logo Insalogo Insa

Publications des membres de l'EAD4

2017

Morin M, Ropers D, Cinquemani E, Portais JC, Enjalbert B, Cocaign-Bousquet M. 2017. The Csr system regulates Escherichia coli fitness by controlling glycogen accumulation and energy levels. MBio. 31;8(5). pii: e01628-17.

 

Nouaille, S, Mondeil S, Finoux AL, Moulis C, Girbal L, Cocaign-Bousquet M. 2017. The stability of an mRNA is influenced by its concentration: a potential physical mechanism to regulate gene expression. Nucleic Acids Res. 45(20):11711-11724.

 

Enjalbert, B, Millard P, Dinclaux M, Portais JC, Letisse,F. 2017. Acetate fluxes in Escherichia coli are determined by the thermodynamic control of the Pta-AckA pathway. Sci Rep. 7: 42135.

 

Cinquemani E, Laroute V, Cocaign-Bousquet M, de Jong H, Ropers D. 2017. Estimation of time-varying growth, uptake and excretion rates from dynamic metabolomics data, Bioinformatics 33(14):i301-i310.doi.10.1093.

 

Laroute V, Tormo H, Couderc C, Mercier-Bonin M, Le Bourgeois P, Cocaign-Bousquet M, Daveran-Mingot ML. 2017. From genome to phenotype: an integrative approach to evaluate the natural diversity of Lactococcus lactis. Microorganisms 5(2). pii: E27. doi: 10.3390.

2016

Vermassen A, Dordet-Frisoni E, de LaFoye A, Micheau P, Laroute V, Leroy S, Talon R. 2016. Adaptation of Staphylococcus xylosus to nutrients and osmotic stress in a salted meat model. Front Microbiol. Feb 7;87.

 

Morin M, Ropers D, Letisse F, Laguerre S, Portais J-C, Enjalbert B, Cocaign-Bousquet M. 2016. The post-transcriptional regulatory system CSR controls the balance of metabolic pools in upper glycolysis of Escherichia coli. Mol Microbiol ; doi: 10.1111/mmi.13343

 

Castelain M., Duviau M-P, Canette A, Schmitz P, Loubière P, Cocaign-Bousquet M, Piard J-C, Mercier-Bonin M. 2016. The nanomechanical properties of Lactococcus lactis pili are conditioned by the polymerized backbone pilin. PLoS ONE 11(3): e0152053. doi:10.1371/journal.pone.0152053

 

Esquerré T, Turlan C, Bouvier M, Carpousis AJ, Girbal L, Cocaign-Bousquet M. 2016. The Csr system regulates genome-wide mRNA stability and transcription and thus gene expression in Escherichia coli. Sci Rep. 2016 Apr 26;6:25057. doi: 10.1038/srep25057

 

Castelain M, Duviau M-P, Oxaran V, Schmitz P, Cocaign-Bousquet M, Loubière P, Piard J-C, Mercier-Bonin M. 2016. Oligomerized backbone pilin helps piliated Lactococcus lactis to withstand shear flow. Biofouling, 32:8, 911-923, DOI: 10.1080/08927014.2016.1213817

 

Radziwill-Bienkowska JM, Le DTL, Szczesny P, Duviau M-P, Aleksandrzak-Piekarczyk T, Loubière P, Mercier-Bonin M, Bardowski JK, Kowalczyk M. 2016. Adhesion of the genome-sequenced Lactococcus lactis subsp. Cremoris IBB477 strain is mediated by specific molecular determinants. Applied Microbiology and Biotechnology. DOI:10.1007/s00253-016-7813-0

 

Laroute V, Yasaro C, Narin W, Mazzoli R, Pessione E, Cocaign-Bousquet M, Loubière P. 2016. GABA production in  Lactococcus lactis is enhanced by arginine and co-addition of malate. Front Microbiol. Jul 6;7:1050

 

Guellerin M, Passerini D, Fontagné-Faucher C, Robert H, Gabriel V, Loux V, Klopp C, Le Loir Y, Coddeville M, Daveran-Mingot  M-L, Ritzenthaler P, Le Bourgeois P. 2016. Complete Genome Sequence of Lactococcus lactis subsp. lactis A12, a Strain Isolated from Wheat Sourdough. Genome Announcements 4:e00692-16

 

Tauzin AS, Laville E, Xiao Y, Nouaille S, Le Bourgeois P, Heux S, Portais J.C, Monsan P,  Martens EC, Potocki-Veronese G, Bordes F. 2016. Functional characterization of a gene locus from an uncultured gut Bacteroides conferring xylo-oligosaccharides utilization to Escherichia coli. Molecular Microbiol. doi: 10.1111/mmi.13480

 

Treitz C, Enjalbert B, Portais JC, Letisse F, Tholey A. 2016. Differential quantitative proteome analysis of Escherichia coli grown on acetate versus glucose. Proteomics. 16(21):2742-2746. doi: 10.1002/pmic.201600303

 

Figueira Aburjaile F, Rohmer M, Parrinello H, Maillard M-B, Beaucher E, Henry G, Nicolas A, Madec M-N, Thierry A, Parayre S, Deutsch S-M, Cocaign-Bousquet M, Miyoshi A, Azevedo A, Le Loir Y, Falentin H. 2016.  Adaptation of Propionibacterium freudenreichii to long-term survival under gradual nutritional shortage. BMC Genomics. Dec 8;17(1):1007

 

Chassaing, N., Davis, E. E., McKnight, K. L., Niederriter, A. R., Causse, A., David, V., Desmains, A., Lamarre, S., ... & Coubes, C. (2016). Targeted resequencing identifies PTCH1 as a major contributor to ocular developmental anomalies and extends the SOX2 regulatory network. Genome Research, gr-196048.

2015

Saulou-Bérion C, Gonzalez I, Enjalbert B, Audinot J-N, Fourquaux I, Jamme F, Cocaign-Bousquet M, Mercier-Bonin M, and Girbal L. 2015. Escherichia coli facing ionic silver stress: an integrative approach to explore the transcriptional, physiological and biochemical responses. PLoS ONE 10(12): e0145748. doi:10.1371/journal.pone.0145748

 

Izac M, Garnier D, Speck D, Lindley ND. 2015. A Functional Tricarboxylic Acid Cycle Operates during Growth of Bordetella pertussis on Amino Acid Mixtures as Sole Carbon Substrates. PLoS ONE 10(12): e0145251. oi:10.1371/journal.pone.0145251.

 

Enjalbert B, Cocaign-Bousquet M, Portais J-C and Letisse F. 2015. Acetate exposure determines the diauxic behavior of Escherichia coli during the glucose-acetate transition. J. Bacteriol. 197(19):3173-81.

 

Esquerré T, Moisan A, Chiapello H, Arike L, Vilu R, Gaspin C, Cocaign-Bousquet M and Girbal L. 2015.Genome-wide investigation of mRNA lifetime determinants in Escherichia coli cells cultured at different growth rates. BMC Genomics. Apr 9;16:275.

 

Le Bourgeois P, Passerini D, Coddeville M, Guellerin M, Daveran-Mingot ML, Ritzenthaler P. 2015. PFGE Protocols to Distinguish Subspecies of Lactococcus lactis. Methods Mol Biol. 1301:213-224.

 

Noyer, C., Abot, A., Trouilh, L., Leberre, V. A., & Dreanno, C. (2015). Phytochip: Development of a DNA-microarray for rapid and accurate identification of Pseudo-nitzschia spp and other harmful algal species. Journal of Microbiological Methods.


Kempowsky-Hamon, T., Valle, C., Lacroix-Triki, M., Hedjazi, L., Trouilh, L., Lamarre, S., ... & Anton-Leberre, V. (2015). Fuzzy logic selection as a new reliable tool to identify molecular grade signatures in breast cancer–the INNODIAG study. BMC Medical Genomics8(1), 3.


Arnal, G., Bastien, G., Monties, N., Abot, A., Leberre, V. A., Bozonnet, S., ... & Dumon, C. (2015). Investigating the function of an arabinan utilization locus isolated from a termite gut community. Applied and environmental microbiology81(1), 31-39.

 

2014

Trad-Khodja D, Hellal-Benateya A, Kehal F, Hamidi Y, Dekmara I, Derkaouna S, Lindley ND. 2014. Mutational selection and characterization of a lysine-producing strain of Corynebacterium glutamium. International Journal of Science & Research (IJSR), 3:2329-2333.

 

Nouaille S, Rault L, Jeanson S, Loubière P, Le Loir Y, Even S. 2014. Contribution of Lactococcus lactis reducing properties to the downregulation of a major virulence regulator in Staphylococcus aureus, the agr system. Appl Environ Microbiol. 80(22):7028-35.

 

Da Silva S, Robbe-Masselot C, Ait Belgnaoui A, Mancuso A, Mercade-Loubière M, Cartier C, Gillet M, Ferrier L, Loubière P, Dague E, Théodorou V, Mercier-Bonin M. 2014, Stress disrupts intestinal mucus barrier in rats via mucin O-glycosylation shift: prevention by a probiotic treatment. Am J Physiol Gastrointest Liver Physiol. 307(4):G420-9.

 

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. 2014. Genome Sequence of Lactococcus lactis subsp. lactis bv. diacetylactis LD6. Genome Announcements 2(1). pii: e01176-13.

 

Esquerré T, Laguerre S, Turlan C, Carpousis AJ, Girbal L, Cocaign-Bousquet M. 2014. Dual role of transcription and transcript stability in the regulation of gene expression in Escherichia coli cells cultured on glucose at different growth rates. Nucleic Acids Res. 42:2460-2472.

 

LeHir J, P Loubière, F Barbirato, ND Lindley. Method for producing Haemophilus influenzae type B antigens. Brevet  WO2014/006318, Jan 9, 2014.

 

2013

Dhaisne A, Guellerin M, Laroute V, Laguerre S, Cocaign-Bousquet M, Le Bourgeois P, Loubiere P. 2013. Genotypic and phenotypic analysis of dairy Lactococcus lactis biodiversity in milk: volatile organic compounds as discriminating markers. Appl. Environ. Microbiol. 79(15):4643-4652.

 

Le DT, Tran TL, Duviau MP, Meyrand M, Guérardel Y, Castelain M, Loubière P, Chapot-Chartier MP, Dague E, Mercier-Bonin M. 2013. Unraveling the role of surface mucus-binding protein and pili in muco-adhesion of Lactococcus lactis. PLoS One. 8(11):e79850.

 

Picard F, Loubière P, Girbal L, Cocaign-Bousquet M. 2013. The significance of translation regulation in the stress response. BMC Genomics. Aug 28;14:588.

 

Racle J, Picard F, Girbal L, Cocaign-Bousquet M, Hatzimanikatis V. 2013. A genome-scale integration and analysis of Lactococcus lactis translation data. PLoS Comput. Biol. 9(10):e1003240

 

Enjalbert B, Letisse F, Portais JC. 2013. Physiological and molecular timing of the glucose to acetate transition in Escherichia coli. Metabolites, 3, 820-837.

 

Passerini D, Coddeville M, Le Bourgeois P, Loubière P, Ritzenthaler P, Fontagné-Faucher C, Daveran-Mingot ML, Cocaign-Bousquet M. 2013. The carbohydrate metabolism signature of Lactococcus lactis strain A12 reveals its sourdough ecosystem origin. Appl. Environ. Microbiol. 79(19):5844.

 

Dressaire C, Picard F, Redon E, Queinnec I, Loubiere P, Girbal L, M Cocaign-Bousquet. 2013. Role of mRNA stability during bacterial adaptation. Plos One, 8(3)e59059.

 

Saulou C, Jamme F, Girbal L, Maranges C, Fourquaux I, Cocaign-Bousquet M, Dumas P, M Mercier-Bonin. 2013. Synchrotron FTIR microspectroscopy of Escherichia coli at single-cell scale under silver-induced stress conditions. Analytical and Bioanalytical Chemistry 405(8):2685-97.

 

Passerini D, Laroute V, Coddeville M, Le Bourgeois P, Loubière P, Ritzenthaler P, Daveran-Mingot M, Cocaign-Bousquet M. 2013. New insights into Lactococcus lactis diacetyl-acetoin producing strains isolated from diverse origins. International Journal of Food Microbiology, 160(3):329-36.

 

2012

J Le Hir, P Loubière,  F Barbirato, ND Lindley. Procédé de production d'antigenes Haemophilus influenzae type b. Brevet FR2992656, Juillet 2012.

 

Morello E, Nouaille S, Cortes-Perez NG, Blugeon S, Medina LF, Azevedo V, Gratadoux JJ, Bermúdez-Humarán LG, Le Loir Y, Langella P. 2012. Inactivation of the ybdD gene in Lactococcus lactis increases the amounts of exported proteins. Appl. Environ. Microbiol. 78:7148-51.

 

Saulou, C, Despax, B, Raynaud, P, Zanna, S, Seyeux, A, Marcus, P, Audinot, JN, Mercier-Bonin, M. 2012. Plasma-mediated nanosilver-organosilicon composite films deposited on stainless steel: synthesis, surface characterization, and evaluation of anti-adhesive and anti-microbial properties on the model yeast Saccharomyces cerevisiae. Plasma Processes and Polymers.

 

Le DTL, Zanna S, Frateur I, Marcus P, Loubière P, Dague E and Mercier-Bonin M. 2012. Real-time investigation of Lactococcus lactis muco-adhesive properties using quartz crystal microbalance with dissipation monitoring. Biofouling, 28:479-490.

 

Picard F, Milhem H, Loubière P, Laurent B, Cocaign-Bousquet M, Girbal L. 2012. Bacterial translational regulations: high diversity between all mRNAs and major role in gene expression. BMC Genomics. 13(1):528.

 

Pietrella D, Enjalbert B, Zeidler U, Znaidi S, Rachini A, Vecchiarelli A, d'Enfert C. 2012. A luciferase reporter for gene expression studies and dynamic imaging of superficial Candida albicans infections. Methods Mol. Biol.  845:537-46.

 

Castelain M, PG Rouxhet, F Pignon, A Magnin, J-M Piau. 2012. Single-cell adhesion probed in-situ using optical tweezers : A case study with Saccharomyces cerevisiae. Journal of Applied Physics 111: 11. 114701-13 06.

 

Klinth JE, M Castelain, BE Uhlin, O Axner. 2012. The influence of pH on the specific adhesion of P piliated Escherichia coli. PLoS ONE 7(6):e38548.

 

2011

Cretenet M. Laroute V, Ulve V. Jeanson S. Nouaille S, Even S, Piot M, Girbal L, Le Loir Y, Loubière P, Lortal S and Cocaign-Bousquet M. 2011. Dynamic analysis of Lactococcus lactis transcriptome in UF-cheeses reveals multiple strategies of adaptation to stresses. Appl. Environ. Microbiol. 77:247-57.

 

Douaire M, Mercade M, Morchain J, Loubière P. 2011. A unique phenotypic modification of Lactococcus lactis cultivated in a Couette bioreactor. Biotechnol. Bioeng. 108:559-71. Sélectionnée comme B&B spotlight.

 

Tan-a-ram P, Cardoso T, Daveran-Mingot ML, Kanchanatawee S, Loubière P, Girbal L, Cocaign-Bousquet M. 2011. Diversity of dairy Lactococcus lactis subsp. lactis: an integrated approach combining phenotypic, genomic and transcriptomic analyses, Appl. Environ. Microbiol. 77:739-48.

 

Cretenet M, Nouaille S, Rivière J, Gouffier L, Stenz L, Hennekine J-A, Piot M, Maillard M B, Loubière P, Le Loir Y, Even S. 2011. Staphylococcus aureus virulence and metabolism are dramatically affected by Lactococcus lactis in cheese matrix. Environ. Microbiol. Reports, 3:340-351.

 

Dressaire C, Redon E, Gitton C, Loubière P, Monnet V, Cocaign-Bousquet M. 2011. Dynamic transcriptome and proteome integration to investigate the adaptation of Lactococcus lactis to isoleucine starvation. Microb. Cell Factories, 10 Suppl 1:S18. 

 

Le DTL, Guerardel Y, Loubière P, Mercier-Bonin M. Dague E. 2011. Measuring kinetic dissociation/association constants between Lactococcus lactis bacteria and mucins, using living cell probes. Biophys J. 101:2843-2853.

 

Axner O, M Andersson, O Björnham, M Castelain, J Klinth, E Koutris, S Schedin. 2011. Assessing bacterial adhesion on an individual adhesin and single pili level using optical tweezers. Adv. Exp. Med. Biol. 715: 301-313.

 

Castelain C, S Ehlers, J Klinth, S Lindberg, M Andersson, BE Uhlin, O Axner. 2011. Fast uncoiling kinetics of F1C pili expressed by uropathogenic Escherichia coli are revealed on a single pilus level using force-measuring optical tweezers. Eur. Biophys. J. 40:305-316.

 

Enjalbert B, Jourdan F, Portais JC. 2011. Intuitive visualization and analysis of multi-omics data and application to Escherichia coli carbon metabolism. PLoS ONE 6(6):e21318.

 

2010

MazzoliI R, Pessione E, Dufour M, Laroute V, Giuffrida MG, Giunta C, Cocaign-Bousquet M, Loubière P. 2010. Glutamate induced metabolic changes in Lactococcus lactis NCDO 2118 during GABA production: combined transcriptomic and proteomic analysis. Amino Acids, 39:727-37.

 

Dressaire C, Laurent B, Loubière P, Besse P, Cocaign-Bousquet M. 2010. Linear covariance models to examine the determinants of protein levels in Lactococcus lactis. Mol. Biosyst. 6:1255-1264.

 

Dague E, Le DTL, Zanna S, Marcus P, Loubière P, Mercier-Bonin M. 2010. Probing in vitro interactions between Lactococcus lactis and mucins using AFM. Langmuir, 26:11010-7.

 

Castelain M, AE Sjöström, E Fällman, BE Uhlin, M Andersson. 2010. Unfolding and refolding properties of S pili on extraintestinal pathogenic E. coli. Eur. Biophys. J. 39:1105-1115.

 

 

2009

Rodríguez-Prados JC, P de Atauri, J Maury, F Ortega, JC Portais, C Chassagnole, L Acerenza, ND Lindley, M Cascante. 2009. In silico strategy torationally engineer metabolite production: a case study for threonine in E coli. Biotech. Bioeng. 103:609-620.

 

Botella L, ND Lindley, L Eggeling. 2009. Formation and metabolism of methylmalonyl coenzyme-A in Corynebacterium glutamicum. J. Bacteriol. 191:2899-2901.

 

Nouaille S, Even S, Charlier C, Le Loir Y, Cocaign-Bousquet M, Loubière P. 2009. Transcriptomic response of Lactococcuslactis in mixed culture with Staphylococcusaureus. Appl. Environ. Microbiol. 75:4473-4482.

 

Even S, Charlier C, Nouaille S, Ben Zakour N, Cretenet M, Cousin F, Gautier M,Cocaign-Bousquet M, Loubière P, Le Loir Y. 2009. Staphylococcusaureus virulence expression is impaired by Lactococcus lactis during mixed cultures. Appl. Environ. Microbiol. 75:4459-4472 This article has been selected as an ASM highlight.

 

Ouhib-Jacobs O, ND Lindley, P Schmitt & T Clavel. 2009. Fructose and glucosemediates enterotoxin production and anaerobic metabolism of Bacillus cereus ATCC14579. J. Appl. Microbiol. 107:821-829

 

Mansour S, J Bailly, S Landaud, C Monnet, AS Sarthou, M Cocaign-Bousquet, S Leroy, F Irlinger, P Bonnarme. 2009. Study of culture associations ofYarrowia lipolytica, Staphylococcus xylosus and Lactococcus lactis: a firststep towards microbial interaction analysis. Appl. Environment. Microbiol. 75(20):6422-30.

 

Picard F, Dressaire C, Girbal L and Cocaign-Bousquet M. 2009. Examination ofpost-transcriptional regulations in prokaryotes by integrative biology. C. R.Biol. (Comptes Rendus Biologie Académie des Sciences), 332:958-73 .

 

Dressaire C, Gitton C, Loubière P, Monnet V, Queinnec I, Cocaign-Bousquet M. 2009. Transcriptome and Proteome exploration to model translation efficiency and protein stability in Lactococcus lactis. PloS Comput. Biol. Dec;5(12):e1000606.

 

Douaire M, Morchain J, Loubière P. 2009. Experimental study of energy dissipation rate: effect on Lactococcus lactis batch cultures in a Couette reactor. Récents Progrés en Génie des Procédés, Edition Tec & Doc Lavoisier, Numéro 98.

 

De Atauri P, Rodriguez-Prados JC, Maury J, Ortega F, Portais JC, Cghassagnole C, Acerenza L, Lindley ND, Cascante M. 2009. In silico strategy to rationally engineer metabolite production. New Biotechnology, 25:S35.