Brandt Miriam, Pradillon Florence, Trouche Blandine, Henry Nicolas, Cambon Bonavita Marie-Anne, Cueff-Gauchard Valerie, Wincker Patrick, Belser Caroline, Poulain Julie, de Vargas Colomban, Arnaud-Haond Sophie, Zeppilli Daniela (2020). ABYSS sampling comparisons. IFREMER. https://doi.org/10.12770/2deb785a-74c5-4b9d-84d6-82a81e0dda6d

Brandt Miriam, Trouche Blandine, Henry Nicolas, Liautard-Haag Cathy, Maignien Lois, De Vargas Colomban, Wincker Patrick, Poulain Julie, Zeppilli Daniela, Arnaud-Haond Sophie (2020). An Assessment of Environmental Metabarcoding Protocols Aiming at Favoring Contemporary Biodiversity in Inventories of Deep-Sea Communities . Frontiers In Marine Science , 7, 234 (12p.) . Publisher's official version : https://doi.org/10.3389/fmars.2020.00234 , Open Access version : https://archimer.ifremer.fr/doc/00630/74165/

Morato Telmo, González‐irusta José‐manuel, Dominguez‐carrió Carlos, Wei Chih‐lin, Davies Andrew, Sweetman Andrew K., Taranto Gerald H., Beazley Lindsay, García‐alegre Ana, Grehan Anthony, Laffargue Pascal, Murillo Francisco Javier, Sacau Mar, Vaz Sandrine, Kenchington Ellen, Arnaud-Haond Sophie, Callery Oisín, Chimienti Giovanni, Cordes Erik, Egilsdottir Hronn, Freiwald André, Gasbarro Ryan, Gutiérrez‐zárate Cristina, Gianni Matthew, Gilkinson Kent, Wareham Hayes Vonda E., Hebbeln Dierk, Hedges Kevin, Henry Lea‐anne, Johnson David, Koen‐alonso Mariano, Lirette Cam, Mastrototaro Francesco, Menot Lenaick, Molodtsova Tina, Durán Muñoz Pablo, Orejas Covadonga, Pennino Maria Grazia, Puerta Patricia, Ragnarsson Stefán Á., Ramiro‐sánchez Berta, Rice Jake, Rivera Jesús, Roberts J. Murray, Ross Steve W., Rueda José L., Sampaio Íris, Snelgrove Paul, Stirling David, Treble Margaret A., Urra Javier, Vad Johanne, Oevelen Dick, Watling Les, Walkusz Wojciech, Wienberg Claudia, Woillez Mathieu, Levin Lisa A., Carreiro‐silva Marina (2020). Climate‐induced changes in the suitable habitat of cold‐water corals and commercially important deep‐sea fishes in the North Atlantic . Global Change Biology , 26(4), 2181-2202 . Publisher's official version : https://doi.org/10.1111/gcb.14996 , Open Access version : https://archimer.ifremer.fr/doc/00610/72211/

Puerta Patricia, Johnson Clare, Carreiro-Silva Marina, Henry Lea-Anne, Kenchington Ellen, Morato Telmo, Kazanidis Georgios, Luis Rueda Jose, Urra Javier, Ross Steve, Wei Chih-Lin, Manuel Gonzalez-Irusta Jose, Arnaud-Haond Sophie, Orejas Covadonga (2020). Influence of Water Masses on the Biodiversity and Biogeography of Deep-Sea Benthic Ecosystems in the North Atlantic . Frontiers In Marine Science , 7(239), 25p. Publisher's official version : https://doi.org/10.3389/fmars.2020.00239 , Open Access version : https://archimer.ifremer.fr/doc/00628/74006/

Usandizaga Sara, Buschmann Alejandro H., Camus Carolina, Kappes José Luis, Arnaud-Haond Sophie, Mauger Stéphane, Valero Myriam, Guillemin Marie Laure Better off alone? Compared performance of monoclonal and polyclonal stands of a cultivated red alga growth . Evolutionary Applications IN PRESS . Publisher's official version : https://doi.org/10.1111/eva.12908 , Open Access version : https://archimer.ifremer.fr/doc/00605/71727/

Arnaud-Haond Sophie, Stoeckel Solenn, Bailleul Diane New insights into the population genetics of partially clonal organisms: when seagrass data meet theoretical expectations . Molecular Ecology IN PRESS . https://doi.org/10.1111/mec.15532

Chavagnac Valérie, Sarradin Pierre-Marie (2019). Intermediate Scientific report “Working with two deep-sea ROVs” (French Oceanographic Fleet) . https://archimer.ifremer.fr/doc/00594/70657/

Cruaud Perrine, Decker Carole, Olu Karine, Arnaud-Haond Sophie, Papot Claire, Le Baut Jocelyn, Vigneron Adrien, Khripounoff Alexis, Gayet Nicolas, Cathalot Cecile, Caprais Jean-Claude, Pignet Patricia, Godfroy Anne, Cambon Bonavita Marie-Anne (2019). Ecophysiological differences between vesicomyid species and metabolic capabilities of their symbionts influence distribution patterns of the deep‐sea clams . Marine Ecology-an Evolutionary Perspective , 40(3), e12541 (16p.) . Publisher's official version : https://doi.org/10.1111/maec.12541 , Open Access version : https://archimer.ifremer.fr/doc/00493/60426/

Boavida Joana, Becheler Ronan, Choquet Marvin, Frank Norbert, Taviani Marco, Bourillet Jean-Francois, Meistertzheim Anne‐leila, Grehan Anthony, Savini Alessandra, Arnaud-Haond Sophie (2019). Out of the Mediterranean? Post‐glacial colonization pathways varied among cold‐water coral species . Journal Of Biogeography , 46(5), 915-931 . Publisher's official version : https://doi.org/10.1111/jbi.13570 , Open Access version : https://archimer.ifremer.fr/doc/00487/59864/

Riquet Florentine, Liautard-Haag Cathy, Woodall Lucy, Bouza Carmen, Louisy Patrick, Hamer Bojan, Otero-Ferrer Francisco, Aublanc Philippe, Beduneau Vickie, Briard Olivier, El Ayari Tahani, Hochscheid Sandra, Belkhir Khalid, Arnaud-Haond Sophie, Gagnaire Pierre-Alexandre, Bierne Nicolas (2019). Parallel pattern of differentiation at a genomic island shared between clinal and mosaic hybrid zones in a complex of cryptic seahorse lineages . Evolution , 73(4), 817-835 . https://doi.org/10.1111/evo.13696

Poisson Francois, Arnaud-Haond Sophie, Demarcq Herve, Metral Luisa, Brisset Blandine, Cornella Delphine, Wending Bertrand (2019). French Bluefin Tuna Longline Fishery Bycatch Programme . In Komatsu T., Ceccaldi HJ., Yoshida J., Prouzet P., Henocque Y. (eds) Oceanography Challenges to Future Earth. Springer, Cham. ISBN 978-3-030-00137-7 ISBN 978-3-030-00138-4 (eBook) https://doi.org/10.1007/978-3-030-00138-4. Chap. 31 pp.401-405 (Springer Nature) .

Boavida Joana, Becheler Ronan, Addamo Anna Maria, Sylvestre Florent, Arnaud-Haond Sophie (2019). Past, Present and Future Connectivity of Mediterranean Cold-Water Corals: Patterns, Drivers and Fate in a Technically and Environmentally Changing World . In Orejas C., Jiménez C. (eds) Mediterranean Cold-Water Corals: Past, Present and Future. Understanding the Deep-Sea Realms of Coral. 2019. Print ISBN 978-3-319-91607-1 Online ISBN 978-3-319-91608-8 . Part of the Coral Reefs of the World book series (CORW, volume 9). Chap.31, pp.357-372 (Springer Science and Business Media LLC) .

Bierne Nicolas, Arnaud-Haond Sophie (2019). Comprendre et inférer la connectivité marine pour mieux gérer les ressources . Les dossiers d'AGROPOLIS International. Compétences de la communauté scientifique en région Occitanie , (24), 33 . Open Access version : https://archimer.ifremer.fr/doc/00487/59820/

Dussart Caroline, Brandt Miriam, Quintric Laure, Arnaud-Haond Sophie (2018). Projet Pourquoi pas les abysses – WP2. Livrables : D2.6.9 Installation des suites bioinformatiques sous Datarmo. D2-6-10 Comparaison des différentes méthodes de regroupement (« clustering ») et de correction des erreurs de sequençage. D2.6.11 Script d’analyses . D2.6.9 ; D2.6.10 ; D.2.6.11 .

Menot Lenaick, Van Den Beld Inge, Arnaud-Haond Sophie, Bourillet Jean-Francois, Davies J.S., Guillaumont Brigitte, Olu Karine (2018). The Ecological Role of Patchy Cold-Water Coral Habitats: Does Coral Density Influence Local Biodiversity in Submarine Canyons of the Bay of Biscay? DSBS 2018 - 15th Deep-Sea Biology Symposium. 09 au 14/09/2018, Monterey (Californie) . https://archimer.ifremer.fr/doc/00469/58077/

Bailleul Diane, Mackenzie Alicia, Sacchi Olivier, Poisson Francois, Bierne Nicolas, Arnaud-Haond Sophie (2018). Large-scale genetic panmixia in the blue shark ( Prionace glauca ): a single worldwide population, or a genetic lag-time effect of the “grey zone” of differentiation? Evolutionary Applications , 11(5), 614-630 . Publisher's official version : https://doi.org/10.1111/eva.12591 , Open Access version : https://archimer.ifremer.fr/doc/00417/52866/

Van Dover C. L., Arnaud-Haond Sophie, Gianni M., Helmreich S., Huber J. A., Jaeckel A. L., Metaxas A., Pendleton L. H., Petersen S., Ramirez-Llodra E., Steinberg P. E., Tunnicliffe V., Yamamoto H. (2018). Scientific rationale and international obligations for protection of active hydrothermal vent ecosystems from deep-sea mining . Marine Policy , 90, 20-28 . Publisher's official version : https://doi.org/10.10164/j.marpol.2018.01.020 , Open Access version : https://archimer.ifremer.fr/doc/00425/53627/

Arnaud-Haond Sophie, Van Den Beld Inge, Becheler Ronan, Orejas C., Menot Lenaick, Frank N., Grehan A., Bourillet Jean-Francois (2017). Two “pillars” of cold-water coral reefs along Atlantic European margins: Prevalent association of Madrepora oculata with Lophelia pertusa, from reef to colony scale . Deep-sea Research Part Ii-topical Studies In Oceanography , 145, 110-119 . Publisher's official version : https://doi.org/10.1016/j.dsr2.2015.07.013 , Open Access version : https://archimer.ifremer.fr/doc/00274/38530/

Becheler Ronan, Cassone Anne-Laure, Noel Philippe, Mouchel Olivier, Morrison Cheryl L., Arnaud-Haond Sophie (2017). Low incidence of clonality in cold water corals revealed through the novel use of standardized protocol adapted to deep sea sampling . Deep-sea Research Part Ii-topical Studies In Oceanography , 145, 120-130 . Publisher's official version : https://doi.org/10.1016/j.dsr2.2015.11.013 , Open Access version : https://archimer.ifremer.fr/doc/00300/41117/

Van Den Beld Inge, Guillaumont Brigitte, Menot Lenaick, Bayle Christophe, Arnaud-Haond Sophie, Bourillet Jean-Francois (2017). Marine litter in submarine canyons of the Bay of Biscay . Deep-sea Research Part Ii-topical Studies In Oceanography , 145, 142-152 . Publisher's official version : https://doi.org/10.1016/j.dsr2.2016.04.013 , Open Access version : https://archimer.ifremer.fr/doc/00332/44363/

Becheler Ronan, Masson Jean-Pierre, Arnaud-Haond Sophie, Halkett Fabien, Mariette Stephanie, Guillemin Marie-Laure, Valero Myriam, Destombe Christophe, Stoeckel Solenn (2017). ClonEstiMate, a Bayesian method for quantifying rates of clonality of populations genotyped at two-time steps . Molecular Ecology Resources , 17(6), e251-e267 . Publisher's official version : https://doi.org/10.1111/1755-0998.12698 , Open Access version : https://archimer.ifremer.fr/doc/00390/50187/

Grehan Anthony J., Arnaud-Haond Sophie, D'Onghia Gianfranco, Savini Alessandra, Yesson Chris (2017). Towards ecosystem based management and monitoring of the deep Mediterranean, North-East Atlantic and Beyond . Deep-sea Research Part Ii-topical Studies In Oceanography , 145, 1-7 . https://doi.org/10.1016/j.dsr2.2017.09.014

Davies J. S., Guillaumont Brigitte, Tempera Fernando, Vertino A., Beuck L., Olafsdottir S. H., Smith C. J., Fossa J. H., Van Den Beld Inge, Savini A., Rengstorf A., Bayle Christophe, Bourillet Jean-Francois, Arnaud-Haond Sophie, Grehan A. (2017). A new classification scheme of European cold-water coral habitats: implications for ecosystem-based management of the deep sea . Deep-sea Research Part Ii-topical Studies In Oceanography , 145, 102-109 . Publisher's official version : https://doi.org/10.1016/j.dsr2.2017.04.014 , Open Access version : https://archimer.ifremer.fr/doc/00383/49474/

Rabouille C., Olu Karine, Baudin F., Khripounoff Alexis, Dennielou Bernard, Arnaud-Haond Sophie, Babonneau Nathalie, Bayle Christophe, Beckler J., Bessette Sandrine, Bombled B., Bourgeois S., Brandily Christophe, Caprais Jean-Claude, Cathalot Cecile, Charlier K., Corvaisier R., Croguennec Chantal, Cruaud Perrine, Decker Carole, Droz L., Gayet Nicolas, Godfroy Anne, Hourdez S., Le Bruchec J., Saout Johan, Le Saout Marie-Helene, Lesongeur Francoise, Martinez P., Mejanelle L., Michalopoulos P., Mouchel Olivier, Noel Philippe, Pastor Lucie, Picot M., Pignet Patricia, Pozzato L., Pruski A. M., Rabiller Manuella, Raimonet M., Ragueneau O., Reyss J. L., Rodier Philippe, Ruesch Blandine, Ruffine Livio, Savignac F., Senyarich C., Schnyder J., Sen Arunima, Stetten E., Sun Ming Yi, Taillefert M., Teixeira S., Tisnerat-Laborde N., Toffin Laurent, Tourolle Julie, Toussaint F., Vetion G., Jouanneau J. M., Bez M. (2017). The Congolobe project, a multidisciplinary study of Congo deep-sea fan lobe complex: Overview of methods, strategies, observations and sampling . Deep-sea Research Part Ii-topical Studies In Oceanography , 142, 7-24 . Publisher's official version : https://doi.org/10.1016/j.dsr2.2016.05.006 , Open Access version : https://archimer.ifremer.fr/doc/00335/44580/

Arnaud-Haond Sophie, Aires Tania, Candeias R., Teixeira S. J. L., Duarte C. M., Valero M., Serrao E. A. (2017). Entangled fates of holobiont genomes during invasion: nested bacterial and host diversities in Caulerpa taxifolia . Molecular Ecology , 26(8), 2379-2391 . Publisher's official version : https://doi.org/10.1111/mec.14030 , Open Access version : https://archimer.ifremer.fr/doc/00369/48058/

Cowart Dominique, Durand Lucile, Cambon-Bonavita Marie-Anne, Arnaud-Haond Sophie (2017). Investigation of bacterial communities within the digestive organs of the hydrothermal vent shrimp Rimicaris exoculata provide insights into holobiont geographic clustering . Plos One , 12(3), e0172543 (1-22) . Publisher's official version : https://doi.org/10.1371/journal.pone.0172543 , Open Access version : https://archimer.ifremer.fr/doc/00376/48705/

Arnaud-Haond Sophie, Pradillon Florence (2017). « Pourquoi pas les abysses ? » Le projet de recherche de l’Ifremer pour mieux connaître la biodiversité des fonds marins . Annales des Mines - Responsabilité et environnement , (1), 40-42 .

Van Den Beld Inge, Bourillet Jean-Francois, Arnaud-Haond Sophie, De Chambure Laurent, Davies Jaime S, Guillaumont Brigitte, Olu Karine, Menot Lenaick (2017). Cold-water coral habitats in submarine canyons of the Bay of Biscay . Frontiers In Marine Science , 4(118), 1-30 . Publisher's official version : https://doi.org/10.3389/fmars.2017.00118 , Open Access version : https://archimer.ifremer.fr/doc/00382/49343/

Bierne Nicolas, Bonhomme Francois, Arnaud-Haond Sophie (2016). Dedicated population genomics for the silent world: the specific questions of marine population genetics . Current Zoology , 62(6), 545-550 . Publisher's official version : https://doi.org/10.1093/cz/zow107 , Open Access version : https://archimer.ifremer.fr/doc/00374/48545/

Bailleul Diane, Stoeckel Solenn, Arnaud-Haond Sophie (2016). RClone: a package to identify MultiLocus Clonal Lineages and handle clonal datasets in R . Methods In Ecology And Evolution , 7(8), 966-970 . https://doi.org/10.1111/2041-210X.12550

Meistertzheim Anne. -Leila, Lartaud Franck, Arnaud-Haond Sophie, Kalenitchenko Dimitri, Bessalam Manon, Le Bris Nadine, Galand Pierre E. (2016). Patterns of bacteria-host associations suggest different ecological strategies between two reef building cold-water coral species . Deep-sea Research Part I-oceanographic Research Papers , 114, 12-22 . Publisher's official version : https://doi.org/10.1016/j.dsr.2016.04.013 , Open Access version : https://archimer.ifremer.fr/doc/00332/44362/

Reichel Katja, Masson Jean-Pierre, Malrieu Florent, Arnaud-Haond Sophie, Stoeckel Solenn (2016). Rare sex or out of reach equilibrium? The dynamics of F-IS in partially clonal organisms . Bmc Genetics , 17(76), 1-16 . Publisher's official version : https://doi.org/10.1186/s12863-016-0388-z , Open Access version : https://archimer.ifremer.fr/doc/00344/45474/

Dubois Melodie, Rossi Vincent, Ser-Giacomi Enrico, Arnaud-Haond Sophie, Lopez Cristobal, Hernandez-Garcia Emilio (2016). Linking basin-scale connectivity, oceanography and population dynamics for the conservation and management of marine ecosystems . Global Ecology And Biogeography , 25(5), 503-515 . Publisher's official version : https://doi.org/10.1111/geb.12431 , Open Access version : https://archimer.ifremer.fr/doc/00311/42201/

Ranjbar Mohammad Sharif, Zolgharnien Hossein, Yavari Vahid, Archangi Bita, Salari Mohammad Ali, Arnaud-Haond Sophie, Cunha Regina L. (2016). Rising the Persian Gulf Black-Lip Pearl Oyster to the Species Level: Fragmented Habitat and Chaotic Genetic Patchiness in Pinctada persica . Evolutionary Biology , 43(1), 131-143 . Publisher's official version : https://doi.org/10.1007/s11692-015-9356-1 , Open Access version : https://archimer.ifremer.fr/doc/00319/43040/

Boavida Joana, Paulo Diogo, Aurelle Didier, Arnaud-Haond Sophie, Marschal Christian, Reed John, Goncalves Jorge M. S., Serrao Ester A. (2016). A Well-Kept Treasure at Depth: Precious Red Coral Rediscovered in Atlantic Deep Coral Gardens (SW Portugal) after 300 Years . Plos One , 11(1), e0147228 . Publisher's official version : https://doi.org/10.1371/journal.pone.0147228 , Open Access version : https://archimer.ifremer.fr/doc/00314/42498/

Durand Lucile, Roumagnac Marie, Cueff-Gauchard Valerie, Jan Cyrielle, Guri Mathieu, Tessier Claire, Haond Marine, Crassous Philippe, Zbinden Magali, Arnaud-Haond Sophie, Cambon-Bonavita Marie-Anne (2015). Biogeographical distribution of Rimicaris exoculata resident gut epibiont communities along the Mid-Atlantic Ridge hydrothermal vent sites . Fems Microbiology Ecology , 91(10), 1-15 . Publisher's official version : https://doi.org/10.1093/femsec/fiv101 , Open Access version : https://archimer.ifremer.fr/doc/00288/39890/

Gagnaire Pierre-Alexandre, Broquet Thomas, Aurelle Didier, Viard Frederique, Souissi Ahmed, Bonhomme Francois, Arnaud-Haond Sophie, Bierne Nicolas (2015). Using neutral, selected, and hitchhiker loci to assess connectivity of marine populations in the genomic era . Evolutionary Applications , 8(8), 769-786 . Publisher's official version : https://doi.org/10.1111/eva.12288 , Open Access version : https://archimer.ifremer.fr/doc/00275/38592/

Aires Tania, Moalic Yann, Serrao Ester, Arnaud-Haond Sophie (2015). Hologenome theory supported by cooccurrence networks of species-specific bacterial communities in siphonous algae (Caulerpa) . Fems Microbiology Ecology , 91(7), 1-14 . Publisher's official version : https://doi.org/10.1093/femsec/fiv067 , Open Access version : https://archimer.ifremer.fr/doc/00277/38800/

Cowart Dominique A., Pinheiro Miguel, Mouchel Olivier, Maguer Marion, Grall Jacques, Mine Jacques, Arnaud-Haond Sophie (2015). Metabarcoding is powerful yet still blind: a comparative analysis of morphological and molecular surveys of seagrass communities . Plos One , 10(2), 1-26 . Publisher's official version : https://doi.org/10.1371/journal.pone.0117562 , Open Access version : https://archimer.ifremer.fr/doc/00255/36596/

Pante Eric, Puillandre Nicolas, Viricel Amélia, Arnaud-Haond Sophie, Aurelle Didier, Castelin Magalie, Chenuil Anne, Destombe Christophe, Forcioli Didier, Valero Myriam, Viard Frederique, Samadi Sarah (2015). Species are hypotheses: avoid connectivity assessments based on pillars of sand . Molecular Ecology , 24(3), 525-544 . Publisher's official version : https://doi.org/10.1111/mec.13048 , Open Access version : https://archimer.ifremer.fr/doc/00248/35952/

Kivela Mikko, Arnaud-Haond Sophie, Saramaki Jari (2015). EDENetworks: A user-friendly software to build and analyse networks in biogeography, ecology and population genetics . Molecular Ecology Resources , 15(1), 117-122 . Publisher's official version : https://doi.org/10.1111/1755-0998.12290 , Open Access version : https://archimer.ifremer.fr/doc/00197/30853/

Broggiato Arianna, Arnaud-Haond Sophie, Chiarolla Claudio, Greiber Thomas (2014). Fair and equitable sharing of benefits from the utilization of marine genetic resources in areas beyond national jurisdiction: Bridging the gaps between science and policy . Marine Policy , 49, 176-185 . https://doi.org/10.1016/j.marpol.2014.02.012

Lagabrielle Erwann, Crochelet Estelle, Andrello Marco, Schill Steven R., Arnaud-Haond Sophie, Alloncle Neil, Ponge Benjamin (2014). Connecting MPAs - eight challenges for science and management . Aquatic Conservation-marine And Freshwater Ecosystems , 24, 94-110 . Publisher's official version : https://doi.org/10.1002/aqc.2500 , Open Access version : https://archimer.ifremer.fr/doc/00226/33742/

Arnaud-Haond Sophie, Moalic Yann, Barnabe Christian, Ayala Francisco Jose, Tibayrenc Michel (2014). Discriminating Micropathogen Lineages and Their Reticulate Evolution through Graph Theory-Based Network Analysis: The Case of Trypanosoma cruzi, the Agent of Chagas Disease . Plos One , 9(8), - . Publisher's official version : https://doi.org/10.1371/journal.pone.0103213 , Open Access version : https://archimer.ifremer.fr/doc/00212/32374/

Arnaud-Haond Sophie, Moalic Yann, Hernandez-Garcia Emilio, Eguiluz Victor M., Alberto Filipe, Serrao Ester A., Duarte Carlos M. (2014). Disentangling the Influence of Mutation and Migration in Clonal Seagrasses Using the Genetic Diversity Spectrum for Microsatellites . Journal Of Heredity , 105(4), 532-541 . Publisher's official version : https://doi.org/10.1093/jhered/esu015 , Open Access version : https://archimer.ifremer.fr/doc/00182/29292/

Adjeroud Mehdi, Guerecheau Aurelie, Vidal-Dupiol Jeremie, Flot Jean-Francois, Arnaud-Haond Sophie, Bonhomme Francois (2014). Genetic diversity, clonality and connectivity in the scleractinian coral Pocillopora damicornis: a multi-scale analysis in an insular, fragmented reef system . Marine Biology , 161(3), 531-541 . Publisher's official version : https://doi.org/10.1007/s00227-013-2355-9 , Open Access version : https://archimer.ifremer.fr/doc/00171/28209/

Van Dover C. L., Aronson J., Pendleton L., Smith S., Arnaud-Haond Sophie, Moreno-Mateos D., Barbier E., Billett D., Bowers K., Danovaro R., Edwards A., Kellert S., Morato T., Pollard E., Rogers A., Warner R. (2014). Ecological Restoration in the Deep Sea: Desiderata . Marine Policy , 44, 98-106 . Publisher's official version : https://doi.org/10.1016/j.marpol.2013.07.006 , Open Access version : https://archimer.ifremer.fr/doc/00153/26421/

Becheler Ronan, Benkara Elsa, Moalic Yann, Hily Christian, Arnaud-Haond Sophie (2014). Scaling of processes shaping the clonal dynamics and genetic mosaic of seagrasses through temporal genetic monitoring . Heredity , 112(2), 114-121 . Publisher's official version : https://doi.org/10.1038/hdy.2013.82 , Open Access version : https://archimer.ifremer.fr/doc/00181/29254/

Gerard K., Guilloton E., Arnaud-Haond Sophie, Aurelle D., Bastrop R., Chevaldonne P., Derycke S., Hanel R., Lapegue Sylvie, Lejeusne C., Mousset Sylvain, Ramsak A., Remerie T., Viard Frederique, Feral Jean-Pierre, Chenuil A. (2013). PCR survey of 50 introns in animals: Cross-amplification of homologous EPIC loci in eight non-bilaterian, protostome and deuterostome phyla . Marine Genomics , 12, 1-8 . Publisher's official version : https://doi.org/10.1016/j.margen.2013.10.001 , Open Access version : https://archimer.ifremer.fr/doc/00166/27775/

Massa Sonia I., Paulino Cristina M., Serrao Ester A., Duarte Carlos M., Arnaud-Haond Sophie (2013). Entangled effects of allelic and clonal (genotypic) richness in the resistance and resilience of experimental populations of the seagrass Zostera noltii to diatom invasion . Bmc Ecology , 13(39), 1-12 . Publisher's official version : https://doi.org/10.1186/1472-6785-13-39 , Open Access version : https://archimer.ifremer.fr/doc/00166/27748/

Arnaud-Haond Sophie, Candeias Rui, Serrao Ester A., Teixeira Sara (2013). Microsatellite markers developed through pyrosequencing allow clonal discrimination in the invasive alga Caulerpa taxifolia . Conservation Genetics Resources , 5(3), 667-669 . Publisher's official version : https://doi.org/10.1007/s12686-013-9878-8 , Open Access version : https://archimer.ifremer.fr/doc/00126/23720/

Teixeira Sara, Olu Karine, Decker Carole, Cunha Regina L., Fuchs Sandra, Hourdez Stephane, Serrao Ester A., Arnaud-Haond Sophie (2013). High connectivity across the fragmented chemosynthetic ecosystems of the deep Atlantic Equatorial Belt: efficient dispersal mechanisms or questionable endemism? Molecular Ecology , 22(18), 4663-4680 . Publisher's official version : https://doi.org/10.1111/mec.12419 , Open Access version : https://archimer.ifremer.fr/doc/00157/26789/

Cowart Dominique, Huang Chunya, Arnaud-Haond Sophie, Carney Susan L., Fisher Charles R., Schaeffer Stephen W. (2013). Restriction to large-scale gene flow vs. regional panmixia among cold seep Escarpia spp. (Polychaeta, Siboglinidae) . Molecular Ecology , 22(16), 4147-4162 . Publisher's official version : https://doi.org/10.1111/mec.12379 , Open Access version : https://archimer.ifremer.fr/doc/00152/26354/

Aires Tania, Serrao Ester A., Kendrick Gary, Duarte Carlos M., Arnaud-Haond Sophie (2013). Invasion Is a Community Affair: Clandestine Followers in the Bacterial Community Associated to Green Algae, Caulerpa racemosa, Track the Invasion Source . Plos One , 8(7), - . Publisher's official version : https://doi.org/10.1371/journal.pone.0068429 , Open Access version : https://archimer.ifremer.fr/doc/00157/26791/

Mira Sara, Arnaud-Haond Sophie, Palma Luis, Cancela Maria Leonor, Beja Pedro (2013). Large-scale population genetic structure in Bonelli's Eagle Aquila fasciata . Ibis , 155(3), 485-498 . Publisher's official version : https://doi.org/10.1111/ibi.12065 , Open Access version : https://archimer.ifremer.fr/doc/00148/25924/

Decker Carole, Olu Karine, Arnaud-Haond Sophie, Duperron Sebastien (2013). Physical Proximity May Promote Lateral Acquisition of Bacterial Symbionts in Vesicomyid Clams . Plos One , 8(7), - . Publisher's official version : https://doi.org/10.1371/journal.pone.0064830 , Open Access version : https://archimer.ifremer.fr/doc/00153/26427/

Sarradin Pierre-Marie, Menot Lenaick, Laffargue Pascal, Guillaumont Brigitte, Bourillet Jean-Francois, Arnaud-Haond Sophie, Raguenes Bruno (2013). Contribution to the final periodic report - CoralFish . REM/EEP/LEP 13-18 .

Meistertzheim Anne-Leila, Arnaud-Haond Sophie, Boudry Pierre, Thebault Marie-Therese (2013). Genetic structure of wild European populations of the invasive Pacific oyster Crassostrea gigas due to aquaculture practices . Marine Biology , 160(2), 453-463 . Publisher's official version : https://doi.org/10.1007/s00227-012-2102-7 , Open Access version : https://archimer.ifremer.fr/doc/00119/23051/

Masucci A. Paolo, Arnaud-Haond Sophie, Eguiluz Victor M., Hernandez-Garcia Emilio, Serrao Ester A. (2012). Genetic flow directionality and geographical segregation in a Cymodocea nodosa genetic diversity network . Epj Data Science , 1(1), 1-11 . Publisher's official version : https://doi.org/10.1140/epjds11 , Open Access version : https://archimer.ifremer.fr/doc/00127/23872/

Teixeira Sara, Serrao Ester A., Arnaud Sophie (2012). Panmixia in a Fragmented and Unstable Environment: The Hydrothermal Shrimp Rimicaris exoculata Disperses Extensively along the Mid-Atlantic Ridge . Plos One , 7(6), - . Publisher's official version : https://doi.org/10.1371/journal.pone.0038521 , Open Access version : https://archimer.ifremer.fr/doc/00087/19858/

Decker Carole, Olu Karine, Cunha Regina L., Arnaud Sophie (2012). Phylogeny and Diversification Patterns among Vesicomyid Bivalves . Plos One , 7(4) . Publisher's official version : https://doi.org/10.1371/journal.pone.0033359 , Open Access version : https://archimer.ifremer.fr/doc/00076/18729/

Aires Tania, Marba Nuria, Serrao Ester A., Duarte Carlos M., Arnaud-Haond Sophie (2012). Selective elimination of chloroplastidial DNA for metagenomics of bacteria associated with the green alga Caulerpa Taxifolia (bryopsidophyceae) . Journal Of Phycology , 48(2), 483-490 . Publisher's official version : https://doi.org/10.1111/j.1529-8817.2012.01124.x , Open Access version : https://archimer.ifremer.fr/doc/00076/18739/

Teixeira Sara, Serrao Ester A., Arnaud-Haond Sophie (2012). Characterization of 15 polymorphic microsatellite loci in Rimicaris exoculata, and cross-amplification in other hydrothermal-vent shrimp . Conservation Genetics Resources , 4(1), 81-84 . https://doi.org/10.1007/s12686-011-9479-3

Arnaud-Haond Sophie, Duarte Carlos M., Diaz-Almela Elena, Marba Nuria, Sintes Tomas, Serrao Ester A. (2012). Implications of Extreme Life Span in Clonal Organisms: Millenary Clones in Meadows of the Threatened Seagrass Posidonia oceanica . Plos One , 7(2), - . Publisher's official version : https://doi.org/10.1371/journal.pone.0030454 , Open Access version : https://archimer.ifremer.fr/doc/00076/18710/

Moalic Yann, Desbruyeres Daniel, Duarte Carlos M., Rozenfeld Alejandro F., Bachraty Charleyne, Arnaud-Haond Sophie (2012). Biogeography Revisited with Network Theory: Retracing the History of Hydrothermal Vent Communities . Systematic Biology , 61(1), 127-137 . Publisher's official version : https://doi.org/10.1093/sysbio/syr088 , Open Access version : https://archimer.ifremer.fr/doc/00063/17400/

Chenault Nicolas, Arnaud-Haond Sophie, Juteau Mary, Valade Romain, Almeida Jose-Luis, Villar Marc, Bastien Catherine, Dowkiw Arnaud (2011). SSR-based analysis of clonality, spatial genetic structure and introgression from the Lombardy poplar into a natural population of Populus nigra L. along the Loire River . Tree Genetics & Genomes , 7(6), 1249-1262 . Publisher's official version : https://doi.org/10.1007/s11295-011-0410-6 , Open Access version : https://archimer.ifremer.fr/doc/00065/17617/

Massa Sonia I., Pearson Gareth A., Aires Tania, Kube Michael, Olsen Jeanine L., Reinhardt Richard, Serrao Ester A., Arnaud-Haond Sophie (2011). Expressed sequence tags from heat-shocked seagrass Zostera noltii (Hornemann) from its southern distribution range . Marine Genomics , 4(3), 181-188 . Publisher's official version : https://doi.org/10.1016/j.margen.2011.04.003 , Open Access version : https://archimer.ifremer.fr/doc/00044/15559/

Cunha Regina L., Blanc Francoise, Bonhomme Francois, Arnaud-Haond Sophie (2011). Evolutionary Patterns in Pearl Oysters of the Genus Pinctada (Bivalvia: Pteriidae) . Marine Biotechnology , 13(2), 181-192 . Publisher's official version : https://doi.org/10.1007/s10126-010-9278-y , Open Access version : https://archimer.ifremer.fr/doc/00035/14635/

Arnaud-Haond Sophie, Arrieta Jesus M., Duarte Carlos M. (2011). Marine Biodiversity and Gene Patents . Science , 331(6024), 1521-1522 . https://doi.org/10.1126/science.1200783

Teixeira Sara, Cambon-Bonavita Marie-Anne, Serrao Ester A., Desbruyeres Daniel, Arnaud-Haond Sophie (2011). Recent population expansion and connectivity in the hydrothermal shrimp Rimicaris exoculata along the Mid-Atlantic Ridge . Journal Of Biogeography , 38(3), 564-574 . Publisher's official version : https://doi.org/10.1111/j.1365-2699.2010.02408.x , Open Access version : https://archimer.ifremer.fr/doc/00033/14394/

Moalic Yann, Arnaud-Haond Sophie, Perrin Cecile, Pearson Gareth A., Serrao Ester A. (2011). Travelling in time with networks: Revealing present day hybridization versus ancestral polymorphism between two species of brown algae, Fucus vesiculosus and F. spiralis . Bmc Evolutionary Biology , 11, 1-13 . Publisher's official version : https://doi.org/10.1186/1471-2148-11-33 , Open Access version : https://archimer.ifremer.fr/doc/00035/14600/

Aires Tania, Marba Nuria, Cunha Regina L., Kendrick Gary A., Walker Diana I., Serrao Ester A., Duarte Carlos M., Arnaud-Haond Sophie (2011). Evolutionary history of the seagrass genus Posidonia . Marine Ecology-progress Series , 421, 117-130 . Publisher's official version : https://doi.org/10.3354/meps08879 , Open Access version : https://archimer.ifremer.fr/doc/00027/13798/

Arrieta Jesus M., Arnaud-Haond Sophie, Duarte Carlos M. (2010). What lies underneath: Conserving the oceans' genetic resources . Proceedings Of The National Academy Of Sciences Of The United States Of America , 107(43), 18318-18324 . Publisher's official version : https://doi.org/10.1073/pnas.0911897107 , Open Access version : https://archimer.ifremer.fr/doc/00018/12897/

Arnaud-Haond Sophie, Marba Nuria, Diaz-Almela Elena, Serrao Ester A., Duarte Carlos M. (2010). Comparative Analysis of Stability-Genetic Diversity in Seagrass (Posidonia oceanica) Meadows Yields Unexpected Results . Estuaries And Coasts , 33(4), 878-889 . Publisher's official version : https://doi.org/10.1007/s12237-009-9238-9 , Open Access version : https://archimer.ifremer.fr/doc/00006/11693/

Becheler Ronan, Diekmann O., Hily Christian, Moalic Yann, Arnaud-Haond Sophie (2010). The concept of population in clonal organisms: mosaics of temporally colonized patches are forming highly diverse meadows of Zostera marina in Brittany . Molecular Ecology , 19(12), 2394-2407 . Publisher's official version : https://doi.org/10.1111/j.1365-294X.2010.04649.x , Open Access version : https://archimer.ifremer.fr/doc/00006/11690/

Serra I. A., Innocenti A. M., Di Maida G., Calvo S., Migliaccio M., Zambianchi E., Pizzigalli C., Arnaud-Haond Sophie, Duarte C. M., Serrao E. A., Procaccini G. (2010). Genetic structure in the Mediterranean seagrass Posidonia oceanica: disentangling past vicariance events from contemporary patterns of gene flow . Molecular Ecology , 19(3), 557-568 . https://doi.org/10.1111/j.1365-294X.2009.04462.x

Arnaud-Haond Sophie, Duarte Carlos M., Teixeira Sara, Massa Sonia Isabel, Terrados Jorge, Nguyen Hong Tri, Phan Nguyen Hong, Serrao Ester A. (2009). Genetic recolonization of mangrove: genetic diversity still increasing in the Mekong Delta 30 years after Agent Orange . Marine Ecology Progress Series , 390, 129-135 . Publisher's official version : https://doi.org/10.3354/meps08183 , Open Access version : https://archimer.ifremer.fr/doc/00000/6898/

Massa S. I., Arnaud-Haond Sophie, Pearson G. A., Serrao E. A. (2009). Temperature tolerance and survival of intertidal populations of the seagrass Zostera noltii (Hornemann) in Southern Europe (Ria Formosa, Portugal) . Hydrobiologia , 619, 195-201 . https://doi.org/10.1007/s10750-008-9609-4

Rozenfeld Alejandro F., Arnaud-Haond Sophie, Hernandez-Garcia Emilio, Eguiluz Victor M., Serrao Ester A., Duarte Carlos M. (2008). Network analysis identifies weak and strong links in a metapopulation system . Proceedings Of The National Academy Of Sciences Of The United States Of America , 105(48), 18824-18829 . https://doi.org/10.1073/pnas.0805571105

Arnaud-Haond Sophie, Vonau Vincent, Rouxel Catherine, Bonhomme Francois, Prou Jean, Goyard Emmanuel, Boudry Pierre (2008). Genetic structure at different spatial scales in the pearl oyster (Pinctada margaritifera cumingii) in French Polynesian lagoons: beware of sampling strategy and genetic patchiness . Marine Biology , 155(2), 147-157 . Publisher's official version : https://doi.org/10.1007/s00227-008-1013-0 , Open Access version : https://archimer.ifremer.fr/doc/00000/4960/

Alberto Filipe, Massa Sonia, Manent Pablo, Diaz-Almela Elena, Arnaud-Haond Sophie, Duarte Carlos M., Serrao Ester A. (2008). Genetic differentiation and secondary contact zone in the seagrass Cymodocea nodosa across the Mediterranean-Atlantic transition region . Journal Of Biogeography , 35(7), 1279-1294 . https://doi.org/10.1111/j.1365-2699.2007.01876.x

Diaz-Almela Elena, Arnaud-Haond Sophie, Vliet Mirjam S., Alvarez Elvira, Marba Nuria, Duarte Carlos M., Serrao Ester A. (2007). Feed-backs between genetic structure and perturbation-driven decline in seagrass (Posidonia oceanica) meadows . Conservation Genetics , 8(6), 1377-1391 . https://doi.org/10.1007/s10592-007-9288-0

Arnaud-Haond Sophie, Duarte C. M., Alberto F., Serrao E. A. (2007). Standardizing methods to address clonality in population studies . Molecular Ecology , 16(24), 5115-5139 . https://doi.org/10.1111/j.1365-294X.2007.03535.x

Rozenfeld Alejandro F., Arnaud-Haond Sophie, Hernandez-Garcia Emilio, Eguiluz Victor M., Matias Manuel A., Serrao Ester, Duarte Carlos M. (2007). Spectrum of genetic diversity and networks of clonal organisms . Journal Of The Royal Society Interface , 4(17), 1093-1102 . https://doi.org/10.1098/rsif.2007.0230

Arnaud-Haond Sophie, Migliaccio Marianna, Diaz-Almela Elena, Teixeira Sara, Van De Vliet Mirjiam Susanne, Alberto Filipe, Procaccini Gabriele, Duarte Carlos M., Serrao Ester A. (2007). Vicariance patterns in the Mediterranean Sea: east-west cleavage and low dispersal in the endemic seagrass Posidonia oceanica . Journal Of Biogeography , 34(6), 963-976 . https://doi.org/10.1111/j.1365-2699.2006.01671.x

Arnaud-Haond Sophie (2007). Dispersion, modes reproducteurs et réseaux en environnement marin : là où il y a des gènes (Habilitation à Diriger des Recherches) . HDR.

Desbruyere D, Arnaud-Haond Sophie, Fabri Marie-Claire, Guezennec Jean, Querellou Joel (2007). Deep-sea genetic resources . 02 2007 - DEEP/BIOMAR/2007-03 . https://archimer.ifremer.fr/doc/00153/26452/

Arnaud-Haond Sophie, Belkhir Khalid (2007). GENCLONE: a computer program to analyse genotypic data, test for clonality and describe spatial clonal organization . Molecular Ecology Notes , 7(1), 15-17 . https://doi.org/10.1111/j.1471-8286.2006.01522.x

Arnaud-Haond Sophie, Goyard Emmanuel, Vonau Vincent, Herbaut C, Prou Jean, Saulnier Denis (2007). Pearl formation: Persistence of the graft during the entire process of biomineralization . Marine Biotechnology , 9(1), 113-116 . Publisher's official version : https://doi.org/10.1007/s10126-006-6033-5 , Open Access version : https://archimer.ifremer.fr/doc/00000/2456/

Hernandez-Garcia E., Rozenfeld A. F., Eguiluz V. M., Arnaud-Haond Sophie, Duarte C. M. (2006). Clone size distributions in networks of genetic similarity . Physica D-nonlinear Phenomena , 224(1-2), 166-173 . https://doi.org/10.1016/j.physd.2006.09.015

Arnaud-Haond Sophie, Teixeira Sara, Massa S. I., Billot C., Saenger P., Coupland G., Duarte C. M., Serrao E. A. (2006). Genetic structure at range edge: low diversity and high inbreeding in Southeast Asian mangrove (Avicennia marina) populations . Molecular Ecology , 15(12), 3515-3525 . https://doi.org/10.1111/j.1365-294X.2006.02997.x

Alberto F, Arnaud-Haond Sophie, Duarte Cm, Serrao Ea (2006). Genetic diversity of a clonal angiosperm near its range limit: the case of Cymodocea nodosa at the Canary Islands . Marine Ecology-progress Series , 309, 117-129 . https://doi.org/10.3354/meps309117

Alberto F, Gouveia L, Arnaud-Haond Sophie, Perez-Llorens Jl, Duarte Cm, Serrao Ea (2005). Within-population spatial genetic structure, neighbourhood size and clonal subrange in the seagrass Cymodocea nodosa . Molecular Ecology , 14(9), 2669-2681 . https://doi.org/10.1111/j.1365-294X.2005.02640.x

Arnaud-Haond Sophie, Alberto F, Teixeira Sara, Procaccini G, Serrao Ea, Duarte Cm (2005). Assessing genetic diversity in clonal organisms: Low diversity or low resolution? Combining power and cost efficiency in selecting markers . Journal Of Heredity , 96(4), 434-440 . https://doi.org/10.1093/jhered/esi043

Arnaud-Haond Sophie, Blanc Frederique, Bonhomme E, Monteforte M (2005). Recent foundation of Mexican populations of pearl oysters (Pteria sterna) revealed by lack of genetic variation on two mitochondrial genes . Journal Of The Marine Biological Association Of The United Kingdom , 85(2), 363-366 . https://doi.org/10.1017/S0025315405011288h

Arnaud-Haond Sophie, Goyard Emmanuel, Prou Jean, Vonau Vincent, Bonhomme Francois, Boudry Pierre (2005). Gestion des ressources génétiques de l'huître perlière Pinctada margaritifera de Polynésie française : caractérisation génétique des populations et optimisation du recrutement pour l'exploitation perlière . Les Actes du BRG , 5, 215-229 . Open Access version : https://archimer.ifremer.fr/doc/00000/3822/

Arnaud-Haond Sophie, Vonau Vincent, Bonhomme Francois, Boudry Pierre, Blanc F., Prou Jean, Seaman Terii, Goyard Emmanuel (2004). Spatio-temporal variation in the genetic composition of wild populations of pearl oyster (Pinctada margaritifera cumingii) in French Polynesia following 10 years of juvenile translocation . Molecular Ecology , 13(7), 2001-2007 . https://doi.org/10.1111/j.1365-294X.2004.02188.x

Goyard Emmanuel, Arnaud-Haond Sophie, Vonau Vincent, Bishoff Vincent, Mouchel Olivier, Pham Dominique, Wyban Jim, Boudry Pierre (2003). Residual genetic variability in domesticated populations of the Pacific blue shrimp (Litopenaeus stylirostris) of New Caledonia, French Polynesia and Hawaii and some management recommendations . Aquatic Living Resources , 16(6), 501-508 . Publisher's official version : https://doi.org/10.1016/j.aquliv.2003.07.001 , Open Access version : https://archimer.ifremer.fr/doc/00000/596/

Teixeira Sara, Arnaud-Haond Sophie, Duarte Cm, Serrao E (2003). Polymorphic microsatellite DNA markers in the mangrove tree Avicennia alba . Molecular Ecology Notes , 3(4), 544-546 . https://doi.org/10.1046/j.1471-8286.2003.00505.x

Arnaud-Haond Sophie, Monteforte M, Blanc F, Bonhomme Francois (2003). Evidence for male-biased effective sex ratio and recent step-by-step colonization in the bivalve Pinctada mazatlanica . Journal Of Evolutionary Biology , 16(5), 790-796 . https://doi.org/10.1046/j.1420-9101.2003.00603.x

Alberto F, Correia L, Arnaud-Haond Sophie, Billot C, Duarte Cm, Serrao E (2003). New microsatellite markers for the endemic Mediterranean seagrass Posidonia oceanica . Molecular Ecology Notes , 3(2), 253-255 . https://doi.org/10.1046/j.1471-8286.2003.00415.x

Arnaud-Haond Sophie, Bonhomme Francois, Blanc Frederique (2003). Large discrepancies in differentiation of allozymes, nuclear and mitochondrial DNA loci in recently founded Pacific populations of the pearl oyster Pinctada margaritifera . Journal Of Evolutionary Biology , 16(3), 388-398 . https://doi.org/10.1046/j.1420-9101.2003.00549.x

Arnaud-Haond Sophie, Vonau Vincent, Bonhomme François, Boudry Pierre, Prou Jean, Seaman Terii, Veyret Melanie, Goyard Emmanuel (2003). Spat collection of the pearl oyster (Pinctada margaritifera cumingii) in French Polynesia: an evaluation of the potential impact on genetic variability of wild and farmed populations after 20 years of commercial exploitation . Aquaculture , 219(1-4), 181-192 . https://doi.org/10.1016/S0044-8486(02)00568-9

Arnaud Sophie, Prou Jean, Boudry Pierre, Vonau Vincent, Goyard Emmanuel (2003). Ressources génétiques de l'huître perlière de Polynésie Française, Pinctada margaritifera. Recherche de populations locales origninales et aide à la définition d'une stratégie de conservation . Rapport final. Contrat de développement Etat-Territoire 2000-2003 .

Arnaud-Haond Sophie, Boudry Pierre, Saulnier Denis, Seaman T, Bonhomme F, Goyard Emmanuel (2002). New anonymous nuclear DNA markers for the pearl oyster Pinctada margaritifera and other Pinctada species . Molecular Ecology Notes , 2(3), 220-222 .

Arnaud Sophie, Monteforte Mario, Galtier Nicolas, Bonhomme François, Blanc Françoise (2000). Population structure and genetic variability of pearl oyster Pinctada mazatlanica along Pacific coasts from Mexico to Panama . Conservation Genetics , 1, 299-307 .

Arnaud Sophie, Bonhomme Francois, Borsa P (1999). Mitochondrial DNA analysis of the genetic relationships among populations of scad mackerel (Decapterus macarellus, D-macrosoma, and D-russelli) in South-East Asia . Marine Biology , 135(4), 699-707 . https://doi.org/10.1007/s002270050671