Publications

Publications 2023

• What remains from living cells in bacterial lysate-based cell-free systems. Wagner L, Jules M, Borkowski O. Comput Struct Biotechnol J. 2023 May 24;21:3173-3182. doi: 10.1016/j.csbj.2023.05.025. eCollection 2023. PMID: 37333859 Free PMC article.

• Greedy reduction of Bacillus subtilis genome yields emergent phenotypes of high resistance to a DNA damaging agent and low evolvability. Dervyn E, Planson AG, Tanaka K, Chubukov V, Guérin C, Derozier S, Lecointe F, Sauer U, Yoshida KI, Nicolas P, Noirot P, Jules M. Nucleic Acids Res. 2023 Mar 15:gkad145. doi: 10.1093/nar/gkad145. PMID: 36919610

• Termination factor Rho mediates transcriptional reprogramming of Bacillus subtilis stationary phase. Bidnenko V, Nicolas P, Guérin C, Dérozier S, Chastanet A, Dairou J, Redko-Hamel Y, Jules M, Bidnenko E. PLoS Genet. 2023 Feb 3;19(2):e1010618. doi: 10.1371/journal.pgen.1010618. eCollection 2023 Feb. PMID: 36735730 Free PMC article.

Publications 2021

• Expanding Diversity of Firmicutes Single-Strand Annealing Proteins: A Putative Role of Bacteriophage-Host Arms Race. Steczkiewicz K, Prestel E, Bidnenko E, Szczepankowska AK. Front Microbiol. 2021 Apr 20;12:644622. doi: 10.3389/fmicb.2021.644622. eCollection 2021. PMID: 33959107 Free PMC article.

Publications 2020

• SppI Forms a Membrane Protein Complex with SppA and Inhibits Its Protease Activity in Bacillus subtilis. Henriques G, McGovern S, Neef J, Antelo-Varela M, Götz F, Otto A, Becher D, van Dijl JM, Jules M, Delumeau O. mSphere. 2020 Oct 7;5(5):e00724-20. doi: 10.1128/mSphere.00724-20. PMID: 33028682 Free PMC article.

• Bacterial growth physiology and RNA metabolism. Planson AG, Sauveplane V, Dervyn E, Jules M. Biochim Biophys Acta Gene Regul Mech. 2020 May;1863(5):194502. doi: 10.1016/j.bbagrm.2020.194502. Epub 2020 Feb PMID: 32044462 Review.

Publications 2019

• Theodorou I, Courtin P, Palussière S, Kulakauskas S, Bidnenko E, Péchoux C, Fenaille F, Penno C, Mahony J, van Sinderen D, Chapot-Chartier MP. A dual-chain assembly pathway generates the high structural diversity of cell-wall polysaccharides in Lactococcus lactis. J Biol Chem. 2019 Nov 15;294(46):17612-17625. doi: 10.1074/jbc.RA119.009957.
• Gauvry E, Mathot AG, Couvert O, Leguérinel I, Jules M, Coroller L. Differentiation of Vegetative Cells into Spores: a Kinetic Model Applied to Bacillus subtilis. Appl Environ Microbiol. 2019 May 2;85(10). pii: e00322-19. doi: 10.1128/AEM.00322-19. Print 2019 May 15.
• Bolotin A, Aucouturier A, Sorokin A, Bidnenko E.  Genomic Sequence of the Prophage-Free Lactococcus lactis Strain IL6288. Microbiol Resour Announc. 2019 Jan 3;8(1). pii: e01545-18. doi: 10.1128/MRA.01545-18.

Publications 2018

• Aucouturier A, Chain F, Langella P, Bidnenko E. Characterization of a Prophage-Free Derivative Strain of Lactococcus lactis  ssp. lactis IL1403 Reveals the Importance of Prophages for Phenotypic Plasticity of the Host. Front Microbiol. 2018 Aug 31;9:2032. doi: 10.3389/fmicb.2018.02032.
• Bidnenko E, Bidnenko V.  Transcription termination factor Rho and microbial phenotypic heterogeneity. Curr Genet. 2018 Jun;64(3):541-546. doi: 10.1007/s00294-017-0775-7. Review.
• García García T, Ventroux M, Derouiche A, Bidnenko V, Correia Santos S, Henry C, Mijakovic I, Noirot-Gros MF, Poncet S. Phosphorylation of the Bacillus subtilis Replication Controller YabA Plays a Role in Regulation of Sporulation and Biofilm Formation. Front Microbiol. 2018 Mar 21;9:486. doi: 10.3389/fmicb.2018.00486. eCollection 2018.
• Jules M. 2018. The logics of metabolic regulation in bacteria challenges biosensor-based metabolic engineering. Microb Cell. 2018 Jan 1;5(1):56-59. doi: 10.15698/mic2018.01.610.

Publications 2017

• Charbonnier T, Le Coq D, McGovern S, Calabre M, Delumeau O, Aymerich S, Jules M. 2017. Molecular and Physiological Logics of the Pyruvate-Induced Response of a Novel Transporter in Bacillus subtilis. MBio. 2017 Oct 3;8(5).
• Bidnenko V, Nicolas P, Grylak-Mielnicka A, Delumeau O, Auger S, Aucouturier A, Guerin C, Repoila F, Bardowski J, Aymerich S, Bidnenko E. 2017. Termination factor Rho: From the control of pervasive transcription to cell fate determination in Bacillus subtilis.  PLoS Genet. Jul 19;13(7):e1006909.
• Dhali D, Coutte F, Arias AA, Auger S, Bidnenko V, Chataigné G, Lalk M, Niehren J, de Sousa J, Versari C, Jacques P.  Genetic engineering of the branched fatty acid metabolic pathway of Bacillus subtilis for the overproduction of surfactin C14 isoform.  Biotechnol J. 2017 Jul;12(7). doi: 10.1002/biot.201600574.
• Randazzo P, Aucouturier A, Delumeau O, Auger S. Revisiting the in vivo GlnR-binding sites at the genome scale in Bacillus subtilis. 2017. BMC Res Notes. Aug 23;10(1):422

Publications 2016

• Guiziou S, Sauveplane V, Chang HJ, Clerté C, Declerck N, Jules M, Bonnet J. 2016. A part toolbox to tune genetic expression in Bacillus subtilis. Nucleic Acids Res. Sep 6;44(15):7495-508
• Borkowski O, Goelzer A, Schaffer M, Calabre M, Mäder U, Aymerich S, Jules M, Fromion V. 2016. Translation elicits a growth rate-dependent, genome-wide, differential protein production in Bacillus subtilis. Mol Syst Biol.;12(5):870.
• Hoff G, Bertrand C, Zhang L, Piotrowski E, Chipot L, Bontemps C, Confalonieri F, McGovern S, Lecointe F, Thibessard A, Leblond P. 2016. Multiple and Variable NHEJ-Like Genes Are Involved in Resistance to DNA Damage in Streptomyces ambofaciens. Front Microbiol. Nov 28;7:1901
• McGovern S, Baconnais S, Roblin P, Nicolas P, Drevet P, Simonson H, Piétrement O, Charbonnier JB, Le Cam E, Noirot P, Lecointe F. C-terminal region of bacterial Ku controls DNA bridging, DNA threading and recruitment of DNA ligase D for double strand breaks repair. Nucleic Acids Res. Mar 9.
• Grylak-Mielnicka A, Bidnenko V, Bardowski J, Bidnenko E. 2016. Transcription termination factor Rho: a hub linking diverse physiological processes in bacteria. Microbiology;162(3):433-47.

Publications 2015

• Benoist C, Guérin C, Noirot P, Dervyn E. Constitutive Stringent Response Restores Viability of Bacillus subtilis Lacking Structural Maintenance of Chromosome Protein. PLoS One;10(11):e0142308.
• Goelzer A, Muntel J, Chubukov V, Jules M, Prestel E, Nölker R, Mariadassou M, Aymerich S, Hecker M, Noirot P, Becher D, Fromion V. 2015. Quantitative prediction of genome-wide resource allocation in bacteria. Metab Eng.;32:232-43.
• Mirouze N, Bidnenko E, Noirot P, Auger S. 2015. Genome-wide mapping of TnrA-binding sites provides new insights into the TnrA regulon in Bacillus subtilis. Microbiologyopen
• Prestel E, Noirot P, Auger S. 2015. Genome-wide identification of Bacillus subtilis Zur-binding sites associated with a Zur box expands its known regulatory network. BMC Microbiol;15(1):13.
• Rochat T, Delumeau O, Figueroa-Bossi N, Noirot P, Bossi L, Dervyn E, Bouloc P. 2015. Tracking the Elusive Function of Bacillus subtilis Hfq. PLoS One; 10(4):e0124977.
• Sanchez-Vizuete P, Orgaz B, Aymerich S, Le Coq D, Briandet R. 2015. Pathogens protection against the action of disinfectants in multispecies biofilms. Front Microbiol.;6:705.
• Derouiche A, Shi L, Bidnenko V, Ventroux M, Pigonneau N, Franz-Wachtel M, Kalantari A, Nessler S, Noirot-Gros MF, Mijakovic I. Bacillus subtilis SalA is a phosphorylation-dependent transcription regulator that represses scoC and activates the production of the exoprotease AprE. Mol Microbiol.;97(6):1195-208.
• Sanchez-Vizuete P, Le Coq D, Bridier A, Herry JM, Aymerich S, Briandet R. 2015. Identification of ypqP as a New Bacillus subtilis biofilm determinant that mediates the protection of Staphylococcus aureus against antimicrobial agents in mixed-species communities. Appl Environ Microbiol; 81(1):109-18.
• Vives V, Cres G, Richard C, Busson M, Ferrandez Y, Planson AG, Zeghouf M, Cherfils J, Malaval L, Blangy A. 2015. Pharmacological inhibition of Dock5 prevents osteolysis by affecting osteoclast podosome organization while preserving bone formation. Nat Commun; 6:6218.