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

Dugat-Bony E, Bonnarme P, Fraud S, Catellote J, Sarthou AS, Loux V, Rué O, Bel N, Chuzeville S, Helinck S.

Food Res Int. 2019 Nov;125:108643. doi: 10.1016/j.foodres.2019.108643. Epub 2019 Aug 23.


Bioinformatics Tools and Workflow to Select Blood Biomarkers for Early Cancer Diagnosis: An Application to Pancreatic Cancer.

Vandenbrouck Y, Christiany D, Combes F, Loux V, Brun V.

Proteomics. 2019 Nov;19(21-22):e1800489. doi: 10.1002/pmic.201800489. Epub 2019 Oct 10.


Designing an In Silico Strategy to Select Tissue-Leakage Biomarkers Using the Galaxy Framework.

Nguyen L, Brun V, Combes F, Loux V, Vandenbrouck Y.

Methods Mol Biol. 2019;1959:275-289. doi: 10.1007/978-1-4939-9164-8_18.


Complete Genome Sequence of the Industrial Fast-Acidifying Strain Streptococcus thermophilus N4L.

Proust L, Loux V, Martin V, Magnabosco C, Pedersen M, Monnet V, Juillard V.

Microbiol Resour Announc. 2018 Aug 30;7(8). pii: e01029-18. doi: 10.1128/MRA.01029-18. eCollection 2018 Aug.


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

Poirier S, Rué O, Coeuret G, Champomier-Vergès MC, Loux V, Chaillou S.

BMC Res Notes. 2018 Nov 8;11(1):802. doi: 10.1186/s13104-018-3908-2.


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.

Poirier S, Rué O, Peguilhan R, Coeuret G, Zagorec M, Champomier-Vergès MC, Loux V, Chaillou S.

PLoS One. 2018 Sep 25;13(9):e0204629. doi: 10.1371/journal.pone.0204629. eCollection 2018.


Comparative metatranscriptomic analysis of anaerobic digesters treating anionic surfactant contaminated wastewater.

Delforno TP, Macedo TZ, Midoux C, Lacerda GV Jr, Rué O, Mariadassou M, Loux V, Varesche MBA, Bouchez T, Bize A, Oliveira VM.

Sci Total Environ. 2019 Feb 1;649:482-494. doi: 10.1016/j.scitotenv.2018.08.328. Epub 2018 Aug 27.


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

Loux V, Coeuret G, Zagorec M, Champomier Vergès MC, Chaillou S.

Genome Announc. 2018 Apr 19;6(16). pii: e00082-18. doi: 10.1128/genomeA.00082-18.


Genomic Diversity and Evolution of the Fish Pathogen Flavobacterium psychrophilum.

Duchaud E, Rochat T, Habib C, Barbier P, Loux V, Guérin C, Dalsgaard I, Madsen L, Nilsen H, Sundell K, Wiklund T, Strepparava N, Wahli T, Caburlotto G, Manfrin A, Wiens GD, Fujiwara-Nagata E, Avendaño-Herrera R, Bernardet JF, Nicolas P.

Front Microbiol. 2018 Feb 7;9:138. doi: 10.3389/fmicb.2018.00138. eCollection 2018.


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

Henry VJ, Goelzer A, Ferré A, Fischer S, Dinh M, Loux V, Froidevaux C, Fromion V.

J Biomed Semantics. 2017 Nov 23;8(1):53. doi: 10.1186/s13326-017-0165-6.


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

Malek R, Bonnarme P, Irlinger F, Frey-Klett P, Onésime D, Aubert J, Loux V, Beckerich JM.

Int J Food Microbiol. 2018 Jan 2;264:53-62. doi: 10.1016/j.ijfoodmicro.2017.10.026. Epub 2017 Oct 24.


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.

Christo-Foroux E, Vallaeys T, Loux V, Dassa E, Deutscher J, Wandersman C, Livernois A, Hot C, Criscuolo A, Dauga C, Clermont D, Chesneau O.

Syst Appl Microbiol. 2017 Oct;40(7):401-410. doi: 10.1016/j.syapm.2017.07.002. Epub 2017 Aug 24.


Whole-Genome Sequencing of Seven Strains of Staphylococcus lugdunensis Allows Identification of Mobile Genetic Elements.

Argemi X, Martin V, Loux V, Dahyot S, Lebeurre J, Guffroy A, Martin M, Velay A, Keller D, Riegel P, Hansmann Y, Paul N, Prévost G.

Genome Biol Evol. 2017 May 1;9(5). doi: 10.1093/gbe/evx077.


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

Deutsch SM, Mariadassou M, Nicolas P, Parayre S, Le Guellec R, Chuat V, Peton V, Le Maréchal C, Burati J, Loux V, Briard-Bion V, Jardin J, Plé C, Foligné B, Jan G, Falentin H.

Sci Rep. 2017 Apr 13;7:46409. doi: 10.1038/srep46409.


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

Coluzzi C, Guédon G, Devignes MD, Ambroset C, Loux V, Lacroix T, Payot S, Leblond-Bourget N.

Front Microbiol. 2017 Mar 20;8:443. doi: 10.3389/fmicb.2017.00443. eCollection 2017.


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

El Kafsi H, Loux V, Mariadassou M, Blin C, Chiapello H, Abraham AL, Maguin E, van de Guchte M.

Sci Rep. 2017 Mar 10;7:44331. doi: 10.1038/srep44331.


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

Rochat T, Barbier P, Nicolas P, Loux V, Pérez-Pascual D, Guijarro JA, Bernardet JF, Duchaud E.

Genome Announc. 2017 Feb 23;5(8). pii: e01665-16. doi: 10.1128/genomeA.01665-16.


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

Guinebretière MH, Loux V, Martin V, Nicolas P, Sanchis V, Broussolle V.

Genome Announc. 2017 Feb 2;5(5). pii: e01568-16. doi: 10.1128/genomeA.01568-16.


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

Dugat T, Rossignol MN, Rué O, Loux V, Marthey S, Moroldo M, Silaghi C, Höper D, Fröhlich J, Pfeffer M, Zweygarth E, Lagrée AC, Boulouis HJ, Haddad N.

Genome Announc. 2016 Dec 1;4(6). pii: e00950-16. doi: 10.1128/genomeA.00950-16.


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

Guellerin M, Passerini D, Fontagné-Faucher C, Robert H, Gabriel V, Loux V, Klopp C, Le Loir Y, Coddeville M, Daveran-Mingot ML, Ritzenthaler P, Le Bourgeois P.

Genome Announc. 2016 Sep 15;4(5). pii: e00692-16. doi: 10.1128/genomeA.00692-16.


Draft Genome Sequence of Corynebacterium variabile Mu292, Isolated from Munster, a French Smear-Ripened Cheese.

Dugat-Bony E, Sarthou AS, Loux V, Vidal M, Bonnarme P, Irlinger F, Layec S.

Genome Announc. 2016 Jul 21;4(4). pii: e00669-16. doi: 10.1128/genomeA.00669-16.


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

Meneghel J, Dugat-Bony E, Irlinger F, Loux V, Vidal M, Passot S, Béal C, Layec S, Fonseca F.

Genome Announc. 2016 Mar 3;4(2). pii: e00052-16. doi: 10.1128/genomeA.00052-16.


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

Falentin H, Deutsch SM, Loux V, Hammani A, Buratti J, Parayre S, Chuat V, Barbe V, Aury JM, Jan G, Le Loir Y.

Stand Genomic Sci. 2016 Jan 14;11:6. doi: 10.1186/s40793-015-0120-z. eCollection 2016.


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

Ambroset C, Coluzzi C, Guédon G, Devignes MD, Loux V, Lacroix T, Payot S, Leblond-Bourget N.

Front Microbiol. 2016 Jan 6;6:1483. doi: 10.3389/fmicb.2015.01483. eCollection 2015.


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

Lacroix T, Thérond S, Rugeri M, Nicolas P, Gendrault A, Loux V, Gibrat JF.

Bioinformatics. 2016 Apr 1;32(7):1083-4. doi: 10.1093/bioinformatics/btv689. Epub 2015 Nov 24.


Data from an integrative approach decipher the surface proteome of Propionibacterium freudenreichii.

Le Maréchal C, Peton V, Plé C, Vroland C, Jardin J, Briard-Bion V, Durant G, Chuat V, Loux V, Foligné B, Deutsch SM, Falentin H, Jan G.

Data Brief. 2014 Sep 21;1:46-50. doi: 10.1016/j.dib.2014.08.009. eCollection 2014 Dec.


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

Loux V, Mariadassou M, Almeida S, Chiapello H, Hammani A, Buratti J, Gendrault A, Barbe V, Aury JM, Deutsch SM, Parayre S, Madec MN, Chuat V, Jan G, Peterlongo P, Azevedo V, Le Loir Y, Falentin H.

BMC Genomics. 2015 Apr 15;16:296. doi: 10.1186/s12864-015-1467-7.


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

Dugat-Bony E, Straub C, Teissandier A, Onésime D, Loux V, Monnet C, Irlinger F, Landaud S, Leclercq-Perlat MN, Bento P, Fraud S, Gibrat JF, Aubert J, Fer F, Guédon E, Pons N, Kennedy S, Beckerich JM, Swennen D, Bonnarme P.

PLoS One. 2015 Apr 13;10(4):e0124360. doi: 10.1371/journal.pone.0124360. eCollection 2015. Review.


Genome Sequences of Two Bovine Mastitis-Causing Escherichia coli Strains.

Kempf F, Loux V, Germon P.

Genome Announc. 2015 Apr 9;3(2). pii: e00259-15. doi: 10.1128/genomeA.00259-15.


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

Passerini D, Vuillemin M, Ufarté L, Morel S, Loux V, Fontagné-Faucher C, Monsan P, Remaud-Siméon M, Moulis C.

FEBS J. 2015 Jun;282(11):2115-30. doi: 10.1111/febs.13261. Epub 2015 Apr 8.


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

Vermassen A, de la Foye A, Loux V, Talon R, Leroy S.

Front Microbiol. 2014 Dec 15;5:691. doi: 10.3389/fmicb.2014.00691. eCollection 2014.


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

Almeida M, Hébert A, Abraham AL, Rasmussen S, Monnet C, Pons N, Delbès C, Loux V, Batto JM, Leonard P, Kennedy S, Ehrlich SD, Pop M, Montel MC, Irlinger F, Renault P.

BMC Genomics. 2014 Dec 13;15:1101. doi: 10.1186/1471-2164-15-1101.


Complete Genome Sequence of Leuconostoc citreum Strain NRRL B-742.

Passerini D, Vuillemin M, Laguerre S, Amari M, Loux V, Gabriel V, Robert H, Morel S, Monsan P, Gabriel B, Fontagné-Faucher C, Remaud-Siméon M, Moulis C.

Genome Announc. 2014 Nov 26;2(6). pii: e01179-14. doi: 10.1128/genomeA.01179-14.


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

Dugat T, Loux V, Marthey S, Moroldo M, Lagrée AC, Boulouis HJ, Haddad N, Maillard R.

BMC Genomics. 2014 Nov 17;15:973. doi: 10.1186/1471-2164-15-973.


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

Velly H, Renault P, Abraham AL, Loux V, Delacroix-Buchet A, Fonseca F, Bouix M.

Genome Announc. 2014 Nov 6;2(6). pii: e01121-14. doi: 10.1128/genomeA.01121-14.


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

Lacroix T, Loux V, Gendrault A, Hoebeke M, Gibrat JF.

Nucleic Acids Res. 2014 Dec 1;42(21). doi: 10.1093/nar/gku867. Epub 2014 Sep 23.


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

Pascault N, Loux V, Derozier S, Martin V, Debroas D, Maloufi S, Humbert JF, Leloup J.

Genetica. 2015 Apr;143(2):157-67. doi: 10.1007/s10709-014-9783-4. Epub 2014 Sep 13.


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

Le Maréchal C, Peton V, Plé C, Vroland C, Jardin J, Briard-Bion V, Durant G, Chuat V, Loux V, Foligné B, Deutsch SM, Falentin H, Jan G.

J Proteomics. 2015 Jan 15;113:447-61. doi: 10.1016/j.jprot.2014.07.018. Epub 2014 Aug 20.


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

Bolotin A, de Wouters T, Schnupf P, Bouchier C, Loux V, Rhimi M, Jamet A, Dervyn R, Boudebbouze S, Blottière HM, Sorokin A, Snel J, Cerf-Bensussan N, Gaboriau-Routhiau V, van de Guchte M, Maguin E.

Genome Announc. 2014 Jul 17;2(4). pii: e00705-14. doi: 10.1128/genomeA.00705-14.


Genome Sequence of Lactobacillus delbrueckii subsp. lactis CNRZ327, a Dairy Bacterium with Anti-Inflammatory Properties.

El Kafsi H, Binesse J, Loux V, Buratti J, Boudebbouze S, Dervyn R, Hammani A, Maguin E, van de Guchte M.

Genome Announc. 2014 Jul 17;2(4). pii: e00328-14. doi: 10.1128/genomeA.00328-14.


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

El Kafsi H, Binesse J, Loux V, Buratti J, Boudebbouze S, Dervyn R, Kennedy S, Galleron N, Quinquis B, Batto JM, Moumen B, Maguin E, van de Guchte M.

BMC Genomics. 2014 May 28;15:407. doi: 10.1186/1471-2164-15-407.


Bacterial protein signals are associated with Crohn's disease.

Juste C, Kreil DP, Beauvallet C, Guillot A, Vaca S, Carapito C, Mondot S, Sykacek P, Sokol H, Blon F, Lepercq P, Levenez F, Valot B, Carré W, Loux V, Pons N, David O, Schaeffer B, Lepage P, Martin P, Monnet V, Seksik P, Beaugerie L, Ehrlich SD, Gibrat JF, Van Dorsselaer A, Doré J.

Gut. 2014 Oct;63(10):1566-77. doi: 10.1136/gutjnl-2012-303786. Epub 2014 Jan 16.


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

Falentin H, Naquin D, Loux V, Barloy-Hubler F, Loubière P, Nouaille S, Lavenier D, Le Bourgeois P, François P, Schrenzel J, Hernandez D, Even S, Le Loir Y.

Genome Announc. 2014 Jan 16;2(1). pii: e01176-13. doi: 10.1128/genomeA.01176-13.


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

Saraoui T, Parayre S, Guernec G, Loux V, Montfort J, Le Cam A, Boudry G, Jan G, Falentin H.

BMC Genomics. 2013 Dec 23;14:911. doi: 10.1186/1471-2164-14-911.


Draft Genome Sequences of Lactobacillus equicursoris CIP 110162T and Lactobacillus sp. Strain CRBIP 24.137, Isolated from Thoroughbred Racehorse Feces and Human Urine, Respectively.

Cousin S, Loux V, Ma L, Creno S, Clermont D, Bizet C, Bouchier C.

Genome Announc. 2013 Aug 22;1(4). pii: e00663-13. doi: 10.1128/genomeA.00663-13.


Draft Genome Sequence of Lactobacillus hominis Strain CRBIP 24.179T, Isolated from Human Intestine.

Cousin S, Creno S, Ma L, Clermont D, Loux V, Bizet C, Bouchier C.

Genome Announc. 2013 Aug 22;1(4). pii: e00662-13. doi: 10.1128/genomeA.00662-13.


Draft Genome Sequence of Lactobacillus pasteurii CRBIP 24.76T.

Cousin S, Clermont D, Creno S, Ma L, Loux V, Bizet C, Bouchier C.

Genome Announc. 2013 Aug 22;1(4). pii: e00660-13. doi: 10.1128/genomeA.00660-13.


Draft Genome Sequences of Five Strains of Lactobacillus acidophilus, Strain CIP 76.13T, 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.

Falentin H, Cousin S, Clermont D, Creno S, Ma L, Chuat V, Loux V, Rüdiger P, Bizet C, Bouchier C.

Genome Announc. 2013 Aug 22;1(4). pii: e00658-13. doi: 10.1128/genomeA.00658-13.


Complete Chromosome Sequence of Carnobacterium maltaromaticum LMA 28.

Cailliez-Grimal C, Chaillou S, Anba-Mondoloni J, Loux V, Afzal MI, Rahman A, Kergourlay G, Champomier-Vergès MC, Zagorec M, Dalgaard P, Leisner JJ, Prévost H, Revol-Junelles AM, Borges F.

Genome Announc. 2013 Jan;1(1). pii: e00115-12. doi: 10.1128/genomeA.00115-12. Epub 2013 Jan 31.


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

Meslier V, Loux V, Renault P.

J Bacteriol. 2012 Dec;194(23):6637. doi: 10.1128/JB.01696-12.

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