Skip to Main content
Number of documents

52

Dr. Stéphane Chaillou.


 

Stéphane Chaillou is a research director at the French National Institute for Agricultural, Food and Environmental Research (INRAe). Stéphane is a research fellow at the Micalis Institute (Food Microbiology for Human Health)  in Jouy-en-Josas, Paris area, which gathers around 90 scientists whose main objective is to develop studies on microbiology for human health and safety of food. He is stirring and supervising research projects within the Food Microbial Ecology research group (~10 people) and co-directs a Master of Science (MSc) at the BioSphera graduate school of Paris-Saclay University.

Stephane’s research work is focusing on genomics of food-borne bacteria and on the role of microbial diversity in food ecology. One of his strategy is to implement statistical and bioinformatic analysis of large sampling survey for describing diversity of food microbiomes. He is using the prediction of microbiomes fluxes along the food chain to assess food health and sustainability issues link to microbiomes such as food spoilage, biopreservation or fermentation. Recently, he has been implementing meta-omics data analysis to characterize microbial metabolic interactions in foods using synthetic ecology strategies.

At the Paris-Saclay University and within the framework of the BGE Master program (Biodiversity, Genomics and Environment) that he co-directs, Stéphane teaches metagenomics and molecular ecology to students with genomics and microbiology backgrounds.


Journal articles52 documents

  • Evanthia Manthou, Gwendoline Coeuret, Stephane Chaillou, George-John Nychas. Evolution of fungal community associated with ready-to-eat pineapple during storage under different temperature conditions. Food Microbiology, Elsevier, 2021, 97, pp.103736. ⟨10.1016/j.fm.2021.103736⟩. ⟨hal-03376485⟩
  • Ngoc-Du Luong, J.-M Membré, Louis Coroller, Monique Zagorec, Simon Poirier, et al.. Application of a path-modelling approach for deciphering causality relationships between microbiota, volatile organic compounds and off-odour profiles during meat spoilage. International Journal of Food Microbiology, Elsevier, In press, pp.109208. ⟨10.1016/j.ijfoodmicro.2021.109208⟩. ⟨hal-03210645⟩
  • Marine Zagdoun, Gwendoline Coeuret, Méry N'Dione, Marie-Christine Champomier-Verges, Stephane Chaillou. Large microbiota survey reveals how the microbial ecology of cooked ham is shaped by different processing steps. Food Microbiology, Elsevier, 2020, 91, ⟨10.1016/j.fm.2020.103547⟩. ⟨hal-02921899⟩
  • 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⟩
  • Emilie Verplaetse, Gwenaëlle André-Leroux, Philippe Duhutrel, Gwendoline Coeuret, Stéphane Chaillou, et al.. Heme Uptake in Lactobacillus sakei Evidenced by a New Energy Coupling Factor (ECF)-Like Transport System. Applied and Environmental Microbiology, American Society for Microbiology, 2020, 86 (18), pp.1-41. ⟨10.1128/AEM.02847-19⟩. ⟨hal-02939244⟩
  • Monique Zagorec, Marie Champomier-Vergès, Stéphane Chaillou. Utilisation des microbiotes comme modèles. Viandes et Produits Carnés, 2020. ⟨hal-02960423⟩
  • Lucrecia Terán, Sergio A. Cuozzo, María C. Aristimuño Ficoseco, Silvina Fadda, Stephane Chaillou, et al.. Nucleotide sequence and analysis of pRC12 and pRC18, two theta-replicating plasmids harbored by Lactobacillus curvatus CRL 705. PLoS ONE, Public Library of Science, 2020, 15 (4), ⟨10.1371/journal.pone.0230857⟩. ⟨hal-02921909⟩
  • Monique Zagorec, Marie Champomier-Vergès, Sandrine Guillou, Stéphane Chaillou. Biopréservation et hautes pressions : effet sur les communautés microbiennes. Viandes et Produits Carnés, 2020, pp.1-5. ⟨hal-02960426⟩
  • Simon Poirier, Ngoc-Du Martin Luong, Valérie Anthoine, Sandrine Guillou, Jeanne-Marie Membré, et al.. Large-scale multivariate dataset on the characterization of microbiota diversity, microbial growth dynamics, metabolic spoilage volatilome and sensorial profiles of two industrially produced meat products subjected to changes in lactate concentration and packaging atmosphere. Data in Brief, Elsevier, 2020, 30, pp.1-8. ⟨10.1016/j.dib.2020.105453⟩. ⟨hal-02914971⟩
  • Hélène Simonin, Stephane André, Stephane Chaillou, Marie-Christine Champomier-Verges, Carole Feurer, et al.. Biopréservation et hautes pressions: des outils pour la maîtrise des dangers microbiologiques dans les aliments.. Industries Alimentaires et Agricoles, Association des chimistes et ingénieurs de sucrerie, distillerie et industries agricoles de France et des colonies, 2019, pp.34-38. ⟨hal-02618848⟩
  • Simon Poirier, Olivier Rué, Raphaelle Peguilhan, Gwendoline Coeuret, Monique Zagorec, et al.. Deciphering intra-species bacterial diversity of meat and seafood spoilage microbiota using gyrB amplicon sequencing: A comparative analysis with 16S rDNA V3-V4 amplicon sequencing. PLoS ONE, Public Library of Science, 2018, 13 (9), ⟨10.1371/journal.pone.0204629⟩. ⟨hal-02621350⟩
  • Lucrecia C. Terán, Gwendoline Coeuret, Raul Raya, Monique Zagorec, Marie-Christine Champomier-Verges, et al.. Phylogenomic Analysis of Lactobacillus curvatus Reveals Two Lineages Distinguished by Genes for Fermenting Plan-Derived Carbohydrates. Genome Biology and Evolution, Society for Molecular Biology and Evolution, 2018, 10 (6), pp.1516 - 1525. ⟨10.1093/gbe/evy106⟩. ⟨hal-02621739⟩
  • Simon Poirier, Gwendoline Coeuret, Marie-Christine Champomier-Verges, Stephane Chaillou. Draft genome sequences of nine strains of brochothrix thermosphacta, carnobacterium divergens, lactobacillus algidus, lactobacillus fuchuensis, lactococcus piscium, leuconostoc gelidum subsp. gasicomitatum, pseudomonas lundensis, and weissella viridescens, a collection of psychrotrophic species involved in meat and seafood spoilage. Microbiology Resource Announcements, American Society for Microbiology, 2018, 6 (24), pp.1-3. ⟨10.1128/genomeA.00479-18⟩. ⟨hal-02618139⟩
  • Simon Poirier, Olivier Rué, Gwendoline Coeuret, Marie-Christine Champomier-Verges, Valentin Loux, et al.. Detection of an amplification bias associated to Leuconostocaceae family with a universal primer routinely used for monitoring microbial community structures within food products. BMC Research Notes, BioMed Central, 2018, 11 (1), pp.1-5. ⟨10.1186/s13104-018-3908-2⟩. ⟨hal-02048857⟩
  • Valentin Loux, Gwendoline Coeuret, Monique Zagorec, Marie-Christine Champomier-Verges, Stephane Chaillou. Complete and Draft Genome Sequences of Nine Lactobacillus sakei Strains Selected from the Three Known Phylogenetic Lineages and Their Main Clonal Complexes. Genome Announcements, American Society for Microbiology, 2018, 6 (16), 3 p. ⟨10.1128/genomeA.00082-18⟩. ⟨hal-02619093⟩
  • Lucrecia C. Terán, Gwendoline Coeuret, Raul Raya, Marie-Christine Champomier-Verges, Stephane Chaillou. Draft Genome sequence of Lactobacillus curvatus FLEC03, a meat-borne isolate from beef carpaccio packaged in a modified atmosphere. Genome Announcements, American Society for Microbiology, 2017, 5 (26), ⟨10.1128/genomeA.00584-17⟩. ⟨hal-02617680⟩
  • Lysiane Fougy, Gwendoline Coeuret, Marie-Christine Champomier-Verges, Stephane Chaillou. Draft genome sequence of Serratia proteamaculans MFPA44A14-05, a model organism for the study of meat and seafood spoilage. Genome Announcements, American Society for Microbiology, 2017, 5 (23), ⟨10.1128/genomeA.00491-17⟩. ⟨hal-02622529⟩
  • Matthew J. Wade, Jérôme Harmand, Boumediene Benyahia, Théodore Bouchez, Stephane Chaillou, et al.. Perspectives in Mathematical Modelling for Microbial Ecology. Ecological Modelling, Elsevier, 2016, 321 (64-74), pp.64-74. ⟨10.1016/j.ecolmodel.2015.11.002⟩. ⟨hal-01227423⟩
  • Lysiane Fougy, Marie-Hélène Desmonts, Gwendoline Coeuret, Christine Fassel, Erwann Hamon, et al.. Reducing salt in raw pork sausages increases spoilage and correlates with reduced bacterial diversity. Applied and Environmental Microbiology, American Society for Microbiology, 2016, 82 (13), pp.3928-3939. ⟨10.1128/AEM.00323-16⟩. ⟨hal-02636148⟩
  • Monique Zagorec, Marie-Christine Champomier Verges, Stephane Chaillou, Sabine Leroy, S. Christieans. La connaissance approfondie des communautés bactériennes des aliments et ses conséquences pour l’utilisation de la biopréservation. Innovations Agronomiques, INRAE, 2015, 44, pp.15-24. ⟨10.15454/1.462262826089343E12⟩. ⟨hal-02641750⟩
  • Afef Najjari, Houda Amairi, Stephane Chaillou, Diego Mora, Abdellatif Boudabous, et al.. Phenotypic and genotypic characterization of peptidoglycan hydrolases of [i]Lactobacillus sakei[/i]. Journal of Advanced Research, 2015, 7 (1), ⟨10.1016/j.jare.2015.04.004⟩. ⟨hal-01204469⟩
  • Françoise Leroi, Josiane Cornet, Frédérique Chevalier, Mireille Cardinal, Gwendoline Coeuret, et al.. Selection of bioprotective cultures for preventing cold-smoked salmon spoilage. International Journal of Food Microbiology, Elsevier, 2015, 213, pp.79-87. ⟨10.1016/j.ijfoodmicro.2015.05.005⟩. ⟨hal-01536518⟩
  • Stephane Chaillou, Aurélie Chaulot-Talmon, Hélène Caekebeke, Mireille Cardinal, Souad Christieans, et al.. Origin and ecological selection of core and food-specific bacterial communities associated with meat and seafood spoilage. ISME Journal, Nature Publishing Group, 2014, 9 (5), pp.1105-1118. ⟨10.1038/ismej.2014.202⟩. ⟨hal-01204375⟩
  • Abdur Rahman, Catherine Cailliez-Grimal, Cyril Bontemps, Sophie Payot-Lacroix, Stephane Chaillou, et al.. High genetic diversity among strains of the unindustrialized lactic acid bacterium carnobacterium maltaromaticum in dairy products as revealed by multilocus sequence typing. Applied and Environmental Microbiology, American Society for Microbiology, 2014, 80 (13), pp.3920-3929. ⟨10.1128/AEM.00681-14⟩. ⟨hal-01190026⟩
  • Stephane Chaillou, S Christieans, M Rivollier, Isabelle Lucquin, Marie-Christine Champomier-Verges, et al.. Quantification and efficiency of Lactobacillus sakei strain mixtures used as protective cultures in ground beef. Meat Science, Elsevier, 2014, 97 (3), pp.332-338. ⟨10.1016/j.meatsci.2013.08.009⟩. ⟨hal-01053883⟩
  • Emilie Lhomme, Sandra Mezaire, Maren Bonnand Ducasse, Hubert Chiron, Marie-Christine Champomier-Verges, et al.. A polyphasic approach to study the dynamics of microbial population of an organic wheat sourdough during its conversion to gluten-free sourdough. International Microbiology, Hemeroteca Científica Catalana, 2014, 17 (1), pp.1-9. ⟨10.2436/20.1501.01.202⟩. ⟨hal-01190027⟩
  • Stephane Chaillou, Isabelle Lucquin, Afef Najjari, Monique Zagorec, Marie-Christine Champomier-Verges. Population genetics of [i]Lactobacillus sakei[/i] reveals three lineages with distinct evolutionary histories. PLoS ONE, Public Library of Science, 2013, 8 (9), ⟨10.1371/journal.pone.0073253⟩. ⟨hal-01189719⟩
  • Catherine Cailliez-Grimal, Stephane Chaillou, Jamila Anba-Mondoloni, Valentin Loux, Muhammad Inam Afzal, et al.. Complete chromosome sequence of Carnobacterium maltaromaticum LMA 28.. Genome Announcements, American Society for Microbiology, 2013, 1 (1), pp.1-2. ⟨10.1128/genomeA.00115-12⟩. ⟨hal-00939584⟩
  • Jamila Anba-Mondoloni, Stephane Chaillou, Monique Zagorec, Marie-Christine Champomier-Verges. Catabolism of N-Acetylneuraminic Acid, a Fitness Function of the Food-Borne Lactic Acid Bacterium Lactobacillus sakei, Involves Two Newly Characterized Proteins. Applied and Environmental Microbiology, American Society for Microbiology, 2013, 79 (6), pp.2012-2018. ⟨10.1128/AEM.03301-12⟩. ⟨hal-01003325⟩
  • Morgan Guilbaud, Monique Zagorec, Stephane Chaillou, Marie-Christine Champomier-Verges. Intraspecies diversity of Lactobacillus sakei response to oxidative stress and variability of strain performance in mixed strains challenges. Food Microbiology, Elsevier, 2012, 29 (2), pp.197 - 204. ⟨10.1016/j.fm.2011.07.011⟩. ⟨hal-01003446⟩
  • Isabelle Lucquin, Monique Zagorec, Marie-Christine Champomier-Verges, Stephane Chaillou. Fingerprint of lactic acid bacteria population in beef carpaccio is influenced by storage process and seasonal changes. Food Microbiology, Elsevier, 2012, 29 (2), pp.187 - 196. ⟨10.1016/j.fm.2011.08.001⟩. ⟨hal-01003445⟩
  • Stephane Chaillou, Marie Daty, Fabienne Baraige, Anne Marie Dudez, Patricia Anglade, et al.. Intraspecies genomic diversity and natural population structure of the meat-borne lactic acid bacterium Lactobacillus sakei. Applied and Environmental Microbiology, American Society for Microbiology, 2009, 75 (4), pp.970-980. ⟨10.1128/AEM.01721-08⟩. ⟨hal-01190024⟩
  • Fabrizio Chiaramonte, Sebastien Blugeon, Stephane Chaillou, Philippe Langella, Monique Zagorec. Behavior of the meat-borne bacterium Lactobacillus sakei during its transit through the gastrointestinal tracts of axenic and conventional mice. Applied and Environmental Microbiology, American Society for Microbiology, 2009, 75 (13), pp.4498-4505. ⟨10.1128/AEM.02868-08⟩. ⟨hal-01190025⟩
  • Eric Hüfner, Tobias Markieton, Stephane Chaillou, Anne-Marie Crutz-Le Coq, Monique Zagorec, et al.. Identification of Lactobacillus sakei genes induced during meat fermentation and their role in survival and growth. Applied and Environmental Microbiology, American Society for Microbiology, 2007, 73 (8), pp.2522-2531. ⟨10.1128/AEM.02396-06⟩. ⟨hal-02662930⟩
  • Stephane Chaillou, Marie-Christine Champomier Verges, Anne-Marie Crutz-Le Coq, Monique Zagorec. Lactobacillus sakei, une bactérie atypique, vieille compagne de l’homme. INRA Mensuel, 2006, pp.24-30. ⟨hal-02656226⟩
  • K. Bryson, Valentin Loux, Robert Bossy, P. Nicolas, Stephane Chaillou, et al.. AGMIAL: implementing an annotation strategy for prokaryote genomes as a distributed system. Nucleic Acids Research, Oxford University Press, 2006, 34 (12), pp.3533-3545. ⟨10.1093/nar/gkl471⟩. ⟨hal-02665192⟩
  • Monique Zagorec, Stephane Chaillou, Marie-Christine Champomier-Verges, Anne-Marie Le Coq. Du génome de Lactobacillus sakei à la bioconservation des produits carnés. La revue française de la recherche en viandes et produits carnés, AB CORP INTERNATIONAL, 2006, 25 (3), pp.1-3. ⟨hal-01190029⟩
  • Salim Ammor, Cinta Rachman, Stephane Chaillou, Hervé Prevost, Xavier Dousset, et al.. Phenotypic and genotypic identification of lactic acid bacteria isolated from a small-scale facility producing traditional dry sausages. Food Microbiology, Elsevier, 2005, 22 (5), pp.387-382. ⟨10.1016/j.fm.2004.11.005⟩. ⟨hal-02680364⟩
  • Salim Ammor, Eric Dufour, Monique Zagorec, Stephane Chaillou, Isabelle Chevalier. Characterization and selection of Lactobacillus sakei strains isolated from traditional dry sausage for their potential use as starter cultures. Food Microbiology, Elsevier, 2005, 22 (6), pp.529-538. ⟨10.1016/j.fm.2004.11.016⟩. ⟨hal-02682925⟩
  • Trond Møretrø, Christine Naterstad, Ellen Wang, Inga Aasen, Stephane Chaillou, et al.. Sakacin P non-producing Lactobacillus sakei strains contain homologues of the sakacin P gene cluster. Research in Microbiology, Elsevier, 2005, 156 (9), pp.949-960. ⟨10.1016/j.resmic.2005.05.005⟩. ⟨hal-02678806⟩
  • Stephane Chaillou, Marie-Christine Champomier Verges, Monique Cornet, Anne-Marie Crutz-Le Coq, Anne-Marie Dudez, et al.. The complete genome sequence of the meat-borne lactic acid bacterium Lactobacillus sakei 23K. Nature Biotechnology, Nature Publishing Group, 2005, 23 (12), pp.1527-1533. ⟨10.1038/nbt1160⟩. ⟨hal-02683108⟩
  • Anika Marceau, Monique Zagorec, Stephane Chaillou, Thérèse Méra, Marie-Christine Champomier Verges. Evidence for involvement of at least six proteins in adaptation of Lactobacillus sakei to cold temperatures and addition of NaCl. Applied and Environmental Microbiology, American Society for Microbiology, 2004, 70 (12), pp.7260-7268. ⟨10.1128/AEM.70.12.7260-7268.2004⟩. ⟨hal-02683183⟩
  • Guillaume Meurice, Daniel Jacob, Catherine Deborde, Stéphane Chaillou, Annette Rouault, et al.. Whole genome sequencing project of a dairy Propionibacterium freudenreichii subsp. shermanii genome: progress and first bioinformatic analysis. Le Lait, INRA Editions, 2004, 84 (1-2), pp.15-24. ⟨10.1051/lait:2003041⟩. ⟨hal-00895526⟩
  • Anne-Marie Dudez, Stephane Chaillou, Lionel Hissler, Régis Stentz, Marie-Christine Champomier Verges, et al.. Physical and genetic map of the Lactobacillus sakei 23K chromosome. Microbiology, Microbiology Society, 2002, 148 (2), pp.421-431. ⟨hal-02677706⟩
  • Todd Klaenhammer, Eric Altermann, Fabrizio Arigoni, Alexandre Bolotine, Fred Breidt, et al.. Discovering lactic acid bacteria by genomics. Antonie van Leeuwenhoek, Springer Verlag, 2002, 82 (1-4), pp.29-58. ⟨hal-01190023⟩
  • Marie-Christine Champomier Verges, Stephane Chaillou, M. Cornet, Monique Zagorec. Lactobacillus sakei: recent developments and future prospects. Research in Microbiology, Elsevier, 2001, 152, pp.839-848. ⟨hal-02669693⟩
  • Régis Stentz, Monique Cornet, Stéphane Chaillou, Monique Zagorec. Adaptation of Lactobacillus sakei to meat: a new regulatory mechanism of ribose utilization?. Le Lait, INRA Editions, 2001, 81 (1-2), pp.131-138. ⟨10.1051/lait:2001117⟩. ⟨hal-00895466⟩
  • Stéphane Chaillou, Pieter Postma, Peter Pouwels. Contribution of the phosphoenolpyruvate:mannose phosphotransferase system to carbon catabolite repression in Lactobacillus pentosus. Microbiology, Microbiology Society, 2001, 147 (3), pp.671-679. ⟨10.1099/00221287-147-3-671⟩. ⟨hal-03376465⟩
  • Stéphane Chaillou, Pieter Postma, Peter Pouwels. Functional Expression in Lactobacillus plantarum of xylP Encoding the Isoprimeverose Transporter of Lactobacillus pentosus. Journal of Bacteriology, American Society for Microbiology, 1998, 180 (15), pp.4011-4014. ⟨10.1128/JB.180.15.4011-4014.1998⟩. ⟨hal-03376469⟩
  • Stéphane Chaillou, Yeou-Cherng Bor, Carl Batt, Pieter Postma, Peter Pouwels. Molecular Cloning and Functional Expression in Lactobacillus plantarum 80 of xylT , Encoding the d -Xylose–H + Symporter of Lactobacillus brevis. Applied and Environmental Microbiology, American Society for Microbiology, 1998, 64 (12), pp.4720-4728. ⟨10.1128/AEM.64.12.4720-4728.1998⟩. ⟨hal-03376482⟩
  • Stéphane Chaillou, B. Christien Lokman, Rob Leer, Clara Posthuma, Pieter Postma, et al.. Cloning, Sequence Analysis, and Characterization of the Genes Involved in Isoprimeverose Metabolism in Lactobacillus pentosus. Journal of Bacteriology, American Society for Microbiology, 1998, 180 (9), pp.2312-2320. ⟨10.1128/JB.180.9.2312-2320.1998⟩. ⟨hal-03376461⟩
  • B Lokman, M Heerikhuisen, R Leer, A van den Broek, Y Borsboom, et al.. Regulation of expression of the Lactobacillus pentosus xylAB operon. Journal of Bacteriology, American Society for Microbiology, 1997, 179 (17), pp.5391-5397. ⟨10.1128/jb.179.17.5391-5397.1997⟩. ⟨hal-03373849⟩