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Research - Commercialisation, Dissemination of knowledge

Bianca Sclavi publications

Publications:
  • Vittore F. Scolari, Bianca Sclavi, Marco Cosentino Lagomarsino (2015). The nucleoid as a smart polymer. Frontiers in Microbiology, Frontiers, 2015, 6, pp.UNSP 424.
  • Si, Y., Grazon, C., Clavier, G., Rieger, J., Audibert, J.-F., Sclavi, B., Méallet-Renault, R. (2016) Rapid and accurate detection of Escherichia coli growth by fluorescent pH-sensitive organic nanoparticles for High-throughput screening applications. Biosens. Bioelectron, 75, 320-327.
  • Brambilla, E. and Sclavi, B. (2015) Gene regulation by H-NS as a function of growth conditions depends on chromosomal position in E. coli. G3, Genes, Genomes, Genomics, 5, 605-614.
  • Long, Z., Olliver, A., Brambilla, E., Sclavi, B., Cosentino Lagomarsino, M., Dorfman, K.D. (2014) Measuring bacterial adaptation dynamics at the single-cell level using a microfluidic chemostat and time-lapse fluorescence microscopy, Analyst, 139, 5254-5262
  • Herrick, J., Sclavi, B., (2014) A new look at genome size, evolutionary duration and genetic variation in salamanders, Comptes Rendus Palevol, 13 (7), 611-621.
  • Thacker, VV., Bromek, K., Meijer, B., Kotar, J., Sclavi, B., Lagomarsino, M.C., Keyser, U.F., Cicuta, P.,(2014) Bacterial nucleoid structure probed by active drag and resistive pulse sensing. Integr Biol (Camb). 6(2):184-91.
  • Zarei, M., Sclavi,B. Cosentino Lagomarsino, M. (2013) Gene silencing and large-scale domain structure of the E. coli genome, Mol. BioSyst., 2013, 9 (4), 758 - 767
  • Long Z., Nugent, E. Javer, A., Cicuta, P., Sclavi, B., Cosentino Lagomarsino, M., Dorfman, K.D. (2013) Microfluidic chemostat for measuring single cell dynamics in bacteria. Lab Chip, 2013, 13 (5), 947 - 954
  • Yann-Va Le Bihan, Beatrice Matot, Olivier Pietrement, Marie-Josephe Giraud-Panis, Sylvaine Gasparini, Eric Le Cam, Eric Gilson, Bianca Sclavi, Simona Miron and Marie-Helene Le Du (2013) "Effect of Rap1 binding on DNA distortion and potassium permanganate hypersensitivity" Acta Cryst. (2013). D69, 409¬419
  • Saggioro, C., Olliver, A., Sclavi, B., (2013) Temperature-dependence of the DnaA-DNA interaction and its effect on the autoregulation of dnaA expression. Biochem. J. 449 (333-341).
  • Zorman S, Seitz H, Sclavi B, Strick TR. (2012) Topological characterization of the DnaA-oriC complex using single-molecule nanomanipuation. Nucleic Acids Res. 1;40(15):7375-83
  • Grant MA, Saggioro C, Ferrari U, Bassetti B, Sclavi B, Cosentino Lagomarsino M. (2011) DnaA and the timing of chromosome replication in Escherichia coli as a function of growth rate. BMC Syst Biol. 5(1):201.
  • Scolari, V.F., Bassetti, B., Sclavi, B., Cosentino Lagomarsino, M. (2010) Gene clusters reflecting macrodomain structure respond to nucleoid perturbations. Molecular BioSystems, DOI: 10.1039/C0MB00213E.
  • Olliver A., Saggioro C., Herrick J., Sclavi B. (2010) DnaA-ATP acts as a molecular switch to control levels of ribonucleotide reductase expression in Escherichia coli. Mol Microbiol 76(6) : 1555-1571.
  • Rogozina, A., Zaychikov, E., Buckle, M., Heumann, H., Sclavi, B. (2009)DNA melting by RNA polymerase at the T7A1 promoter precedes the rate-limiting step at 37°C and results in the accumulation of an off-pathway intermediate. Nucleic Acids Research, 37(16):5390-404. Epub 2009 Jul 3
  • Evdokimov AA, Sclavi B, Zinoviev VV, Malygin EG, Hattman S, Buckle M.(2007). Study of Bacteriophage T4-encoded Dam DNA (Adenine-N6)-methyltransferase Binding with Substrates by Rapid Laser UV Cross-linking. J Biol Chem. 282(36), 26067-76.
  • Sclavi, B., Beatty, C.M., Thach, D.S., Fredericks, C.E., Buckle, M., and Wolfe, A.J. (2007) The multiple roles of CRP at the complex acs promoter depend on activation region 2 and IHF.Molecular Microbiology 65(2), 425-440.
  • Herrick, J., Sclavi, B., (2007) Ribonucleotide reductase and the regulation of DNA replication: an old story and an ancient heritage. Molecular Microbiology, 63 (1), 22-34.
  • Sclavi, B .*, Zaychikov, E.*, Rogozina, A., Walther, F., Buckle, M., Heumann, H., (2005) Real time characterization of intermediates in the pathway to open complex formation by Escherichia coli RNA polymerase at the T7A1 promoter. PNAS USA, 102, 4706-4711.
  • Malygin E. G., Sclavi B., Zinoviev V.V., Evdokimov A. A. Hattman S. and Buckle M. (2004) Bacteriophage T4Dam DNA-[adenine-N6] methyltransferase comparison of pre-steady state and single turnover methylation of 40mer duplexes containing two (un)modified target sites. J Biol Chem 279 (48):50012-8
  • Orsini G, Igonet S, Pene C, Sclavi B, Buckle M, Uzan M, Kolb A. (2004) Phage T4 early promoters are resistant to inhibition by the anti-sigma factor AsiA. Mol Microbiol. 52 (4):1013-28.
  • Recchi C, Sclavi B, Rauzier J, Gicquel B, Reyrat JM. (2003) Mycobacterium tuberculosis Rv1395 is a class III transcriptional regulator of the AraC family involved in cytochrome P450 regulation. J Biol Chem. 278 (36) : 33763-73.
  • Sclavi, B ., Sullivan, M., Chance, M.R., Brenowitz, M., Woodson, S.A. (1998) RNA Folding at Millisecond Intervals by Synchrotron Hydroxyl Radical Footprinting. Science, 279, 1940-1943.
  • Sclavi, B ., Woodson, S., Sullivan, M., Chance, M., Brenowitz, M., (1997). Time-resolved synchrotron x-ray footprinting, a new approach to the study of nucleic acid structure and function: Application to protein-DNA interactions and RNA folding. Journal of Molecular Biology, 266, 144-159.
  • Chance, M.R., Miller, L., Fischetti, R., Scheuring, E., Huang, W.-X, Sclavi, B., Hai, Y., Sullivan, M., (1996) Global Mapping of Structural Solutions Provided by the Extended X-ray Absorption Fine Structure ad initio code FEFF 6.01: Structure of the Cryogenic Photoproduct of the Myoglobin-Carbon Monoxide Complex. Biochemistry, 35 (28), 9014-23.
  • Sclavi, B ., Peticolas, W.L., Powell, J.W., (1994) Fractal-like Patterns in DNA Films, B form at 0% Relative Humidity, and Heteronomous DNA: an IR Study. Biopolymers, 34 (8), p.1105-13.
  • Lee, S.A., Sclavi, B., Powell, J.W., Williamson III, W., Rupprecht, A., (1993) Vibrational Dynamics of Wet-spun films of the NaDNA-Netropsin Complex: A Raman and Infrared Study.Physical Review E, 48(3), p.2240-45.

Invited publications and reviews:

  • Sclavi B. (2008) Time-resolved footprinting for the study of the structural dynamics of DNA-protein interactions. Biochem Soc Trans. 2008 Aug; 36( Pt 4): 745-8.
  • Sclavi, B. (2008) Opening the DNA at the promoter; the energetic challenge. RNA Polymerases as molecular motors (Buc, H., Strick, T., eds) Royal Society of Chemistry Book Publishing, (in press).
  • Sclavi, B ., Roux, P., Buc, H. (2000) Kinetic analysis of enzyme-template interactions. Nucleotide incorporation by DNA-dependent RNA and DNA polymerases. DNA-Protein Interactions. Buckle, M and Travers, A. eds. Oxford University Press, Oxford, UK. p. 239-256.
  • Ralston, C.Y., Sclavi, B., Sullivan, M., Deras, M.L., Woodson, S.A., Chance, M.R , Brenowitz, M. (2000) Time-resolved synchrotron X-ray footprinting and its applications to RNA folding. Methods in Enzymology, 317, 353-368.
  • Ralston, C.Y., Sclavi, B., Brenowitz, M., Sullivan, M., Chance, M.R. (1999) The early folding intermediates of the Tetrahymena ribozyme are kinetically trapped. Journal of Biomolecular Structure and Dynamics, Conversation 11, Issue #2, Proceedings of the eleventh conversation. p. 195-200.
  • Sclavi, B ., Woodson, S. A., Sullivan, M., Chance, M. R. and Brenowitz, M. (1998). Following the Folding of RNA with Time-resolved Synchrotron X-Ray Footprinting. Methods in Enzymology, 295, 379-402.
  • Chance, MR., Sclavi, B, Woodson., S.A & Brenowitz, M. (1997). Examining the conformational dynamics of macromolecules with time-resolved synchrotron X-ray footprinting. Structure, 5, 865-869.



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