Lapègue Sylvie, Fortunato Honoré, Bouvier Corinne, Violette Herve, Cornette Florence, Bonin Aurélie, Noel Cyril, Lagarde Franck (2025). clam sequences from eDNA and tissue samples . SEANOE . https://doi.org/10.17882/105470

Macé Sabrina, Rannou Cécile, Jérôme Marc, Chevalier Frederique, Kolypczuk Laetitia, Donnay-Moreno Claire, Leroi Francoise, Cardinal Mireille, Noël Cyril (2025). Multi-omics signature profiles of cold-smoked salmon from different processing plants: Insights into spoilage dynamics . International Journal of Food Microbiology , 438, 111233 (11p.) . Publisher's official version : https://doi.org/10.1016/j.ijfoodmicro.2025.111233 , Open Access version : https://archimer.ifremer.fr/doc/00952/106353/

Laguerre Hélène, Noël Cyril, Jégou Camille, Fleury Yannick, Le Chevalier Patrick (2025). The Cœlomic Microbiota Among Three Echinoderms: The Black Sea Cucumber Holothuria forskali, the Sea Star Marthasterias glacialis, and the Sea Urchin Sphaerechinus granularis . Biology-basel , 14(4), 430 (20p.) . Publisher's official version : https://doi.org/10.3390/biology14040430 , Open Access version : https://archimer.ifremer.fr/doc/00949/106062/

Yvenou Steven, Pelleter Ewan, Noel Cyril, Godfroy Anne, Cueff-Gauchard Valerie, Cheron Sandrine, Philippon Xavier, Brandily Christophe, Roussel Erwan (2025). Microbial ecosystems associated with “active” to “inactive” hydrothermal systems: massive sulfide deposits a CO2 sink in the deep-sea . OOS2025 - One Ocean Science Congress. 3-6 June 2025, Nice, France .

Robino Etienne, Perret Angelique, Noel Cyril, Haffner Philippe, Intertaglia Laurent, Richard Marion, Descamps Noemie, Sellier Axelle, Onillon Laura, Lebaron Philippe, Destoumieux Garzon Delphine, Charriere Guillaume . Diversity and predation capacities of Amoebozoa against opportunistic vibrios in contrasting Mediterranean coastal environments. BioRxiv IN PRESS . Publisher's official version : https://doi.org/10.1101/2025.03.14.643055 , Open Access version : https://archimer.ifremer.fr/doc/00943/105474/

Cohen-Rengifo Mishal, Noel Cyril, Ytteborg Elisabeth, Bégout Marie-Laure, Lazado Carlo C, Le Blay Gwenaelle, Hervio Heath Dominique (2025). The nasal microbiota of two marine fish species: diversity, community structure, variability and first insights into the impacts of climate change-related stressors . Fems Microbiology Ecology , 101(3), fiaf018 (15p.) . Publisher's official version : https://doi.org/10.1093/femsec/fiaf018 , Open Access version : https://archimer.ifremer.fr/doc/00938/104999/

Faure Emile, Pommellec Jolann, Noel Cyril, Cormier Alexandre, Delpech Lisa-Marie, Eren Murat, Fernandez-Guerra Antonio, Vanni Chiara, Fourquez Marion, Houssais Marie-Noëlle, Silva Corinne Da, Gavory Frederick, Perdereau Aude, Labadie Karine, Wincker Patrick, Poulain Julie, Hassler Christel, Lin Yajuan, Cassar Nicolas, Maignien Lois . Water mass specific genes dominate the Southern Ocean microbiome . Under Review at Nature Portfolio. IN PRESS . Publisher's official version : https://doi.org/10.21203/rs.3.rs-5608865/v1 , Open Access version : https://archimer.ifremer.fr/doc/00929/104123/

Paulino Sauvann, Noël Cyril, Rieusset Laura, Taupin Laure, Le Blay Gwenaelle, Bourgougnon Nathalie . Drivers of Seasonal Dynamics in Ulva Spp. Associated Microbiota and Surface Metabolome: The Interplay between Environment and Host Physiology . Preprint IN PRESS . Publisher's official version : https://doi.org/10.2139/ssrn.5236118 , Open Access version : https://archimer.ifremer.fr/doc/00951/106326/

Godino Sanchez Alisson, Serghine Joelle, Le Mennec Cecile, Noel Cyril, Schaeffer Julien, Goraguer Herle, Vincent Cécile, Vitre Thomas, Le Guyader Soizick, Gourmelon Michele (2024). Grey and harbor seals in France (mainland and Saint-Pierre et Miquelon): microbial communities and identification of a microbial source tracking seal marker . Frontiers In Microbiology , 15, 1484094. (17p.) . Publisher's official version : https://doi.org/10.3389/fmicb.2024.1484094 , Open Access version : https://archimer.ifremer.fr/doc/00925/103668/

Guéganton Marion, Methou Pierre, Aubé Johanne, Noël Cyril, Rouxel Ouafae, Cueff-Gauchard Valerie, Gayet Nicolas, Durand Lucile, Pradillon Florence, Cambon Marie-Anne (2024). Symbiont acquisition strategies in post-settlement stages of two co-occurring deep-sea Rimicaris shrimp. Ecology And Evolution , 14(11), e70369 (20p.) . Publisher's official version : https://doi.org/10.1002/ece3.70369 , Open Access version : https://archimer.ifremer.fr/doc/00887/99898/

Lapègue Sylvie, Fortunato Honoré, Boulaire Eliot, Bouvier Corinne, Violette Herve, Cornette Florence, Arnaud-Haond Sophie, Bonin Aurélie, Sanchez Florence, Caill-Milly Nathalie, Noel Cyril, Lagarde Franck (2024). Caractérisation de la diversité des palourdes par des approches de génétique des populations et de metabarcoding . Séminaire Génomique Marine. 18 octobre 2024, online .

Reignier Oceane, Briand Enora, Hervé Fabienne, Robert Elise, Savar Veronique, Tanniou Simon, Amzil Zouher, Noël Cyril, Bormans Myriam (2024). Effects of salinity and nutrient stress on a toxic freshwater cyanobacterial community and its associated microbiome: An experimental study . Environmental Microbiology Reports , 16(5), e70029 (18p.) . Publisher's official version : https://doi.org/10.1111/1758-2229.70029 , Open Access version : https://archimer.ifremer.fr/doc/00917/102893/

Lapègue Sylvie, Fortunato Honoré, Malkocs Tamas, Bouvier Corinne, Violette Herve, Cornette Florence, Arnaud-Haond Sophie, Bonin Aurélie, Spitz Jérôme, Viricel Pante Amelia, Noel Cyril, Lagarde Franck (2024). ADNe et diversité intraspécifique : opportunités et challenges au travers de deux exemples marins . Rencontres Bioinformatiques de l'Ifremer. 24 septembre 2024, La Tremblade .

Le Gall Sarah (2024). Optimisation de l'élevage larvaire expérimental d'huîtres creuses, Magallana (ex Crassostrea) gigas, en vue de limiter le développement de communautés bactériennes pathogènes . Mémoire de fin d’études en Sciences halieutiques et aquacoles. Option Aquaculture. Institut Agro Rennes-Angers . https://archimer.ifremer.fr/doc/00935/104653/

Macé Sabrina, Rannou Cécile, Donnay-Moreno Claire, Gigout Frederique, Passerini Delphine, Kolypczuk Laetitia, Jerome Marc, Cardinal Mireille, Noel Cyril, Leroi Francoise (2024). Exploring cold-smoked salmon spoilage through the signature microbiome of three different processing plants . FOOD MICRO 2024 - 28th International ICFMH ( International Committee on Food Microbiology and Hygiene ) Conference. July 8-11 2024, Burgos, Spain .

Philippe Aurélie, Salaun Marie, Quemener Maxence, Noël Cyril, Tallec Kevin, Lacroix Camille, Coton Emmanuel, Burgaud Gaëtan (2024). Colonization and Biodegradation Potential of Fungal Communities on Immersed Polystyrene vs. Biodegradable Plastics: A Time Series Study in a Marina Environment . Journal Of Fungi , 10(6), 428 (24p.) . Publisher's official version : https://doi.org/10.3390/jof10060428 , Open Access version : https://archimer.ifremer.fr/doc/00895/100686/

Reignier Oceane, Bormans Myriam, Hervé Fabienne, Robert Elise, Savar Veronique, Tanniou Simon, Amzil Zouher, Noël Cyril, Briand Enora (2024). Spatio-temporal connectivity of a toxic cyanobacterial community and its associated microbiome along a freshwater-marine continuum . Harmful Algae , 134, 102627 (18p.) . Publisher's official version : https://doi.org/10.1016/j.hal.2024.102627 , Open Access version : https://archimer.ifremer.fr/doc/00889/100055/

Migaou Mariem, Macé Sabrina, Maalej Hana, Marchand Laetitia, Bonnetot Sandrine, Noël Cyril, Sinquin Corinne, Jérôme Marc, Zykwinska Agata, Colliec-Jouault Sylvia, Maaroufi Raoui Mounir, Delbarre-Ladrat Christine (2024). Exploring the Exopolysaccharide Production Potential of Bacterial Strains Isolated from Tunisian Blue Crab Portunus segnis Microbiota . Molecules , 29(4), 774 (17p.) . Publisher's official version : https://doi.org/10.3390/molecules29040774 , Open Access version : https://archimer.ifremer.fr/doc/00876/98817/

Gourmelon Michele (2023). Microbiomes dans les écosystèmes estuariens en France : ROME, le réseau d’ADN/ARN environnemental . Journées du réseau O-ADN environnemental. 29-30 Novembre 2023, Cestas .

Siano Raffaele, Arzul Isabelle, Gourmelon Michele, Le Guyader Soizick, Durand Patrick, Serghine Joelle, Parnaudeau Sylvain, Quere Julien, Schmitt Sophie, Francoise Sylvaine, Mary Charlotte, Hernandez Farinas Tania, Terre Terrillon Aouregan, Lebrun Luc, Chomerat Nicolas, Seugnet Jean-Luc, Pepin Jean-Francois, Felix Christine, Serais Ophelie, Gobet Angélique, Chevalier Mathieu, Chevignon Germain, Lecadet Cyrielle, Morga Benjamin, Piquet Jean-Come, Lemoine Maud, Leroi Laura, Noel Cyril (2023). Coastal microbiomes in riverine ecosystems of the French coastline: the ROME project . ISEEMPD 2022 - International Symposium on Ecology and Evolution of Marine Parasites and Diseases. 15-18 November 2022 .

Gourmelon Michele (2023). Microbiomes côtiers dans les écosystèmes estuariens en France : le réseau d’ADN/ARN environnemental. ROME . MICROBES 2023 - 18e Congrès National de la SFM ( Société Française de Microbiologie) « Un monde à explorer » . 4-6 octobre 2023, Rennes .

Oury Nicolas, Noel Cyril, Mona Stefano, Aurelle Didier, Magalon Hélène (2023). From genomics to integrative species delimitation? The case study of the Indo-Pacific Pocillopora corals . Molecular Phylogenetics And Evolution , 184, 107803 (16p.) . Publisher's official version : https://doi.org/10.1016/j.ympev.2023.107803 , Open Access version : https://archimer.ifremer.fr/doc/00835/94668/

Siano Raffaele, Arzul Isabelle, Gourmelon Michele, Le Guyader Soizick, Durand Patrick, Serghine Joelle, Parnaudeau Sylvain, Quere Julien, Schmitt Sophie, Francoise Sylvaine, Mary Charlotte, Hernandez Farinas Tania, Terre Terrillon Aouregan, Lebrun Luc, Chomerat Nicolas, Seugnet Jean-Luc, Pepin Jean-Francois, Felix Christine, Serais Ophelie, Gobet Angélique, Chevalier Mathieu, Chevignon Germain, Lecadet Cyrielle, Morga Benjamin, Piquet Jean-Come, Lemoine Maud, Leroi Laura, Noel Cyril (2023). Coastal microbiomes in estuarine ecosystems of France: the eDNA network ROME . ASLO - Aquatic Sciences Meeting 2023 "Resilience and Recovery in Aquatic Systems". 4-9 June 2023, Palma de Mallorca, Spain.

Ifremer, ODE/VIGIES (2023). Journées REPHY 2022. Nantes, 1er et 2 décembre 2022. Compilation des interventions et résumés . ODE/VIGIES/23-08 . https://archimer.ifremer.fr/doc/00838/94981/

Philippe Aurélie, Noël Cyril, Eyheraguibel Boris, Briand Jean-François, Paul-Pont Ika, Ghiglione Jean-François, Coton Emmanuel, Burgaud Gaëtan (2023). Fungal Diversity and Dynamics during Long-Term Immersion of Conventional and Biodegradable Plastics in the Marine Environment . Diversity-basel , 15(4), 579 (23p.) . Publisher's official version : https://doi.org/10.3390/d15040579 , Open Access version : https://archimer.ifremer.fr/doc/00834/94611/

Roux Pauline, Schapira Mathilde, Mertens Kenneth, Andre Coralie, Terre Terrillon Aouregan, Schmitt Anne, Manach Soazig, Collin Karine, Serghine Joelle, Noel Cyril, Siano Raffaele (2023). When phytoplankton do not bloom: the case of the dinoflagellate Lepidodinium chlorophorum in southern Brittany (France) assessed by environmental DNA . Progress In Oceanography , 212, 102999 (15p.) . Publisher's official version : https://doi.org/10.1016/j.pocean.2023.102999 , Open Access version : https://archimer.ifremer.fr/doc/00822/93374/

Nef Charlotte, Dittami Simon, Kaas Raymond, Briand Enora, Noël Cyril, Mairet Francis, Garnier Matthieu (2022). Sharing Vitamin B12 between Bacteria and Microalgae Does Not Systematically Occur: Case Study of the Haptophyte Tisochrysis lutea . Microorganisms , 10(7), 1337 (18p.) . Publisher's official version : https://doi.org/10.3390/microorganisms10071337 , Open Access version : https://archimer.ifremer.fr/doc/00781/89341/

Bernard Clément, Locard-Paulet Marie, Noël Cyril, Duchateau Magalie, Giai Gianetto Quentin, Moumen Bouziane, Rattei Thomas, Hechard Yann, Jensen Lars Juhl, Matondo Mariette, Samba-Louaka Ascel (2022). A time-resolved multi-omics atlas of Acanthamoeba castellanii encystment . Nature Communications , 13(1), 4104 (14p.) . Publisher's official version : https://doi.org/10.1038/s41467-022-31832-0 , Open Access version : https://archimer.ifremer.fr/doc/00785/89743/

Cohen-Rengifo Mishal, Danion Morgane, Gonzalez Anne-Alicia, Bégout Marie-Laure, Cormier Alexandre, Noël Cyril, Cabon Joëlle, Vitré Thomas, Mark Felix C., Mazurais David (2022). The extensive transgenerational transcriptomic effects of ocean acidification on the olfactory epithelium of a marine fish are associated with a better viral resistance . Bmc Genomics , 23(1), 48 (18p.) . Publisher's official version : https://doi.org/10.1186/s12864-022-08647-w , Open Access version : https://archimer.ifremer.fr/doc/00777/88898/

Brocard Simon, Cormier Alexandre, Noel Cyril, Berthelier Jérémy, Carrier Gregory, Sussarellu Rossana (2022). MAM : Methylation Analysis of Microalgae . JOBIM 2022 - Journées Ouvertes en Biologie, Informatique et Mathématiques. 05-08 Juillet 2022, Rennes . https://archimer.ifremer.fr/doc/00810/92184/

Gourmelon Michele, Siano Raffaele, Jeanthon Christian, Garnier Matthieu, Malo Florent, Noel Cyril, Serghine Joelle, Philippe Aurelie, Hafdane Katouar, Vitre Thomas, Briand Enora (2021). History of a couple: Alexandrium minutum and its associated bacterium in both natural and cultivated populations . ICHA 2021 - 19th International Conference on Harmful Algae. October 10-15, Mexico .

Mathon Laetitia, Valentini Alice, Guérin Pierre‐edouard, Normandeau Eric, Noel Cyril, Lionnet Clément, Boulanger Emilie, Thuillier Wilfried, Bernatchez Louis, Mouillot David, Dejean Tony, Manel Stéphanie (2021). Benchmarking bioinformatic tools for fast and accurate eDNA metabarcoding species identification . Molecular Ecology Resources , 21(7), 2565-2579 . Publisher's official version : https://doi.org/10.1111/1755-0998.13430 , Open Access version : https://archimer.ifremer.fr/doc/00696/80761/

Boukerb Mohamed, Noël Cyril, Quenot Emmanuelle, Cadiou Bernard, Chevé Julien, Quintric Laure, Cormier Alexandre, Dantan Luc, Gourmelon Michele (2021). Comparative Analysis of Fecal Microbiomes From Wild Waterbirds to Poultry, Cattle, Pigs, and Wastewater Treatment Plants for a Microbial Source Tracking Approach . Frontiers In Microbiology , 12, 697553 (21p.) . Publisher's official version : https://doi.org/10.3389/fmicb.2021.697553 , Open Access version : https://archimer.ifremer.fr/doc/00705/81692/

Siano Raffaele, Lassudrie Duchesne Malwenn, Cuzin Pierre, Briant Nicolas, Loizeau Veronique, Schmidt Sabine, Ehrhold Axel, Mertens Kenneth, Lambert Clément, Quintric Laure, Noël Cyril, Latimier Marie, Quéré Julien, Durand Patrick, Penaud Aurélie (2021). Sediment archives reveal irreversible shifts in plankton communities after World War II and agricultural pollution . Current Biology , 31(12), 2682-2689.e7 . Publisher's official version : https://doi.org/10.1016/j.cub.2021.03.079 , Open Access version : https://archimer.ifremer.fr/doc/00690/80195/

Cohen-Rengifo Mishal, Danion Morgane, Gonzalez Anne-Alicia, Bégout Marie-Laure, Madec Lauriane, Cormier Alexandre, Noël Cyril, Cabon Joëlle, Vitré Thomas, Mark Felix C., Mazurais David (2021). The extensive intergenerational molecular effects of ocean acidification on the olfactory epithelium transcriptome of a marine fish are associated with a better viral resistance . Preprint , 33p. Publisher's official version : https://doi.org/10.21203/rs.3.rs-1197163/v1 , Open Access version : https://archimer.ifremer.fr/doc/00742/85438/

Mazurais David, Servili Arianna, Noel Cyril, Cormier Alexandre, Collet Sophie, Leseur Romane, Le Roy Maelenn, Vitré Thomas, Madec Lauriane, Zambonino-Infante Jose-Luis (2020). Transgenerational regulation of cbln11 gene expression in the olfactory rosette of the European sea bass (Dicentrarchus labrax) exposed to ocean acidification . Marine Environmental Research , 159, 105022 (11p.) . Publisher's official version : https://doi.org/10.1016/j.marenvres.2020.105022 , Open Access version : https://archimer.ifremer.fr/doc/00630/74169/

Rolland Steven, Mengue Luce, Noël Cyril, Crapart Stéphanie, Mercier Anne, Aucher Willy, Héchard Yann, Samba-Louaka Ascel (2020). Encystment Induces Down-Regulation of an Acetyltransferase-Like Gene in Acanthamoeba castellanii . Pathogens , 9(5), 321 (12p.) . Publisher's official version : https://doi.org/10.3390/pathogens9050321 , Open Access version : https://archimer.ifremer.fr/doc/00625/73693/