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Diversity of the Pacific Ocean coral reef microbiome

Pierre Galand , Hans-Joachim Ruscheweyh , Guillem Salazar , Corentin Hochart , Nicolas Henry
Nature Communications, 2023, 14 (1), pp.3039. ⟨10.1038/s41467-023-38500-x⟩
Journal articles hal-04176291v1
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Viral infection impacts the 3D subcellular structure of the abundant marine diatom Guinardia delicatula

Marie Walde , Cyprien Camplong , Colomban de Vargas , Anne-Claire Baudoux , Nathalie Simon
Frontiers in Marine Science, 2023, 9, ⟨10.3389/fmars.2022.1034235⟩
Journal articles hal-04057706v1

Convergent evolution and horizontal gene transfer in Arctic Ocean microalgae

Richard Dorrell , Alan Kuo , Zoltan Füssy , Elisabeth Richardson , Asaf Salamov
Life Science Alliance, 2023, 6 (3), pp.e202201833. ⟨10.26508/lsa.202201833⟩
Journal articles cea-04321515v1
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Ecology of Endozoicomonadaceae in three coral genera across the Pacific Ocean

Corentin Hochart , Lucas Paoli , Hans-Joachim Ruscheweyh , Guillem Salazar , Emilie Boissin
Nature Communications, 2023, 14 (1), pp.3037. ⟨10.1038/s41467-023-38502-9⟩
Journal articles hal-04176293v1
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Different environmental response strategies in sympatric corals from Pacific Islands

Barbara Porro , Thamilla Zamoum , Didier Forcioli , Eric Gilson , Adrien Poquet
Communications Earth & Environment, 2023, 4 (1), pp.311. ⟨10.1038/s43247-023-00946-8⟩
Journal articles hal-04205154v1
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Multi-omics determination of metabolome diversity in natural coral populations in the Pacific Ocean

Maggie M Reddy , Corentine Goossens , Yuxiang Zhou , Slimane Chaib , Delphine Raviglione
Communications Earth & Environment, 2023, 4 (1), pp.281. ⟨10.1038/s43247-023-00942-y⟩
Journal articles hal-04184949v1
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Host transcriptomic plasticity and photosymbiotic fidelity underpin $Pocillopora$ acclimatization across thermal regimes in the Pacific Ocean

Eric J Armstrong , Julie Lê-Hoang , Quentin Carradec , Jean-Marc Aury , Benjamin Noel
Nature Communications, 2023, 14, pp.3056. ⟨10.1038/s41467-023-38610-6⟩
Journal articles cea-04171796v1
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Pervasive tandem duplications and convergent evolution shape coral genomes

Benjamin Noel , France Denoeud , Alice Rouan , Carol Buitrago-López , Laura Capasso
Genome Biology, 2023, 24 (1), pp.123. ⟨10.1186/s13059-023-02960-7⟩
Journal articles hal-04117388v1

Pan-Arctic plankton community structure and its global connectivity

Federico Ibarbalz , Nicolas Henry , Frédéric Mahé , Mathieu Ardyna , Adriana Zingone
Elementa: Science of the Anthropocene, 2023, 11 (1), ⟨10.1525/elementa.2022.00060⟩
Journal articles hal-04295751v1
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Predicting global distributions of eukaryotic plankton communities from satellite data

Hiroto Kaneko , Hisashi Endo , Nicolas Henry , Cédric Berney , Frédéric Mahé
ISME Communications, 2023, 3 (1), pp.101. ⟨10.1038/s43705-023-00308-7⟩
Journal articles hal-04394784v1
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Differences in carbonate chemistry up-regulation of long-lived reef-building corals

Marine Canesi , Éric Douville , Paolo Montagna , Marco Taviani , Jarosław Stolarski
Scientific Reports, 2023, 13 (1), pp.11589. ⟨10.1038/s41598-023-37598-9⟩
Journal articles cea-04170119v1
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Ocean-wide comparisons of mesopelagic planktonic community structures

Janaina Rigonato , Marko Budinich , Alejandro Murillo , Manoela Brandão , Juan Pierella Karlusich
ISME Communications, 2023, 3 (1), pp.83. ⟨10.1038/s43705-023-00279-9⟩
Journal articles hal-04184772v1
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Open science resources from the Tara Pacific expedition across coral reef and surface ocean ecosystems

Fabien Lombard , Guillaume Bourdin , Stéphane Pesant , Sylvain Agostini , Alberto Baudena
Scientific Data , 2023, 10 (1), pp.324. ⟨10.1038/s41597-022-01757-w⟩
Journal articles hal-04164118v1
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Global perspective of environmental distribution and diversity of Perkinsea (Alveolata) explored by a meta-analysis of eDNA surveys

Sebastian Metz , Sarah Itoïz , Aleix Obiol , Evelyne Derelle , Ramon Massana
Scientific Reports, 2023, 13 (1), pp.20111. ⟨10.1038/s41598-023-47378-0⟩
Journal articles hal-04298429v1
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Telomere DNA length regulation is influenced by seasonal temperature differences in short-lived but not in long-lived reef-building corals

Alice Rouan , Melanie Pousse , Nadir Djerbi , Barbara Porro , Guillaume Bourdin
Nature Communications, 2023, 14 (1), pp.3038. ⟨10.1038/s41467-023-38499-1⟩
Journal articles cea-04171809v1
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Disparate genetic divergence patterns in three corals across a pan-Pacific environmental gradient highlight species-specific adaptation

Christian R Voolstra , Benjamin C C Hume , Eric J Armstrong , Guinther Mitushasi , Barbara Porro
npj Biodiversity, 2023, 2 (1), pp.15. ⟨10.1038/s44185-023-00020-8⟩
Journal articles hal-04157744v1
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Integrative omics framework for characterization of coral reef ecosystems from the Tara Pacific expedition

Caroline Belser , Julie Poulain , Karine Labadie , Frederick Gavory , Adriana Alberti
Scientific Data , 2023, 10 (1), pp.326. ⟨10.1038/s41597-023-02204-0⟩
Journal articles hal-04176297v1
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Endogenous viral elements reveal associations between a non-retroviral RNA virus and symbiotic dinoflagellate genomes

Alex Veglia , Kalia Bistolas , Christian Voolstra , Benjamin Hume , Hans-Joachim Ruscheweyh
Communications Biology, 2023, 6 (1), pp.566. ⟨10.1038/s42003-023-04917-9⟩
Journal articles hal-04176296v1
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Pan-Arctic plankton community structure and its global connectivity

Federico M Ibarbalz , Nicolas Henry , Frédéric Mahé , Mathieu Ardyna , Adriana Zingone
Elementa: Science of the Anthropocene, 2023, 11 (1), pp.00060. ⟨10.1525/elementa.2022.00060⟩
Journal articles hal-04267640v1
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PlanktoScope: Affordable Modular Quantitative Imaging Platform for Citizen Oceanography

Thibaut Pollina , Adam Larson , Fabien Lombard , Hongquan Li , David Le Guen
Frontiers in Marine Science, 2022, 9, ⟨10.3389/fmars.2022.949428⟩
Journal articles hal-03971225v1
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Exploring the phycosphere of Emiliania huxleyi : from bloom dynamics to microbiome assembly experiments

Mariana Câmara dos Reis , Sarah Romac , Florence Le Gall , Dominique Marie , Miguel Frada
Molecular Ecology, inPress, ⟨10.1111/mec.16829⟩
Journal articles hal-03596404v3
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A robust approach to estimate relative phytoplankton cell abundances from metagenomes

Juan José Pierella Karlusich , Eric Pelletier , Lucie Zinger , Fabien Lombard , Adriana Zingone
Molecular Ecology Resources, 2022, 23 (1), pp.16-40. ⟨10.1111/1755-0998.13592⟩
Journal articles hal-03559541v1
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EukProt: A database of genome-scale predicted proteins across the diversity of eukaryotes

Daniel Richter , Cédric Berney , Jürgen Strassert , Yu-Ping Poh , Emily Herman
Peer Community Journal, 2022, 2, pp.e56. ⟨10.24072/pcjournal.173⟩
Journal articles hal-03971621v2
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Plankton Planet: A frugal, cooperative measure of aquatic life at the planetary scale

Colomban de Vargas , Noan Le Bescot , Thibaut Pollina , Nicolas Henry , Sarah Romac
Frontiers in Marine Science, 2022, 9, pp.936972. ⟨10.3389/fmars.2022.936972⟩
Journal articles hal-03788523v1
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Seasonal dynamics of marine protist communities in tidally mixed coastal waters

Mariarita Caracciolo , Fabienne Rigaut-Jalabert , Sarah Romac , Frédéric Mahé , Samuel Forsans
Molecular Ecology, 2022, 31 (14), pp.3761-3783. ⟨10.1111/mec.16539⟩
Journal articles hal-03781932v1
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Convergent evolution and horizontal gene transfer in Arctic Ocean microalgae

Richard Dorrell , Alan Kuo , Zoltan Füssy , Elisabeth Richardson , Asaf Salamov
Life Science Alliance, 2022, 6 (3), pp.e202201833. ⟨10.26508/lsa.202201833⟩
Journal articles hal-03859139v1
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Basin-Scale Underway Quantitative Survey of Surface Microplankton Using Affordable Collection and Imaging Tools Deployed From Tara

Zoé Mériguet , Anna Oddone , David Le Guen , Thibaut Pollina , Romain Bazile
Frontiers in Marine Science, 2022, 9, ⟨10.3389/fmars.2022.916025⟩
Journal articles hal-03877194v1
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Patterns of eukaryotic diversity from the surface to the deep-ocean sediment

Tristan Cordier , Inès Barrenechea Angeles , Nicolas Henry , Franck Lejzerowicz , Cédric Berney
Science Advances , 2022, 8 (5), ⟨10.1126/sciadv.abj9309⟩
Journal articles hal-03561462v1

Cryptic and abundant marine viruses at the evolutionary origins of Earth’s RNA virome

Ahmed Zayed , James Wainaina , Guillermo Dominguez-Huerta , Eric Pelletier , Jiarong Guo
Science, 2022, 376 (6589), pp.156-162. ⟨10.1126/science.abm5847⟩
Journal articles hal-03872940v1
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Swarm v3: towards tera-scale amplicon clustering

Frédéric Mahé , Lucas Czech , Alexandros Stamatakis , Christopher Quince , Colomban de Vargas
Bioinformatics, 2022, 38 (1), pp.267-269. ⟨10.1093/bioinformatics/btab493⟩
Journal articles hal-03284105v1
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Genomic evidence for global ocean plankton biogeography shaped by large-scale current systems

Daniel Richter , Romain Watteaux , Thomas Vannier , Jade Leconte , Paul Frémont
eLife, 2022, 11, pp.e78129. ⟨10.7554/eLife.78129⟩
Journal articles hal-02399723v2

Functional repertoire convergence of distantly related eukaryotic plankton lineages abundant in the sunlit ocean

Tom Delmont , Morgan Gaia , Damien Hinsinger , Paul Frémont , Chiara Vanni
Cell Genomics, 2022, 2 (5), pp.100123. ⟨10.1016/j.xgen.2022.100123⟩
Journal articles hal-03872935v2
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Priorities for ocean microbiome research

Andre Abreu , Etienne Bourgois , Adam Gristwood , Romain Troublé , Silvia Acinas
Nature Microbiology, 2022, 7 (7), pp.937-947. ⟨10.1038/s41564-022-01145-5⟩
Journal articles hal-03781942v1

The Ocean Barcode Atlas: a web service to explore the biodiversity and biogeography of marine organisms.

Caroline Vernette , Nicolas Henry , Julien Lecubin , Colomban de Vargas , Pascal Hingamp
Molecular Ecology Resources, 2021, ⟨10.1111/1755-0998.13322⟩
Journal articles hal-03115219v1
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Environmental vulnerability of the global ocean epipelagic plankton community interactome

Samuel Chaffron , Erwan Delage , Marko Budinich , Damien Vintache , Nicolas Henry
Science Advances , 2021, 7 (35), pp.eabg1921. ⟨10.1126/sciadv.abg1921⟩
Journal articles hal-03443359v2
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Phytoplankton taxonomic and functional diversity patterns across a coastal tidal front

Pierre Ramond , Raffaele Siano , Sophie Schmitt , Colomban de Vargas , Louis Marié
Scientific Reports, 2021, 11, pp.2682. ⟨10.1038/s41598-021-82071-0⟩
Journal articles hal-03127061v1
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Macroscale patterns of oceanic zooplankton composition and size structure

Manoela Brandão , Fabio Benedetti , Séverine Martini , Yawouvi Dodji Soviadan , Jean-Olivier Irisson
Scientific Reports, 2021, 11 (1), ⟨10.1038/s41598-021-94615-5⟩
Journal articles hal-03318806v1
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Global distribution patterns of marine nitrogen-fixers by imaging and molecular methods

Juan José Pierella Karlusich , Eric Pelletier , Fabien Lombard , Madeline Carsique , Etienne Dvorak
Nature Communications, 2021, 12, pp.4160. ⟨10.1038/s41467-021-24299-y⟩
Journal articles hal-03334117v2
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Protist taxonomic and functional diversity in soil, freshwater and marine ecosystems

David Singer , Christophe V W Seppey , Guillaume Lentendu , Micah Dunthorn , David Bass
Environment International, 2021, 146, pp.106262. ⟨10.1016/j.envint.2020.106262⟩
Journal articles hal-03028115v1
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Eukaryotic virus composition can predict the efficiency of carbon export in the global ocean

Hiroto Kaneko , Romain Blanc-Mathieu , Hisashi Endo , Samuel Chaffron , Tom Delmont
iScience, 2021, 24 (1), pp.102002. ⟨10.1016/j.isci.2020.102002⟩
Journal articles hal-03097258v3
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High and specific diversity of protists in the deep-sea basins dominated by diplonemids, kinetoplastids, ciliates and foraminiferans

Alexandra Schoenle , Manon Hohlfeld , Karoline Hermanns , Frédéric Mahé , Colomban de Vargas
Communications Biology, 2021, 4 (1), pp.501. ⟨10.1038/s42003-021-02012-5⟩
Journal articles hal-03208049v1
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Disentangling the mechanisms shaping the surface ocean microbiota

Ramiro Logares , Ina M Deutschmann , Pedro C Junger , Caterina R Giner , Anders K Krabberød
Microbiome, 2020, 8 (1), ⟨10.1186/s40168-020-00827-8⟩
Journal articles hal-02557469v1
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Tara Pacific Expedition’s Atmospheric Measurements of Marine Aerosols across the Atlantic and Pacific Oceans: Overview and Preliminary Results

J. Flores , G. Bourdin , O. Altaratz , M. Trainic , N. Lang-Yona
Bulletin of the American Meteorological Society, 2020, 101 (5), pp.E536-E554. ⟨10.1175/BAMS-D-18-0224.1⟩
Journal articles hal-02967981v1

Biogeography of marine giant viruses reveals their interplay with eukaryotes and ecological functions

Hisashi Endo , Romain Blanc Mathieu , Yanze Li , Guillem Salazar , Nicolas Henry
Nature Ecology & Evolution, 2020, 4 (12), pp.1639-1649. ⟨10.1038/s41559-020-01288-w⟩
Journal articles hal-02974168v1
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Large scale patterns of marine diatom richness: Drivers and trends in a changing ocean

Greta Busseni , Luigi Caputi , Roberta Piredda , Paul Fremont , Bruno Hay Mele
Global Ecology and Biogeography, 2020, 29 (11), pp.1915-1928. ⟨10.1111/geb.13161⟩
Journal articles hal-02992584v1
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An assessment of environmental metabarcoding protocols aiming at favoring contemporary biodiversity in inventories of deep-sea communities

Miriam Brandt , Blandine Trouche , Nicolas Henry , Cathy Liautard-Haag , Lois Maignien
Frontiers in Marine Science, 2020, 7, pp.234. ⟨10.3389/fmars.2020.00234⟩
Journal articles hal-03410860v1
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Community‐Level Responses to Iron Availability in Open Ocean Plankton Ecosystems

Luigi Caputi , Quentin Carradec , Damien Eveillard , Amos Kirilovsky , Eric Pelletier
Global Biogeochemical Cycles, 2019, 33 (3), pp.391-419. ⟨10.1029/2018GB006022⟩
Journal articles hal-02999805v1
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Global Trends in Marine Plankton Diversity across Kingdoms of Life

Federico Ibarbalz , Nicolas Henry , Manoela Brandão , Severine Martini , Greta Busseni
Cell, 2019, 179 (5), pp.1084-1097.e21. ⟨10.1016/j.cell.2019.10.008⟩
Journal articles hal-03094778v1
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Observational Needs Supporting Marine Ecosystems Modeling and Forecasting: From the Global Ocean to Regional and Coastal Systems

Antonietta Capotondi , Michael Jacox , Chris Bowler , Maria Kavanaugh , Patrick Lehodey
Frontiers in Marine Science, 2019, 6, pp.623. ⟨10.3389/fmars.2019.00623⟩
Journal articles hal-02316446v1
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Expanding Tara Oceans Protocols for Underway, Ecosystemic Sampling of the Ocean-Atmosphere Interface During Tara Pacific Expedition (2016–2018)

Gabriel Gorsky , Guillaume Bourdin , Fabien Lombard , Maria Luiza Pedrotti , Samuel Audrain
Frontiers in Marine Science, 2019, 6, pp.650. ⟨10.3389/fmars.2019.00750⟩
Journal articles hal-02407578v1
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The Tara Pacific expedition-A pan-ecosystemic approach of the "-omics" complexity of coral reef holobionts across the Pacific Ocean

Serge Planes , Denis Allemand , Sylvain Agostini , Bernard Banaigs , Emilie Boissin
PLoS Biology, 2019, 17 (9), pp.e3000483. ⟨10.1371/journal.pbio.3000483⟩
Journal articles hal-02402685v1
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Marine DNA viral macro- and microdiversity from Pole to Pole

Ann Gregory , Ahmed Zayed , Nádia Conceição-Neto , Ben Temperton , Ben Bolduc
Cell, 2019, 177 (5), pp.1109-1123.e14. ⟨10.1016/j.cell.2019.03.040⟩
Journal articles hal-02387010v1
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Single cell genomics yields a wide diversity of small planktonic protists across major ocean ecosystems

M. E Sieracki , N. J Poulton , O. Jaillon , P. Wincker , Colomban de Vargas
Scientific Reports, 2019, 9, pp.6025. ⟨10.1038/s41598-019-42487-1⟩
Journal articles hal-02113815v1
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Coupling between taxonomic and functional diversity in protistan coastal communities

Pierre Ramond , Marc Sourisseau , Nathalie Simon , Sarah Romac , Sophie Schmitt
Environmental Microbiology, 2019, 21 (2), pp.730-749. ⟨10.1111/1462-2920.14537⟩
Journal articles hal-03971181v1

Gene Expression Changes and Community Turnover Differentially Shape the Global Ocean Metatranscriptome

Guillem Salazar , Lucas Paoli , Adriana A. Alberti , Jaime Huerta-Cepas , Hans-Joachim Ruscheweyh
Cell, 2019, 179 (5), pp.1068-1083.e21. ⟨10.1016/j.cell.2019.10.014⟩
Journal articles hal-02964513v1
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Genetic and morphological divergence in the warm-water planktonic foraminifera genus Globigerinoides

Raphael Morard , Angelina Füllberg , Geert-Jan Brummer , Mattia Greco , Lukas Jonkers
PLoS ONE, 2019, 14 (12), pp.e0225246. ⟨10.1371/journal.pone.0225246⟩
Journal articles hal-02412791v1
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Ubiquitous abundance distribution of non-dominant plankton across the global ocean

Enrico Ser-Giacomi , Lucie Zinger , Shruti Malviya , Colomban de Vargas , Eric Karsenti
Nature Ecology & Evolution, 2018, 2 (8), pp.1243-1249. ⟨10.1038/s41559-018-0587-2⟩
Journal articles hal-02364756v1

Worldwide Occurrence and Activity of the Reef-Building Coral Symbiont Symbiodinium in the Open Ocean

Johan Decelle , Quentin Carradec , Xavier Pochon , Nicolas Henry , Sarah Romac
Current Biology - CB, 2018, 28 (22), pp.3625-3633.e3. ⟨10.1016/j.cub.2018.09.024⟩
Journal articles hal-02194113v1
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An improved primer set and amplification protocol with increased specificity and sensitivity targeting the Symbiodinium ITS2 region

Benjamin C C Hume , Maren Ziegler , Julie Poulain , Xavier Pochon , Sarah Romac
PeerJ, 2018, 6, pp.e4816. ⟨10.7717/peerj.4816⟩
Journal articles hal-01822910v1
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Nanoplanktonic diatoms are globally overlooked but play a role in spring blooms and carbon export

Karine Leblanc , Bernard Queguiner , Frederic Diaz , Veronique Cornet , Mónica Michel-Rodriguez
Nature Communications, 2018, 9 (1), pp.953. ⟨10.1038/s41467-018-03376-9⟩
Journal articles hal-02006275v1
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EukRef: Phylogenetic curation of ribosomal RNA to enhance understanding of eukaryotic diversity and distribution

Javier del Campo , Martin Kolisko , Vittorio Boscaro , Luciana Santoferrara , Serafim Nenarokov
PLoS Biology, 2018, 16 (9), pp.e2005849. ⟨10.1371/journal.pbio.2005849⟩
Journal articles hal-03971662v2
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Single-cell genomics of multiple uncultured stramenopiles reveals underestimated functional diversity across oceans

Yoann Seeleuthner , Samuel Mondy , Vincent Lombard , Quentin Carradec , Eric Pelletier
Nature Communications, 2018, 9, pp.310. ⟨10.1038/s41467-017-02235-3⟩
Journal articles hal-01771839v1
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A global ocean atlas of eukaryotic genes

Quentin Carradec , Eric Pelletier , Corinne da Silva , Adriana A. Alberti , Yoann Seeleuthner
Nature Communications, 2018, 9 (1), pp.373. ⟨10.1038/s41467-017-02342-1⟩
Journal articles cea-01874711v1
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Metabarcoding analysis on European coastal samples reveals new molecular metazoan diversity

David López-Escardó , Jordi Paps , Colomban de Vargas , Ramon Massana , Iñaki Ruiz-Trillo
Scientific Reports, 2018, 8, pp.9106. ⟨10.1038/s41598-018-27509-8⟩
Journal articles hal-01829946v1

Neobodonids are dominant kinetoplastids in the global ocean

Olga Flegontova , Pavel Flegontov , Shruti Malviya , Julie Poulain , Colomban de Vargas
Environmental Microbiology, 2018, 20 (2), pp.878-889. ⟨10.1111/1462-2920.14034⟩
Journal articles cea-02291359v1
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Surface ocean metabarcoding confirms limited diversity in planktonic foraminifera but reveals unknown hyper-abundant lineages

Raphael Morard , Marie-José Garet-Delmas , Frédéric Mahé , Sarah Romac , Julie Poulain
Scientific Reports, 2018, 8, pp.2539. ⟨10.1038/s41598-018-20833-z⟩
Journal articles hal-01718031v1
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Diatom diversity through HTS-metabarcoding in coastal European seas

Roberta Piredda , Jean-Michel Claverie , Johan Decelle , Colomban de Vargas , Micah Dunthorn
Scientific Reports, 2018, 8 (1), pp.18059 (2018). ⟨10.1038/s41598-018-36345-9⟩
Journal articles hal-01978355v1
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The epibiotic life of the cosmopolitan diatom Fragilariopsis doliolus on heterotrophic ciliates in the open ocean

Flora J. Vincent , Sébastien Colin , Sarah Romac , Eleonora Scalco , Lucie Bittner
The International Society of Microbiologial Ecology Journal, 2018, 12 (4), pp.1094 - 1108. ⟨10.1038/s41396-017-0029-1⟩
Journal articles hal-01762501v1
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Viral to metazoan marine plankton nucleotide sequences from the Tara Oceans expedition

Adriana A. Alberti , Julie Poulain , Stefan Engelen , Karine Labadie , Sarah Romac
Scientific Data , 2017, 4, ⟨10.1038/sdata.2017.93⟩
Journal articles hal-01771844v1

Parasites dominate hyperdiverse soil protist communities in Neotropical rainforests

Frédéric Mahé , Colomban de Vargas , David Bass , Lucas Czech , Alexandros Stamatakis
Nature Ecology & Evolution, 2017, 1 (4), pp.0091. ⟨10.1038/s41559-017-0091⟩
Journal articles hal-03971032v1

Insights into the harmful algal flora in northwestern Mediterranean coastal lagoons revealed by pyrosequencing metabarcodes of the 28S rRNA gene

Daniel Grzebyk , Stéphane Audic , Bernard Lasserre , Eric Abadie , Colomban de Vargas
Harmful Algae, 2017, 68, pp.1 - 16. ⟨10.1016/j.hal.2017.06.003⟩
Journal articles hal-01928761v1
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Accessing the genomic information of unculturable oceanic picoeukaryotes by combining multiple single cells

Jean-François Mangot , Ramiro Logares , Pablo Sánchez , Fran Latorre , Yoann 6 Seeleuthner
Scientific Reports, 2017, 7, pp.41498. ⟨10.1038/srep41498⟩
Journal articles hal-01466618v1
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UniEuk : Time to Speak a Common Language in Protistology!

Cédric Berney , Andreea Ciuprina , Sara Bender , Juliet Brodie , Virginia Edgcomb
Journal of Eukaryotic Microbiology, 2017, 64 (3), pp.407-411. ⟨10.1111/jeu.12414⟩
Journal articles hal-01512649v1
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Planktonic foraminifera-derived environmental DNA extracted from abyssal sediments preserves patterns of plankton macroecology

Raphaël Morard , Franck Lejzerowicz , Kate F. Darling , Béatrice Lecroq-Bennet , Mikkel Winther Pedersen
Biogeosciences, 2017, 14 (11), pp.2741 - 2754. ⟨10.5194/bg-14-2741-2017⟩
Journal articles hal-01546988v1
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Quantitative 3D-imaging for cell biology and ecology of environmental microbial eukaryotes

Sébastien Colin , Luis Pedro Coelho , Shinichi Sunagawa , Chris Bowler , Eric Karsenti
eLife, 2017, 6, pp.e26066. ⟨10.7554/eLife.26066⟩
Journal articles hal-01633659v1
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Environmental sequencing provides reasonable estimates of the relative abundance of specific picoeukaryotes

Caterina R. Giner , Irene Forn , Sarah Romac , Ramiro Logares , Colomban de Vargas
Applied and Environmental Microbiology, 2016, 82 (15), pp.4757-4766. ⟨10.1128/AEM.00560-16⟩
Journal articles hal-01332059v1

Insights into global diatom distribution and diversity in the world's ocean

Shruti Malviya , Eleonora Scalco , Stephane Audic , Flora Vincenta , Alaguraj Veluchamy
Proceedings of the National Academy of Sciences of the United States of America, 2016, 113 (11), pp.E1516-E1525. ⟨10.1073/pnas.1509523113⟩
Journal articles hal-01545320v1

Global patterns of pelagic dinoflagellate diversity across protist size classes unveiled by metabarcoding

Noan Le Bescot , Frédéric Mahé , Stéphane Audic , Céline Dimier , Marie-Jose Garet
Environmental Microbiology, 2016, 18 (2), pp.609-626. ⟨10.1111/1462-2920.13039⟩
Journal articles hal-01305586v1
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Benthic protists: the under-charted majority

Dominik Forster , Micah Dunthorn , Fréderic Mahé , John R. Dolan , Stéphane Audic
FEMS Microbiology Ecology, 2016, 92 (8), pp.fiw120. ⟨10.1093/femsec/fiw120⟩
Journal articles hal-01383722v1
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Methodology for Single-Cell Genetic Analysis of Planktonic Foraminifera for Studies of Protist Diversity and Evolution

Agnès K.M. Weiner , Raphael Morard , Manuel Weinkauf , Kate F. Darling , Aurore Andre
Frontiers in Marine Science, 2016, 3 (255), pp.1-15. ⟨10.3389/fmars.2016.00255⟩
Journal articles hal-01420794v1
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Cyanobacterial symbionts diverged in the late Cretaceous towards lineage-specific nitrogen fixation factories in single-celled phytoplankton

Francisco M. Cornejo-Castillo , Ana M. Cabello , Guillem Salazar , Patricia Sánchez-Baracaldo , Gipsi Lima-Mendez
Nature Communications, 2016, 7, pp.11071. ⟨10.1038/ncomms11071⟩
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Global distribution and vertical patterns of a prymnesiophyte–cyanobacteria obligate symbiosis

Ana M Cabello , Francisco M Cornejo-Castillo , Nicolas Raho , Dolors Blasco , Montserrat Vidal
The International Society of Microbiologial Ecology Journal, 2016, 10 (3), pp.693-706. ⟨10.1038/ismej.2015.147⟩
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Hidden diversity of Acoelomorpha revealed through metabarcoding

Alicia S. Arroyo , David López-Escardó , Colomban de Vargas , Iñaki Ruiz-Trillo
Biology Letters, 2016, 12 (9), pp.845-871. ⟨10.1098/rsbl.2016.0674⟩
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The symbiotic life of Symbiodinium in the open ocean within a new species of calcifying ciliate (Tiarina sp.)

Solenn Mordret , Sarah Romac , Nicolas Henry , Sebastien Colin , Margaux Carmichael
The International Society of Microbiologial Ecology Journal, 2016, 10 (6), pp.1424-1436. ⟨10.1038/ismej.2015.211⟩
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The Evolution of Silicon Transport in Eukaryotes

Alan O. Marron , Sarah Ratcliffe , Glen L. Wheeler , Raymond E. Goldstein , Nicole King
Molecular Biology and Evolution, 2016, 12 (12), pp.3226-3248. ⟨10.1093/molbev/msw209⟩
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Diversity and oceanic distribution of the Parmales (Bolidophyceae), a picoplanktonic group closely related to diatoms

Mutsuo Ichinomiya , Adriana Lopes dos Santos , Priscillia Gourvil , Shinya Yoshikawa , Mitsunobu Kamiya
The International Society of Microbiologial Ecology Journal, 2016, 10, pp.2419-2434. ⟨10.1038/ismej.2016.38⟩
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Nomenclature for the Nameless: A Proposal for an Integrative Molecular Taxonomy of Cryptic Diversity Exemplified by Planktonic Foraminifera

Raphael Morard , Gilles Escarguel , Agnès K.M. Weiner , Aurore Andre , Christophe Jean Douady
Systematic Biology, 2016, 65 (5), pp.925-940. ⟨10.1093/sysbio/syw031⟩
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The Tara Oceans voyage reveals global diversity and distribution patterns of marine planktonic ciliates

Anna Gimmler , Ralf Korn , Colomban de Vargas , Stéphane Audic , Thorsten Stoeck
Scientific Reports, 2016, 6, pp.33555. ⟨10.1038/srep33555⟩
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Survey of the green picoalga Bathycoccus genomes in the global ocean

Thomas Vannier , Jade Leconte , Yoann Seeleuthner , Samuel Mondy , Eric Pelletier
Scientific Reports, 2016, 6, pp.37900. ⟨10.1038/srep37900⟩
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Molecular diversity and distribution of marine fungi across 130 European environmental samples

Thomas A. Richards , Guy Leonard , Frédéric Mahé , Javier Del Campo , Sarah Romac
Proceedings of the Royal Society B: Biological Sciences, 2015, 282 (1819), pp.20152243. ⟨10.1098/rspb.2015.2243⟩
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Open science resources for the discovery and analysis of Tara Oceans data

Stéphane Pesant , Fabrice Not , Marc Picheral , Stefanie Kandels-Lewis , Noan Le Bescot
Scientific Data , 2015, 2, pp.150023. ⟨10.1038/sdata.2015.23⟩
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Environmental characteristics of Agulhas rings affect interocean plankton transport

Emilie Villar , Gregory Farrant , Michael Follows , Laurence Garczarek , Sabrina Speich
Science, 2015, 348 (6237), pp.1261447 - 1261447. ⟨10.1126/science.1261447⟩
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Marine protist diversity in European coastal waters and sediments as revealed by high-throughput sequencing

Ramon Massana , Angélique Gobet , Stéphane Audic , David Bass , Lucie Bittner
Environmental Microbiology, 2015, 17 (10), pp.4035-4049. ⟨10.1111/1462-2920.12955⟩
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Tara Oceans studies plankton at PLANETARY SCALE

P. Bork , C. Bowler , Colomban de Vargas , G. Gorsky , E. Karsenti
Science, 2015, 348 (6237), pp.873. ⟨10.1126/science.aac5605⟩
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Determinants of community structure in the global plankton interactome

Gipsi Lima-Mendez , Karoline Faust , Nicolas Henry , Johan Decelle , Sébastien Colin
Science, 2015, 348 (6237), pp.1262073. ⟨10.1126/science.1262073⟩
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Swarm v2: highly-scalable and high-resolution amplicon clustering

Frédéric Mahé , Torbjørn Rognes , Christopher Quince , Colomban de Vargas , Micah Dunthorn
PeerJ, 2015, 3, pp.e1420. ⟨10.7717/peerj.1420⟩
Journal articles hal-01271077v1
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Structure and function of the global ocean microbiome

Shinichi Sunagawa , Luis Pedro Coelho , Samuel Chaffron , Jens Roat Kultima , Karine Labadie
Science, 2015, 348 (6237), pp.1261359. ⟨10.1126/science.1261359⟩
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Patterns and ecological drivers of ocean viral communities

Jennifer Brum , J Cesar Ignacio-Espinoza , Simon Roux , Guilhem Doulcier , Silvia G. Acinas
Science, 2015, 348 (6237), pp.1261498. ⟨10.1126/science.1261498⟩
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Diversity and distribution of unicellular opisthokonts along the European coast analysed using high-throughput sequencing

Javier Del Campo , Diego Mallo , Ramon Massana , Colomban de Vargas , Thomas A. Richards
Environmental Microbiology, 2015, 17 (9), pp.3195-3207. ⟨10.1111/1462-2920.12759⟩
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Deep sequencing of amplified Prasinovirus and host green algal genes from an Indian Ocean transect reveals interacting trophic dependencies and new genotypes

Camille Clerissi , Yves Desdevises , Sarah Romac , Stéphane Audic , Colomban de Vargas
Environmental Microbiology Reports, 2015, 7 (6), pp.979-989. ⟨10.1111/1758-2229.12345⟩
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PhytoREF: a reference database of the plastidial 16S rRNA gene of photosynthetic eukaryotes with curated taxonomy

Johan Decelle , Sarah Romac , Rowena F Stern , El Mahdi Bendif , Adriana Zingone
Molecular Ecology Resources, 2015, 15 (6), pp.1435-1445. ⟨10.1111/1755-0998.12401⟩
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Life-cycle modification in open oceans accounts for genome variability in a cosmopolitan phytoplankton

Peter von Dassow , Uwe John , Hiroyuki Ogata , Ian Probert , El Mahdi Bendif
The International Society of Microbiologial Ecology Journal, 2015, 9 (6), pp.1365-1377. ⟨10.1038/ismej.2014.221⟩
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Comparative Transcriptome of Wild Type and Selected Strains of the Microalgae Tisochrysis lutea Provides Insights into the Genetic Basis, Lipid Metabolism and the Life Cycle

Gregory Carrier , Matthieu Garnier , Loïc Le Cunff , Gaël Bougaran , Ian Probert
PLoS ONE, 2014, 9 (1), pp.e86889. ⟨10.1371/journal.pone.0086889⟩
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Placing Environmental Next-Generation Sequencing Amplicons from Microbial Eukaryotes into a Phylogenetic Context

Micah Dunthorn , Johannes Otto , Simon A. Berger , Alexandros Stamatakis , Frédéric Mahé
Molecular Biology and Evolution, 2014, 31 (4), pp.993-1009. ⟨10.1093/molbev/msu055⟩
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SSU rDNA Divergence in Planktonic Foraminifera: Molecular Taxonomy and Biogeographic Implications

Aurore André , Quillévéré Frédéric , Raphaël Morard , Yurika Ujiié , Gilles Escarguel
PLoS ONE, 2014, 9 (8), pp.e104641. ⟨10.1371/journal.pone.0104641⟩
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Diverse molecular signatures for ribosomally ‘active’ Perkinsea in marine sediments

Aurélie Chambouvet , Cédric Berney , Sarah Romac , Stéphane Audic , Finlay Maguire
BMC Microbiology, 2014, 14 (1), pp.110. ⟨10.1186/1471-2180-14-110⟩
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Patterns of Rare and Abundant Marine Microbial Eukaryotes

Ramiro Logares , Stéphane Audic , David Bass , Lucie Bittner , Christophe Boutte
Current Biology - CB, 2014, 24 (8), pp.813-821. ⟨10.1016/j.cub.2014.02.050⟩
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Morphospecies versus phylospecies concepts for evaluating phytoplankton diversity: the case of the Coccolithophores

Jeremy R. Young , Hui Liu , Ian Probert , Stephane Aris-Brosou , Colomban de Vargas
Cryptogamie Algologie, 2014, 35 (4), pp.353-377. ⟨10.7872/crya.v35.iss4.2014.353⟩
Journal articles hal-01258220v1
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Swarm: robust and fast clustering method for amplicon-based studies

Frédéric Mahé , Torbjørn Rognes , Christopher Quince , Colomban de Vargas , Micah Dunthorn
PeerJ, 2014, 2, pp.e593. ⟨10.7717/peerj.593⟩
Journal articles hal-01245140v1
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Metagenomic 16S rDNA Illumina tags are a powerful alternative to amplicon sequencing to explore diversity and structure of microbial communities

Ramiro Logares , Shinichi Sunagawa , Guillem Salazar , Francisco M. Cornejo-Castillo , Isabel Ferrera
Environmental Microbiology, 2014, 16 (9, SI), pp.2659-2671. ⟨10.1111/1462-2920.12250⟩
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Genetic delineation between and within the widespread coccolithophore morpho-species Emiliania huxleyi and Gephyrocapsa oceanica (Haptophyta)

El Mahdi Bendif , Ian Probert , Margaux Carmichael , Sarah Romac , Kyoko Hagino
Journal of Phycology, 2014, 50 (1), pp.140-148. ⟨10.1111/jpy.12147⟩
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Exploring nucleo-cytoplasmic large DNA viruses in Tara Oceans microbial metagenomes

Pascal Hingamp , Nigel Grimsley , Silvia G Acinas , Camille Clerissi , Lucie Subirana
The International Society of Microbiologial Ecology Journal, 2013, 7 (9), pp.1678-1695. ⟨10.1038/ismej.2013.59⟩
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Diversity patterns of uncultured Haptophytes unravelled by pyrosequencing in Naples Bay.

Lucie Bittner , Angélique Gobet , Stéphane Audic , Sarah Romac , Elianne S Egge
Molecular Ecology, 2013, 22 (1), pp.87-101. ⟨10.1111/mec.12108⟩
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The Protist Ribosomal Reference database (PR2): a catalog of unicellular eukaryote Small Sub-Unit rRNA sequences with curated taxonomy

Laure Guillou , Dipankar Bachar , Stéphane Audic , David Bass , Cédric Berney
Nucleic Acids Research, 2013, 41 (D1), pp.D597-D604. ⟨10.1093/nar/gks1160⟩
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Deep relationships of Rhizaria revealed by phylogenomics: A farewell to Haeckel's Radiolaria

Roberto Sierra , Mikhail V. Matz , Galina Aglyamova , Loïc Pillet , Johan Decelle
Molecular Phylogenetics and Evolution, 2013, 67 (1), pp.53-59. ⟨10.1016/j.ympev.2012.12.011⟩
Journal articles hal-01258221v1
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454 Pyrosequencing to Describe Microbial Eukaryotic Community Composition, Diversity and Relative Abundance: A Test for Marine Haptophytes

Elianne Egge , Lucie Bittner , Tom Andersen , Stéphane Audic , Colomban de Vargas
PLoS ONE, 2013, 8 (9), pp.e74371. ⟨10.1371/journal.pone.0074371⟩
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Ecological modeling of the temperature dependence of cryptic species of planktonic Foraminifera in the Southern Hemisphere

Raphael Morard , Frederic Quillevere , Gilles Escarguel , Thibault de Garidel-Thoron , Colomban de Vargas
Palaeogeography, Palaeoclimatology, Palaeoecology, 2013, 391, pp.13-33. ⟨10.1016/j.palaeo.2013.05.011⟩
Journal articles hal-00911448v1
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Bioprospecting Marine Plankton

Heni Abida , Sandrine Ruchaud , Laurent Rios , Anne Humeau , Ian Probert
Marine drugs, 2013, 11 (11), pp.4594-4611. ⟨10.3390/md11114594⟩
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On the description of Tisochrysis lutea gen. nov sp nov and Isochrysis nuda sp nov in the Isochrysidales, and the transfer of Dicrateria to the Prymnesiales (Haptophyta)

El Mahdi Bendif , Ian Probert , Declan C. Schroeder , Colomban de Vargas
Journal of Applied Phycology, 2013, 25 (6), pp.1763-1776. ⟨10.1007/s10811-013-0037-0⟩
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Global scale same-specimen morpho-genetic analysis of Truncorotalia truncatulinoides: a perspective on the morphological species concept in planktonic foraminifera

Frederic Quillevere , Raphaël Morard , Gilles Escarguel , Christophe Jean Douady , Y Ujiie
Palaeogeography, Palaeoclimatology, Palaeoecology, 2013, 391, pp.2-12. ⟨10.1016/j.palaeo.2011.03.013⟩
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Diversity, ecology and biogeochemistry of cyst-forming acantharia (radiolaria) in the oceans.

Johan Decelle , Patrick Martin , Katsiaryna Paborstava , David W Pond , Geraint Tarling
PLoS ONE, 2013, 8 (1), pp.e53598. ⟨10.1371/journal.pone.0053598⟩
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The cryptic and the apparent reversed: lack of genetic differentiation within the morphologically diverse plexus of the planktonic foraminifer Globigerinoides sacculifer

Aurore Andre , Agnes Weiner , Frederic Quillevere , Ralf Aurahs , Raphaël Morard
Paleobiology, 2013, 39 (1), pp.21-39. ⟨10.1666/0094-8373-39.1.21⟩
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CBOL Protist Working Group: Barcoding Eukaryotic Richness beyond the Animal, Plant, and Fungal Kingdoms

Jan Pawlowski , Stéphane Audic , Sina Adl , David Bass , Lassaâd Belbahri
PLoS Biology, 2012, 10 (11), pp.e1001419. ⟨10.1371/journal.pbio.1001419⟩
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An original mode of symbiosis in open ocean plankton

Johan Decelle , Ian Probert , Lucie Bittner , Yves Desdevises , Sébastien Colin
Proceedings of the National Academy of Sciences of the United States of America, 2012, 109 (44), pp.18000-18005. ⟨10.1073/pnas.1212303109⟩
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Two distinct lineages in the radiolarian Order Spumellaria having different ecological preferences

Yoshiyuki Ishitani , Yurika Ujiié , Colomban de Vargas , Fabrice Not , Kozo Takahashi
Deep Sea Research Part II: Topical Studies in Oceanography, 2012, 61-64, pp.172-178. ⟨10.1016/j.dsr2.2011.12.005⟩
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Molecular Phylogeny and Morphological Evolution of the Acantharia (Radiolaria)

Johan Decelle , Noritoshi Suzuki , Frédéric Mahé , Colomban de Vargas , Fabrice Not
Protist, 2012, 163 (3), pp.435-450. ⟨10.1016/j.protis.2011.10.002⟩
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In situ survey of life cycle phases of the coccolithophore Emiliania huxleyi (Haptophyta)

Miguel J. Frada , Kay D. Bidle , Ian Probert , Colomban de Vargas
Environmental Microbiology, 2012, 14 (6), pp.1558-1569. ⟨10.1111/j.1462-2920.2012.02745.x⟩
Journal articles hal-01258234v1
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Longitudinal differentiation among pelagic populations in a planktic foraminifer.

Yurika Ujiié , Takahiro Asami , Thibault de Garidel-Thoron , Liu Liu , Yoshiyuki Ishitani
Ecology and Evolution, 2012, 2 (7), pp.1725-37. ⟨10.1002/ece3.286⟩
Journal articles hal-00866864v1
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Diversity patterns and activity of uncultured marine heterotrophic flagellates unveiled with pyrosequencing

Ramiro Logares , Stéphane Audic , Sébastien Santini , Massimo C. Pernice , Colomban de Vargas
The International Society of Microbiologial Ecology Journal, 2012, 6 (10), pp.1823-1833. ⟨10.1038/ismej.2012.36⟩
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New evidence for morphological and genetic variation in the cosmopolitan coccolithophore emiliania huxleyi (prymnesiophyceae) from the cox1b-atp4 genes

Kyoko Hagino , El Mahdi Bendif , Jeremy R. Young , Kazuhiro Kogame , Ian Probert
Journal of Phycology, 2011, 47 (5), pp.1164-1176. ⟨10.1111/j.1529-8817.2011.01053.x⟩
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Unveiling the transcriptional features associated with coccolithovirus infection of natural Emiliania huxleyi blooms

Antonio Pagarete , Gildas Le Corguille , Bela Tiwari , Hiroyuki Ogata , Colomban de Vargas
FEMS Microbiology Ecology, 2011, 78 (3), pp.555-564. ⟨10.1111/j.1574-6941.2011.01191.x⟩
Journal articles hal-01258250v1
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Worldwide Genotyping in the Planktonic Foraminifer Globoconella inflata: Implications for Life History and Paleoceanography

Raphaël Morard , Frederic Quillevere , Christophe Jean Douady , Colomban de Vargas , Thibault de Garidel-Thoron
PLoS ONE, 2011, 6 (10), pp.e26665. ⟨10.1371/journal.pone.0026665⟩
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Transcriptome Analyses Reveal Differential Gene Expression Patterns Between the Life-Cycle Stages of Emiliania Huxleyi (haptophyta) and Reflect Specialization to Different Ecological Niches1: Gene Expression in E. Huxleyi

Sebastian D. Rokitta , Lennart J. De Nooijer , Scarlett Trimborn , Colomban de Vargas , Björn Rost
Journal of Phycology, 2011, 47 (4), pp.829-838. ⟨10.1111/j.1529-8817.2011.01014.x⟩
Journal articles hal-01258249v1
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A Holistic Approach to Marine Eco-Systems Biology

Eric Karsenti , Silvia G. Acinas , Peer Bork , Chris Bowler , Colomban de Vargas
PLoS Biology, 2011, 9 (10), pp.e1001177. ⟨10.1371/journal.pbio.1001177⟩
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Pelagodinium gen. nov and P-beii comb. nov., a Dinoflagellate Symbiont of Planktonic Foraminifera

Raffaele Siano , Marina Montresor , Ian Probert , Fabrice Not , Colomban de Vargas
Protist, 2010, 161 (3), pp.385-399. ⟨10.1016/j.protis.2010.01.002⟩
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A Time line of the Environmental Genetics of the Haptophytes

Hui Liu , Stephane Aris-Brosou , Ian Probert , Colomban de Vargas
Molecular Biology and Evolution, 2010, 27 (1), pp.161-176. ⟨10.1093/molbev/msp222⟩
Journal articles hal-01258256v1
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Phytoplankton Biogeography and Community Stability in the Ocean

Pedro Cermeno , Colomban de Vargas , Fatima Abrantes , Paul G. Falkowski
PLoS ONE, 2010, 5 (3), pp.e10037. ⟨10.1371/journal.pone.0010037⟩
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A guide to extant coccolithophores (Calcihaptophycidae, Haptophyta) using light microscopy

Miguel Frada , Jeremy Young , Mario Cachão , Silvia Lino , Ana Martins
Journal of Nannoplankton Research, 2010, 31 (2), pp.58-112
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Coiling dimorphism within a genetic type of the planktonic foraminifer Globorotalia truncatulinoides

Yurika Ujiié , Thibault de Garidel-Thoron , S Watanabe , P Wiebe , Colomban de Vargas
Micropaleontology, 2010, 77 (3-4), pp.145-153. ⟨10.1016/j.marmicro.2010.09.001⟩
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First observations of heterococcolithophore-holococcolithophore life cycle combinations in the family Pontosphaeraceae (Calcihaptophycideae, Haptophyta)

Miguel Frada , Isabella Percopo , Jeremy Young , Adriana Zingone , Colomban de Vargas
Marine Micropaleontology, 2009, 71 (1-2), pp.20-27. ⟨10.1016/j.marmicro.2009.01.001⟩
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Paleodictyon nodosum: A living fossil on the deep-sea floor

Peter A. Rona , Adolf Seilacher , Colomban de Vargas , Andrew J. Gooday , Joan M. Bernhard
Deep Sea Research Part II: Topical Studies in Oceanography, 2009, 56 (19-20), pp.1700-1712. ⟨10.1016/j.dsr2.2009.05.015⟩
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Morphological recognition of cryptic species in the planktonic foraminifer Orbulina universa

Raphael Morard , Frederic Quillevere , Gilles Escarguel , Y Ujiie , Thibault de Garidel-Thoron
Micropaleontology, 2009, 71 (3-4), pp.148-165. ⟨10.1016/j.marmicro.2009.03.001⟩
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Horizontal gene transfer of an entire metabolic pathway between a eukaryotic alga and its DNA virus

Adam Monier , Antonio Pagarete , Colomban de Vargas , Michael J. Allen , Betsy Read
Genome Research, 2009, 19 (8), pp.1441-1449. ⟨10.1101/gr.091686.109⟩
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Host-virus shift of the sphingolipid pathway along an Emiliania huxleyi bloom: survival of the fattest

Antonio Pagarete , Michael J. Allen , William H. Wilson , Susan A. Kimmance , Colomban de Vargas
Environmental Microbiology, 2009, 11 (11), pp.2840-2848. ⟨10.1111/j.1462-2920.2009.02006.x⟩
Journal articles hal-01258269v1
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Acquired phototrophy in aquatic protists

Diane K. Stoecker , Matthew D. Johnson , Colomban de Vargas , Fabrice Not
Aquatic Microbial Ecology, 2009, 57 (3, 3), pp.279-310. ⟨10.3354/ame01340⟩
Journal articles hal-01258262v1

Light-Dependent Transcriptional Regulation of Genes of Biogeochemical Interest in the Diploid and Haploid Life Cycle Stages of Emiliania huxleyi

Sophie Richier , Marie-Emmanuelle Kerros , Colomban de Vargas , Liti Haramaty , Paul G. Falkowski
Applied and Environmental Microbiology, 2009, 75 (10), pp.3366-3369. ⟨10.1128/AEM.02737-08⟩
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New Insights into the Diversity of Marine Picoeukaryotes

Fabrice Not , Javier Del Campo , Vanessa Balague , Colomban de Vargas , Ramon Massana
PLoS ONE, 2009, 4 (9), pp.e7143. ⟨10.1371/journal.pone.0007143⟩
Journal articles hal-01258270v1

Extreme diversity in noncalcifying haptophytes explains a major pigment paradox in open oceans

Hui Liu , Ian Probert , Julia Uitz , Hervé Claustre , Stephane Aris-Brosou
Proceedings of the National Academy of Sciences of the United States of America, 2009, 106 (31), pp.12803-12808. ⟨10.1073/pnas.0905841106⟩
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Transcriptome analysis of functional differentiation between haploid and diploid cells of Emiliania huxleyi, a globally significant photosynthetic calcifying cell

Peter Von Dassow , Hiroyuki Ogata , Ian Probert , Patrick Wincker , Corinne da Silva
Genome Biology, 2009, 10 (10), pp.R114. ⟨10.1186/gb-2009-10-10-r114⟩
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Causal or casual link between the rise of nannoplankton calcification and a tectonically-driven massive decrease in Late Triassic atmospheric CO2 ?

Y. Godderis , Y. Donnadieu , C. de Vargas , Raymond T. Pierrehumbert , Gilles Dromart
Earth and Planetary Science Letters, 2008, 267, pp.247-265
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Causal or casual link between the rise of nannoplankton calcification and a tectonically-driven massive decrease in Late Triassic atmospheric CO2?

Yves Goddéris , Yannick Donnadieu , Colomban de Vargas , Raymond T. Pierrehumbert , Gilles Dromart
Earth and Planetary Science Letters, 2008, 267 (1-2), pp.247-255. ⟨10.1016/J.EPSL.2007.11.051⟩
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Extreme differences in rates of molecular evolution of foraminifera revealed by comparison of ribosomal DNA sequences and the fossil record

J. Pawlowski , I. Bolivar , J.F. Fahrni , C. de Vargas , Manolo Gouy
Molecular Biology and Evolution, 1997, 14 (5), pp.498-505. ⟨10.1093/oxfordjournals.molbev.a025786⟩
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TARA Pacific Bleaching Prevalence of Sampling Sites (Islands)

Kyra Pikaar , Guillaume Bourdin , Stéphane Pesant , Julie Poulain , Caroline Belser
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TARA Pacific CTAX colony morphological annotations release version 1_1

Guinther Mitushasi , Sylvain Algostini , Benjamin Hume , Yuko Kitano , Julie Poulain
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Tara Pacific V9 18S rDNA metabarcoding dataset

Frédéric Mahé , Nicolas Henry , Cédric Berney , Julie Poulain , Sarah Romac
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Tara Pacific 16S rRNA data analysis release

Hans-Joachim Ruscheweyh , Guillem Salazar , Julie Poulain , Caroline Belser , Quentin Clayssen
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Tara Pacific metabarcoding sequencing (16S, 18S, ITS2) reference & replication tables version 1

Benjamin C.C. Hume , Julie Poulain , Stéphane Pesant , Caroline Belser , Hans-Joachim Ruscheweyh
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Tara Pacific ITS2 Symbiodiniaceae data release version 1

Benjamin C.C. Hume , Julie Poulain , Stéphane Pesant , Caroline Belser , Hans-Joachim Ruscheweyh
Other publications hal-04384112v1

Tara Pacific 18S-based coral host genetic analysis data release version 1

Benjamin C.C. Hume , Julie Poulain , Stéphane Pesant , Caroline Belser , Hans-Joachim Ruscheweyh
Other publications hal-04384097v1

PlanktonScope: Affordable modular imaging platform for citizen oceanography

Thibaut Pollina , Adam Larson , Fabien Lombard , Hongquan Li , Sebastien Colin
2023
Preprints, Working Papers, ... hal-03971945v1

Unveiling hidden eukaryotes: diversity of Endomyxa (Rhizaria) in coastal marine habitats

Cédric Berney , Stefan Ciaghi , Sarah Romac , Frédéric Mahé , Colomban de Vargas
2023
Preprints, Working Papers, ... hal-03972005v1
Image document

From genome wide SNPs to genomic islands of differentiation: the quest for species diagnostic markers in two scleractinian corals,PocilloporaandPorites

Romane Deshuraud , Alexandre Ottaviani , Julie Poulain , Marine Leprêtre , Odette Beluche
2023
Preprints, Working Papers, ... hal-04195332v1

Plankton Planet : ‘seatizen’ oceanography to assess open ocean life at the planetary scale

Colomban de Vargas , Thibaut Pollina , Sarah Romac , Noan Le Bescot , Nicolas Henry
2023
Preprints, Working Papers, ... hal-03971975v1
Image document

Global observation of plankton communities from space

Hiroto Kaneko , Hisashi Endo , Nicolas Henry , Cédric Berney , Frédéric Mahé
2022
Preprints, Working Papers, ... hal-03855690v1
Image document

Insights into biotic and abiotic modulation of ocean mesopelagic communities

Janaina Rigonato , Marko Budinich , Alejandro Murillo , Manoela Brandão , Juan Karlusich
2022
Preprints, Working Papers, ... hal-03166899v1

Endogenous viral elements reveal associations between a non-retroviral RNA virus and symbiotic dinoflagellate genomes

Alex Veglia , Kalia S.I. Bistolas , Christian Voolstra , Benjamin Hume , Serge Planes
2022
Preprints, Working Papers, ... hal-03854759v1

Viral infection impacts the 3D subcellular structure of the abundant marine diatom Guinardia delicatula

Marie Walde , Cyprien Camplong , Colomban de Vargas , Anne-Claire Baudoux , Nathalie Simon
2022
Preprints, Working Papers, ... hal-03853708v1
Image document

Integrative omics framework for characterization of coral reef ecosystems from the Tara Pacific expedition

Caroline Belser , Julie Poulain , Karine Labadie , Frederick Gavory , Adriana Alberti
2022
Preprints, Working Papers, ... cea-03713370v2
Image document

Seasonal temporal dynamics of marine protists communities in tidally mixed coastal waters

Mariarita Caracciolo , Fabienne Rigaut-Jalabert , Sarah Romac , Frédéric Mahé , Samuel Forsans
2021
Preprints, Working Papers, ... hal-03454364v1

Environmental vulnerability of the global ocean plankton community interactome

S. Chaffron , E. Delage , M. Budinich , D. Vintache , N. Henry
2020
Preprints, Working Papers, ... hal-03971893v1