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Lucie Bittner

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#### Associate Professor at Sorbonne Université Environmental and Evolutionary Genomics Co-head of the team Atelier de BioInformatique Institut de Systématique, Evolution, Biodiversité Muséum National d’Histoire Naturelle, Paris ##### Deciphering the diversity and evolution of non-model organisms has always attracted me. During my PhD, I studied molecular phylogeny and environmental diversity of macro-algae. During my post-docs, I moved to microbial ecology and studied taxonomical and functional environmental diversity using (meta)omics. I daily use bioinformatics, statistics, numerical ecology, and collaborate with modelers to integrate omics and oceanographic knowledge at the global ecosystem level.


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Beyond the limits of the unassigned protist microbiome: inferring large-scale spatio-temporal patterns of Syndiniales marine parasites

Iris Rizos , Pavla Debeljak , Thomas Finet , Dylan Klein , Sakina-Dorothée Ayata
ISME Communications, 2023, 3 (1), pp.16. ⟨10.1038/s43705-022-00203-7⟩
Journal articles hal-04230262v1
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Beyond the limits of the unassigned protist microbiome: inferring large-scale spatio-temporal patterns of marine parasites

Iris Rizos , Pavla Debeljak , Thomas Finet , Dylan Klein , Sakina-Dorothée Ayata
ISME Communications, 2023, 3 (16), ⟨10.1101/2022.07.24.501282⟩
Journal articles hal-03993694v1
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Genomic differentiation of three pico‐phytoplankton species in the Mediterranean Sea

Ophélie da Silva , Sakina-Dorothée Ayata , Enrico Ser-Giacomi , Jade Leconte , Eric Pelletier
Environmental Microbiology, 2022, 24 (12), pp.6086-6099. ⟨10.1111/1462-2920.16171⟩
Journal articles hal-03784277v1
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A global metagenomic map of urban microbiomes and antimicrobial resistance

David Danko , Daniela Bezdan , Evan Afshin , Sofia Ahsanuddin , Chandrima Bhattacharya
Cell, 2021, 184 (13), pp.3376-3393.e17. ⟨10.1016/j.cell.2021.05.002⟩
Journal articles hal-03357730v1
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Towards omics-based predictions of planktonic functional composition from environmental data

Emile Faure , Sakina-Dorothée Ayata , Lucie Bittner
Nature Communications, 2021, 12, pp.4361. ⟨10.1038/s41467-021-24547-1⟩
Journal articles hal-03290250v1
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Functional trait-based approaches as a common framework for aquatic ecologists

Severine Martini , Floriane Larras , Aurélien Boyé , Emile Faure , Nicole Aberle
Limnology and Oceanography, 2021, 66 (3), pp.965-994. ⟨10.1002/lno.11655⟩
Journal articles hal-02996072v1
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A resource-frugal probabilistic dictionary and applications in bioinformatics

Camille Marchet , Lolita Lecompte , Antoine Limasset , Lucie Bittner , Pierre Peterlongo
Discrete Applied Mathematics, 2020, 92-102 (Volume 274), ⟨10.1016/j.dam.2018.03.035⟩
Journal articles hal-01322440v1
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Mixotrophic protists display contrasted biogeographies in the global ocean

Emile Faure , Fabrice Not , Anne-Sophie Benoiston , Karine Labadie , Lucie Bittner
The International Society of Microbiologial Ecology Journal, 2019, 13 (4), pp.1072-1083. ⟨10.1038/s41396-018-0340-5⟩
Journal articles hal-02182433v1
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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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Clade-specific diversification dynamics of marine diatoms since the Jurassic

Eric Lewitus , Lucie Bittner , Shruti Malviya , Chris Bowler , Hélène Morlon
Nature Ecology & Evolution, 2018, 2 (11), pp.1715-1723. ⟨10.1038/s41559-018-0691-3⟩
Journal articles hal-02408145v1

Analysis of the genomic basis of functional diversity in dinoflagellates using a transcriptome-based sequence similarity network.

Arnaud Meng , Erwan Corre , Ian Probert , Andres Gutierrez-Rodriguez , Raffaele Siano
Molecular Ecology, 2018, 27 (10), pp.2365-2380. ⟨10.1111/mec.14579⟩
Journal articles hal-02879300v1
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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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A de novo approach to disentangle partner identity and function in holobiont systems

Arnaud Meng , Camille Marchet , Erwan Corre , Pierre Peterlongo , Adriana A. Alberti
Microbiome, 2018, pp.1-35. ⟨10.1186/s40168-018-0481-9⟩
Journal articles hal-01643153v2
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Influence of diatom diversity on the ocean biological carbon pump

Paul Tréguer , Chris Bowler , Brivaëla Moriceau , Stephanie Dutkiewicz , Marion Gehlen
Nature Geoscience, 2018, 11 (1), pp.27-37. ⟨10.1038/s41561-017-0028-x⟩
Journal articles hal-01667978v1

Mare Incognitum: A Glimpse into Future Plankton Diversity and Ecology Research

Guillem Chust , Meike Vogt , Fabio Benedetti , Teofil Nakov , Sébastien Villéger
Frontiers in Marine Science, 2017, 4, pp.68. ⟨10.3389/fmars.2017.00068⟩
Journal articles hal-01545318v1
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Acclimation of a low iron adapted Ostreococcus strain to iron limitation through cell biomass lowering

Hugo Botebol , Gaëlle Lelandais , Christophe Six , Emmanuel Lesuisse , Arnaud Meng
Scientific Reports, 2017, 7 (1), pp.327. ⟨10.1038/s41598-017-00216-6⟩
Journal articles hal-01502140v1

The evolution of diatoms and their biogeochemical functions

Anne-Sophie Benoiston , Federico M Ibarbalz , Lucie Bittner , Lionel Guidi , Oliver Jahn
Philosophical Transactions of the Royal Society B: Biological Sciences, 2017, 372 (1728), pp.20160397. ⟨10.1098/rstb.2016.0397⟩
Journal articles hal-02921882v1
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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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Plankton networks driving carbon export in the oligotrophic ocean

Lionel Guidi , Samuel Chaffron , Lucie Bittner , Damien Eveillard , Abdelhalim Larhlimi
Nature, 2016, 532, pp.465-470. ⟨10.1038/nature16942⟩
Journal articles hal-01275276v1

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

Seasonal diversity and dynamics of haptophytes in the Skagerrak, Norway, explored by high-throughput sequencing

Elianne Sirnaes Egge , Torill Vik Johannessen , Tom Andersen , Wenche Eikrem , Lucie Bittner
Molecular Ecology, 2015, 24 (12), pp.3026-3042. ⟨10.1111/mec.13160⟩
Journal articles hal-01545321v1
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Eukaryotic plankton diversity in the sunlit ocean

Noan Le Bescot , Ian Probert , Margaux Carmichael , Julie Poulain , Sarah Romac
Science, 2015, 348 (6237), pp.1261605. ⟨10.1126/science.1261605⟩
Journal articles hal-01253979v1

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
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Testing ecological theories with sequence similarity networks: marine ciliates exhibit similar geographic dispersal patterns as multicellular organisms

Dominik Forster , Lucie Bittner , Slim Karkar , Micah Dunthorn , Sarah Romac
BMC Biology, 2015, 13 (1), pp.16. ⟨10.1186/s12915-015-0125-5⟩
Journal articles hal-01144173v1

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
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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⟩
Journal articles hal-01191731v1
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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⟩
Journal articles hal-01149637v1
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Ocean acidification shows negligible impacts on high-latitude bacterial community structure in coastal pelagic mesocosms

A. -S. Roy , S. M. Gibbons , H. Schunck , S. Owens , J. G. Caporaso
Biogeosciences, 2013, 10 (1), pp.555-566. ⟨10.5194/bg-10-555-2013⟩
Journal articles hal-01258227v1
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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⟩
Journal articles hal-01253994v1
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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⟩
Journal articles hal-01258226v1
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Effect of elevated CO2 on the dynamics of particle-attached and free-living bacterioplankton communities in an Arctic fjord

M. Sperling , J. Piontek , G. Gerdts , A. Wichels , H. Schunck
Biogeosciences, 2013, 10 (1), pp.181-191. ⟨10.5194/bg-10-181-2013⟩
Journal articles hal-01258225v1

Species Diversity, Phylogeny and Large Scale Biogeographic Patterns of the Genus Padina (Phaeophyceae, Dictyotales)

Thomas Silberfeld , Lucie Bittner , Cindy Fernandez-Garcia , Corinne Cruaud , Florence Rousseau
Journal of Phycology, 2013, 49 (1), pp.130-142. ⟨10.1111/jpy.12027⟩
Journal articles hal-01545323v1

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

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

Evolutionary history of the Corallinales (Corallinophycidae, Rhodophyta) inferred from nuclear, plastidial and mitochondrial genomes

Lucie Bittner , Claude Payri , Gavin Maneveldt , Arnaud Couloux , Corinne Cruaud
Molecular Phylogenetics and Evolution, 2011, 61 (3), pp.697-713. ⟨10.1016/j.ympev.2011.07.019⟩
Journal articles mnhn-02498527v1
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Some considerations for analyzing biodiversity using integrative metagenomics and gene networks

Lucie Bittner , Sébastien Halary , Claude Payri , Corinne Cruaud , Bruno de Reviers
Biology Direct, 2010, 5 (5), pp.47. ⟨10.1186/1745-6150-5-47⟩
Journal articles hal-02922363v1

Multigene phylogenetic analyses support recognition of the Sporolithales ord. nov.

Line Le Gall , Claude Payri , Lucie Bittner , Gary Saunders
Molecular Phylogenetics and Evolution, 2010, 54 (1), pp.302-305. ⟨10.1016/j.ympev.2009.05.026⟩
Journal articles mnhn-02498544v1

Genetic diversity and species boundaries of corallinales (Rhodophyta) in south Pacific Ocean

Lucie Bittner , C. Flecher , Bruno de Reviers , Line Le Gall , Claude Payri
Phycologia, 2009, Phycologia, 48 (4 S), pp.8. ⟨10.2216/0031-8884-48.sp4.1⟩
Journal articles mnhn-03632916v1

Molecular phylogeny of the Dictyotales and their position within the Phaeophyceae, based on nuclear, plastid and mitochondrial DNA sequence data

Lucie Bittner , Claude Payri , Arnaud Couloux , Corinne Cruaud , Bruno de Reviers
Molecular Phylogenetics and Evolution, 2008, 49 (1), pp.211-226. ⟨10.1016/j.ympev.2008.06.018⟩
Journal articles mnhn-03629749v1

Molecular phylogeny of the Dictyotales and their position within the phaeophycean, based on nuclear, plastid and mitochondrial DNA sequence data.

Lucie Bittner , Claude Payri , A. Couloux , C. Cruaux , Bruno de Reviers
Molecular Phylogenetics and Evolution, 2008, 46, pp.211-226
Journal articles hal-00417514v1

Towards Omics-Based Predictions of Planktonic Functional Composition From Environmental Data

Emile Faure , Sakina-Dorothée Ayata , Lucie Bittner
Marine Microbes GRS-Gordon Research Seminar, May 2022, Les Diablerets, Switzerland
Conference papers hal-04230332v1

Are we ready for protist population metagenomics? Challenges to decipher drivers of genetic differentiation in marine planktonic populations

Ophélie da Silva , Enrico Ser-Giacomi , Eric Pelletier , Cécile Fauvelot , Jade Leconte
The 6th International Marine Connectivity Conference (iMarco/Sea-Unicorn), Dec 2021, Paris, France
Conference papers hal-04230339v1

From plankton functional traits to marine ecosystem functions: Assessing functional diversity of plankton communities from high throughput -omics data and its impact on oceanic biogeochemical cycles

Sakina-Dorothée Ayata , E. Faure , A.-S. Benoiston , Fabrice Not , Olivier Aumont
Functional Ecology Conference, 2018, Nancy, France
Conference papers hal-04024046v1

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

A.S. Benoiston , L. Bittner , Lionel Guidi , S. Chaffron , D. Eveillard
Journée analyse des réseau, GDR génomique environnementale, 2017, Nantes, France
Conference papers hal-04024048v1

A transcriptomic approach to study marine plankton holobionts

Arnaud Meng , Erwan Corre , Pierre Peterlongo , Camille Marchet , Adriana A. Alberti
International Conference on Holobionts, Apr 2017, Paris, France
Conference papers hal-01575069v1
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A resource-frugal probabilistic dictionary and applications in (meta)genomics

Camille Marchet , Antoine Limasset , Lucie Bittner , Pierre Peterlongo
Prageu Stringology Conference , Aug 2016, Prague, Czech Republic
Conference papers hal-01386744v1

Revealing and analyzing networks of marine microbial ecosystems

Damien Eveillard , Lionel Guidi , Lucie Bittner , Samuel Chaffron , Jeroen Raes
Conférence Jacques Monod - Marine Ecosystems Biology, 2015, Roscoff, France
Conference papers hal-01176727v1

Advances in brown algal systematics.

Bruno de Reviers , Lucie Bittner , Thomas Silberfeld , Florence Rousseau
103° Congrès de la société botanique italienne, 17-19 sept, Sep 2008, Reggio Calabria, Italy
Conference papers hal-00420179v1

Advances in brown algal systematics

Bruno de Reviers , Lucie Bittner , Thomas Silberfeld , Florence Rousseau
103° Congresso della Società Botanica Italiana, Sep 2008, Reggio Calabria, Italy. pp.42
Conference papers mnhn-03634297v1

L'océan Comme Laboratoire. Tara Océans, Un Rêve de Marin, de Science et de Partage

L. Bittner
Sciences. Bâtir de Nouveaux Mondes., CNRS Editions, pp.102, 2019, 978-2-271-12626-9
Book sections hal-03839039v1

L’expédition Tara Océans, un rêve de marin, de science et de partage

Lucie Bittner
Editions CNRS. Sciences. Bâtir de nouveaux mondes., 2019, 978-2-271-12626-9
Book sections hal-02922440v1

Les microbiomes de l'océan : une démarche à haut débit pour une compréhension globale et systémique

Lucie Bittner , Lionel Guidi , Samuel Chaffron , Damien Eveillard
Laurent Palka. Microbiodiversité : un nouveau regard, 161 - 185, editions matériologiques, 2018
Book sections hal-01996304v1

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
Book sections hal-02922390v1

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
Book sections hal-02922413v1