tom delmont

Publications

Pré-publication, Document de travail (10)

Quantitative insights into the efficacy of genome-resolved surveys of microbial communities through ribosomal protein phylogeography and EcoPhylo Matthew Schechter,Florian Trigodet,Iva Veseli,Samuel Miller,Matthew Kleinet al. 2025 Pré-publication, Document de travail hal-05363596v1
A new deep-branching environmental lineage of algae Mahwash Jamy,Thomas Huber,Thibault Antoine,Hans-Joachim Ruscheweyh,Lucas Paoliet al. 2025 Pré-publication, Document de travail hal-05363587v1
Genomics-based quantitative biogeography of marine plankton Margaux Crédeville,Roy El Hourany,Swan Sow,Julie Poulain,Manon Depatyet al. 2025 Pré-publication, Document de travail hal-05363600v1
Unexpected diversity and ecological significance of uncultivable large virus-like particles in aquatic environments Hermine Billard,Maxime Fuster,François Enault,Jean-François Carrias,Léa Fargetteet al. 2024 Pré-publication, Document de travail hal-04797458v1
Closest relatives of poxviruses are spread in the gut of humans and animals worldwide: the egoviruses Morgan Gaïa,Hans-Joachim Ruscheweyh,A. Murat Eren,Eugene Koonin,Shinichi Sunagawaet al. 2025 Pré-publication, Document de travail hal-05363610v1
Complex genomes of early nucleocytoviruses revealed by ancient origins of viral aminoacyl-tRNA synthetases Soichiro Kijima,Hiroyuki Hikida,Tom Delmont,Morgan Gaïa,Hiroyuki Ogata 2024 Pré-publication, Document de travail hal-04399845v1
Mirusviruses provide a missing link in the evolution of giant viruses Plankton-infecting relatives of herpesviruses clarify the evolutionary trajectory of giant viruses Morgan Gaïa,Lingjie Meng,Eric Pelletier,Patrick Forterre,Chiara Vanniet al. 2022 Pré-publication, Document de travail (preprint/prepublication) hal-03876463v1
Environmental genomics points to non-diazotrophic $Trichodesmium$ species abundant and widespread in the open ocean Tom Delmont 2021 Pré-publication, Document de travail hal-03480637v1
Equatorial to Polar genomic variability of the microalgae &lt;i&gt;Bathycoccus prasinos&lt;/i&gt; Jade Leconte,Youri Timsit,Tom O Delmont,Magali Lescot,Gwenael Piganeauet al. 2023 Pré-publication, Document de travail (preprint/prepublication) hal-04308022v1
Restructuring of genomic provinces of surface ocean plankton under climate change Paul Frémont,Marion Gehlen,Mathieu Vrac,Jade Leconte,Tom O. Delmontet al. 2021 Pré-publication, Document de travail cea-03166589v2

Article dans une revue (45)

Unexpected diversity and ecological significance of uncultivable large virus-like particles in aquatic environments Hermine Billard,Maxime Fuster,François Enault,Jean-François Carrias,Léa Fargetteet al. ISME Communications, 2025, 5 (1), pp.ycaf098. ⟨10.1093/ismeco/ycaf098⟩ Article dans une revue hal-05351916v1
Widespread and intron-rich mirusviruses are predicted to reproduce in nuclei of unicellular eukaryotes Sofia Medvedeva,Ulysse Guyet,Eric Pelletier,Hans-Joachim Ruscheweyh,Shinichi Sunagawaet al. Nature Microbiology, 2025, 11 (1), pp.228-239. ⟨10.1038/s41564-025-02190-6⟩ Article dans une revue pasteur-05442839v1
Complex Genomes of Early Nucleocytoviruses Revealed by Ancient Origins of Viral Aminoacyl-tRNA Synthetases Soichiro Kijima,Hiroyuki Hikida,Tom Delmont,Morgan Gaïa,Hiroyuki Ogata Molecular Biology and Evolution, 2024, 41 (8), pp.msae149. ⟨10.1093/molbev/msae149⟩ Article dans une revue hal-05363609v1
Discovery of Eremiobacterota with &lt;i&gt;nifH&lt;/i&gt; homologues in tundra soil Igor S Pessi,Tom O Delmont,Jonathan P Zehr,Jenni Hultman Environmental Microbiology Reports, 2024, 16 (3), pp.e13277. ⟨10.1111/1758-2229.13277⟩ Article dans une revue hal-04776164v1
Bioprospecting marine microbial genomes to improve biotechnology A. Murat Eren,Tom Delmont Nature, 2024, 633 (8029), pp.287-288. ⟨10.1038/d41586-024-02661-6⟩ Article dans une revue hal-05363602v1
Tracing the invertebrate herpesviruses in the global sequence datasets Umberto Rosani,Morgan Gaia,Tom O Delmont,Mart Krupovic Frontiers in Marine Science, 2023, 10, pp.1159754. ⟨10.3389/fmars.2023.1159754⟩ Article dans une revue pasteur-04162270v1
Mirusviruses link herpesviruses to giant viruses Morgan Gaïa,Lingjie Meng,Eric Pelletier,Patrick Forterre,Chiara Vanniet al. Nature, 2023, 616 (7958), pp.783-789. ⟨10.1038/s41586-023-05962-4⟩ Article dans une revue pasteur-04085734v1
The defensome of complex bacterial communities Angelina Beavogui,Auriane Lacroix,Nicolas Wiart,Julie Poulain,Tom O Delmontet al. Nature Communications, 2023, 15, pp.2146. ⟨10.1101/2023.08.12.553040⟩ Article dans une revue hal-04406189v2
Genomic adaptation of giant viruses in polar oceans Lingjie Meng,Tom Delmont,Morgan Gaïa,Eric Pelletier,Antonio Fernàndez-Guerraet al. Nature Communications, 2023, 14 (1), pp.6233. ⟨10.1038/s41467-023-41910-6⟩ Article dans une revue hal-04385851v1
Giant viruses encode actin-related proteins Violette da Cunha,Morgan Gaia,Hiroyuki Ogata,Olivier Jaillon,Tom O Delmontet al. Molecular Biology and Evolution, 2022, 39 (2), pp.msac022. ⟨10.1093/molbev/msac022⟩ Article dans une revue cea-04281384v1
In-depth characterization of denitrifier communities across different soil ecosystems in the tundra Igor Pessi,Sirja Viitamäki,Anna-Maria Virkkala,Eeva Eronen-Rasimus,Tom Delmontet al. Environmental Microbiome, 2022, 17 (1), pp.30. ⟨10.1186/s40793-022-00424-2⟩ Article dans une revue cea-04425162v1
Restructuring of plankton genomic biogeography in the surface ocean under climate change Paul Frémont,Marion Gehlen,Mathieu Vrac,Jade Leconte,Tom O. Delmontet al. Nature Climate Change, 2022, 12 (4), pp.393-401. ⟨10.1038/s41558-022-01314-8⟩ Article dans une revue insu-03659872v1
Functional repertoire convergence of distantly related eukaryotic plankton lineages abundant in the sunlit ocean Tom Delmont,Morgan Gaia,Damien Hinsinger,Paul Frémont,Chiara Vanniet al. Cell Genomics, 2022, 2 (5), pp.100123. ⟨10.1016/j.xgen.2022.100123⟩ Article dans une revue hal-03872935v2
Unifying the known and unknown microbial coding sequence space Chiara Vanni,Matthew Schechter,Silvia Acinas,Albert Barberán,Pier Luigi Buttigieget al. eLife, 2022, 11, ⟨10.7554/eLife.67667⟩ Article dans une revue cea-04425144v1
Priorities for ocean microbiome research Andre Abreu,Etienne Bourgois,Adam Gristwood,Romain Troublé,Silvia Acinaset al. Nature Microbiology, 2022, 7 (7), pp.937-947. ⟨10.1038/s41564-022-01145-5⟩ Article dans une revue hal-03781942v1
The Ocean Gene Atlas v2.0: online exploration of the biogeography and phylogeny of plankton genes Caroline Vernette,Julien Lecubin,Pablo Sánchez,(team) Tara Oceans Coordinators,Shinichi Sunagawaet al. Nucleic Acids Research, 2022, 11, ⟨10.1093/nar/gkac420⟩ Article dans une revue hal-03696136v1
Genomic evidence for global ocean plankton biogeography shaped by large-scale current systems Daniel Richter,Romain Watteaux,Thomas Vannier,Jade Leconte,Paul Frémontet al. eLife, 2022, 11, pp.e78129. ⟨10.7554/eLife.78129⟩ Article dans une revue hal-02399723v2
Community-led, integrated, reproducible multi-omics with anvi'o A. Murat Eren,Evan Kiefl,Alon Shaiber,Iva Veseli,Samuel E. Milleret al. Nature Microbiology, 2021, 6 (1), pp.3-6. ⟨10.1038/s41564-020-00834-3⟩ Article dans une revue cea-04284764v1
Discovery of nondiazotrophic Trichodesmium species abundant and widespread in the open ocean Tom O. Delmont Proceedings of the National Academy of Sciences of the United States of America, 2021, 118 (46), pp.e2112355118. ⟨10.1073/pnas.2112355118j1of10⟩ Article dans une revue cea-04284763v1
Gut Microbiota Linked with Reduced Fear of Humans in Red Junglefowl Has Implications for Early Domestication Lara Puetz,Tom Delmont,Ostaizka Aizpurua,Chunxue Guo,Guojie Zhanget al. Advanced Genetics, 2021, 2 (4), ⟨10.1002/ggn2.202100018⟩ Article dans une revue hal-04376251v1
Discovery of viral myosin genes with complex evolutionary history within plankton Soichiro Kijima,Tom O. Delmont,Urara Miyazaki,Morgan Gaia,Hisashi Endoet al. Frontiers in Microbiology, 2021, 12, pp.e683294. ⟨10.3389/fmicb.2021.683294⟩ Article dans une revue hal-04288984v1
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 Erenet 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-03480646v1
Eukaryotic virus composition can predict the efficiency of carbon export in the global ocean Hiroto Kaneko,Romain Blanc-Mathieu,Hisashi Endo,Samuel Chaffron,Tom Delmontet al. iScience, 2021, 24 (1), pp.102002. ⟨10.1016/j.isci.2020.102002⟩ Article dans une revue hal-03097258v3
Mitotic recombination between homologous chromosomes drives genomic diversity in diatoms Petra Bulankova,Mirna Sekulić,Denis Jallet,Charlotte Nef,Cock van Oosterhoutet al. Current Biology, 2021, 31 (15), pp.3221-+. ⟨10.1016/j.cub.2021.05.013⟩ Article dans une revue hal-03333507v1
Genome-resolved metagenomics suggests a mutualistic relationship between $Mycoplasma$ and salmonid hosts Jacob A. Rasmussen,Kasper R. Villumsen,David A. Duchene,Lara C. Puetz,Tom O. Delmontet al. Communications Biology, 2021, 4 (1), pp.e579. ⟨10.1038/s42003-021-02105-1⟩ Article dans une revue hal-04288991v1
Early-life microbial restitution reduces colitis risk promoted by antibiotic-induced gut dysbiosis in interleukin 10(-/-) mice Jun Miyoshi,Sawako Miyoshi,Tom O. Delmont,Candace Cham,Sonny T. M. Leeet al. Gastroenterology, 2021, 161 (3), pp.940-952. ⟨10.1053/j.gastro.2021.05.054⟩ Article dans une revue hal-04288988v1
VirSorter2: a multi-classifier, expert-guided approach to detect diverse DNA and RNA viruses Jiarong R. Guo,Ben Bolduc,Ahmed A. Zayed,Arvind Varsani,Guillermo Dominguez-Huertaet al. Microbiome, 2021, 9 (1), pp.37. ⟨10.1186/s40168-020-00990-y⟩ Article dans une revue cea-04284766v1
Transcriptome reconstruction and functional analysis of eukaryotic marine plankton communities via high-throughput metagenomics and metatranscriptomics Alexey Vorobev,Marion Dupouy,Quentin Carradec,Tom O. Delmont,Anita Annamaléet al. Genome Research, 2020, 30 (4), pp.647-659. ⟨10.1101/gr.253070.119⟩ Article dans une revue hal-02573621v1
Functional and genetic markers of niche partitioning among enigmatic members of the human oral microbiome Alon Shaiber,Amy D. Willis,Tom O. Delmont,Simon Roux,Lin-Xing Chenet al. Genome Biology, 2020, 21, pp.292. ⟨10.1186/s13059-020-02195-w⟩ Article dans une revue cea-04300151v1
Effects of iron and light availability on phytoplankton photosynthetic properties in the Ross Sea Anne-Carlijn Alderkamp,Gert L. Van Dijken,Kate E. Lowry,Kate M. Lewis,Hannah L. Joy-Warrenet al. Marine Ecology Progress Series, 2019, 621, pp.33-50. ⟨10.3354/meps13000⟩ Article dans une revue cea-04307620v1
Co-occurring genomic capacity for anaerobic methane and dissimilatory sulfur metabolisms discovered in the Korarchaeota Luke J. Mckay,Mensur Dlakic,Matthew W. Fields,Tom O. Delmont,A. Murat Erenet al. Nature Microbiology, 2019, 4 (4), pp.614-622. ⟨10.1038/s41564-019-0362-4⟩ Article dans une revue cea-04309464v1
Genomic variation in microbial populations inhabiting the marine subseafloor at deep-sea hydrothermal vents Rika E. Anderson,Julie Reveillaud,Emily Reddington,Tom O. Delmont,A. Murat Erenet al. Nature Communications, 2017, 8, ⟨10.1038/s41467-017-01228-6⟩ Article dans une revue hal-02622497v1
Functional Basis of Microorganism Classification Chengsheng Zhu,Tom O. Delmont,Timothy M. Vogel,Yana Bromberg PLoS Computational Biology, 2015, 11 (8), ⟨10.1371/journal.pcbi.1004472⟩ Article dans une revue hal-01589154v1
Reconstructing rare soil microbial genomes using in situ enrichments and metagenomics Tom O. Delmont,A. Murat Eren,Lorrie Maccario,Emmanuel Prestat,Özcan C. Esenet al. Frontiers in Microbiology, 2015, 6, pp.358. ⟨10.3389/fmicb.2015.00358⟩ Article dans une revue hal-01589179v1
Microbial community development and unseen diversity recovery in inoculated sterile soil Tom Delmont,Davide Francioli,Sophie Jacquesson,Sandra Laoudi,Alban Mathieuet al. Biology and Fertility of Soils, 2014, 50 (7), pp.1069 - 1076. ⟨10.1007/s00374-014-0925-8⟩ Article dans une revue hal-01928111v1
Large-Scale Metagenomic-Based Study of Antibiotic Resistance in the Environment Joseph Nesme,Sébastien Cecillon,Tom Delmont,Jean-Michel Monier,Timothy M. Vogelet al. Current Biology, 2014, pp.voir DOI. ⟨10.1016/j.cub.2014.03.036⟩ Article dans une revue hal-00988678v1
Characterization of new bacterial catabolic genes and mobile genetic elements by high throughput genetic screening of a soil metagenomic library Samuel Jacquiod,Sandrine Demanèche,Laure Franqueville,Luka Ausec,Zhuofei Xuet al. Journal of Biotechnology, 2014, epub ahead of print. ⟨10.1016/j.jbiotec.2014.03.036⟩ Article dans une revue istex hal-00989480v1
Life on Human Surfaces: Skin Metagenomics Alban Mathieu,Tom Delmont,Timothy M. Vogel,Patrick Robe,Renaud Nalinet al. PLoS ONE, 2013, 8 (6), pp.e65288. ⟨10.1371/journal.pone.0065288⟩ Article dans une revue hal-00846134v1
Mastering methodological pitfalls for surviving the metagenomic jungle. Tom Delmont,Pascal Simonet,Timothy M. Vogel BioEssays, 2013, 35 (8), pp.744-54. ⟨10.1002/bies.201200155⟩ Article dans une revue istex hal-00846141v1
Structure, fluctuation and magnitude of a natural grassland soil metagenome. Tom Delmont,Emmanuel Prestat,Kevin P. Keegan,Michael Faubladier,Patrick Robeet al. The International Society of Microbiologial Ecology Journal, 2012, 6 (9), pp.1677-87. ⟨10.1038/ismej.2011.197⟩ Article dans une revue hal-00747243v1
Describing microbial communities and performing global comparisons in the 'omic era. Tom Delmont,Pascal Simonet,Timothy M. Vogel The International Society of Microbiologial Ecology Journal, 2012, 6 (9), pp.1625-8. ⟨10.1038/ismej.2012.55⟩ Article dans une revue hal-00747239v1
Metagenomic exploration of antibiotic resistance in soil Jean-Michel Monier,Sandrine Demanèche,Tom Delmont,Alban Mathieu,Timothy M Vogelet al. Current Opinion in Microbiology, 2011, 14 (3), pp.229-235. ⟨10.1016/j.mib.2011.04.010⟩ Article dans une revue istex hal-00629407v1
Metagenomic mining for microbiologists Tom Delmont,Cédric Malandain,Emmanuel Prestat,Catherine Larose,Jean-Michel Monieret al. The International Society of Microbiologial Ecology Journal, 2011, 5 (12), pp.1837-1843. ⟨10.1038/ismej.2011.61⟩ Article dans une revue hal-00747250v1
Metagenomic comparison of direct and indirect soil DNA extraction approaches Tom Delmont,Patrick Robe,Ian M. Clark,Pascal Simonet,Timothy M Vogel Journal of Microbiological Methods, 2011, 86 (3), pp.397-400. ⟨10.1016/j.mimet.2011.06.013⟩ Article dans une revue istex hal-00629399v1
Accessing the Soil Metagenome for Studies of Microbial Diversity Tom Delmont,Patrick Robe,Sébastien Cecillon,Ian M. Clark,Florentin Constanciaset al. Applied and Environmental Microbiology, 2011, 77 (4), pp.1315-1324. ⟨10.1128/AEM.01526-10⟩ Article dans une revue hal-00579312v1

Communication dans un congrès (13)

A la découverte des génomes du plancton avec TARA Oceans Tom O. Delmont AFEM (French national microbial ecology association), Oct 2023, Carqueiranne, France Communication dans un congrès hal-04423118v1
Mirusviruses link herpesviruses to giant viruses Tom O. Delmont Ringberg Symposium on Giant Virus Biology, Dec 2023, Ringberg, Germany Communication dans un congrès hal-04412065v1
Plankton genomics with Tara Oceans Tom O. Delmont AFEM (French national microbial ecology association), Jun 2022, Clermont - Ferrand, France Communication dans un congrès hal-04423093v1
Plankton genomics with Tara Oceans Tom O. Delmont Symposium on Polar Microbes and Viruses, May 2022, Tvärminne Zoological Station, Finland Communication dans un congrès hal-04423089v1
Plankton genomics with Tara Oceans Tom O. Delmont Plankton genomics with Tara Oceans, Sep 2022, Dijon, France Communication dans un congrès hal-04423087v1
Diatom environmental genomes Tom O. Delmont Molecular Life Of Diatoms, Jul 2021, Online, United States Communication dans un congrès hal-04423102v1
Plankton genomics with Tara Oceans Tom O. Delmont NeLLi Symposium on New Lineages of Life, JGI, Oct 2021, Online, United States Communication dans un congrès hal-04423098v1
Genome-resolved metagenomics applied to marine microbial ecology Tom O. Delmont Nordic meeting in molecular microbial ecology, Sep 2019, Duhrevägen, Sweden Communication dans un congrès hal-04423108v1
Soil and comparative environmental metagenomics Timothy M Vogel,Catherine Larose,Pascal Simonet,Tom O. Delmont Indo-French Workshop on Environmental Biotechnology (Molecular Ecology & Environmental Engineering), Feb 2015, Bhubaneswar, India Communication dans un congrès hal-01974548v1
Managing microbial communities for sequentially reconstruct genomes from complex metagenomes Tom Delmont,Timothy M. Vogel,Pascal Simonet EGU, Apr 2013, Vienne, Austria. pp.1147 Communication dans un congrès hal-00821702v1
Criblage génétique d'une banque fosmidique d'ADN métagénomique d'un sol de référence pour la recherche de gènes fonctionnels d'intérêt industriel Samuel Jacquiod,Sandrine Demanèche,Tom Delmont,Timothy M. Vogel,Pascal Simonetet al. VIème Colloque de l'Association Francophone d'Ecologie Microbienne (AFEM), Oct 2013, Parent, France Communication dans un congrès hal-00925344v1
Managing microbial communities for finding new enzymes and sequentially reconstruct genomes from complex metagenomes Pascal Simonet,Tom Delmont,Samuel Jacquiod,Laure Franqueville,Timothy M. Vogel 5th Congress of European Microbiologists (FEMS 2013), Jul 2013, Leipzig, Germany. pp.S32, SOIL METAGENOMICS, Hall 5 Communication dans un congrès hal-00932256v1
SOIL METAGENOMIC: WHERE IS THE DIVERSITY? Tom Delmont,Florentin Constancias,Sébastien Cecillon,Elisabeth Navarro,Pascal Simonetet al. BAGECO 10 : Bacterial Genetics and Ecology – Coexisting on a Changing Planet, Jun 2009, Uppsala, Sweden Communication dans un congrès hal-00399234v1

Poster de conférence (1)

Mirusviruses: a complex evolutionary trajectory beyond realms Morgan Gaïa,Lingjie Meng,Antonio Fernandez-Guerra,Hiroyuki Ogata,Mart Krupovicet al. 5th Ringberg Symposium on Giant Virus Biology, Dec 2023, Tegernsee, Germany Poster de conférence hal-04394603v1

Chapitre d'ouvrage (2)

Genome Sequence Databases: Types of Data and Bioinformatic Tools Ana Gutiérrez-Preciado,Philippe Deschamps,Tom Delmont,Claudia Chica,Nathan A.M. Chrismaset al. Reference Module in Biomedical Sciences, Elsevier, 2019, ⟨10.1016/b978-0-12-801238-3.99223-7⟩ Chapitre d'ouvrage hal-02378810v1
Soil Metagenomic Exploration of the Rare Biosphere Tom Delmont,Laure Franqueville,Samuel Jacquiod,Pascal Simonet,Timothy M. Vogel Frans J. de Bruijn. Handbook of Molecular Microbial Ecology I: Metagenomics and Complementary Approaches, Wiley-Blackwell, pp.287-298, 2011, 978-0-470-92418-1 Chapitre d'ouvrage hal-00925266v1

Thèse (1)

Decrypting soil microbial communities using metagenomic approaches Tom Delmont Other. Ecole Centrale de Lyon, 2011. English. ⟨NNT : 2011ECDL0048⟩ Thèse tel-01090720v1