tom delmont

64
Documents

Publications

Publications

Image document

Discovery of Eremiobacterota with <i>nifH</i> 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-04776164 v1
Image document

The defensome of complex bacterial communities

Angelina Beavogui , Auriane Lacroix , Nicolas Wiart , Julie Poulain , Tom O Delmont et al.
Nature Communications, 2023, 15, pp.2146. ⟨10.1101/2023.08.12.553040⟩
Article dans une revue hal-04406189 v2
Image document

Genomic adaptation of giant viruses in polar oceans

Lingjie Meng , Tom Delmont , Morgan Gaïa , Eric Pelletier , Antonio Fernàndez-Guerra et al.
Nature Communications, 2023, 14 (1), pp.6233. ⟨10.1038/s41467-023-41910-6⟩
Article dans une revue hal-04385851 v1
Image document

Mirusviruses link herpesviruses to giant viruses

Morgan Gaïa , Lingjie Meng , Eric Pelletier , Patrick Forterre , Chiara Vanni et al.
Nature, 2023, 616 (7958), pp.783-789. ⟨10.1038/s41586-023-05962-4⟩
Article dans une revue pasteur-04085734 v1
Image document

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-04162270 v1

In-depth characterization of denitrifier communities across different soil ecosystems in the tundra

Igor Pessi , Sirja Viitamäki , Anna-Maria Virkkala , Eeva Eronen-Rasimus , Tom Delmont et al.
Environmental Microbiome, 2022, 17 (1), pp.30. ⟨10.1186/s40793-022-00424-2⟩
Article dans une revue cea-04425162 v1
Image document

Restructuring of plankton genomic biogeography in the surface ocean under climate change

Paul Frémont , Marion Gehlen , Mathieu Vrac , Jade Leconte , Tom O. Delmont et al.
Nature Climate Change, 2022, 12 (4), pp.393-401. ⟨10.1038/s41558-022-01314-8⟩
Article dans une revue insu-03659872 v1
Image document

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
Image document

Giant viruses encode actin-related proteins

Violette da Cunha , Morgan Gaia , Hiroyuki Ogata , Olivier Jaillon , Tom O Delmont et al.
Molecular Biology and Evolution, 2022, 39 (2), pp.msac022. ⟨10.1093/molbev/msac022⟩
Article dans une revue cea-04281384 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

Unifying the known and unknown microbial coding sequence space

Chiara Vanni , Matthew Schechter , Silvia Acinas , Albert Barberán , Pier Luigi Buttigieg et al.
eLife, 2022, 11, ⟨10.7554/eLife.67667⟩
Article dans une revue cea-04425144 v1
Image document

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
Image document

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 Sunagawa et al.
Nucleic Acids Research, 2022, 11, ⟨10.1093/nar/gkac420⟩
Article dans une revue hal-03696136 v1
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 et al.
eLife, 2022, 11, pp.e78129. ⟨10.7554/eLife.78129⟩
Article dans une revue hal-02399723 v2
Image document

Discovery of viral myosin genes with complex evolutionary history within plankton

Soichiro Kijima , Tom O. Delmont , Urara Miyazaki , Morgan Gaia , Hisashi Endo et al.
Frontiers in Microbiology, 2021, 12, pp.e683294. ⟨10.3389/fmicb.2021.683294⟩
Article dans une revue hal-04288984 v1

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-04284763 v1

Community-led, integrated, reproducible multi-omics with anvi'o

A. Murat Eren , Evan Kiefl , Alon Shaiber , Iva Veseli , Samuel E. Miller et al.
Nature Microbiology, 2021, 6 (1), pp.3-6. ⟨10.1038/s41564-020-00834-3⟩
Article dans une revue cea-04284764 v1

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 Zhang et al.
Advanced Genetics, 2021, 2 (4), ⟨10.1002/ggn2.202100018⟩
Article dans une revue hal-04376251 v1
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 et al.
iScience, 2021, 24 (1), pp.102002. ⟨10.1016/j.isci.2020.102002⟩
Article dans une revue hal-03097258 v3

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

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. Lee et al.
Gastroenterology, 2021, 161 (3), pp.940-952. ⟨10.1053/j.gastro.2021.05.054⟩
Article dans une revue hal-04288988 v1
Image document

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. Delmont et al.
Communications Biology, 2021, 4 (1), pp.e579. ⟨10.1038/s42003-021-02105-1⟩
Article dans une revue hal-04288991 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
Image document

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-Huerta et al.
Microbiome, 2021, 9 (1), pp.37. ⟨10.1186/s40168-020-00990-y⟩
Article dans une revue cea-04284766 v1
Image document

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 Annamalé et al.
Genome Research, 2020, 30 (4), pp.647-659. ⟨10.1101/gr.253070.119⟩
Article dans une revue hal-02573621 v1
Image document

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 Chen et al.
Genome Biology, 2020, 21, pp.292. ⟨10.1186/s13059-020-02195-w⟩
Article dans une revue cea-04300151 v1
Image document

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-Warren et al.
Marine Ecology Progress Series, 2019, 621, pp.33-50. ⟨10.3354/meps13000⟩
Article dans une revue cea-04307620 v1

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 Eren et al.
Nature Microbiology, 2019, 4 (4), pp.614-622. ⟨10.1038/s41564-019-0362-4⟩
Article dans une revue cea-04309464 v1
Image document

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 Eren et al.
Nature Communications, 2017, 8, ⟨10.1038/s41467-017-01228-6⟩
Article dans une revue hal-02622497 v1

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-01589154 v1

Reconstructing rare soil microbial genomes using in situ enrichments and metagenomics

Tom O. Delmont , A. Murat Eren , Lorrie Maccario , Emmanuel Prestat , Özcan C. Esen et al.
Frontiers in Microbiology, 2015, 6, ⟨10.3389/fmicb.2015.00358⟩
Article dans une revue hal-01589179 v1

Microbial community development and unseen diversity recovery in inoculated sterile soil

Tom Delmont , Davide Francioli , Sophie Jacquesson , Sandra Laoudi , Alban Mathieu et al.
Biology and Fertility of Soils, 2014, 50 (7), pp.1069 - 1076. ⟨10.1007/s00374-014-0925-8⟩
Article dans une revue hal-01928111 v1

Large-Scale Metagenomic-Based Study of Antibiotic Resistance in the Environment

Joseph Nesme , Sébastien Cecillon , Tom Delmont , Jean-Michel Monier , Timothy M. Vogel et al.
Current Biology, 2014, pp.voir DOI. ⟨10.1016/j.cub.2014.03.036⟩
Article dans une revue hal-00988678 v1

Life on Human Surfaces: Skin Metagenomics

Alban Mathieu , Tom Delmont , Timothy M. Vogel , Patrick Robe , Renaud Nalin et al.
PLoS ONE, 2013, 8 (6), pp.e65288. ⟨10.1371/journal.pone.0065288⟩
Article dans une revue hal-00846134 v1

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-00846141 v1

Structure, fluctuation and magnitude of a natural grassland soil metagenome.

Tom Delmont , Emmanuel Prestat , Kevin P. Keegan , Michael Faubladier , Patrick Robe et al.
The International Society of Microbiologial Ecology Journal, 2012, 6 (9), pp.1677-87. ⟨10.1038/ismej.2011.197⟩
Article dans une revue hal-00747243 v1

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-00747239 v1

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-00629399 v1

Metagenomic mining for microbiologists

Tom Delmont , Cédric Malandain , Emmanuel Prestat , Catherine Larose , Jean-Michel Monier et al.
The International Society of Microbiologial Ecology Journal, 2011, 5 (12), pp.1837-1843. ⟨10.1038/ismej.2011.61⟩
Article dans une revue hal-00747250 v1

Metagenomic exploration of antibiotic resistance in soil

Jean-Michel Monier , Sandrine Demanèche , Tom Delmont , Alban Mathieu , Timothy M Vogel et al.
Current Opinion in Microbiology, 2011, 14 (3), pp.229-235. ⟨10.1016/j.mib.2011.04.010⟩
Article dans une revue istex hal-00629407 v1

Accessing the Soil Metagenome for Studies of Microbial Diversity

Tom Delmont , Patrick Robe , Sébastien Cecillon , Ian M. Clark , Florentin Constancias et al.
Applied and Environmental Microbiology, 2011, 77 (4), pp.1315-1324. ⟨10.1128/AEM.01526-10⟩
Article dans une revue hal-00579312 v1
Image document

Unexpected diversity and ecological significance of uncultivable large virus-like particles in aquatic environments

Hermine Billard , Maxime Fuster , François Enault , Jean-François Carrias , Léa Fargette et al.
2024
Pré-publication, Document de travail hal-04797458 v1

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-04399845 v1
Image document

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 Vanni et al.
2022
Pré-publication, Document de travail (preprint/prepublication) hal-03876463 v1
Image document

Restructuring of genomic provinces of surface ocean plankton under climate change

Paul Frémont , Marion Gehlen , Mathieu Vrac , Jade Leconte , Tom O. Delmont et al.
2021
Pré-publication, Document de travail cea-03166589 v2

Environmental genomics points to non-diazotrophic $Trichodesmium$ species abundant and widespread in the open ocean

Tom Delmont
2021
Pré-publication, Document de travail hal-03480637 v1

Equatorial to Polar genomic variability of the microalgae <i>Bathycoccus prasinos</i>

Jade Leconte , Youri Timsit , Tom O Delmont , Magali Lescot , Gwenael Piganeau et al.
2023
Pré-publication, Document de travail (preprint/prepublication) hal-04308022 v1

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-04423118 v1

Mirusviruses link herpesviruses to giant viruses

Tom O. Delmont
Ringberg Symposium on Giant Virus Biology, Dec 2023, Ringberg, Germany
Communication dans un congrès hal-04412065 v1

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-04423089 v1

Plankton genomics with Tara Oceans

Tom O. Delmont
AFEM (French national microbial ecology association), Jun 2022, Clermont - Ferrand, France
Communication dans un congrès hal-04423093 v1

Plankton genomics with Tara Oceans

Tom O. Delmont
Plankton genomics with Tara Oceans, Sep 2022, Dijon, France
Communication dans un congrès hal-04423087 v1

Diatom environmental genomes

Tom O. Delmont
Molecular Life Of Diatoms, Jul 2021, Online, United States
Communication dans un congrès hal-04423102 v1

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-04423098 v1

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-04423108 v1

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-01974548 v1

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-00821702 v1

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 Simonet et al.
VIème Colloque de l'Association Francophone d'Ecologie Microbienne (AFEM), Oct 2013, Parent, France
Communication dans un congrès hal-00925344 v1

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-00932256 v1

SOIL METAGENOMIC: WHERE IS THE DIVERSITY?

Tom Delmont , Florentin Constancias , Sébastien Cecillon , Elisabeth Navarro , Pascal Simonet et al.
BAGECO 10 : Bacterial Genetics and Ecology – Coexisting on a Changing Planet, Jun 2009, Uppsala, Sweden
Communication dans un congrès hal-00399234 v1

Mirusviruses: a complex evolutionary trajectory beyond realms

Morgan Gaïa , Lingjie Meng , Antonio Fernandez-Guerra , Hiroyuki Ogata , Mart Krupovic et al.
5th Ringberg Symposium on Giant Virus Biology, Dec 2023, Tegernsee, Germany
Poster de conférence hal-04394603 v1

Genome Sequence Databases: Types of Data and Bioinformatic Tools

Ana Gutiérrez-Preciado , Philippe Deschamps , Tom Delmont , Claudia Chica , Nathan A.M. Chrismas et al.
Reference Module in Biomedical Sciences, Elsevier, 2019, ⟨10.1016/b978-0-12-801238-3.99223-7⟩
Chapitre d'ouvrage hal-02378810 v1

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-00925266 v1