Access content directly

Colomban de Vargas



Image document

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
Image document

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
Image document

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
Image document

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
Image document

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
Image document

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
Image document

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
Image document

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
Image document

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
Image document

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
Image document

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
Image document

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
Image document

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
Image document

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
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
Scientific Data , 2023, 10 (1), pp.326. ⟨10.1038/s41597-023-02204-0⟩
Journal articles hal-04176297v1
Image document

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
Image document

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
Image document

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
Image document

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
Image document

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
Image document

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
Image document

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
Image document

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
Image document

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
Image document

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
Image document

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
Image document

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
Image document

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
Image document

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
Image document

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
Image document

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
Image document

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
Image document

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
Image document

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
Image document

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
Image document

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
Image document

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
Image document

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
Image document

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
Image document

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
Image document

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
Image document

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
Image document

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
Image document

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
Image document

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
Image document

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
Image document

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
Image document

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
Image document

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
Image document

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
Image document

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
Image document

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
Image document

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
Image document

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
Image document

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
Image document

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
Image document

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
Image document

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
Image document

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
Image document

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
Image document

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
Image document

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
Image document

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
Image document

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
Image document

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
Image document

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
Image document

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
Image document

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⟩
Journal articles hal-01295207v1
Image document

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⟩
Journal articles hal-01289124v1
Image document

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⟩
Journal articles hal-01376566v1

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⟩
Journal articles hal-01258214v1
Image document

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⟩
Journal articles hal-01386826v1
Image document

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⟩
Journal articles hal-01292953v1

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⟩
Journal articles hal-01368819v1
Image document

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⟩
Journal articles hal-01369656v1
Image document

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⟩
Journal articles hal-01410203v1
Image document

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⟩
Journal articles hal-01258213v1
Image document

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⟩
Journal articles hal-01253984v1

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⟩
Journal articles hal-01893637v1
Image document

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⟩
Journal articles hal-01191731v1

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⟩
Journal articles hal-01258211v1

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⟩
Journal articles hal-01234200v1
Image document

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
Image document

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⟩
Journal articles hal-01233742v1
Image document

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⟩
Journal articles hal-01768331v1

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⟩
Journal articles hal-01258208v1
Image document

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⟩
Journal articles hal-01246259v1
Image document

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⟩
Journal articles hal-01149047v1
Image document

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⟩
Journal articles hal-01245155v1
Image document

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⟩
Journal articles hal-01100651v1

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⟩
Journal articles hal-01258215v1
Image document

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⟩
Journal articles hal-01100608v1
Image document

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⟩
Journal articles hal-01100661v1
Image document

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⟩
Journal articles hal-01149637v1
Image document

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
Image document

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
Image document

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⟩
Journal articles hal-01258219v1
Image document

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⟩
Journal articles hal-01258218v1
Image document

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⟩
Journal articles hal-01258223v1

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⟩
Journal articles hal-00817857v1
Image document

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⟩
Journal articles hal-01253994v1

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
Image document

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⟩
Journal articles hal-01258226v1

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
Image document

Bioprospecting Marine Plankton

Heni Abida , Sandrine Ruchaud , Laurent Rios , Anne Humeau , Ian Probert
Marine drugs, 2013, 11 (11), pp.4594-4611. ⟨10.3390/md11114594⟩
Journal articles hal-01258229v1

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⟩
Journal articles hal-01258231v1

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⟩
Journal articles hal-00911466v1
Image document

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⟩
Journal articles hal-00817877v1

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⟩
Journal articles hal-00797451v1
Image document

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⟩
Journal articles hal-01258240v1

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⟩
Journal articles hal-01258241v1

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⟩
Journal articles hal-01258236v1

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⟩
Journal articles hal-01258238v1

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
Image document

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
Image document

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⟩
Journal articles hal-01258237v1

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⟩
Journal articles hal-01258248v1

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
Image document

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⟩
Journal articles hal-00657029v1

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
Image document

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⟩
Journal articles hal-01893669v1

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⟩
Journal articles hal-01258255v1

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
Image document

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⟩
Journal articles hal-01258253v1

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
Journal articles hal-01258257v1

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⟩
Journal articles hal-00869295v1

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⟩
Journal articles hal-01258259v1

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⟩
Journal articles hal-01258272v1

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⟩
Journal articles hal-00869299v1

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⟩
Journal articles hal-01258265v1

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
Image document

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⟩
Journal articles hal-01258264v1
Image document

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⟩
Journal articles hal-01258271v1
Image document

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⟩
Journal articles hal-01258261v1

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
Journal articles hal-00339358v1

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⟩
Journal articles hal-00318857v1

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⟩
Journal articles hal-00434978v1

TARA Pacific Bleaching Prevalence of Sampling Sites (Islands)

Kyra Pikaar , Guillaume Bourdin , Stéphane Pesant , Julie Poulain , Caroline Belser
Other publications hal-04384087v1

TARA Pacific CTAX colony morphological annotations release version 1_1

Guinther Mitushasi , Sylvain Algostini , Benjamin Hume , Yuko Kitano , Julie Poulain
Other publications hal-04384090v1

Tara Pacific V9 18S rDNA metabarcoding dataset

Frédéric Mahé , Nicolas Henry , Cédric Berney , Julie Poulain , Sarah Romac
Other publications hal-04384095v1

Tara Pacific 16S rRNA data analysis release

Hans-Joachim Ruscheweyh , Guillem Salazar , Julie Poulain , Caroline Belser , Quentin Clayssen
Other publications hal-04384109v1

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
Other publications hal-04384100v1

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
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
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
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
Preprints, Working Papers, ... hal-03971975v1
Image document

Global observation of plankton communities from space

Hiroto Kaneko , Hisashi Endo , Nicolas Henry , Cédric Berney , Frédéric Mahé
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
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
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
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
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
Preprints, Working Papers, ... hal-03454364v1

Environmental vulnerability of the global ocean plankton community interactome

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