Valentin Loux

187

Documents

Researcher identifiers

valentin-loux
0000-0002-8268-915X
Google Scholar : https://scholar.google.fr/citations?user=j4FDjDgAAAAJ&hl=fr&oi=ao
IdRef : 253136016

Presentation

Publications

	MilkOligoThesaurus, a dataset of mammalian milk oligosaccharide synonyms Mathilde Rumeau , François Fenaille , Agnès Girard , Valentin Loux , Mouhamadou Ba Data in Brief, 2024, 54, pp.110404. ⟨10.1016/j.dib.2024.1104042352-3409/⟩ Journal articles hal-04552648v1
	A comprehensive, large-scale analysis of “terroir” cheese and milk microbiota reveals profiles strongly shaped by both geographical and human factors Francoise Irlinger , Mahendra Mariadassou , Eric Dugat-Bony , Olivier Rué , Cécile Neuvéglise ISME Communications, In press, 4 (1), pp.ycae095. ⟨10.1093/ismeco/ycae095⟩ Journal articles hal-04668230v1
	Towards a more accurate metabarcoding approach for studying fungal communities of fermented foods Olivier Rué , Monika Coton , Eric Dugat-Bony , Kate Howell , Françoise Irlinger Peer Community Journal, 2023, ⟨10.24072/pci.microbiol.100007⟩ Journal articles hal-04234976v1
	Omnicrobe, an open-access database of microbial habitats and phenotypes using a comprehensive text mining and data fusion approach Sandra Dérozier , Robert Bossy , Louise Deléger , Mouhamadou Ba , Estelle Chaix PLoS ONE, 2023, 18 (1), pp.e0272473. ⟨10.1371/journal.pone.0272473⟩ Journal articles hal-03984703v1
	Comparison of metabarcoding taxonomic markers to describe fungal communities in fermented foods Olivier Rué , Monika Coton , Eric Dugat-Bony , Kate Howell , Françoise Irlinger Peer Community Journal, 2023, 3 (e97), pp.1-25. ⟨10.24072/pcjournal.321⟩ Journal articles hal-04237955v2
	Comparative Genome Analysis of Enterococcus cecorum Reveals Intercontinental Spread of a Lineage of Clinical Poultry Isolates Jeanne Laurentie , Valentin Loux , Christelle Hennequet-Antier , Emilie Chambellon , Julien Deschamps MSphere, 2023, 8 (2), pp.e0049522. ⟨10.1128/msphere.00495-22⟩ Journal articles hal-04004063v1
	Gene co-expression network analysis of the human gut commensal bacterium Faecalibacterium prausnitzii in R-Shiny Sandrine Auger , Virginie Mournetas , Hélène Chiapello , Valentin Loux , Philippe Langella PLoS ONE, 2022, 17 (11), pp. e0271847. ⟨10.1371/journal.pone.0271847⟩ Journal articles hal-04083924v1
	Integration of Multiomic Data to Characterize the Influence of Milk Fat Composition on Cantal-Type Cheese Microbiota Marie Frétin , Amaury Gérard , Anne Ferlay , Bruno Martin , S Buchin Microorganisms, 2022, 10 (2), ⟨10.3390/microorganisms10020334⟩ Journal articles hal-03579395v1
	Insights into the cyanosphere: capturing the respective metabolisms of cyanobacteria and chemotrophic bacteria in natural conditions? Noémie Pascault , Olivier Rué , Valentin Loux , Jacques Pédron , Véronique Martin Environmental Microbiology Reports, 2021, 13 (3), pp.364-374. ⟨10.1111/1758-2229.12944⟩ Journal articles hal-03287195v1
	Microbial and functional characterization of an allochthonous consortium applied to hydrogen production from Citrus Peel Waste in batch reactor in optimized conditions Franciele Pereira Camargo , Isabel Kimiko Sakamoto , Tiago Palladino Delforno , Mahendra Mariadassou , Valentin Loux Journal of Environmental Management, 2021, 291, pp.112631. ⟨10.1016/j.jenvman.2021.112631⟩ Journal articles hal-03211333v1
	Unraveling the world of halophilic and halotolerant bacteria in cheese by combining cultural, genomic and metagenomic approaches Caroline Isabel Kothe , Alexander Bolotin , Bochra-Farah Kraïem , Bedis Dridi , Sandra Dérozier International Journal of Food Microbiology, 2021, 358, pp.109312. ⟨10.1016/j.ijfoodmicro.2021.109312⟩ Journal articles hal-04311697v1
	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 Simon Poirier , Ngoc-Du Martin Luong , Valérie Anthoine , Sandrine Guillou , Jeanne-Marie Membré Data in Brief, 2020, 30, pp.1-8. ⟨10.1016/j.dib.2020.105453⟩ Journal articles hal-02914971v1
	The complete genome sequence of Mycobacterium bovis Mb3601, a SB0120 spoligotype strain representative of a new clonal group Maxime Branger , Valentin Loux , Thierry Cochard , Maria Laura Boschiroli , Franck Biet Infection, Genetics and Evolution, 2020, 82, 4 p. ⟨10.1016/j.meegid.2020.104309⟩ Journal articles hal-02905303v1
	Abundance, Diversity and Role of ICEs and IMEs in the Adaptation of Streptococcus salivarius to the Environment Julie Lao , Gérard Guédon , Thomas Lacroix , Florence Charron-Bourgoin , Virginie Libante Genes, 2020, ⟨10.3390/genes11090999⟩ Journal articles hal-02922962v1
	The enemy from within: a prophage of Roseburia intestinalis systematically turns lytic in the mouse gut, driving bacterial adaptation by CRISPR spacer acquisition Jeffrey Cornuault , Elisabeth Moncaut , Valentin Loux , Aurélie Mathieu , Harry Sokol The International Society of Microbiologial Ecology Journal, 2020, 14 (3), pp.771-787. ⟨10.1038/s41396-019-0566-x⟩ Journal articles hal-02504597v1
	Comparative metatranscriptomic analysis of anaerobic digesters treating anionic surfactant contaminated wastewater Tiago P. Delforno , Thais Z. Macedo , Cedric Midoux , Gileno V. Lacerda , Olivier Rué Science of the Total Environment, 2019, 2019 (649), pp.482-494. ⟨10.1016/j.scitotenv.2018.08.328⟩ Journal articles hal-01888286v1
	Bioinformatics tools and workflow to select blood biomarkers for early cancer diagnosis: an application to pancreatic cancer Yves Vandenbrouck , David Christiany , Florence Combes , Valentin Loux , Virginie Brun Proteomics, 2019, 19 (21-22), pp.e1800489. ⟨10.1002/pmic.201800489⟩ Journal articles hal-02296155v1
	Effect of sodium chloride reduction or partial substitution with potassium chloride on the microbiological, biochemical and sensory characteristics of semi-hard and soft cheeses Eric Dugat-Bony , Pascal Bonnarme , Sébastien Fraud , Jessie Catellote , Anne-Sophie Sarthou Food Research International, 2019, 125, pp.108643. ⟨10.1016/j.foodres.2019.108643⟩ Journal articles hal-02349939v1
	Complete and Draft Genome Sequences of Nine Lactobacillus sakei Strains Selected from the Three Known Phylogenetic Lineages and Their Main Clonal Complexes Valentin Loux , Gwendoline Coeuret , Monique Zagorec , Marie-Christine Champomier-Verges , Stephane Chaillou Genome Announcements, 2018, 6 (16), 3 p. ⟨10.1128/genomeA.00082-18⟩ Journal articles hal-02619093v1
	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 Simon Poirier , Olivier Rué , Raphaelle Peguilhan , Gwendoline Coeuret , Monique Zagorec PLoS ONE, 2018, 13 (9), ⟨10.1371/journal.pone.0204629⟩ Journal articles hal-02621350v1
	Genomic diversity and evolution of the fish pathogen flavobacterium psychrophilum Éric Duchaud , Tatiana Rochat , Christophe Habib , Paul Barbier , Valentin Loux Frontiers in Microbiology, 2018, 9, pp.1-20. ⟨10.3389/fmicb.2018.00138⟩ Journal articles hal-02629284v1
	Complete genome sequence of the industrial fast-acidifying strain Streptococcus thermophilus N4L Lucas Proust , Valentin Loux , Veronique Martin , Cristian Magnabosco , Martin Pedersen Microbiology Resource Announcements, 2018, 7 (8), ⟨10.1128/MRA.01029-18⟩ Journal articles hal-02628963v1
	Transcriptomic response of Debaryomyces hansenii during mixed culture in a liquid model cheese medium with Yarrowia lipolytica Reine Malek , Pascal Bonnarme , Francoise Irlinger , Pascale Frey-Klett , Djamila Onesime International Journal of Food Microbiology, 2018, 264, pp.53-62. ⟨10.1016/j.ijfoodmicro.2017.10.026⟩ Journal articles hal-01695894v1
	Detection of an amplification bias associated to Leuconostocaceae family with a universal primer routinely used for monitoring microbial community structures within food products Simon Poirier , Olivier Rué , Gwendoline Coeuret , Marie-Christine Champomier-Verges , Valentin Loux BMC Research Notes, 2018, 11 (1), pp.1-5. ⟨10.1186/s13104-018-3908-2⟩ Journal articles hal-02048857v1
	Draft Genome Sequences of 18 Psychrotolerant and 2 Thermotolerant Strains Representative of Particular Ecotypes in the Bacillus cereus Group Marie Helene Guinebretière , Valentin Loux , Véronique Martin , Pierre Nicolas , Vincent Sanchis Borja Genome Announcements, 2017, 5 (5), 3 p. ⟨10.1128/genomeA.01568-16⟩ Journal articles hal-01602632v1
	Unprecedented large inverted repeats at the replication terminus of circular bacterial chromosomes suggest a novel mode of chromosome rescue Hela El Kafsi , Valentin Loux , Mahendra Mariadassou , Camille Blin , Hélène Chiapello Scientific Reports, 2017, 7, pp.1-11. ⟨10.1038/srep44331⟩ Journal articles hal-01509688v1
	A Glimpse into the World of Integrative and Mobilizable Elements in Streptococci Reveals an Unexpected Diversity and Novel Families of Mobilization Proteins Charles Coluzzi , Gérard Guédon , Marie-Dominique Devignes , Chloé C. Ambroset , Valentin Loux Frontiers in Microbiology, 2017, 8, pp.16. ⟨10.3389/fmicb.2017.00443⟩ Journal articles hal-01580789v1
	Complete Genome Sequence of Flavobacteriumpsychrophilum Strain OSU THCO2-90, Used for Functional Genetic Analysis. Tatiana Rochat , Paul Barbier , Pierre Nicolas , Valentin Loux , David Perez Pascual Genome Announcements, 2017, 5 (23), 2 p. ⟨10.1128/genomeA.01665-16⟩ Journal articles hal-01607798v1
	Identification of proteins involved in the anti-inflammatory properties of Propionibacterium freudenreichii by means of a multi-strain study Stéphanie-Marie Deutsch , Mahendra Mariadassou , Pierre Nicolas , Sandrine Parayre , Rozenn Le Guellec Scientific Reports, 2017, 7, pp.46409. ⟨10.1038/srep46409⟩ Journal articles hal-01510019v1
	The bacterial interlocked process ONtology (BiPON): a systemic multi-scale unified representation of biological processes in prokaryotes Vincent J. Henry , Anne Goelzer , Arnaud Ferré , Stéphan Fischer , Marc Dinh Journal of Biomedical Semantics, 2017, 8 (53), 16 p. ⟨10.1186/s13326-017-0165-6⟩ Journal articles hal-01652923v1
	Manual and expert annotation of the nearly complete genome sequence of Staphylococcus sciuri strain ATCC 29059: a reference for the oxidase-positive staphylococci that supports the atypical phenotypic features of the species group Eugene Christo-Foroux , Tatiana Vallaeys , Valentin Loux , Elie Dassa , Josef Deutscher Systematic and Applied Microbiology, 2017, 40 (7), pp.401-410. ⟨10.1016/j.syapm.2017.07.002⟩ Journal articles hal-01604275v1
	La génomique comparative à l’ère des technologies NGS Thomas Lacroix , Jean-Francois Gibrat , Valentin Loux Biofutur, 2017, 36 (382), pp.42-45 Journal articles hal-01603170v1
	Whole genome sequencing of 7 strains of Staphylococcus lugdunensis allows identification of mobile genetic elements Xavier Argemi , Veronique Martin , Valentin Loux , Sandrine Dahyot , Jérémie Lebeurre Genome Biology and Evolution, 2017, 9 (5), pp.1183-1189. ⟨10.1093/gbe/evx077⟩ Journal articles hal-01604276v1
	Complete Genome Sequence of Lactococcus lactissubsp. lactis A12, a Strain Isolated from Wheat Sourdough Maeva Guellerin , Delphine Passerini , Catherine Fontagné-Faucher , Hervé Robert , Valérie Gabriel Genome Announcements, 2016, 4 (5), pp.2 P. ⟨10.1128/genomeA.00692-16⟩ Journal articles hal-01578250v1
	Permanent draft genome sequence of the probiotic strain Propionibacterium freudenreichii CIRM-BIA 129 (ITG P20). Hélène Falentin , Stéphanie-Marie Deutsch , Valentin Loux , Amal Hammani , Julien Buratti Standards in Genomic Sciences, 2016, 11, pp.6. ⟨10.1186/s40793-015-0120-z⟩ Journal articles hal-02640172v1
	Draft genome sequence of Corynebacterium variabile Mu292, isolated from Munster, a french smear-ripened cheese Eric Dugat-Bony , Anne-Sophie Sarthou , Valentin Loux , Marie Vidal , Pascal Bonnarme Genome Announcements, 2016, 4 (4), ⟨10.1128/genomeA.00669-16⟩ Journal articles hal-01480898v1
	Synchronized navigation and comparative analyses across Ensembl complete bacterial genomes with INSYGHT. Thomas Lacroix , Sylvie Thérond , Marc Rugeri , Pierre P. Nicolas , Annie Gendrault Bioinformatics, 2016, 32 (7), pp.1083-1084. ⟨10.1093/bioinformatics/btv689⟩ Journal articles hal-02630699v1
	Draft Anaplasma phagocytophilum Genome Sequences from Five Cows, Two Horses, and One Roe Deer Collected in Europe. Thibaud Dugat , Marie-Noelle Rossignol , Olivier Rué , Valentin Loux , Sylvain Marthey Genome Announcements, 2016, 4 (6), 2 p. ⟨10.1128/genomeA.00950-16⟩ Journal articles hal-01594527v1
	New Insights into the Classification and Integration Specificity of Streptococcus Integrative Conjugative Elements through Extensive Genome Exploration Chloé C. Ambroset , Charles Coluzzi , Gérard Guédon , Marie-Dominique Devignes , Valentin Loux Frontiers in Microbiology, 2016, 6 (6), pp.1483. ⟨10.3389/fmicb.2015.01483⟩ Journal articles hal-01262284v1
	Draft Genome Sequence of Lactobacillus delbrueckii subsp. bulgaricus CFL1, a Lactic Acid Bacterium Isolated from French Handcrafted Fermented Milk Julie Meneghel , Eric Dugat-Bony , Françoise Irlinger , Valentin Loux , Marie Vidal Genome Announcements, 2016, 4 (2), pp.e00052-16. ⟨10.1128/genomeA.00052-16⟩ Journal articles hal-01511494v1
	Genome Sequences of Two Bovine Mastitis-Causing [i]Escherichia coli[/i] Strains Florent Kempf , Valentin Loux , Pierre Germon Genome Announcements, 2015, 3 (2), pp.1. ⟨10.1128/genomeA.00259-15⟩ Journal articles hal-01171499v1
	Inventory of the GH70 enzymes encoded by Leuconostoc citreum NRRL B-1299 - identification of three novel -transglucosylases Delphine Passerini , Marlène Vuillemin , Lisa Ufarté , Sandrine Morel , Valentin Loux FEBS Journal, 2015, 282 (11), pp.2115-2130. ⟨10.1111/febs.13261⟩ Journal articles hal-02630462v1
	Overview of a surface-ripened cheese community functioning by meta-omics analyses Eric Dugat-Bony , Cecile Straub , Aurélie Teissandier , Djamila Onesime , Valentin Loux PLoS ONE, 2015, 10 (4), pp.e0124360. ⟨10.1371/journal.pone.0124360⟩ Journal articles hal-01195505v1
	Mutations and genomic islands can explain the strain dependency of sugar utilization in 21 strains of Propionibacterium freudenreichii Valentin Loux , Mahendra Mariadassou , Sintia Almeida , Hélène Chiapello , Amal Hammani BMC Genomics, 2015, 16 (1), pp.35. ⟨10.1186/s12864-015-1467-7⟩ Journal articles hal-01142363v1
	Surface proteins of Propionibacterium freudenreichii are involved in its anti-inflammatory properties. Caroline Le Maréchal , Vincent Péton , Coline Plé , Christophe Vroland , Julien Jardin Journal of Proteomics, 2015, 113, pp.447-461. ⟨10.1016/j.jprot.2014.07.018⟩ Journal articles hal-01209735v1
	Genome Sequence of "Candidatus Arthromitus" sp. Strain SFB-Mouse-NL, a Commensal Bacterium with a Key Role in Postnatal Maturation of Gut Immune Functions. Alexandre Bolotine , Tomas de Wouters , Pamela Schnupf , Christiane Bouchier , Valentin Loux Genome Announcements, 2014, 2 (4), ⟨10.1128/genomeA.00705-14⟩ Journal articles hal-01204391v1
	Bacterial protein signals are associated with Crohn's disease. Catherine Juste , David P Kreil , Christian Beauvallet , Alain Guillot , Sebastian Vaca Gut, 2014, 63 (10), pp.1566-1577. ⟨10.1136/gutjnl-2012-303786⟩ Journal articles hal-00933734v1
	Transcriptomic analysis of Staphylococcus xylosus in the presence of nitrate and nitrite in meat reveals its response to nitrosative stress Aurore Vermassen , Anne de La Foye , Valentin Loux , Régine Talon , Sabine Leroy Frontiers in Microbiology, 2014, 5, n.p. ⟨10.3389/fmicb.2014.00691⟩ Journal articles hal-02631923v1
	Data from an integrative approach decipher the surface proteome of [i]Propionibacterium freudenreichii[/i] Caroline Le Maréchal , Vincent Péton , Coline Le Plenier , Christophe Vroland , Julien Jardin Data in Brief, 2014, 1, pp.46-50. ⟨10.1016/j.dib.2014.08.009⟩ Journal articles hal-01209746v1
	Construction of a dairy microbial genome catalog opens new perspectives for the metagenomic analysis of dairy fermented products Mathieu Almeida , Agnes Hebert , Anne-Laure Abraham , Simon Rasmussen , Christophe Monnet BMC Genomics, 2014, 15, article 1101 (16 p.). ⟨10.1186/1471-2164-15-1101⟩ Journal articles hal-01195502v1
	Genome Sequence of Lactococcus lactis subsp. lactis bv. diacetylactis LD61. Hélène Falentin , Delphine Naquin , Valentin Loux , Frédérique Barloy-Hubler , Pascal Loubière Genome Announcements, 2014, 2 (1), pp.1. ⟨10.1128/genomeA.01176-13⟩ Journal articles hal-01019560v1
	Insyght: navigating amongst abundant homologues, syntenies and gene functional annotations in bacteria, it's that symbol! Thomas Lacroix , Valentin Loux , Annie Gendrault , Mark Hoebeke , Jean-François Gibrat Nucleic Acids Research, 2014, 42 (21), pp.e162. ⟨10.1093/nar/gku867⟩ Journal articles hal-01332638v1
	Genome sequence of[i] Lactobacillus delbrueckii[/i] subsp. [i]lactis[/i] CNRZ327, a dairy bacterium with anti-inflammatory properties. Hela El Kafsi , Johan Binesse , Valentin Loux , Julien Buratti , Samira Boudebbouze Genome Announcements, 2014, 2 (4), pp.1-2. ⟨10.1128/genomeA.00328-14⟩ Journal articles hal-01204323v1
	Complete Genome Sequence of Leuconostoc citreum Strain NRRL B-742 Delphine Passerini , Marlène Vuillemin , S. Laguerre , Myriam Amarir , Valentin Loux Genome Announcements, 2014, 2 (6), ⟨10.1128/genomeA.01179-14⟩ Journal articles hal-02637077v1
	Genome Sequence of the Lactic Acid Bacterium Lactococcus lactis subsp. lactis TOMSC161, Isolated from a Nonscalded Curd Pressed Cheese Hélène Velly , Pierre Renault , Anne-Laure Abraham , Valentin Loux , Agnes Delacroix-Buchet Genome Announcements, 2014, 2 (6), ⟨10.1128/genomeA.01121-14⟩ Journal articles hal-01193999v1
	Comparative genomics of first available bovine Anaplasma phagocytophilum genome obtained with targeted sequence capture. Thibaud Dugat , Valentin Loux , Sylvain Marthey , Marco Moroldo , Anne-Claire Lagrée BMC Genomics, 2014, 15 (1), pp.973. ⟨10.1186/1471-2164-15-973⟩ Journal articles hal-01193998v1
	Lactobacillus delbrueckii ssp. lactis and ssp. bulgaricus: a chronicle of evolution in action. Hela El Kafsi , Johan Binesse , Valentin Loux , Julien Buratti , Samira Boudebbouze BMC Genomics, 2014, 15 (1), pp.407. ⟨10.1186/1471-2164-15-407⟩ Journal articles pasteur-01017376v1
	Technical challenges in metatranscriptomic studies applied to the bacterial communities of freshwater ecosystems Noémie Pascault , Valentin Loux , Sandra Derozier , Véronique Martin , Didier Debroas Genetica, 2014, 143 (2), pp.25216965. ⟨10.1007/s10709-014-9783-4⟩ Journal articles hal-01110172v1
	Draft genome sequences of five strains of [i]Lactobacillus acidophilus[/i] , strain CIP 76.13 T , isolated from humans, strains CIRM-BIA 442 and CIRM-BIA 445, isolated from dairy products, and strains DSM 20242 and DSM 9126 of unknown origin Hélène Falentin , Sylvie Cousin , Dominique Clermont , Sophie Creno , Florence Ma Genome Announcements, 2013, 1 (4), pp.e00658-13. ⟨10.1128/genomeA.00658-13⟩ Journal articles hal-01209470v1
	Draft genome sequence of Lactobacillus hominis strain CRBIP 24.179τ, isolated from human intestine Sylvie Cousin , Sophie Creno , Laurence Ma , Dominique Clermont , Valentin Loux Genome Announcements, 2013, 1 (4), pp.1. ⟨10.1128/genomeA.00662-13⟩ Journal articles hal-00939673v1
	Draft genome sequences of Lactobacillus equicursoris CIP 110162τ and Lactobacillus sp. strain CRBIP 24.137, isolated from thoroughbred racehorse feces and human urine, respectively Sylvie Cousin , Valentin Loux , Laurence Ma , Sophie Creno , Dominique Clermont Genome Announcements, 2013, 1 (4), pp.1-2. ⟨10.1128/genomeA.00663-13⟩ Journal articles hal-02645656v1
	Draft Genome Sequence of [i][/i] Lactobacillus pasteurii[i][/i] CRBIP 24.76T. Sylvie Cousin , Dominique Clermont , Sophie Creno , Laurence Ma , Valentin Loux Genome Announcements, 2013, 1 (4), ⟨10.1128/genomeA.00660-13⟩ Journal articles hal-01190531v1
	A unique in vivo experimental approach reveals metabolic adaptation of the probiotic Propionibacterium freudenreichii to the colon environment. Taous Saraoui , Sandrine Parayre , Grégory Guernec , Valentin Loux , Jérôme Montfort BMC Genomics, 2013, 14 (1), pp.911. ⟨10.1186/1471-2164-14-911⟩ Journal articles inserm-00923652v1
	Complete chromosome sequence of Carnobacterium maltaromaticum LMA 28. Catherine C. Cailliez-Grimal , Stéphane Chaillou , Jamila J. Anba-Mondoloni , Valentin Loux , Muhammad Inam M. I. Afzal Genome Announcements, 2013, 1 (1), pp.1-2. ⟨10.1128/genomeA.00115-12⟩ Journal articles hal-00939584v1
	Genome sequence of Staphylococcus equorum subsp equorum Mu2, Isolated from a french smear-ripened cheese Francoise Irlinger , Valentin Loux , Pascal Bento , Jean-Francois Gibrat , Cecile Straub Journal of Bacteriology, 2012, 194 (18), pp.5141-5142. ⟨10.1128/JB.01038-12⟩ Journal articles hal-01019837v1
	Accumulation of Intracellular Glycogen and Trehalose by Propionibacterium freudenreichii under Conditions Mimicking Cheese Ripening in the Cold Marion Dalmasso , Julie Aubert , Sergine Even , Hélène Falentin , Marie-Bernadette Maillard Applied and Environmental Microbiology, 2012, 78 (17), pp.6357-6364. ⟨10.1128/AEM.00561-12⟩ Journal articles hal-02363390v1
	Mapping reads on a genomic sequence: an algorithmic overview and a practical comparative analysis Sophie S. Schbath , Veronique V. Martin , Matthias Zytnicki , Julien Fayolle , Valentin Loux Journal of Computational Biology, 2012, 19 (6), pp.796-813. ⟨10.1089/cmb.2012.0022⟩ Journal articles hal-02645697v1
	Genome sequence of Leuconostoc pseudomesenteroides strain 4882, isolated from a dairy starter culture Victoria Meslier Meslier , Valentin Loux , Pierre Renault Journal of Bacteriology, 2012, 194 (23), pp.6637. ⟨10.1128/JB.01696-12⟩ Journal articles hal-01000375v1
	Genome sequence of weissella confusa LBAE C39-2, isolated from a wheat sourdough Myriam Amari , Sandrine Laguerre , Marlène Vuillemin , Hervé Robert , Valentin Loux Journal of Bacteriology, 2012, 194 (6), pp.1608-1609. ⟨10.1128/JB.06788-11⟩ Journal articles hal-01267779v1
	Genome sequence of Lactococcus raffinolactis strain 4877, isolated from natural dairy starter culture Victoria Meslier Meslier , Valentin Loux , Pierre Renault Journal of Bacteriology, 2012, 194 (22), pp.6364. ⟨10.1128/JB.01697-12⟩ Journal articles hal-01000376v1
	Genome sequence of corynebacterium casei UCMA 3821, isolated from a smear-ripened cheese Christophe C. Monnet , Valentin Loux , Pascal P. Bento , Jean-Francois J.-F. Gibrat , Cecile C. Straub Journal of Bacteriology, 2012, 194 (3), pp.738-739. ⟨10.1128/JB.06496-11⟩ Journal articles hal-01000221v1
	Complete genome sequence of Flavobacterium indicum GPSTA100-9T, isolated from warm spring water Paul Barbier , Armel A. Houel , Valentin Loux , Julie Poulain , Jean-François Bernardet Journal of Bacteriology, 2012, 194 (11), pp.3024-3025. ⟨10.1128/JB.00420-12⟩ Journal articles hal-02643519v1
	Genome Sequence of the Invasive Salmonella enterica subsp. enterica Serotype Enteritidis Strain LA5 Olivier Grépinet , Aurore Rossignol , Valentin Loux , Helene Chiapello ,

Valentin Loux

Presentation

Publications

MilkOligoThesaurus, a dataset of mammalian milk oligosaccharide synonyms

A comprehensive, large-scale analysis of “terroir” cheese and milk microbiota reveals profiles strongly shaped by both geographical and human factors

Towards a more accurate metabarcoding approach for studying fungal communities of fermented foods

Omnicrobe, an open-access database of microbial habitats and phenotypes using a comprehensive text mining and data fusion approach

Comparison of metabarcoding taxonomic markers to describe fungal communities in fermented foods

Comparative Genome Analysis of Enterococcus cecorum Reveals Intercontinental Spread of a Lineage of Clinical Poultry Isolates

Gene co-expression network analysis of the human gut commensal bacterium Faecalibacterium prausnitzii in R-Shiny

Integration of Multiomic Data to Characterize the Influence of Milk Fat Composition on Cantal-Type Cheese Microbiota

Insights into the cyanosphere: capturing the respective metabolisms of cyanobacteria and chemotrophic bacteria in natural conditions?

Microbial and functional characterization of an allochthonous consortium applied to hydrogen production from Citrus Peel Waste in batch reactor in optimized conditions

Unraveling the world of halophilic and halotolerant bacteria in cheese by combining cultural, genomic and metagenomic approaches

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

The complete genome sequence of Mycobacterium bovis Mb3601, a SB0120 spoligotype strain representative of a new clonal group

Abundance, Diversity and Role of ICEs and IMEs in the Adaptation of Streptococcus salivarius to the Environment

The enemy from within: a prophage of Roseburia intestinalis systematically turns lytic in the mouse gut, driving bacterial adaptation by CRISPR spacer acquisition

Comparative metatranscriptomic analysis of anaerobic digesters treating anionic surfactant contaminated wastewater

Bioinformatics tools and workflow to select blood biomarkers for early cancer diagnosis: an application to pancreatic cancer

Effect of sodium chloride reduction or partial substitution with potassium chloride on the microbiological, biochemical and sensory characteristics of semi-hard and soft cheeses

Complete and Draft Genome Sequences of Nine Lactobacillus sakei Strains Selected from the Three Known Phylogenetic Lineages and Their Main Clonal Complexes

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

Genomic diversity and evolution of the fish pathogen flavobacterium psychrophilum

Complete genome sequence of the industrial fast-acidifying strain Streptococcus thermophilus N4L

Transcriptomic response of Debaryomyces hansenii during mixed culture in a liquid model cheese medium with Yarrowia lipolytica

Detection of an amplification bias associated to Leuconostocaceae family with a universal primer routinely used for monitoring microbial community structures within food products

Draft Genome Sequences of 18 Psychrotolerant and 2 Thermotolerant Strains Representative of Particular Ecotypes in the Bacillus cereus Group

Unprecedented large inverted repeats at the replication terminus of circular bacterial chromosomes suggest a novel mode of chromosome rescue

A Glimpse into the World of Integrative and Mobilizable Elements in Streptococci Reveals an Unexpected Diversity and Novel Families of Mobilization Proteins

Complete Genome Sequence of Flavobacteriumpsychrophilum Strain OSU THCO2-90, Used for Functional Genetic Analysis.

Identification of proteins involved in the anti-inflammatory properties of Propionibacterium freudenreichii by means of a multi-strain study

The bacterial interlocked process ONtology (BiPON): a systemic multi-scale unified representation of biological processes in prokaryotes

Manual and expert annotation of the nearly complete genome sequence of Staphylococcus sciuri strain ATCC 29059: a reference for the oxidase-positive staphylococci that supports the atypical phenotypic features of the species group

La génomique comparative à l’ère des technologies NGS

Whole genome sequencing of 7 strains of Staphylococcus lugdunensis allows identification of mobile genetic elements

Complete Genome Sequence of Lactococcus lactissubsp. lactis A12, a Strain Isolated from Wheat Sourdough

Permanent draft genome sequence of the probiotic strain Propionibacterium freudenreichii CIRM-BIA 129 (ITG P20).

Draft genome sequence of Corynebacterium variabile Mu292, isolated from Munster, a french smear-ripened cheese

Synchronized navigation and comparative analyses across Ensembl complete bacterial genomes with INSYGHT.

Draft Anaplasma phagocytophilum Genome Sequences from Five Cows, Two Horses, and One Roe Deer Collected in Europe.

New Insights into the Classification and Integration Specificity of Streptococcus Integrative Conjugative Elements through Extensive Genome Exploration

Draft Genome Sequence of Lactobacillus delbrueckii subsp. bulgaricus CFL1, a Lactic Acid Bacterium Isolated from French Handcrafted Fermented Milk

Genome Sequences of Two Bovine Mastitis-Causing [i]Escherichia coli[/i] Strains

Inventory of the GH70 enzymes encoded by Leuconostoc citreum NRRL B-1299 - identification of three novel -transglucosylases

Overview of a surface-ripened cheese community functioning by meta-omics analyses

Mutations and genomic islands can explain the strain dependency of sugar utilization in 21 strains of Propionibacterium freudenreichii

Surface proteins of Propionibacterium freudenreichii are involved in its anti-inflammatory properties.

Genome Sequence of "Candidatus Arthromitus" sp. Strain SFB-Mouse-NL, a Commensal Bacterium with a Key Role in Postnatal Maturation of Gut Immune Functions.

Bacterial protein signals are associated with Crohn's disease.

Transcriptomic analysis of Staphylococcus xylosus in the presence of nitrate and nitrite in meat reveals its response to nitrosative stress

Data from an integrative approach decipher the surface proteome of [i]Propionibacterium freudenreichii[/i]

Construction of a dairy microbial genome catalog opens new perspectives for the metagenomic analysis of dairy fermented products

Genome Sequence of Lactococcus lactis subsp. lactis bv. diacetylactis LD61.

Insyght: navigating amongst abundant homologues, syntenies and gene functional annotations in bacteria, it's that symbol!

Genome sequence of[i] Lactobacillus delbrueckii[/i] subsp. [i]lactis[/i] CNRZ327, a dairy bacterium with anti-inflammatory properties.

Complete Genome Sequence of Leuconostoc citreum Strain NRRL B-742

Genome Sequence of the Lactic Acid Bacterium Lactococcus lactis subsp. lactis TOMSC161, Isolated from a Nonscalded Curd Pressed Cheese

Comparative genomics of first available bovine Anaplasma phagocytophilum genome obtained with targeted sequence capture.

Lactobacillus delbrueckii ssp. lactis and ssp. bulgaricus: a chronicle of evolution in action.

Technical challenges in metatranscriptomic studies applied to the bacterial communities of freshwater ecosystems

Draft genome sequences of five strains of [i]Lactobacillus acidophilus[/i] , strain CIP 76.13 T , isolated from humans, strains CIRM-BIA 442 and CIRM-BIA 445, isolated from dairy products, and strains DSM 20242 and DSM 9126 of unknown origin

Draft genome sequence of Lactobacillus hominis strain CRBIP 24.179τ, isolated from human intestine

Draft genome sequences of Lactobacillus equicursoris CIP 110162τ and Lactobacillus sp. strain CRBIP 24.137, isolated from thoroughbred racehorse feces and human urine, respectively

Draft Genome Sequence of [i][/i] Lactobacillus pasteurii[i][/i] CRBIP 24.76T.

A unique in vivo experimental approach reveals metabolic adaptation of the probiotic Propionibacterium freudenreichii to the colon environment.

Complete chromosome sequence of Carnobacterium maltaromaticum LMA 28.

Genome sequence of Staphylococcus equorum subsp equorum Mu2, Isolated from a french smear-ripened cheese

Accumulation of Intracellular Glycogen and Trehalose by Propionibacterium freudenreichii under Conditions Mimicking Cheese Ripening in the Cold

Mapping reads on a genomic sequence: an algorithmic overview and a practical comparative analysis

Genome sequence of Leuconostoc pseudomesenteroides strain 4882, isolated from a dairy starter culture

Genome sequence of weissella confusa LBAE C39-2, isolated from a wheat sourdough

Genome sequence of Lactococcus raffinolactis strain 4877, isolated from natural dairy starter culture

Genome sequence of corynebacterium casei UCMA 3821, isolated from a smear-ripened cheese

Complete genome sequence of Flavobacterium indicum GPSTA100-9T, isolated from warm spring water

Genome Sequence of the Invasive Salmonella enterica subsp. enterica Serotype Enteritidis Strain LA5