Chris Bowler

208
Documents

Publications

Publications

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DiatOmicBase: a versatile gene‐centered platform for mining functional omics data in diatom research

Emilie Villar , Nathanaël Zweig , Pierre Vincens , Helena Cruz de Carvalho , Carole Duchene et al.
The Plant Journal, 2025, 121 (6), pp.e70061. ⟨10.1111/tpj.70061⟩
Article dans une revue hal-05027476 v1
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Emergent patterns of patchiness differ between physical and planktonic properties in the ocean

Patrick Clifton Gray , Emmanuel Boss , Guillaume Bourdin , A Bourdais , C Bowler et al.
Nature Communications, 2025, 16 (1), pp.1808. ⟨10.1038/s41467-025-56794-x⟩
Article dans une revue hal-04976225 v1
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Sea surface temperature reconstruction in the Pacific Ocean using multi-elemental proxy in Porites and Diploastrea corals: Application to Palau Archipelago

Marine Canesi , Éric Douville , Paolo Montagna , Louise Bordier , Sandrine Caquineau et al.
Chemical Geology, 2024, 645, pp.121884. ⟨10.1016/j.chemgeo.2023.121884⟩
Article dans une revue hal-04337163 v1
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New plastids, old proteins: repeated endosymbiotic acquisitions in kareniacean dinoflagellates

Anna Mg Novák Vanclová , Charlotte Nef , Zoltán Füssy , Adél Vancl , Fuhai Liu et al.
Article dans une revue hal-04512033 v1
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Complementary environmental analysis and functional characterization of lower glycolysis-gluconeogenesis in the diatom plastid

Richard G Dorrell , Youjun Zhang , Yue Liang , Nolwenn Gueguen , Tomomi Nonoyama et al.
The Plant cell, In press, 36 (9), pp.3584-3610. ⟨10.1093/plcell/koae168⟩
Article dans une revue hal-04607109 v1
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Linking satellites to genes with machine learning to estimate phytoplankton community structure from space

Roy El Hourany , Juan Pierella Karlusich , Lucie Zinger , Hubert Loisel , Marina Levy et al.
Ocean Science, 2024, 20 (1), pp.217-239. ⟨10.5194/os-20-217-2024⟩
Article dans une revue hal-04582355 v1
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Genome-scale community modelling reveals conserved metabolic cross-feedings in epipelagic bacterioplankton communities

Nils Giordano , Marinna Gaudin , Camille Trottier , Erwan Delage , Charlotte Nef et al.
Nature Communications, 2024, 15, pp.2721. ⟨10.1038/s41467-024-46374-w⟩
Article dans une revue hal-04682542 v1

DiatOmicBase, a gene-centered platform to mine functional omics data across diatom genomes

Emilie Villar , Nathanaël Zweig , Pierre Vincens , Helena Cruz de Carvalho , Carole Duchene et al.
Article dans une revue hal-04798192 v1
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Presence of vitamin B$_{12}$ metabolism in the last common ancestor of land plants

Richard G Dorrell , Charlotte Nef , Setsen Altan-Ochir , Chris Bowler , Alison G Smith
Proceedings of the Royal Society of London. Series B, Containing papers of a Biological character. Royal Society (Great Britain), In press, ⟨10.1098/RSTB.2023.0354⟩
Article dans une revue hal-04237983 v2
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Hypometabolism to survive the long polar night and subsequent successful return to light in the diatom Fragilariopsis cylindrus

Nathalie Joli , Lorenzo Concia , Karel Mocaer , Julie Guterman , Juliette Laude et al.
New Phytologist, 2023, 241 (5), pp.2193-2208. ⟨10.1111/nph.19387⟩
Article dans une revue hal-04357816 v1
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The model diatom Phaeodactylum tricornutum provides insights into the diversity and function of microeukaryotic DNA methyltransferases

Antoine Hoguin , Feng Yang , Agnès Groisillier , Chris Bowler , Auguste Genovesio et al.
Communications Biology, 2023, 6 (1), pp.253. ⟨10.1038/s42003-023-04629-0⟩
Article dans une revue hal-04024906 v1
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Pervasive tandem duplications and convergent evolution shape coral genomes

Benjamin Noel , France Denoeud , Alice Rouan , Carol Buitrago-López , Laura Capasso et al.
Genome Biology, 2023, 24 (1), pp.123. ⟨10.1186/s13059-023-02960-7⟩
Article dans une revue hal-04117388 v1
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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 et al.
Communications Earth & Environment, 2023, 4 (1), pp.281. ⟨10.1038/s43247-023-00942-y⟩
Article dans une revue hal-04184949 v1
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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 et al.
Nature Communications, 2023, 14, pp.3056. ⟨10.1038/s41467-023-38610-6⟩
Article dans une revue cea-04171796 v1
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Characterization of a marine diatom chitin synthase using a combination of meta-omics, genomics, and heterologous expression approaches

Zhanru Shao , Osei Ampomah , Fabio Rocha Jimenez Vieira , Richard G. Dorrell , Shaoxuan Li et al.
mSystems, 2023, 8 (2), ⟨10.1128/msystems.01131-22⟩
Article dans une revue hal-04237982 v1
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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 , Mélanie Pousse , Nadir Djerbi , Barbara Porro , Guillaume Bourdin et al.
Nature Communications, 2023, 14 (1), pp.3038. ⟨10.1038/s41467-023-38499-1⟩
Article dans une revue cea-04171809 v1
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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 et al.
npj Biodiversity, 2023, 2 (1), pp.15. ⟨10.1038/s44185-023-00020-8⟩
Article dans une revue hal-04157744 v1
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Diversity of the Pacific Ocean coral reef microbiome

Pierre Galand , Hans-Joachim Ruscheweyh , Guillem Salazar , Corentin Hochart , Nicolas Henry et al.
Nature Communications, 2023, 14 (1), pp.3039. ⟨10.1038/s41467-023-38500-x⟩
Article dans une revue hal-04176291 v1

Convergent evolution and horizontal gene transfer in Arctic Ocean microalgae

Richard Dorrell , Alan Kuo , Zoltan Füssy , Elisabeth Richardson , Asaf Salamov et al.
Life Science Alliance, 2023, 6 (3), pp.e202201833. ⟨10.26508/lsa.202201833⟩
Article dans une revue (article de synthèse) cea-04321515 v1
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Top abundant deep ocean heterotrophic bacteria can be retrieved by cultivation

Isabel Sanz-Sáez , Pablo Sánchez , Guillem Salazar , Shinichi Sunagawa , Colomban de Vargas et al.
ISME Communications, 2023, 3 (1), ⟨10.1038/s43705-023-00290-0⟩
Article dans une revue cea-04481824 v1
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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 et al.
Scientific Data , 2023, 10 (1), pp.326. ⟨10.1038/s41597-023-02204-0⟩
Article dans une revue hal-04176297 v3
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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 et al.
Communications Biology, 2023, 6 (1), pp.566. ⟨10.1038/s42003-023-04917-9⟩
Article dans une revue hal-04176296 v2
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Pan-Arctic plankton community structure and its global connectivity

Federico M Ibarbalz , Nicolas Henry , Frédéric Mahé , Mathieu Ardyna , Adriana Zingone et al.
Elementa: Science of the Anthropocene, 2023, 11 (1), pp.00060. ⟨10.1525/elementa.2022.00060⟩
Article dans une revue hal-04267640 v1
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Histone H1 protects telomeric repeats from H3K27me3 invasion in Arabidopsis

Gianluca Teano , Lorenzo Concia , Léa Wolff , Léopold Carron , Ivona Biocanin et al.
Cell Reports, 2023, 42 (8), pp.112894. ⟨10.1016/j.celrep.2023.112894⟩
Article dans une revue hal-04268515 v2
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Predicting global distributions of eukaryotic plankton communities from satellite data

Hiroto Kaneko , Hisashi Endo , Nicolas Henry , Cédric Berney , Frédéric Mahé et al.
ISME Communications, 2023, 3 (1), pp.101. ⟨10.1038/s43705-023-00308-7⟩
Article dans une revue hal-04394784 v1
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Ocean-wide comparisons of mesopelagic planktonic community structures

Janaina Rigonato , Marko Budinich , Alejandro Murillo , Manoela Brandão , Juan Pierella Karlusich et al.
ISME Communications, 2023, 3 (1), pp.83. ⟨10.1038/s43705-023-00279-9⟩
Article dans une revue hal-04184772 v1
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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 et al.
Scientific Data , 2023, 10 (1), pp.324. ⟨10.1038/s41597-022-01757-w⟩
Article dans une revue hal-04164118 v1
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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 et al.
Scientific Reports, 2023, 13 (1), pp.11589. ⟨10.1038/s41598-023-37598-9⟩
Article dans une revue cea-04170119 v1
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Mission Tara Microplastics: a holistic set of protocols and data resources for the field investigation of plastic pollution along the land-sea continuum in Europe

Jean-François Ghiglione , Valérie Barbe , Stéphane Bruzaud , Gaëtan Burgaud , Jérôme Cachot et al.
Environmental Science and Pollution Research, 2023, ⟨10.1007/s11356-023-26883-9⟩
Article dans une revue hal-04302147 v1

Differential expression patterns of long noncoding RNAs in a pleiomorphic diatom and relation to hyposalinity

Ahmed Debit , Florent Charton , Priscillia Pierre-Elies , Chris Bowler , Helena Cruz de Carvalho
Scientific Reports, 2023, 13 (1), pp.2440. ⟨10.1038/s41598-023-29489-w⟩
Article dans une revue hal-05027535 v1
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PlantACT! – how to tackle the climate crisis

Heribert Hirt , Salim Al-Babili , Marilia Almeida-Trapp , Martin Antoine , Manuel Aranda et al.
Trends in Plant Science, 2023, 28 (5), pp.537-543. ⟨10.1016/j.tplants.2023.01.005⟩
Article dans une revue hal-04037738 v1
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Different environmental response strategies in sympatric corals from Pacific Islands

Barbara Porro , Thamilla Zamoum , Didier Forcioli , Eric Gilson , Adrien Poquet et al.
Communications Earth & Environment, 2023, 4 (1), pp.311. ⟨10.1038/s43247-023-00946-8⟩
Article dans une revue hal-04205154 v1
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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 et al.
Nature Communications, 2023, 14 (1), pp.3037. ⟨10.1038/s41467-023-38502-9⟩
Article dans une revue hal-04176293 v1
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An evolution towards scientific consensus for a sustainable ocean future

Françoise Gaill , Tanya Brodie Rudolph , Lara Lebleu , Denis Allemand , Robert Blasiak et al.
npj Ocean Sustainability, 2022, 1, pp.7. ⟨10.1038/s44183-022-00007-1⟩
Article dans une revue hal-03910001 v1

Biosynthetic potential of the global ocean microbiome

Lucas Paoli , Hans-Joachim Ruscheweyh , Clarissa Forneris , Florian Hubrich , Satria Kautsar et al.
Nature, 2022, 607 (7917), pp.111-118. ⟨10.1038/s41586-022-04862-3⟩
Article dans une revue hal-04376240 v1
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In vivo localization of iron starvation induced proteins under variable iron supplementation regimes in Phaeodactylum tricornutum

Elena Kazamia , Jan Mach , Jeffrey B Mcquaid , Xia Gao , Tyler H Coale et al.
Plant Direct, 2022, 6 (12), pp.e472. ⟨10.1002/pld3.472⟩
Article dans une revue hal-04294754 v1
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Convergent evolution and horizontal gene transfer in Arctic Ocean microalgae

Richard Dorrell , Alan Kuo , Zoltan Füssy , Elisabeth Richardson , Asaf Salamov et al.
Life Science Alliance, 2022, 6 (3), pp.e202201833. ⟨10.26508/lsa.202201833⟩
Article dans une revue hal-03859139 v1
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Dynamic Cell Imaging: application to the diatom Phaeodactylum tricornutum under environmental stresses

Houda Bey , Florent Charton , Helena Cruz de Carvalho , Shun Liu , Richard G Dorrell et al.
European Journal of Phycology, In press, ⟨10.1080/09670262.2022.2081732⟩
Article dans une revue hal-03859082 v1
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Contribution of genome‐scale metabolic modelling to niche theory

Antoine Régimbeau , Marko Budinich , Abdelhalim Larhlimi , Juan José Pierella Karlusich , Olivier Aumont et al.
Ecology Letters, 2022, 25 (6), pp.1352-1364. ⟨10.1111/ele.13954⟩
Article dans une revue hal-03635158 v1

Molecular biology for green recovery—A call for action

Marta Rodríguez-Martínez , Jens Nielsen , Sam Dupont , Jessica Vamathevan , Beverley Glover et al.
PLoS Biology, 2022, 20 (4), pp.e3001623. ⟨10.1371/journal.pbio.3001623⟩
Article dans une revue hal-04262482 v1
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Functional repertoire convergence of distantly related eukaryotic plankton lineages abundant in the sunlit ocean

Tom Delmont , Morgan Gaia , Damien Hinsinger , Paul Frémont , Chiara Vanni et al.
Cell Genomics, 2022, 2 (5), pp.100123. ⟨10.1016/j.xgen.2022.100123⟩
Article dans une revue hal-03872935 v2
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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 et al.
Molecular Ecology Resources, 2022, 23 (1), pp.16-40. ⟨10.1111/1755-0998.13592⟩
Article dans une revue hal-03559541 v1

The possible fates of Fragilariopsis cylindrus (polar diatom) cells exposed to prolonged darkness

Théo Sciandra , Marie‐hélène Forget , Flavienne Bruyant , Marine Béguin , Thomas Lacour et al.
Journal of Phycology, 2022, 58 (2), pp.281-296. ⟨10.1111/jpy.13232⟩
Article dans une revue hal-03872944 v1
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Coupling Imaging and Omics in Plankton Surveys: State-of-the-Art, Challenges, and Future Directions

Juan José Pierella Karlusich , Fabien Lombard , Jean-Olivier Irisson , Chris Bowler , Rachel Foster
Frontiers in Marine Science, 2022, 9, ⟨10.3389/fmars.2022.878803⟩
Article dans une revue hal-03956267 v1

Dynamic Cell Imaging: application to the diatom Phaeodactylum tricornutum under environmental stresses

Houda Bey , Florent Charton , Helena Cruz de Carvalho , Shun Liu , Richard Dorrell et al.
European Journal of Phycology, 2022, 58 (2), pp.145-155. ⟨10.1080/09670262.2022.2081732⟩
Article dans une revue hal-05028769 v1

A 2-million-year-old ecosystem in Greenland uncovered by environmental DNA

Kurt Kjær , Mikkel Winther Pedersen , Bianca de Sanctis , Binia de Cahsan , Thorfinn Korneliussen et al.
Nature, 2022, 612 (7939), pp.283-291. ⟨10.1038/s41586-022-05453-y⟩
Article dans une revue hal-04867307 v1

Análisis de metabarcoding de ADN para el fitoplancton en cuatro sectores del Atlántico Suroeste en el contexto del océano global

Federico Ibarbalz , Juan Pierella Karlusich , Sergio Velasco Ayuso , Natalia Visintini , Lionel Guidi et al.
Ecología Austral, 2022, 32 (3), pp.835-848. ⟨10.25260/EA.22.32.3.0.1812⟩
Article dans une revue hal-03954546 v1
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Priorities for ocean microbiome research

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

Whole-genome scanning reveals environmental selection mechanisms that shape diversity in populations of the epipelagic diatom Chaetoceros.

Charlotte Nef , Mohammed-Amin Madoui , Éric Pelletier , Chris Bowler
PLoS Biology, 2022, 20 (11), pp.e3001893. ⟨10.1371/journal.pbio.3001893⟩
Article dans une revue hal-03912026 v1

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 et al.
Science, 2022, 376 (6589), pp.156-162. ⟨10.1126/science.abm5847⟩
Article dans une revue hal-03872940 v1
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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 et al.
eLife, 2022, 11, pp.e78129. ⟨10.7554/eLife.78129⟩
Article dans une revue hal-02399723 v2
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A metabolic, phylogenomic and environmental atlas of diatom plastid transporters from the model species Phaeodactylum

Shun Liu , Mattia Storti , Giovanni Finazzi , Chris Bowler , Richard G Dorrell
Frontiers in Plant Science, 2022, 13, pp.950467. ⟨10.3389/fpls.2022.950467⟩
Article dans une revue hal-03828869 v1

Whole-genome scanning reveals environmental selection mechanisms that shape diversity in populations of the epipelagic diatom Chaetoceros

Charlotte Nef , Mohammed-Amin Madoui , Éric Pelletier , Chris Bowler
PLoS Biology, 2022, 20 (11), pp.e3001893. ⟨10.1371/journal.pbio.3001893⟩
Article dans une revue (article de synthèse) cea-04321570 v1
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Diversity and ecological footprint of Global Ocean RNA viruses

Guillermo Dominguez-Huerta , Ahmed Zayed , James Wainaina , Jiarong Guo , Funing Tian et al.
Science, 2022, 376 (6598), pp.1202-1208. ⟨10.1126/science.abn6358⟩
Article dans une revue hal-03781935 v1
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Environmental vulnerability of the global ocean epipelagic plankton community interactome

Samuel Chaffron , Erwan Delage , Marko Budinich , Damien Vintache , Nicolas Henry et al.
Science Advances , 2021, 7 (35), pp.eabg1921. ⟨10.1126/sciadv.abg1921⟩
Article dans une revue hal-03443359 v2
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Evolutionary analysis of DNA methyltransferases in microeukaryotes: Insights from the model diatom Phaeodactylum tricornutum

Leila Tirichine , Antoine Hoguin , Ouardia Ait Mohamed , Chris Bowler , Auguste Genovesio et al.
Article dans une revue hal-03384427 v1
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Phylogenomic fingerprinting of tempo and functions of horizontal gene transfer within ochrophytes

Richard G Dorrell , Adrien Villain , Benoît Perez-Lamarque , Guillemette Audren de Kerdrel , Giselle Mccallum et al.
Proceedings of the National Academy of Sciences of the United States of America, 2021, 118 (4), ⟨10.1073/pnas.2009974118/-/DCSupplemental⟩
Article dans une revue mnhn-03969507 v1
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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 et al.
Nature Communications, 2021, 12, pp.4160. ⟨10.1038/s41467-021-24299-y⟩
Article dans une revue hal-03334117 v2

Phylogenomic fingerprinting of tempo and functions of horizontal gene transfer within ochrophytes

Richard Dorrell , Adrien Villain , Benoît Perez-Lamarque , Guillemette Audren de Kerdrel , Giselle Mccallum et al.
Proceedings of the National Academy of Sciences of the United States of America, 2021, 118 (4), ⟨10.1073/pnas.2009974118⟩
Article dans une revue (article de synthèse) cea-04321619 v1
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Compendium of 530 metagenome-assembled bacterial and archaeal genomes from the polar Arctic Ocean

Marta Royo-Llonch , Pablo Sánchez , Clara Ruiz-González , Guillem Salazar , Carlos Pedrós-Alió et al.
Nature Microbiology, 2021, 6 (12), pp.1561-1574. ⟨10.1038/s41564-021-00979-9⟩
Article dans une revue hal-03781908 v1

Mitotic recombination between homologous chromosomes drives genomic diversity in diatoms

Petra Bulankova , Mirna Sekulić , Denis Jallet , Charlotte Nef , Cock van Oosterhout et al.
Current Biology, 2021, 31 (15), pp.3221-+. ⟨10.1016/j.cub.2021.05.013⟩
Article dans une revue hal-03333507 v1
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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 et al.
Scientific Reports, 2021, 11 (1), pp.15714. ⟨10.1038/s41598-021-94615-5⟩
Article dans une revue hal-03318806 v1
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Evolutionary analysis of DNA methyltransferases in microeukaryotes: Insights from the model diatom Phaeodactylum tricornutum

Antoine Hoguin , Ouardia Ait , Chris Bowler , Auguste Genovesio , Fabio Rocha Jimenez Vieira et al.
BioRxiv, In press
Article dans une revue hal-03388012 v1
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Paleo-diatom composition from Santa Barbara Basin deep-sea sediments: a comparison of 18S-V9 and diat-rbcL metabarcoding vs shotgun metagenomics

Linda Armbrecht , Raphael Eisenhofer , José Utge , Elizabeth Sibert , Fabio Rocha et al.
ISME Communications, 2021, 1 (1), pp.66. ⟨10.1038/s43705-021-00070-8⟩
Article dans une revue hal-03875226 v1
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Genome-wide analysis of allele-specific expression of genes in the model diatom Phaeodactylum tricornutum

Antoine Hoguin , Achal Rastogi , Chris Bowler , Leila Tirichine
Scientific Reports, 2021, 11, ⟨10.1038/s41598-021-82529-1⟩
Article dans une revue hal-03384414 v1

Heterotrophic bacterial diazotrophs are more abundant than their cyanobacterial counterparts in metagenomes covering most of the sunlit ocean

Tom Delmont , Juan José Pierella Karlusich , Iva Veseli , Jessika Fuessel , A. Murat Eren et al.
The International Society of Microbiologial Ecology Journal, 2021, 16 (4), pp.927-936. ⟨10.1038/s41396-021-01135-1⟩
Article dans une revue hal-03480646 v1
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Deep ocean metagenomes provide insight into the metabolic architecture of bathypelagic microbial communities

Silvia Acinas , Pablo Sánchez , Guillem Salazar , Francisco Cornejo-Castillo , Marta Sebastián et al.
Communications Biology, 2021, 4 (1), ⟨10.1038/s42003-021-02112-2⟩
Article dans une revue hal-03238997 v1
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Inversion of phytoplankton pigment vertical profiles from satellite data using machine learning

Agathe Puissant , Roy El Hourany , Anastase Alexandre Charantonis , Chris Bowler , Sylvie Thiria
Remote Sensing, 2021, 13 (8), pp.1445. ⟨10.3390/rs13081445⟩
Article dans une revue hal-03218439 v1

Global drivers of eukaryotic plankton biogeography in the sunlit ocean

Guilhem Sommeria-Klein , Romain Watteaux , Federico Ibarbalz , Juan José Pierella Karlusich , Daniele Iudicone et al.
Science, 2021, 374 (6567), pp.594-599. ⟨10.1126/science.abb3717⟩
Article dans une revue hal-03453705 v1
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Genome wide natural variation of H3K27me3 selectively marks genes predicted to be important for cell differentiation in Phaeodactylum tricornutum

Xue Zhao , Achal Rastogi , Anne Flore Deton Cabanillas , Ouardia Ait Mohamed , Catherine Cantrel et al.
New Phytologist, 2020, 229, pp.3208 - 3220. ⟨10.1111/nph.17129⟩
Article dans une revue hal-03384417 v1
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Genome-enabled phylogenetic and functional reconstruction of an araphid pennate diatom Plagiostriata sp. CCMP470, previously assigned as a radial centric diatom, and its bacterial commensal

Shinya Sato , Deepak Nanjappa , Richard G Dorrell , Fabio Rocha Jimenez Vieira , Elena Kazamia et al.
Scientific Reports, 2020, 10 (1), pp.9449. ⟨10.1038/s41598-020-65941-x⟩
Article dans une revue inserm-02886223 v1
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Probing the Diversity of Polycomb and Trithorax Proteins in Cultured and Environmentally Sampled Microalgae

Xue Zhao , Anne Flore Deton Cabanillas , Alaguraj Veluchamy , Chris Bowler , Fabio Rocha Jimenez Vieira et al.
Frontiers in Marine Science, 2020, 7, ⟨10.3389/fmars.2020.00189⟩
Article dans une revue hal-02997845 v1
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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 et al.
Global Ecology and Biogeography, 2020, 29 (11), pp.1915-1928. ⟨10.1111/geb.13161⟩
Article dans une revue hal-02992584 v1
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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 et al.
Bulletin of the American Meteorological Society, 2020, 101 (5), pp.E536-E554. ⟨10.1175/BAMS-D-18-0224.1⟩
Article dans une revue hal-02967981 v1

Tara Oceans: towards global ocean ecosystems biology

Shinichi Sunagawa , Silvia Acinas , Peer Bork , Chris Bowler , Silvia Acinas et al.
Nature Reviews Microbiology, 2020, 18 (8), pp.428-445. ⟨10.1038/s41579-020-0364-5⟩
Article dans une revue hal-04394809 v1
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A Roadmap for using the UN decade of ocean science for sustainable development in support of science, policy, and action

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Integrative epigenomic mapping defines four main chromatin states in Arabidopsis

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EMBO Journal, 2011, 30 (10), pp.1928 - 1938. ⟨10.1038/emboj.2011.103⟩
Article dans une revue hal-00999846 v1

The conserved factor DE-ETIOLATED 1 cooperates with CUL4-DDB1DDB2 to maintain genome integrity upon UV stress.

E. Castells , J. Molinier , G. Benvenuto , C. Bourbousse , G. Zabulon et al.
EMBO Journal, 2011, 30, pp.1162-1172
Article dans une revue hal-00580559 v1
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Genome-wide evidence for local DNA methylation spreading from small RNA-targeted sequences in Arabidopsis

Ikhlak Ahmed , Alexis Sarazin , Chris Bowler , Vincent Colot , Hadi Quesneville
Nucleic Acids Research, 2011, 39 (16), pp.6919-6931. ⟨10.1093/nar/gkr324⟩
Article dans une revue hal-02647005 v1
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Stemming epigenetics in marine stramenopiles

Florian Maumus , Pablo Rabinowicz , Chris Bowler , Máximo Rivarola
Current Genomics, 2011, 12 (5), pp.357-370
Article dans une revue hal-02644011 v1
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A Holistic Approach to Marine Eco-Systems Biology

Eric Karsenti , Silvia G. Acinas , Peer Bork , Chris Bowler , Colomban de Vargas et al.
PLoS Biology, 2011, 9 (10), pp.e1001177. ⟨10.1371/journal.pbio.1001177⟩
Article dans une revue hal-01893669 v1

Integrative epigenomic mapping defines four main chromatin states in Arabidopsis

François Roudier , Ikhlak Ahmed , Caroline Bérard , Alexis Sarazin , Tristan Mary-Huard et al.
The EMBO Journal, 2011, 30 (10), pp.1928-1938. ⟨10.1038/emboj.2011.103⟩
Article dans une revue hal-04383147 v1

An atypical member of the light-harvesting complex stress-related protein family modulates diatom responses to light.

Benjamin Bailleul , Alessandra Rogato , Alessandra de Martino , Sacha Coesel , Pierre Cardol et al.
Proceedings of the National Academy of Sciences of the United States of America, 2010, 107 (42), pp.18214-9. ⟨10.1073/pnas.1007703107⟩
Article dans une revue hal-00587670 v1

Spectro-temporal characterization of the photoactivation mechanism of two new oxidized cryptochrome/photolyase photoreceptors

Johanna Brazard , Anwar Usman , Fabien Lacombat , Christian Ley , Monique M. Martin et al.
Journal of the American Chemical Society, 2010, 132 (13), pp.4935. ⟨10.1021/ja1002372⟩
Article dans une revue hal-00476826 v1

Characterization of two members of the cryptochrome/photolyase family from Ostreococcus tauri provides insights into the origin and evolution of cryptochromes

Marc Heijde , Gérald Zabulon , Florence Corellou , Tomoko Ishikawa , Johanna Brazard et al.
Plant, Cell and Environment, 2010, 33, pp.1614. ⟨10.1111/j.1365-3040.2010.02168.x⟩
Article dans une revue hal-00516094 v1

det1-1-induced UV-C hyposensitivity through UVR3 and PHR1 photolyase gene over-expression.

E. Castells , J. Molinier , S. Drevensek , P. Genschik , F. Barneche et al.
The Plant Journal, 2010, 63, pp.392-404. ⟨10.1111/j.1365-313X.2010.04249.x⟩
Article dans une revue hal-00564875 v1
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Digital expression profiling of novel diatom transcripts provides insight into their biological functions.

Uma Maheswari , Kamel Jabbari , Jean-Louis Petit , Betina M Porcel , Andrew Allen et al.
Genome Biology, 2010, 11 (8), pp.R85. ⟨10.1186/gb-2010-11-8-r85⟩
Article dans une revue inserm-00627911 v1

Genomic insights into photosynthesis in eukaryotic phytoplankton.

Giovanni Finazzi , Hervé Moreau , Chris Bowler
Trends in Plant Science, 2010, 15 (10), pp.565-72. ⟨10.1016/j.tplants.2010.07.004⟩
Article dans une revue istex hal-00587832 v1

Diatom cell division in an environmental context

Chris Bowler , Alessandra de Martino , Angela Falciatore
Current Opinion in Plant Biology, 2010, 13 (6), pp.623 - 630. ⟨10.1016/j.pbi.2010.09.014⟩
Article dans une revue istex hal-01589156 v1
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The $Ectocarpus$ genome and the independent evolution of multicellularity in brown algae

J. Mark Cock , Lieven Sterck , Pierre Rouzé , Delphine Scornet , Andrew E. Allen et al.
Nature, 2010, 465 (7298), pp.617-621. ⟨10.1038/nature09016⟩
Article dans une revue cea-00906990 v1

Spectroscopic characterization of a (6-4) photolyase from the green alga Ostreococcus tauri

Anwar Usman , Johanna Brazard , Monique M. Martin , Pascal Plaza , Marc Heijde et al.
Journal of Photochemistry and Photobiology B: Biology, 2009, 96, pp.38. ⟨10.1016/j.jphotobiol.2009.04.003⟩
Article dans une revue istex hal-00389814 v1
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The $Phaeodactylum$ genome reveals the evolutionary history of diatom genomes

Chris Bowler , Andrew E. Allen , Jonathan H. Badger , Jane Grimwood , Kamel Jabbari et al.
Nature, 2008, 456 (7410), pp.239-244. ⟨10.1038/nature07410⟩
Article dans une revue cea-00910244 v1

The Chlamydomonas genome reveals the evolution of key animal and plant functions.

Sabeeha S Merchant , Simon E Prochnik , Olivier Vallon , Elizabeth H Harris , Steven J Karpowicz et al.
Science, 2007, 318 (5848), pp.245-50. ⟨10.1126/science.1143609⟩
Article dans une revue hal-00198837 v1

The tiny eukaryote Ostreococcus provides genomic insights into the paradox of plankton speciation

Brian Palenik , Jane Grimwood , Andrea Aerts , Pierre Rouzé , Asaf Salamov et al.
Proceedings of the National Academy of Sciences of the United States of America, 2007, 104 (18), pp.7705-7710. ⟨10.1073/pnas.0611046104⟩
Article dans une revue hal-03160904 v1

The Chlamydomonas genome reveals the evolution of key animal and plant functions

S.S. Merchant , S.E. Prochnik , O. Vallon , E.H. Harris , S.J. Karpowicz et al.
Science, 2007, 318, pp.245-250
Article dans une revue hal-00188075 v1

Genome analysis of the smallest free-living eukaryote Ostreococcus tauri unveils many unique features.

Evelyne Derelle , Conchita Ferraz , Stephane Rombauts , Pierre Rouzé , Alexandra Z Worden et al.
Proceedings of the National Academy of Sciences of the United States of America, 2006, 103 (31), pp.11647-52. ⟨10.1073/pnas.0604795103⟩
Article dans une revue hal-00164247 v1

CUL4 associates with DDB1a and DET1 and its downregulation affects diverse aspects of development in Arabidopsis thaliana

A. Bernhardt , E. Lechner , P. Hano , V. Schade , D. Dieterle et al.
The Plant Journal, 2006, sous presse, sous presse
Article dans une revue hal-00092820 v1

Finishing the euchromatic sequence of the human genome

Uma Maheswari , Kamel Jabbari , Jean-Louis Petit , Betina Porcel , Andrew Allen et al.
Nature, 2004, 431 (7011), pp.931-945. ⟨10.1038/nature03001⟩
Article dans une revue hal-04312821 v1

Genome-resolved diversity and biosynthetic potential of the coral reef microbiome

Lucas Paoli , Fabienne Wiederkehr , Hans-Joachim Ruscheweyh , Samuel Miravet-Verde , Kalia S.I. Bistolas et al.
2024
Pré-publication, Document de travail hal-04807685 v1

Ubiquity of inverted ’gelatinous’ ecosystem pyramids in the global ocean

Lombard Fabien , Guidi Lionel , Manoela Brandão , Coelho Luis Pedro , Colin Sébastien et al.
2025
Pré-publication, Document de travail hal-04887475 v1
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DiatOmicBase, a gene-centered platform to mine functional omics data across diatom genomes

Emilie Villar , Nathanaël Zweig , Pierre Vincens , Helena Cruz de Carvalho , Carole Duchene et al.
2024
Pré-publication, Document de travail hal-04760696 v1

LncPlankton V1.0: a comprehensive collection of plankton long non-coding RNAs

Ahmed Debit , Pierre Vincens , Chris Bowler , Helena Cruz de Carvalho
2025
Pré-publication, Document de travail hal-05027516 v1

Towards modeling genome-scale knowledge in the global ocean

Antoine Régimbeau , Olivier Aumont , Chris Bowler , Lionel Guidi , George Jackson et al.
2023
Pré-publication, Document de travail hal-04316033 v1

Diatom phytochromes integrate the entire visible light spectra for photosensing in marine environments

Carole Duchêne , Jean-Pierre Bouly , Juan José Pierella Karlusich , Julien Sellés , Benjamin Bailleul et al.
2023
Pré-publication, Document de travail hal-04016944 v1

Hypometabolism to survive the long polar night in the diatom Fragilariopsis cylindrus

Nathalie Joli , Lorenzo Concia , Karel Mocaer , Julie Guterman , Juliette Laude et al.
2023
Pré-publication, Document de travail hal-04268690 v1
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Genome-scale community modelling reveals conserved metabolic cross-feedings in epipelagic bacterioplankton communities

Nils Giordano , Marinna Gaudin , Camille Trottier , Erwan Delage , Charlotte Nef et al.
2023
Pré-publication, Document de travail hal-04284803 v1
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Divergent and diversified proteome content across a serially acquired plastid lineage

Anna M G Novák Vanclová , Charlotte Nef , Adél Vancl , Fuhai Liu , Zoltán Füssy et al.
2022
Pré-publication, Document de travail hal-03913495 v1
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A Plastidial Glycolytic-Gluconeogenic Switch of Mitochondrial Origin Enables Diatom Adaptations to High Latitudes

Richard Dorrell , Yue Liang , Nolwenn Gueguen , Tomomi Nonoyama , Youjun Zhang et al.
2022
Pré-publication, Document de travail hal-03859122 v1
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Global observation of plankton communities from space

Hiroto Kaneko , Hisashi Endo , Nicolas Henry , Cédric Berney , Frédéric Mahé et al.
2022
Pré-publication, Document de travail hal-03855690 v1
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From genome wide SNPs to genomic islands of differentiation: the quest for species diagnostic markers in two scleractinian corals,<i>Pocillopora</i>and<i>Porites</i>

Romane Deshuraud , Alexandre Ottaviani , Julie Poulain , Marine Leprêtre , Odette Beluche et al.
2023
Pré-publication, Document de travail (working paper) hal-04195332 v1
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Linking satellites to genes with machine learning to estimate major phytoplankton groups from space

Roy El Hourany , Juan Pierella Karlusich , Lucie Zinger , Hubert Loisel , Marina Lévy et al.
2022
Pré-publication, Document de travail (preprint/prepublication) hal-03897696 v1

Changes in functional composition and gene expression in eukaryotic plankton at the Atlantic-Arctic Polar front

Paul Frémont , Corinne da Silva , Lucia Campese , Émilie Villar , Achal Rastogi et al.
2023
Pré-publication, Document de travail (preprint/prepublication) hal-04328288 v1
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Insights into biotic and abiotic modulation of ocean mesopelagic communities

Janaina Rigonato , Marko Budinich , Alejandro Murillo , Manoela Brandão , Juan Karlusich et al.
2022
Pré-publication, Document de travail hal-03166899 v1

Contribution of genome scale metabolic modeling to niche theory

Antoine Régimbeau , Marko Budinich , Abdelhalim Larhlimi , Juan Jose Pierella Karlusich , Olivier Aumont et al.
2021
Pré-publication, Document de travail hal-03352833 v1

Evolutionary analysis of DNA methyltransferases in microeukaryotes: Insights from the model diatom Phaeodactylum tricornutum

Antoine Hoguin , Ouardia Ait Mohamed , Chris Bowler , Auguste Genovesio , Fabio Rocha Jimenez Vieira et al.
2021
Pré-publication, Document de travail hal-03374155 v1
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Ecogenomics of key prokaryotes in the arctic ocean

Marta Royo-Llonch , Pablo Sánchez , Clara Ruiz-González , Guillem Salazar , Carlos Pedrós-Alió et al.
2020
Pré-publication, Document de travail hal-02946895 v1

Environmental vulnerability of the global ocean plankton community interactome

S. Chaffron , E. Delage , M. Budinich , D. Vintache , N. Henry et al.
2020
Pré-publication, Document de travail hal-03971893 v1
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H3K27me3 natural variation selectively marks genes predicted to be important for differentiation in unicellular algae

Xue Zhao , Achal Rastogi , Anne Flore Deton Cabanillas , Ouardia Ait Mohamed , Catherine Cantrel et al.
2020
Pré-publication, Document de travail hal-02998293 v1
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Reconstructing Dynamic Evolutionary Events in Diatom Nuclear and Organelle Genomes

Richard Dorrell , Fuhai Liu , Chris Bowler
Angela Falciatore; Thomas Mock. The Molecular Life of Diatoms, Springer International Publishing, pp.147-177, 2022, 978-3-030-92498-0. ⟨10.1007/978-3-030-92499-7_6⟩
Chapitre d'ouvrage hal-03859168 v1
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Biogeographical patterns and genomes of aquatic photoautotrophs

Juan José Pierella Karlusich , Charlotte Nef , Chris Bowler , Richard Dorrell
Stephen Christopher Maberly; Brigitte Gontero. Blue Planet, Red and Green Photosynthesis. Productivity and Carbon Cycling in Aquatic Ecosystems, 1, Wiley, pp.43-79, 2022, 9781789450828. ⟨10.1002/9781119986782.ch3⟩
Chapitre d'ouvrage hal-03859161 v1
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Biogeographical Patterns and Genomes of Aquatic Photoautotrophs

Juan José Pierella Karlusich , Charlotte Nef , Chris Bowler , Richard G Dorrell
Stephen Christopher Maberly; Brigitte Gontero. Blue Planet, Red and Green Photosynthesis: Productivity and Carbon Cycling in Aquatic Ecosystems, Wiley, 2022, 9781789450828. ⟨10.1002/9781119986782.ch3⟩
Chapitre d'ouvrage hal-03942752 v1

Tara Océans et son flot de données : vers une compréhension multi-échelle de l'écosystème océan

Chris Bowler , Lucie Bittner
Editions CNRS. Les Big Data à découvert, pp.238-239, 2017, 978-2-271-11464-8
Chapitre d'ouvrage hal-02922390 v1

Tara Oceans : de l’odyssée à l’étude systémique de l’océan

Lucie Bittner , Chris Bowler
Editions CNRS. L’Océan à découvert, pp.114- 115, 2017, 978-2-271-11652-9
Chapitre d'ouvrage hal-02922413 v1

Plankton networks correlated to the biological carbon pump in the global ocean

A.S. Benoiston , L. Bittner , Lionel Guidi , S. Chaffron , D. Eveillard et al.
Journée analyse des réseau, GDR génomique environnementale, 2017, Nantes, France
Communication dans un congrès hal-04024048 v1

Transcriptome profiling of sorted endoreduplicated nuclei from tomato fruits: how global shift in expression ascribed to dna ploidy influences rna-seq data normalization and interpretation

Julien Pirrello , Cynthia Deluche , Nathalie Frangne , Frederic Gevaudant , Elie Maza et al.
14. Solanaceae and 3. Cucurbitaceae Genomics Joint Conference - SOLCUC 2017, Sep 2017, Valencia, France
Communication dans un congrès hal-02734427 v1

Revealing and analyzing networks of marine microbial ecosystems

Damien Eveillard , Lionel Guidi , Lucie Bittner , Samuel Chaffron , Jeroen Raes et al.
Conférence Jacques Monod - Marine Ecosystems Biology, 2015, Roscoff, France
Communication dans un congrès hal-01176727 v1