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Phydbac “Gene Function Predictor” : a gene annotation tool based on genomic context analysis

 Francois Enault , Karsten Suhre , Jean-Michel Claverie
BMC Bioinformatics, 2005, 6 (1), pp.247. ⟨10.1186/1471-2105-6-247⟩
Article dans une revue hal-01624056v1
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Minimum Information about an Uncultivated Virus Genome (MIUViG)

 Simon Roux , Evelien M. Adriaenssens , Bas E. Dutilh , Eugene V. Koonin , Andrew M. Kropinski , et al.
Nature Biotechnology, 2019, 37 (1), pp.29-37. ⟨10.1038/nbt.4306⟩
Article dans une revue pasteur-01977322v1

Metavir: a web server dedicated to virome analysis.

 Simon Roux , Michaël Faubladier , Antoine Mahul , Nils Paulhe , Aurélien Bernard , et al.
Bioinformatics, 2011, 27 (21), pp.3074-5. ⟨10.1093/bioinformatics/btr519⟩
Article dans une revue hal-00841495v1
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Diversity of novel archaeal viruses infecting methanogens discovered through coupling of stable isotope probing and metagenomics

 Vuong Quoc Hoang Ngo , François Enault , Cédric Midoux , Mahendra Mariadassou , Olivier Chapleur , et al.
ISME18, 18th International Symposium on Microbial Ecology, Aug 2022, Lausanne, Switzerland.
Poster de conférence hal-04359643v1

Alvira: comparative genomics of viral strains.

 François Enault , Romain Fremez , Eric Baranowski , Thomas Faraut
Bioinformatics, 2007, 23, pp.2178-2179
Article dans une revue hal-02654862v1

Phages rarely encode antibiotic resistance genes: a cautionary tale for virome analyses.

 F Enault , A Briet , L Bouteille , Stéphane Roux , Mb Sullivan , et al.
The International Society of Microbiologial Ecology Journal, 2017, 11 (1), pp.237-247. ⟨10.1038/ismej.2016.90⟩
Article dans une revue hal-01557484v1

Taxonomy of prokaryotic viruses: 2016 update from the ICTV bacterial and archaeal viruses subcommittee.

 Evelien M Adriaenssens , Mart Krupovic , Petar Knezevic , Hans-Wolfgang Ackermann , Jakub Barylski , et al.
Archives of Virology, 2017, 162 (4), pp.1153-1157. ⟨10.1007/s00705-016-3173-4⟩
Article dans une revue hal-01557689v1
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Mieux connaître les virus présents sur Terre grâce aux métagénomes

 Éric Olo Ndela , Louis-Marie Cobigo , Simon Roux , François Enault
Médecine/Sciences, 2022, 38 (12), pp.999-1007. ⟨10.1051/medsci/2022166⟩
Article dans une revue hal-03897510v1

Metagenomic approach studying the taxonomic and functional diversity of the bacterial community in lakes

 D. Debroas , F. Enault , I. Jouan-Dufournel , Gisèle Bronner , Jean Francois Humbert
Handbook of molecular microbial ecology II: Metagenomics in different habitats, Wiley-Blackwell, 2011, 978-0-470-64719-6
Chapitre d'ouvrage hal-02806048v1
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Phydbac2: improved inference of gene function using interactive phylogenomic profiling and chromosomal location analysis

 F. Enault , K. Suhre , O. Poirot , Chantal Abergel , J.-M. Claverie
Nucleic Acids Research, 2004, 32 (Web Server), pp.W336 - W339. ⟨10.1093/nar/gkh365⟩
Article dans une revue hal-01624057v1

Metagenomic approach studying the taxonomic and functional diversity of the bacterial community in lakes

 D. Debroas , F. Enault , Isabelle Jouan-Dufournel , G. Bronner , Jean-François Humbert
Frans J. de Bruijn. Handbook of Molecular Microbial Ecology II: Metagenomics in Different Habitats, Jon Wiley and Sons Publishers, pp.287-293, 2011
Chapitre d'ouvrage bioemco-00640523v1

Taxonomy of prokaryotic viruses: 2017 update from the ICTV Bacterial and Archaeal Viruses Subcommittee

 Evelien M. Adriaenssens , Johannes Wittmann , Jens H. Kuhn , Dann Turner , Matthew Sullivan , et al.
Archives of Virology, 2018, 163 (4), pp.1125-1129. ⟨10.1007/s00705-018-3723-z⟩
Article dans une revue pasteur-01977346v1

WIsH: who is the host? Predicting prokaryotic hosts from metagenomic phage contigs

 Clovis Galiez , Matthias Siebert , Francois Enault , Jonathan Vincent , Johannes Söding , et al.
Bioinformatics, 2017, 33 (19), pp.3113-3114. ⟨10.1093/bioinformatics/btx383⟩
Article dans une revue hal-02088265v1

Alvira: comparative genomics of viral strains.

 François Enault , Romain Fremez , Eric Baranowski , Thomas Faraut
Bioinformatics, 2007, 23 (16), pp.2178-9. ⟨10.1093/bioinformatics/btm293⟩
Article dans une revue hal-00535599v1

Phydbac (phylogenomic display of bacterial genes): An interactive resource for the annotation of bacterial genomes.

 François Enault , Karsten Suhre , Olivier Poirot , Chantal Abergel , Jean-Michel Claverie
Nucleic Acids Research, 2003, pp.3720-2
Article dans une revue hal-01624058v1

Genomic characteristics and environmental distributions of the uncultivated Far-T4 phages

 Simon Roux , François Enault , Viviane Ravet , Olivier Pereira , Matthew B. Sullivan
Frontiers in Microbiology, 2015, 6, pp.199. ⟨10.3389/fmicb.2015.00199⟩
Article dans une revue hal-01254665v1
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Detection of an archaeal-specific viral family, previously thought to infect exclusively hyperthermophiles, in human gut metaviromes

 Vuong Quoc Hoang Ngo , Cédric Midoux , Olivier Rué , Mahendra Mariadassou , Violette Da Cunha , et al.
Phages in Grenoble, Oct 2019, Grenoble, France.
Poster de conférence hal-04360160v1
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Assessment of viral community functional potential from viral metagenomes may be hampered by contamination with cellular sequences.

 Simon Roux , Mart Krupovic , Didier Debroas , Patrick Forterre , François Enault
Biology Open, 2013, 3 (12), pp.130160. ⟨10.1098/rsob.130160⟩
Article dans une revue hal-00932219v1
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Analysis of Spounaviruses as a Case Study for the Overdue Reclassification of Tailed Phages

 Jakub Barylski , Francois Enault , Bas E Dutilh , Margo Bp Schuller , Robert Edwards , et al.
Systematic Biology, 2020, 69 (1), pp.110-123. ⟨10.1093/sysbio/syz036⟩
Article dans une revue hal-02362652v1

VirSorter: mining viral signal from microbial genomic data.

 Simon Roux , Francois Enault , Bonnie L Hurwitz , Matthew B Sullivan
PeerJ, 2015, 3, pp.e985. ⟨10.7717/peerj.985⟩
Article dans une revue hal-01557667v1
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Transposable Prophages in Leptospira: An Ancient, Now Diverse, Group Predominant in Causative Agents of Weil’s Disease

 Eric Olo Ndela , François Enault , Ariane Toussaint
International Journal of Molecular Sciences, 2021, 22 (24), pp.13434. ⟨10.3390/ijms222413434⟩
Article dans une revue hal-03925931v1
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Biogeographic patterns of aerobic anoxygenic phototrophic bacteria reveal an ecological consistency of phylogenetic clades in different oceanic biomes

 Anne-Catherine Lehours , Francois Enault , Dominique Boeuf , Christian Jeanthon
Scientific Reports, 2018, 8, pp.4105. ⟨10.1038/s41598-018-22413-7⟩
Article dans une revue hal-01757822v1
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Assessing the diversity and specificity of two freshwater viral communities through metagenomics.

 Simon Roux , François Enault , Agnès Robin , Viviane Ravet , Sébastien Personnic , et al.
PLoS ONE, 2012, 7 (3), pp.e33641. ⟨10.1371/journal.pone.0033641⟩
Article dans une revue hal-00819334v1
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Discovery of High Abundances of Aster-Like Nanoparticles in Pelagic Environments: Characterization and Dynamics

 Jonathan Colombet , Hermine Billard , Bernard Viguès , Stephanie Balor , Christelle Boulé , et al.
Frontiers in Microbiology, 2019, 10, ⟨10.3389/fmicb.2019.02376⟩
Article dans une revue hal-02317473v1
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Bioinformatics Meets Virology: The European Virus Bioinformatics Center’s Second Annual Meeting

 Bashar Ibrahim , Ksenia Arkhipova , Arno C Andeweg , Susana Posada-Céspedes , François Enault , et al.
Viruses, 2018, 10 (5), pp.256. ⟨10.3390/v10050256⟩
Article dans une revue hal-01964743v1

Unveiling Crucivirus Diversity by Mining Metagenomic Data

 Ignacio de La Higuera , George Kasun , Ellis Torrance , Alyssa Pratt , Amberlee Maluenda , et al.
mBio, 2020, 11 (5), ⟨10.1128/mBio.01410-20⟩
Article dans une revue hal-02996209v1

Chimeric viruses blur the borders between the major groups of eukaryotic single-stranded DNA viruses.

 Simon Roux , François Enault , Gisèle Bronner , Daniel Vaulot , Patrick Forterre , et al.
Nature Communications, 2013, 4, pp.2700. ⟨10.1038/ncomms3700⟩
Article dans une revue hal-00881062v1
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Evolution and diversity of the Microviridae viral family through a collection of 81 new complete genomes assembled from virome reads.

 Simon Roux , Mart Krupovic , Axel Poulet , Didier Debroas , François Enault
PLoS ONE, 2012, 7 (7), pp.e40418. ⟨10.1371/journal.pone.0040418⟩
Article dans une revue hal-00816089v1

Comparison of 16S rRNA and protein-coding genes as molecular markers for assessing microbial diversity (Bacteria and Archaea) in ecosystems.

 Simon Roux , François Enault , Gisèle Bronner , Didier Debroas
FEMS Microbiology Ecology, 2011, 78 (3), pp.617-28. ⟨10.1111/j.1574-6941.2011.01190.x⟩
Article dans une revue hal-00840983v1

Taxonomy of prokaryotic viruses: update from the ICTV bacterial and archaeal viruses subcommittee.

 M Krupovic , Be Dutilh , Em Adriaenssens , J Wittmann , Fk Vogensen , et al.
Archives of Virology, 2016, 161 (4), pp.1095-1099. ⟨10.1007/s00705-015-2728-0⟩
Article dans une revue hal-01557489v1
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