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Number of documents

54

Eric Dugat-Bony - INRAE - Researcher


SayFood - Paris-Saclay Food and Bioproduct Engineering


Journal articles33 documents

  • Thomas Paillet, Eric Dugat-Bony. Bacteriophage ecology of fermented foods: anything new under the sun?. Current Opinion in Food Science, Elsevier, 2021, 40, pp.102-111. ⟨10.1016/j.cofs.2021.03.007⟩. ⟨hal-03298690⟩
  • Vincent Perkins, Stéphanie Vignola, Marie-Helene Lessard, Pier-Luc Plante, Jacques Corbeil, et al.. Phenotypic and Genetic Characterization of the Cheese Ripening Yeast Geotrichum candidum. Frontiers in Microbiology, Frontiers Media, 2020, 11, ⟨10.3389/fmicb.2020.00737⟩. ⟨hal-02873333⟩
  • Corinne Biderre-Petit, Corentin Hochart, Hélène Gardon, Eric Dugat-Bony, Sébastien Terrat, et al.. Analysis of bacterial and archaeal communities associated with Fogo volcanic soils of different ages. FEMS Microbiology Ecology, Wiley-Blackwell, 2020, 96 (7), ⟨10.1093/femsec/fiaa104⟩. ⟨hal-02996360⟩
  • Eric Dugat-Bony, Julien Lossouarn, Marianne de Paepe, Anne-Sophie Sarthou, Marie Agnès Petit, et al.. Viral metagenomic analysis of the cheese surface: A comparative study of rapid procedures for extracting viral particles. Food Microbiology, Elsevier, 2020, 85, ⟨10.1016/j.fm.2019.103278⟩. ⟨hal-02623156⟩
  • Eric Dugat-Bony, Pascal Bonnarme, Sébastien Fraud, Jessie Catellote, Anne-Sophie Sarthou, et al.. Effect of sodium chloride reduction or partial substitution with potassium chloride on the microbiological, biochemical and sensory characteristics of semi-hard and soft cheeses. Food Research International, 2019, 125, pp.108643. ⟨10.1016/j.foodres.2019.108643⟩. ⟨hal-02349939⟩
  • Hélène Falentin, Lucas Auer, Mahendra Mariadassou, Géraldine Pascal, Olivier Rué, et al.. Guide pratique à destination des biologistes, bioinformaticiens et statisticiens qui souhaitent s’initier aux analyses métabarcoding : Partage de pratiques et retours d'expérience des membres du pôle métagénomique du PEPI IBIS. Cahiers des Techniques de l'INRA, INRA, 2019, 2019 (97), pp.1-23. ⟨hal-02311421⟩
  • Julien Chamberland, Thomas Messier, Eric Dugat-Bony, Marie-Helene Lessard, Steve Labrie, et al.. Influence of feed temperature to biofouling of ultrafiltration membrane during skim milk processing. International Dairy Journal, Elsevier, 2019, 93, pp.99-105. ⟨10.1016/j.idairyj.2019.02.005⟩. ⟨hal-02629063⟩
  • Leticia Hernandez Galan, Thomas Cattenoz, Steven Le Feunteun, Alexis Canette, Romain Briandet, et al.. Effect of dairy matrices on the survival of Streptococcus thermophilus, Brevibacterium aurantiacum and Hafnia alvei during digestion. Food Research International, Elsevier, 2017, 100 (1), pp.477-488. ⟨10.1016/j.foodres.2017.07.044⟩. ⟨hal-01607632⟩
  • Rahat Zaheer, Eric Dugat-Bony, Devon Holman, Elodie Cousteix, Yong Xu, et al.. Changes in bacterial community composition of Escherichia coli O157:H7 super-shedder cattle occur in the lower intestine. PLoS ONE, Public Library of Science, 2017, 12 (1), pp.e0170050. ⟨10.1371/journal.pone.0170050⟩. ⟨hal-01465156⟩
  • Nguyen Phuong Pham, Séverine Layec, Eric Dugat-Bony, Marie Vidal, Francoise Irlinger, et al.. Comparative genomic analysis of Brevibacterium strains: insights into key genetic determinants involved in adaptation to the cheese habitat. BMC Genomics, BioMed Central, 2017, 18 (1), Non paginé. ⟨10.1186/s12864-017-4322-1⟩. ⟨hal-02628710⟩
  • Eric Dugat-Bony, Anne-Sophie Sarthou, Marie-Claire Perello, Gilles de Revel, Pascal Bonnarme, et al.. The effect of reduced sodium chloride content on the microbiological and biochemical properties of a soft surface-ripened cheese. Journal of Dairy Science, American Dairy Science Association, 2016, 99 (4), pp.2502-2511. ⟨10.3168/jds.2015-10502⟩. ⟨hal-01532552⟩
  • Christophe Monnet, Eric Dugat-Bony, Dominique Swennen, Jean-Marie Beckerich, Francoise Irlinger, et al.. Investigation of the activity of the microorganisms in a reblochon-style cheese by metatranscriptomic analysis. Frontiers in Microbiology, Frontiers Media, 2016, 7, ⟨10.3389/fmicb.2016.00536⟩. ⟨hal-02633875⟩
  • Eric Dugat-Bony, Lucille Garnier, Jeremie Denonfoux, Stéphanie Ferreira, Anne-Sophie Sarthou, et al.. Highlighting the microbial diversity of 12 French cheese varieties. International Journal of Food Microbiology, Elsevier, 2016, 238, pp.265-273. ⟨10.1016/j.ijfoodmicro.2016.09.026⟩. ⟨hal-01389685⟩
  • Corinne Biderre-Petit, Eric Dugat-Bony, Mickaël Mege, Nicolas Parisot, Lorenz Adrian, et al.. Distribution of dehalococcoidia in the anaerobic deep water of a remote meromictic crater lake and detection of dehalococcoidia-derived reductive dehalogenase homologous genes. PLoS ONE, Public Library of Science, 2016, 11 (1), ⟨10.1371/journal.pone.0145558⟩. ⟨hal-01599389v2⟩
  • Eric Dugat-Bony, Anne-Sophie Sarthou, Valentin Loux, Marie Vidal, Pascal Bonnarme, et al.. Draft genome sequence of Corynebacterium variabile Mu292, isolated from Munster, a french smear-ripened cheese. Genome Announcements, American Society for Microbiology, 2016, 4 (4), ⟨10.1128/genomeA.00669-16⟩. ⟨hal-01480898⟩
  • Julie Meneghel, Eric Dugat-Bony, Françoise Irlinger, Valentin Loux, Marie Vidal, et al.. Draft Genome Sequence of Lactobacillus delbrueckii subsp. bulgaricus CFL1, a Lactic Acid Bacterium Isolated from French Handcrafted Fermented Milk. Genome Announcements, American Society for Microbiology, 2016, 4 (2), pp.e00052-16. ⟨10.1128/genomeA.00052-16⟩. ⟨hal-01511494⟩
  • Francoise Irlinger, Séverine Layec, Sandra Hélinck, Eric Dugat-Bony. Cheese rind microbial communities: diversity, composition and origin. FEMS Microbiology Letters, Wiley-Blackwell, 2015, 362 (1), pp.1-11. ⟨10.1093/femsle/fnu015⟩. ⟨hal-01535274⟩
  • Eric Dugat-Bony, Cecile Straub, Aurélie Teissandier, Djamila Onesime, Valentin Loux, et al.. Overview of a surface-ripened cheese community functioning by meta-omics analyses. PLoS ONE, Public Library of Science, 2015, 10 (4), pp.e0124360. ⟨10.1371/journal.pone.0124360⟩. ⟨hal-01195505⟩
  • Yong Xu, Eric Dugat-Bony, Rahat Zaheer, Lorna Selinger, Ruth Barbieri, et al.. Escherichia coli O157:H7 Super-Shedder and Non-Shedder Feedlot Steers Harbour Distinct Fecal Bacterial Communities. PLoS ONE, Public Library of Science, 2014, 9 (5), ⟨10.1371/journal.pone.0098115⟩. ⟨hal-01195479⟩
  • Jérémie Denonfoux, Nicolas Parisot, Eric Dugat-Bony, Corinne Petit, Delphine Boucher, et al.. Gene Capture Coupled to High-Throughput Sequencing as a Strategy for Targeted Metagenome Exploration. DNA Research, Oxford University Press (OUP), 2013, 20 (2), pp. 1-12. ⟨10.1093/dnares/dst001⟩. ⟨hal-00783545⟩
  • Frédéric Plewniak, Sandrine Koechler, Benjamin Navet, Eric Dugat-Bony, Olivier Bouchez, et al.. Metagenomic insights into microbial metabolism affecting arsenic dispersion in Mediterranean marine sediments. Molecular Ecology, Wiley, 2013, 22 (19), pp.4870-4883. ⟨10.1111/mec.12432⟩. ⟨hal-01026453⟩
  • Eric Dugat-Bony, Corinne Biderre-Petit, Faouzi Jaziri, Maude David, Jérémie Denonfoux, et al.. In situ TCE degradation mediated by complex dehalorespiring communities during biostimulation processes. Microbial Biotechnology, Wiley, 2012, 5 (5 SI), pp.642-653. ⟨10.1111/j.1751-7915.2012.00339.x⟩. ⟨hal-00747255⟩
  • Eric Peyretaillade, Nicolas Parisot, Valérie Polonais, Sébastien Terrat, Jérémie Denonfoux, et al.. Annotation of microsporidian genomes using transcriptional signals. Nature Communications, Nature Publishing Group, 2012, 3 (1), ⟨10.1038/ncomms2156⟩. ⟨hal-01887975⟩
  • Nicolas Parisot, Jérémie Denonfoux, Eric Dugat-Bony, Pierre Peyret, Eric Peyretaillade. KASpOD a web service for highly specific and explorative oligonucleotide design. Bioinformatics, Oxford University Press (OUP), 2012, 28 (23), pp.3161-3162. ⟨10.1093/bioinformatics/bts597⟩. ⟨hal-02651992⟩
  • Eric Dugat-Bony, Eric Peyretaillade, Nicolas Parisot, Corinne Biderre-Petit, Faouzi Jaziri, et al.. Detecting unknown sequences with DNA microarrays: explorative probe design strategies.. Environmental Microbiology, Society for Applied Microbiology and Wiley-Blackwell, 2012, 14 (2), pp.356-71. ⟨10.1111/j.1462-2920.2011.02559.x⟩. ⟨hal-00822134⟩
  • Eric Peyretaillade, Nicolas Parisot, Valérie Polonais, Sébastien Terrat, Jérémie Denonfoux, et al.. Annotation of microsporidian genomes using transcriptional signals.. Nature Communications, Nature Publishing Group, 2012, 3, pp.1137. ⟨10.1038/ncomms2156⟩. ⟨hal-00813939⟩
  • Eric Dugat-Bony, Mohieddine Missaoui, Eric Peyretaillade, Corinne Biderre-Petit, Ourdia Bouzid, et al.. HiSpOD: probe design for functional DNA microarrays.. Bioinformatics, Oxford University Press (OUP), 2011, 27 (5), pp.641-8. ⟨10.1093/bioinformatics/btq712⟩. ⟨hal-00842882⟩
  • Sandrine Demanèche, Jean-Michel Monier, Eric Dugat-Bony, Pascal Simonet. Exploration of horizontal gene transfer between transplastomic tobacco and plant-associated bacteria. FEMS Microbiology Ecology, Wiley-Blackwell, 2011, 78 (1), pp.129-136. ⟨10.1111/j.1574-6941.2011.01126.x⟩. ⟨hal-00630134⟩
  • Corinne Biderre-Petit, Didier Jézéquel, Eric Dugat-Bony, Filipa Lopes, Jan Kuever, et al.. Identification of microbial communities involved in the methane cycle of a freshwater meromictic lake.. FEMS Microbiology Ecology, Wiley-Blackwell, 2011, 77 (3), pp.533-45. ⟨10.1111/j.1574-6941.2011.01134.x⟩. ⟨hal-00842871⟩
  • Sébastien Terrat, Eric Peyretaillade, Olivier Gonçalves, Eric Dugat-Bony, Fabrice Gravelat, et al.. Detecting variants with Metabolic Design, a new software tool to design probes for explorative functional DNA microarray development.. BMC Bioinformatics, BioMed Central, 2010, 11, pp.478. ⟨10.1186/1471-2105-11-478⟩. ⟨hal-00529644⟩
  • Sébastien Terrat, Eric Peyretaillade, Olivier Gonçalves, Eric Dugat-Bony, Fabrice Gravelat, et al.. Detecting variants with Metabolic Design, a new software tool to design probes for explorative functional DNA microarray development. BMC Bioinformatics, BioMed Central, 2010, 11 (1), pp.478. ⟨10.1186/1471-2105-11-478⟩. ⟨hal-02333739⟩
  • Eric Peyretaillade, Olivier Gonçalves, Sébastien Terrat, Eric Dugat-Bony, Patrick Wincker, et al.. Identification of transcriptional signals in Encephalitozoon cuniculi widespread among Microsporidia phylum: support for accurate structural genome annotation. BMC Genomics, BioMed Central, 2009, 10, pp.607. ⟨10.1186/1471-2164-10-607⟩. ⟨hal-00461524⟩
  • Eric Peyretaillade, Olivier Gonçalves, Sébastien Terrat, Eric Dugat-Bony, Patrick Wincker, et al.. Identification of transcriptional signals in Encephalitozoon cuniculi widespread among Microsporidia phylum: support for accurate structural genome annotation. BMC Genomics, BioMed Central, 2009, 10 (1), ⟨10.1186/1471-2164-10-607⟩. ⟨hal-01888038⟩

Conference papers15 documents

  • Stephane Chaillou, Eric Dugat-Bony, Julien Lossouarn, Marie Agnès Petit, Mahendra Mariadassou, et al.. Caractérisation et modélisation des populations de bactériophages de la croûte de fromages (type époisses) sous différentes conditions environnementales d’affinage. 15. Congrès de la Société Française de Microbiologie (SFM), Société Française de Microbiologie (SFM). FRA., Sep 2019, Paris, France. ⟨hal-02789388⟩
  • Eric Dugat-Bony, Julien Lossouarn, Marie Agnès Petit, Stephane Chaillou. Ecological modelling of phages, bacterial and yeast population structure in smear washed-rind cheese under various environmental ripening conditions using factorial experimental design and metavirome analysis. 5. International Conference on Microbial Diversity 2019, Sep 2019, Catane, Italy. ⟨hal-02787377⟩
  • Eric Dugat-Bony, Julien Lossouarn, Marie Agnès Petit, Stephane Chaillou. Characterization and modelling of phages population structure in smear washed-rind cheese under various environmental ripening conditions. Phages in Bordeaux, Réseau Thématique Pluridisciplinaire PHAGES.fr., Sep 2018, Bordeaux, France. ⟨hal-02785802⟩
  • Thomas Chabin, Marc Barnabe, Alberto Tonda, Nadia Boukhelifa, Fernanda Fonseca, et al.. A semi-automatic modelling approach for the production and freeze drying of lactic acid bacteria. 10. International Conference on Simulation and Modelling in the Food and Bio-Industry, FOODSIM 2018. Eurosis, 2018., Apr 2018, Ghent, Belgium. ⟨hal-02266291⟩
  • Sandra Hélinck, Eric Dugat-Bony, Sebastien Fraud, Nadège Bel, Sarah Chuzeville, et al.. The effect of reduced sodium chloride content on the development of fluorescent Pseudomonas in a Reblochon-like cheese. Microbial Spoilers in Food 2017, Jun 2017, Quimper, France. ⟨hal-01572164⟩
  • Jeremie Denonfoux, Stéphanie Ferreira, Lucille Garnier, Anne-Sophie Sarthou, Pascal Bonnarme, et al.. An high-throughput molecular tool for highlighting the eukaryotic food microbial communities : application on 12 french cheese varieties. 7. Congress of European Microbiologists (FEMS 2017), Jul 2017, Valencia, Spain. ⟨hal-01567202⟩
  • Eric Dugat-Bony, Philippine de Barbeyrac, Mahendra Mariadassou, Cecile Callon, Pascal Bonnarme, et al.. FORTRESS : Impact of microbial diversity on the barrier effect against an exogenous species. 2017 Scientific MEM days: Journées scientifiques MEM (Métaomiques et écosystèmes microbiens), Jan 2017, Paris, France. ⟨hal-01608159⟩
  • Marianne de Paepe, Eric Dugat-Bony, Jérôme Hamelin, Mahendra Mariadassou, Kim Milferstedt, et al.. Accessing virus genomes out of metagenomic data: improving statistical and bioinformatics analytic tools to better assess the contribution of phages on microbial ecosystems. Phages On Marseille, Nov 2016, Marseille, France. pp.1. ⟨hal-01531724⟩
  • Eric Dugat-Bony. Métatranscriptomique : l'exemple du fromage. École Chercheur Écologie Microbienne, Jun 2016, Pont-à-Mousson, France. ⟨hal-01572173⟩
  • Eric Dugat-Bony. Who is doing what on the cheese surface? Overview of the cheese microbial ecosystem functioning by metatranscriptomic analyses. Summer school 2016 in metagenomics, Institut Pasteur [Paris]. FRA., Sep 2016, Paris, France. pp.1. ⟨hal-01572175⟩
  • Thibault Nidelet, Maria Belen Carbonetto, Eric Dugat-Bony, Cecile Callon, Céline Delbes, et al.. Ecology and diversity of yeasts in fermented food ecosystems  . 16. International Symposium on Microbial Ecology - ISME16, Aug 2016, Montréal, Canada. ⟨hal-01606838⟩
  • Eric Dugat-Bony, Lucille Garnier, Jeremie Denonfoux, Stéphanie Ferreira, Pascal Bonnarme, et al.. Nouveau regard sur la diversité microbienne de fromages français grâce aux outils NGS. 20. Colloque du Club des Bactéries Lactiques, Jun 2015, Lille, France. ⟨hal-01603506⟩
  • Milka Popova, Nicolas Parisot, Céline Ribière, Jérémie Denonfoux, Eric Dugat-Bony, et al.. Fungal secondary metabolites from Monascus spp. reduce methane production by affecting rumen methanogenic Archaea diversity in wethers. Greenhouse Gases and Animal Agriculture Conference, 2013, Dublin, Ireland. ⟨hal-02746467⟩
  • Faouzi Jaziri, David R.C. Hill, Nicolas Parisot, Jeremie Denonfoux, Eric Dugat-Bony, et al.. MetaExploArrays: a large-scale oligonucleotide probe design software for explorative DNA microarrays. 13. International Conference on Parallel and Distributed Computing, Applications and Technologies, Dec 2012, Bejing, China. ⟨10.1109/PDCAT.2012.94⟩. ⟨hal-01393662⟩
  • Faouzi Jaziri, Sébastien Cipière, Mohieddine Missaoui, Denonfoux Jérémie, Eric Dugat-Bony, et al.. Détermination de sondes oligonucléotidiques pour biopuces phylogénétiques en environnement grille de calcul. Rencontres Scientifiques France Grilles 2011, Sep 2011, Lyon, France. ⟨hal-00658712⟩

Poster communications3 documents

  • Claire Vincent, Serge Casaregola, Monika Coton, Céline Delbes, Hugo Devillers, et al.. Testing markers to characterize microbial communities in food ecosystems using a metagenomics approach. JOBIM, Jun 2020, Montpellier, France. ⟨hal-02914960⟩
  • Lucas Auer, Laurent Cauquil, Stephane Chaillou, Céline Delbes, Eric Dugat-Bony, et al.. How to design an efficient and robust pipeline for 16S rRNA-gene sequence analysis to improve our understanding on microbial communities?. JOBIM 16. Journées Ouvertes Biologie Informatique Mathématiques, Jul 2015, Clermont-Ferrand, France. 2015. ⟨hal-01195512⟩
  • Ourdia Bouzid, Corinne Biderre-Petit, Eric Dugat-Bony, Mohieddine Missaoui, Diego Morgavi, et al.. Design of a functional DNA microarray targeting the methanogenic community of complex anaerobic ecosystems. 7. Joint Symposium of Rowett-INRA 2010, Jun 2010, Aberdeen, United Kingdom. 2010. ⟨hal-02823797⟩

Book sections2 documents

Theses1 document

  • Eric Dugat-Bony. Caractérisation des capacités métaboliques des populations microbiennes impliquées dans les processus de bioremédiation des chloroéthènes par des approches moléculaires haut débit : les biopuces ADN fonctionnelles. Sciences agricoles. Université Blaise Pascal - Clermont-Ferrand II, 2011. Français. ⟨NNT : 2011CLF22175⟩. ⟨tel-00719578⟩