in diatoms.

Author: Vincent Hervé, Julien Derr, Stéphane Douady, Michelle Quinet, Lionel Moisan, and Pascal Jean Lopez
Subjects: Medicine, Science
Abstract: Diatoms, the major contributors of the global biogenic silica cycle in modern oceans, account for about 40% of global marine primary productivity. They are an important component of the biological pump in the ocean, and their assemblage can be used as useful climate proxies; it is therefore critical to better understand the changes induced by environmental pH on their physiology, silicification capability and morphology. Here, we show that external pH influences cell growth of the ubiquitous diatom Thalassiosira weissflogii, and modifies intracellular silicic acid and biogenic silica contents per cell. Measurements at the single-cell level reveal that extracellular pH modifications lead to intracellular acidosis. To further understand how variations of the acid-base balance affect silicon metabolism and theca formation, we developed novel imaging techniques to measure the dynamics of valve formation. We demonstrate that the kinetics of valve morphogenesis, at least in the early stages, depends on pH. Analytical modeling results suggest that acidic conditions alter the dynamics of the expansion of the vesicles within which silica polymerization occurs, and probably its internal pH. Morphological analysis of valve patterns reveals that acidification also reduces the dimension of the nanometric pores present on the valves, and concurrently overall valve porosity. Variations in the valve silica network seem to be more correlated to the dynamics and the regulation of the morphogenesis process than the silicon incorporation rate. These multiparametric analyses from single-cell to cell-population levels demonstrate that several higher-level processes are sensitive to the acid-base balance in diatoms, and its regulation is a key factor for the control of pattern formation and silicon metabolism.
Published: 2012
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27. Genome-wide transcriptome analyses of silicon metabolism in Phaeodactylum tricornutum reveal the multilevel regulation of silicic acid transporters.

Author: Guillaume Sapriel, Michelle Quinet, Marc Heijde, Laurent Jourdren, Véronique Tanty, Guangzuo Luo, Stéphane Le Crom, and Pascal Jean Lopez
Subjects: Medicine, Science
Abstract: BACKGROUND:Diatoms are largely responsible for production of biogenic silica in the global ocean. However, in surface seawater, Si(OH)(4) can be a major limiting factor for diatom productivity. Analyzing at the global scale the genes networks involved in Si transport and metabolism is critical in order to elucidate Si biomineralization, and to understand diatoms contribution to biogeochemical cycles. METHODOLOGY/PRINCIPAL FINDINGS:Using whole genome expression analyses we evaluated the transcriptional response to Si availability for the model species Phaeodactylum tricornutum. Among the differentially regulated genes we found genes involved in glutamine-nitrogen pathways, encoding putative extracellular matrix components, or involved in iron regulation. Some of these compounds may be good candidates for intracellular intermediates involved in silicic acid storage and/or intracellular transport, which are very important processes that remain mysterious in diatoms. Expression analyses and localization studies gave the first picture of the spatial distribution of a silicic acid transporter in a diatom model species, and support the existence of transcriptional and post-transcriptional regulations. CONCLUSIONS/SIGNIFICANCE:Our global analyses revealed that about one fourth of the differentially expressed genes are organized in clusters, underlying a possible evolution of P. tricornutum genome, and perhaps other pennate diatoms, toward a better optimization of its response to variable environmental stimuli. High fitness and adaptation of diatoms to various Si levels in marine environments might arise in part by global regulations from gene (expression level) to genomic (organization in clusters, dosage compensation by gene duplication), and by post-transcriptional regulation and spatial distribution of SIT proteins.
Published: 2009
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27 results on '"Pascal-Jean Lopez"'

1. eDNA-based survey of the marine vertebrate biodiversity off the west coast of Guadeloupe (French West Indies)

2. Physical properties of epilithic river biofilm as a new lead to perform pollution bioassessments in overseas territories

3. Eye Development in Sepia officinalis Embryo: What the Uncommon Gene Expression Profiles Tell Us about Eye Evolution

4. Les Observatoires Hommes-Milieux et le LabEx DRIIHM

5. Local Food Systems under Global Influence: The Case of Food, Health and Environment in Five Socio-Ecosystems

6. Arsenic and chlordecone contamination and decontamination toxicokinetics in Sargassum sp

7. The mangroves in Guadeloupe: a suspended ecosystem under anthropic pressures

8. Temporal pesticide dynamics alter specific eukaryotic taxa in a coastal transition zone

9. Kakila database: Towards a FAIR community approved database of cetacean presence in the waters of the Guadeloupe Archipelago, based on citizen science

10. Pairing AIS data and underwater topography to assess maritime traffic pressures on cetaceans: Case study in the Guadeloupean waters of the Agoa sanctuary

11. L'Observatoire Hommes-Milieux Littoral Caraïbe, un dispositif de recherche participative sur le fait portuaire en Guadeloupe (Antilles françaises)

12. Sargassum Differentially Shapes the Microbiota Composition and Diversity at Coastal Tide Sites and Inland Storage Sites on Caribbean Islands

13. Baleines et dauphins : des belles espèces sentinelles à étudier dans le cadre d'un OHM littoral, mais d'un abord bien complexe

14. De la conflictualité sociale à la controverse environnementale. Les mutations récentes des relations port-territoire à Pointe-à-Pitre (2004-2018)

15. Three-dimensional structural evolution of the cuttlefish Sepia officinalis shell from embryo to adult stages

16. Supplementary Figures from Three-dimensional structural evolution of the cuttlefish Sepia officinalis shell from embryo to adult stages

17. Eye Development in Sepia officinalis Embryo: What the Uncommon Gene Expression Profiles Tell Us about Eye Evolution

18. Physiological adjustments and transcriptome reprogramming are involved in the acclimation to salinity gradients in diatoms

19. RNA-polymerase de T7 : étude du moteur moléculaire par technique de molécule unique

20. Silicon Biomineralization

21. Biogenic Silica Patterning: Simple Chemistry or Subtle Biology?

22. Together throughout the year: seasonal patterns of bacterial and eukaryotic microbial communities in a macrotidal estuary

23. Diversity and evolution of tyrosinase enzymes involved in the adhesive systems of mussels and tubeworms

24. De l’emprise à l’empreinte : cartographier la donnée AIS pour qualifier l’occupation de l’espace maritime caribéen

25. Kakila database: Towards a FAIR community approved database of cetacean presence in the waters of the Guadeloupe Archipelago, based on citizen science

26. Multiparametric analyses reveal the pH-dependence of silicon biomineralization in diatoms.

27. Genome-wide transcriptome analyses of silicon metabolism in Phaeodactylum tricornutum reveal the multilevel regulation of silicic acid transporters.

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