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Nanobio group
Institute of Condensed Matter and Nanotechnology (IMCN) • News NEWS • 2 November 2011. Welcome to Dr. Sofiane El Kirat Chatel who is joining the group. He will combine his skills in molecular and cell biology with AFM techniques to decipher the molecular bases of candida-macrophage interactions. • 2 August 2011. New paper in Trends in Cell Biology : Atomic force microscopy (AFM) allows researchers to image and manipulate cells at single-molecule resolution. In this issue, Müller and Dufrêne describe the basic principles of AFM, the advantages and limitations of the technique, and its recent application in investigating cell biological properties of the cell surface. • 14 June 2011. New book just published "Life at the Nanoscale: Atomic Force Microscopy of Live Cells". Life at the Nanoscale provides a state-of-the-art overview about how atomic force microscopy (AFM) can be used to image living cells, to probe their attachment to substrates or to other cells, to measure their mechanical properties, and to assess the forces in single-molecule interactions. Prof. Andreas Engel - Case Western Reserve University, USA. Any biologist considering the use of AFM in their own research is certain to find inspiration in this unique resource. Dr. Daniel Evanko - Chief Editor, Nature Methods. • 8 June 2011. New Dispatch paper in Current Biology: Force Generation: ATP-Powered Proteasomes Pull the Rope. • 31 May 2011. Congratulations to David Alsteens, finalist of the DSM Science & Technology Awards 2011. • 18 April 2011. New paper in ACS Chemical Biology. Although much is known about the structure and biosynthesis of teichoic acids (TAs), details of their spatial organization are poorly understood. Using a powerful combination of single-molecule atomic force microscopy and fluorescence microscopy, Andre et al. define the distribution of TAs in relation with their physiological roles (Highlighted in the editorial & in Biopolymers). • 14 March 2011. Welcome to Dr. Audrey Beaussart who is joining the group for two years. She will be developing advanced force nanoscopy tools for understanding the molecular mechanisms of microbial cell adhesion. • 18 February 2011. Congratulations to David Alsteens for successful completion of his Ph.D. thesis entitled "Nanomechanics of the yeast cell wall". Members of the jury: Drs Etienne Dague, Pascal Hols, Patrice Soumillion, Jean-François Gohy and Yves Dufrêne. • 31 January 2011. New Commentary in Nature Methods on how to understand living forces. To date, nearly all single-molecule force measurements have been conducted in vitro where the system under study can be tightly controlled. Müller and colleagues argue that despite the extreme challenges involved, it is imperative that more of these experiments be moved into living cells where the biological molecules under investigation can operate under native conditions. They discuss five challenges that must be overcome to make this important move. • 16 December 2010. Congratulations to Guillaume Andre for successful completion of his Ph.D. thesis entitled "The cell wall of lactic bacteria: a nanoscale view". Members of the jury: Drs Pierre-Emmanuel Milhiet, Joseph Vanderleyden, Pascal Hols, Patrice Soumillion, Jacques Mahillon and Yves Dufrêne. • 8 November 2010. Congratulations to David Alsteens and to our collaborator Prof. Lipke (Brooklyn College of City University of New York) for their publication in the Proc. Natl. Acad. Sci. USA entitled "Force-induced formation and propagation of adhesion nanodomains in living fungal cells". Alsteens et al. use single-molecule atomic force microscopy to demonstrate that mechanical stimuli can trigger adhesion nanodomains in fungal cells. The results suggest that the force-induced clustering of adhesins may be a general mechanism for activating cell adhesion in microbial pathogens and open up exicting prospects for fighting fungal infections via the design of anti-adhesion molecules (Highlights in PNAS, Le Soir • 12 October 2010. A vues d'oeil: révéler les secrets de l’infiniment petit (Louvain, octobre - novembre 2010 • 28 September 2010. Together with Prof. Jürgen Heinisch, we present a new method integrating the modern tools of molecular genetics (protein design in live cells) with the power of atomic force microscopy techniques (single-molecule manipulation on live cells) to measure cell wall thickness in a living cell. • 1 September 2010. FNRS news • 1 September 2010. We publish 2 reviews (+ 2 covers) in Trends Microbiol. • 10 August 2010. New integrated platform combining an AFM (BioScope Catalyst from Veeco) • 24 June 2010. Research Highlight in Nature: Imaging - Cell wall secrets. Yves Dufrêne at the Catholic University of Louvain in Belgium and his colleagues used atomic force microscopy to capture nanometre-scale images of the surface of Lactococcus lactis cells. The researchers say that their method could be used to help visualize peptidoglycan–drug interactions in other bacteria. • 15 June 2010. Congratulations to Guillaume Andre and to our collaborators Prof. Pascal Hols (ISV-UCL) and Dr. Saulius Kulakauskas (INRA) for their publication in Nat. Commun. “Imaging the nanoscale organization of peptidoglycan in living Lactococcus lactis cells”. The spatial organization of petidoglycan, the major constituent of bacterial cell walls, is an important but unsolved issue. Andre et al use atomic force microscopy to reveal the underlying cell-wall structure of mutant Lactococcus lactis. The images show dividing bacteria with periodic peptidoglycan bands running parallel to the short axis of the cell. • 14 June 2010. Together with our collaborator Prof. Jürgen Heinisch, we publish a paper in PLoS ONE entitled "Single-molecule atomic force microscopy reveals clustering of the yeast plasma-membrane sensor Wsc1". The lateral organization of the plasma membrane in microdomains is an important, yet largely unsolved problem in cell biology. Here we demonstrate the ability of AFM to resolve the clustering of a transmembrane protein, the cell integrity sensor Wsc1, in living Saccharomyces cerevisiae cells. • 26 October 2009. Our review first published in Nat. Nanotechnol. (3, 2008, 261-269) is now included in the new book NANOSCIENCE AND TECHNOLOGY, A Collection of Reviews from Nature Journals edited by Peter Rodgers (NaturePublishing Group). • 16 October 2009. Research Highlight in Nature Reviews Microbiology, Fungal physiology: Stressed fungi are not highly sprung. Saccharomyces cerevisiae maintains cellular integrity in the presence of cell wall stress by upregulating cell wall-remodelling pathways. Such stresses are detected by a group of five transmembrane sensor proteins, Wsc1–Wsc3, Mid2 and Mtl2. Dupres et al. used atomic force microscopy (AFM) to show that Wsc1 behaves like a nanospring that is capable of resisting high mechanical force in vivo. • 9 October 2009. Science editors'choice, Biophysics: Embedded Sensors. Drugs used in the treatment of fungal infections are often directed against the protective fungal cell wall. Hence, a better understanding of how cell wall integrity is maintained under dynamic and stressful conditions has pharmaceutical implications. Dupres et al. have used atomic force microscopy (AFM) to characterize the response of the yeast plasma membrane protein Wsc1 to mechanical stress. • 10 December 2008. Jacob Israelachvili (UCSB) and Yves Dufrêne are invited to talk at the Kyoto University meeting ”Frontiers of Colloid and Interface Science”.
The Dufrêne lab studies the nanoscale surface architecture, properties and interactions of microbial cells, including pathogens, using atomic force microscopy (AFM) techniques. The strategy involves developing advanced AFM methods (cell preparation and tip functionalization, high-resolution imaging of live cells, single-molecule force spectroscopy and recognition imaging) and combining these nanotools with fluorescence, genetics and cell biology approaches to address the cell surface.
CURRENT COLLABORATIONS
A. Gillis, V. Dupres, G. Delestrait, J. Mahillon, Y.F. Dufrêne, Nanoscale imaging of Bacillus thuringiensis flagella using atomic force microscopy. Nanoscale, (2012), in press. P. Hinterdorfer, M.F. Garcia-Parajo, Y.F. Dufrêne, Single-molecule imaging of cell surfaces using near-field nanoscopy. Acc. Chem. Res., (2012), in press. P. Tripathi, V. Dupres, A. Beaussart, S. Lebeer, I.J.J. Claes, J. Vanderleyden and Y.F. Dufrêne, Deciphering the nanometer-scale organization and assembly of Lactobacillus rhamnosus GG Pili using Atomic Force Microscopy. Langmuir, 28 (2012), 2211-2216. P.N. Lipke, M.C. Garcia, D. Alsteens, C.B. Ramsook, S.A. Klotz and Y.F. Dufrêne, Strengthening relationships: amyloids create adhesion nanodomains in yeasts. Trends Microbiol., 20 (2012), 59-65. V. Dupres, J.J. Heinisch, Y.F. Dufrêne, Atomic force microscopy demonstrates that disulfide bridges are required for clustering of the yeast cell wall integrity sensor wsc1. Langmuir, 27 (2011), 15129-15134. D.J. Müller, Y.F. Dufrêne, Atomic force microscopy: a nanoscopic window on the cell surface. Trends Cell Biol., 21 (2011), 461-469. Y.F. Dufrêne, D.J. Müller, Force generation: ATP-powered proteasomes pull the rope. Curr. Biol., 21 (2011), R427-R430. G. Andre, M. Deghorain, P.A. Bron, I.I. van Swam, M. Kleerebezem, P. Hols and Y.F. Dufrêne, Fluorescence and atomic force microscopy imaging of wall teichoic acids in Lactobacillus plantarum. ACS Chem. Biol., 6 (2011), 366-376 (paper highlighted in the editorial & in Biopolymers). M. Ouberai, F.El Garch, A. Bussiere, M. Riou, D. Alsteens, L. Lins, I. Baussanne, Y.F. Dufrêne, R. Brasseur, J.L. Decout, M.P. Mingeot-Leclercq, The Pseudomonas aeruginosa membranes: A target for a new amphiphilic aminoglycoside derivative ? Biochim. Biophys. Acta - Biomembr., 1808 (2011), 1716-1727. A. Itkin, V. Dupres, Y.F. Dufrêne, B. Bechinger, J.M. Ruysschaert, V. Raussens, Calcium ions promote formation of amyloid beta-peptide (1-40) oligomers causally implicated in neuronal toxicity of Alzheimer’s disease. PLoS ONE, 6 (2011), e18250. D.J. Müller, Y.F. Dufrêne, Force nanoscopy of living cells. Curr. Biol., 21 (2011), R212-R216. C. Acevedo-Vélez, G. Andre, Y.F. Dufrêne, S.H. Gellman, N.L. Abbott, Single-molecule force spectroscopy of beta-peptides that display well-defined three-dimensional chemical patterns. J. Am. Chem. Soc., 133 (2011), 3981-3988. M.C. Garcia, J.T. Lee, C.B. Ramsook, D. Alsteens, Y.F. Dufrêne, P.N. Lipke, A role for amyloid in cell aggregation and biofilm formation. PLoS ONE, 6 (2011), e17632. D. Alsteens, V. Dupres, G. Andre, Y. F. Dufrêne, Frontiers in microbial nanoscopy. Nanomedicine, 6 (2011), 395-403. Y.F. Dufrêne, E. Evans, A. Engel, J. Helenius, H.E. Gaub, D.J. Müller, Five challenges to bringing single-molecule force spectroscopy into living cells. Nat. Methods, 8 (2011), 123-127. D. Alsteens, M.C. Garcia, P.N. Lipke, Y.F. Dufrêne, Force-induced formation and propagation of adhesion nanodomains in living fungal cells. Proc. Natl. Acad. Sci. USA, 107 (2010), 20744-20749. (paper highlighted in PNAS). V. Dupres, Y.F. Dufrêne, J.J. Heinsich, Measuring cell wall thickness in living yeast cells using single molecular rulers. ACSNano, 4 (2010), 5498-5504. Y.F. Dufrêne, Atomic force microscopy of fungal cell walls: an update. Yeast, 27 (2010), 465-471. J.J. Heinisch, Y.F. Dufrêne, Is there anyone out there? Single-molecule atomic force microscopy meets yeast genetics to study sensor functions. Integr. Biol., 2 (2010), 408-415. V. Dupres, D. Alsteens, G. Andre, Y.F. Dufrêne, Microbial nanoscopy: a closer look at microbial cell surfaces. Trends Microbiol., 18 (2010), 397-405. G. Andre, S. Kulakauskas, M.P. Chapot-Chartier, B. Navet, M. Deghorain, E. Bernard, P. Hols, Y.F. Dufrêne, Imaging the nanoscale organization of peptidoglycan in living Lactococcus lactis cells. Nat. Commun., 1:27 (2010) (paper highlighted in Nature, Imaging: Cell-wall secrets, Vol 465, Page 989, 24 June 2010). J.J. Heinisch, V. Dupres, S. Wilk, A. Jendretzki, Y.F. Dufrêne, Single-molecule atomic force microscopy reveals clustering of the yeast plasma-membrane sensor Wsc1. PLoS ONE, 5 (2010), e11104. J.J. Heinisch, V. Dupres, D. Alsteens, Y.F. Dufrêne, Measurement of the mechanical behavior of yeast membrane sensors using single-molecule atomic force microscopy. Nat. Protoc., 5 (2010), 670-673. K. El Kirat, S. Morandat, Y.F. Dufrêne, Nanoscale analysis of supported lipid bilayers using atomic force microscopy. Biochim. Biophys. Acta- Biomemb., 1798 (2010), 750-765. S. Scheuring, Y.F. Dufrêne, Atomic force microscopy: probing the spatial organization,interactions and elasticity of microbial cell envelopes at molecular resolution. Mol. Microbiol., 75 (2010), 1327-1336. M.P. Chapot-Chartier, E. Vinogradov, I. Sadovskaya, G. Andre, M.Y. Mistou, P. Trieu-Cuot, S. Furlan, E. Bidnenko, P. Courtin, C. Péchou, P. Hols, Y.F. Dufrêne, S. Kulakauskas, Cell surface of Lactococcus lactis Is covered by a protective polysaccharide pellicle, J. Biol. Chem., 285 (2010), 10464-10471. O. Domenech, Y.F. Dufrene, F. Van Bambeke, P.M. Tukens, M.P. Mingeot-Leclercq, Interactions of oritavancin, a new semi-synthetic lipoglycopeptide, with lipids extracted from Staphylococcus aureus, Biochim. Biophys. Acta, 1798 (2010) 1876-1885. Y.F. Dufrêne, Atomic force microscopy: a powerful molecular toolkit in nanoproteomics. Proteomics, 9 (2009), 5400-5405. D. Alsteens, E. Pesavento, G. Cheuvart, V. Dupres, H. Trabelsi, P. Soumillion, Y.F. Dufrêne, Controlled manipulation of bacteriophages using single-virus force spectroscopy. ACSNano, 3 (2009), 3063-3068. V. Dupres, D. Alsteens, S. Wilk, B. Hansen, J. J. Heinisch, Y. F. Dufrêne, The yeast Wsc1 cell surface sensor behaves like a nanospring in vivo. Nat. Chem. Biol., 5 (2009), 857-862 (Science editors'choice + highlight in the Editorial of the issue and in Nat. Rev. Microbiol.). V. Dupres, D. Alsteens, K. Pauwels, Y.F. Dufrêne, In vivo imaging of S-layer nanoarrays on Corynebacterium glutamicum. Langmuir, 25 (2009), 9653-9655. D. Alsteens, V. Dupres, S.A. Klotz, N.K. Gaur, P.N. Lipke, Y.F. Dufrêne, Unfolding individual Als5p adhesion proteins on live cells. ACSNano, 3 (2009), 1677-1682. V. Dupres, C. Verbelen, D. Raze, F. Lafont, Y.F. Dufrêne, Force spectroscopy of the interaction between mycobacterial adhesins and heparan sulphate proteoglycan receptors. ChemPhysChem., 10 (2009), 1672-1675. V. Dupres, D. Alsteens, G. Andre, C. Verbelen, Y.F. Dufrêne, Fishing single molecules on live cells. Nano Today, 4 (2009), 262-268. G. Francius, D. Alsteens, V. Dupres, S. Lebeer, S. De Keersmaecker, J. Vanderleyden, H.J. Gruber, Y.F. Dufrêne, Stretching polysaccharides on live cells using single molecule force spectroscopy. Nat. Protoc., 4 (2009), 939-946. D.J. Müller, J. Helenius, D. Alsteens, Y.F. Dufrêne, Force probing surfaces of living cells to molecular resolution. Nat. Chem. Biol., 5 (2009), 383-390. D.J. Müller, M. Krieg, D. Alsteens, Y.F. Dufrêne, New frontiers in atomic force microscopy: analyzing interactions from single-molecules to cells. Curr. Opin. Biotechnol., 20 (2009), 4-13. C. Verbelen, N. Christiaens, D. Alsteens, V. Dupres, A.R. Baulard, Y.F. Dufrêne, Molecular mapping of Lipoarabinomannans on Mycobacteria. Langmuir, 25 (2009), 4324-4327. C. Verbelen, Y.F. Dufrêne, Direct measurement of Mycobacterium-fibronectin interactions. Integr. Biol., 1 (2009), 296-300. D. Alsteens, E. Dague, C. Verbelen, G. Andre, V. Dupres, Y.F. Dufrêne, Nanoscale imaging of microbial pathogens using atomic force microscopy. WIREs Nanomed. Nanobiotechnol., 1 (2009), 168-180. E. Cerf, R. Sarroukh, S. Tamamizu-Kato, L. Breydo, S. Derclaye, Y.F. Dufrêne, V. Narayanaswami, E. Goormaghtigh, J.M. Ruysschaert, J.M. and V. Raussens, Antiparallel beta-sheet: a signature structure of the oligomeric amyloid beta-peptide, Biochem. J., 421 (2009), 415-423. M. Eeman, G. Francius, Y.F. Dufrêne, K. Nott, M. Paquot and M. Deleu, Effect of cholesterol and fatty acids on the molecular interactions of fengycin with Stratum Corneum mimicking lipid monolayers, Langmuir, 25 (2009), 3029-3039. S.R. Clarke, G. Andre, E.J. Walsh, Y.F. Dufrêne, T.J. Foster, S.J. Foster, Iron-regulated surface determinant protein A mediates adhesion of Staphylococcus aureus to human corneocyte envelope proteins, Infect. Immun., 77 (2009), 2408-2416. G. Francius, O. Domenech, M.P. Mingeot-Leclercq, Y.F. Dufrêne, Direct observation of Staphylococcus aureus cell wall digestion by lysostaphin. J. Bacteriol., 190 (2008), 7904-7909. C. Verbelen, V. Dupres, D. Raze, C. Bompard, C. Locht, Y.F. Dufrêne, Interaction of the mycobacterial heparin-binding hemagglutinin with actin, as evidenced by single-molecule force spectroscopy. J. Bacteriol., 190 (2008), 7614-7620. G. Andre, K. Leenhouts, P. Hols, Y.F. Dufrêne, Detection and localization of single LysM-peptidoglycan interactions. J. Bacteriol., 190 (2008), 7079-7086. M.-P. Mingeot-Leclercq, M. Deleu, R. Brasseur, Y.F. Dufrêne, Atomic force microscopy of supported lipid bilayers, Nat. Protocols, 3 (2008), 1654-1659. G. Francius, S. Lebeer, D. Alsteens, L. Wilding, H. J. Gruber, P. Hols, S. De Keersmaecker, J. Vanderleyden, Y. Dufrêne, Detection, localization, and conformational analysis of single polysaccharide molecules on live bacteria, ACSNano, 2 (2008), 1921-1929 (paper highlighted in the Editorial of the issue). G. Francius, S. Dufour, M. Deleu, M. Paquot, M.-P. Mingeot-Leclercq, Y.F. Dufrêne, Nanoscale membrane activity of surfactins: influence of geometry, charge and hydrophobicity, Biochim. Biophys. Acta, 1778 (2008), 2058-2068. Y.F. Dufrêne, Towards nanomicrobiology using atomic force microscopy, Nat. Rev. Microbiol., 6 (2008), 674-680. D. Alsteens, V. Dupres, K. Mc Evoy, L. Wildling, H.J. Gruber, Y.F. Dufrêne, Structure, cell wall elasticity and polysaccharide properties of living yeast cells, as probed by AFM, Nanotechnology, 19 (2008), 384005 (9pp). Y.F. Dufrêne, Atomic force microscopy and chemical force microscopy of microbial cells. Nat. Protoc., 3 (2008), 1132-1138. D.J. Müller, Y.F. Dufrêne, Atomic force microscopy as a multifunctional molecular toolbox in nanobiotechnology, Nat. Nanotechnol., 3 (2008), 261-269 (paper highlighted in the Editorial of the issue and published in the book Nanoscience and Technology, a Collection of Reviews from Nature Journals edited by Peter Rodgers). G. Francius, B. Tesson, E. Dague, V. Martin-Jézéquel, Y.F. Dufrêne, Nanostructure and nanomechanics of live Phaeodactylum tricornutum morphotypes, Environ. Microbiol., 10 (2008), 1344-1356. R. Brasseur, M. Deleu, M.-P. Mingeot-Leclercq, G. Francius, Y.F. Dufrêne, Probing peptide-membrane interactions using AFM, Surf. Interface Anal., 40 (2008), 151-156. Y.F. Dufrêne, P. Hinterdorfer, Recent progress in AFM molecular recognition studies, Pflüg. Arch. Eur. J. Phy., 256 (2008), 237-245. E. Dague, A. Delcorte, J.-P. Latgé, Y.F. Dufrêne, Combined use of atomic force microscopy, X-ray photoelectron spectroscopy, and secondary ion mass spectrometry for cell surface analysis, Langmuir, 24 (2008), 2955-2959 (paper highlighted in Biophotonics International, Apr 08 issue). D. Alsteens, C. Verbelen, E. Dague, D. Raze, A.R. Baulard, Y.F. Dufrêne, Organization of the mycobacterial cell wall: a nanoscale view, Pflüg. Arch. Eur. J. Phy., 456 (2008), 117-125. Highlight - Hot Article - Y.F. Dufrêne, AFM for nanoscale microbe analysis, Analyst, 133 (2008), 297-301. K. El Kirat, V. Duprès, Y.F. Dufrêne, Blistering of supported lipid membranes induced by phospholipase D, as observed by real-time atomic force microscopy, Biochim. Biophys. Acta, 1778 (2008), 276-282. E. Dague, D. Alsteens, J.-P. Latgé, Y.F. Dufrêne, High-resolution cell surface dynamics of germinating Aspergillus fumigatus conidia, Biophys. J., 94 (2008), 656-660 (paper highlighted in Biophotonics International, Dec 07 issue). M. Eeman, L. Pegado, Y.F. Dufrêne, M. Paquot, M. Deleu, Influence of environmental conditions on the interfacial organisation of fengycin, a bioactive lipopeptide produced by Bacillus subtilis, J. Colloid Interface Sc., 329 (2008), 253-264. H. Bensikaddour, N. Fa, I. Burton, M. Deleu, L. Lins, A. Schanck, R. Brasseur, Y.F. Dufrêne, E. Goormaghtigh, M.P. Mingeot-Leclercq, Characterization of the interactions between fluoroquinolone antibiotics and lipids: A multitechnique approach, Biophys J., 94 (2008), 3035-3046. G. Andre, R. Brasseur, Y.F. Dufrêne, Probing the interaction forces between hydrophobic peptides and supported lipid bilayers using AFM, J. Mol. Recognit., 20 (2007), 538-545. C. Verbelen, H.J. Gruber, Y.F. Dufrêne, The NTA-His6 bond is strong enough for AFM single-molecular recognition studies, J. Mol. Recognit., 20 (2007), 490-494. C. Verbelen, D. Raze, F. Dewitte, C. Locht, Y.F. Dufrêne, Single-molecule force spectroscopy of mycobacterial adhesin-adhesin interactions, J. Bacteriol., 189 (2007), 8801-8806. D. Alsteens, E., Dague, P.G., Rouxhet, A.R., Baulard, Y.F. Dufrêne, Direct measurement of hydrophobic forces on cell surfaces using AFM, Langmuir, 23 (2007), 11977-11979. E. Dague, D. Alsteens, J.P. Latgé, C. Verbelen, D. Raze, A.R. Baulard, Y.F. Dufrêne, Chemical force microscopy of single live cells, Nano Lett., 7 (2007), 3026-3030 (paper highlighted in Nature Methods). R. Brasseur, N. Braun, K. El Kirat, M. Deleu, M.P. Mingeot-Leclercq, Y.F. Dufrêne, The biologically important surfactin lipopeptide induces nanoripples in supported lipid bilayers, Langmuir, 23 (2007), 9769-9772. D. Alsteens, E. Dague, C. Verbelen, G. Andre, G. Francius, Y.F. Dufrêne, Nanomicrobiology, Nanoscale Res. Lett., 2 (2007), 365-372. C. Verbelen, J. Antikainen, T.K. Korhonen, Y.F. Dufrêne, Exploring the molecular forces within and between CbsA S-layer proteins using single molecule force spectroscopy, Ultramicroscopy, 107 (2007), 1004-1011. E. Dague, Y. Gilbert, C. Verbelen, G. Andre, D. Alsteens, Y.F. Dufrêne, Towards a nanoscale view of fungal surfaces, Yeast, 24 (2007), 229-237. Y. Gilbert, M. Deghorain, L. Wang, B. Xu, P.D. Pollheimer, H.J. Gruber, J. Errington, B. Hallet, X. Haulot, C. Verbelen, P. Hols, Y.F. Dufrêne, Single-molecule force spectroscopy and imaging of the Vancomycin/D-Ala-D-Ala interaction, Nano Lett., 7 (2007), 796-801 (paper highlighted in Nature Rev. Microbiol.). V. Dupres, C. Verbelen, Y.F. Dufrêne, Probing molecular recognition sites on biosurfaces using AFM, Biomaterials, 28 (2007), 2393-2402. F. Gaboriaud, Y.F. Dufrêne, Atomic force microscopy of microbial cells: Application to nanomechanical properties, surface forces and molecular recognition forces, Colloids and Surfaces B: Biointerfaces, 54 (2007), 10-19. P. Parot, Y.F. Dufrêne, P. Hinterdorfer, C. Le Grimellec, D. Navajas, J.L. Pellequer, S. Scheuring, Past, present and future of atomic force microscopy in life sciences and medicine, J. Mol. Recognit., 20 (2007), 418-431. O. Bouffioux, A. Berquand, M. Eeman, M. Paquot, Y.F. Dufrêne, R. Brasseur, M. Deleu, Molecular organization of surfactin-phospholipid monolayers : effect of phospholipid chain length and polar head, Biochim. Biophys. Acta, 1768 (2007), 1758-1768. Y.F. Dufrêne, Nanoscale exploration of microbial surfaces using the atomic force microscope, Future Microbiol., 1 (2006), 387-396. Invited News & Views. Y. F. Dufrêne, Atomic force microscopy of membrane proteins separating two aqueous compartments, Nat. Methods, 3 (2006), 973-975. C. Verbelen, V. Dupres, F.D. Menozzi, D. Raze, A. Baulard, P. Hols, Y.F. Dufrêne, Ethambutol-induced alterations in Mycobacterium bovis BCG imaged by atomic force microscopy, FEMS Microbiol. Lett., 264 (2006), 192-197. P. Hinterdorfer, Y.F. Dufrêne, Detection and localization of single molecular recognition events using atomic force microscopy, Nat. Methods, 3 (2006), 347-355. M. Eeman, A. Berquand, Y.F. Dufrêne, M. Paquot, S. Dufour, M. Deleu, Penetration of surfactin into phospholipid monolayers: nanoscale interfacial organization, Langmuir, 22 (2006), 11337-11345. M. Brinkmann, R. Blossey, L. Marcon, D. Stiévenard, Y.F. Dufrêne, O. Melnyk, Fluidics of a nanogap, Langmuir, 22 (2006), 9784-9788. K. El Kirat, Y.F. Dufrene, L. Lins, R. Brasseur, The SIV tilted peptide induces cylindrical reverse micelles in supported lipid bilayers, Biochemistry, 45 (2006), 9336-9341. V. Dupres, F.D. Menozzi, C. Locht, B.H. Clare, N.L. Abbott, S. Cuenot, C. Bompard, D. Raze, Y.F. Dufrêne, Nanoscale mapping and functional analysis of individual adhesins on living bacteria, Nat. Methods, 2 (2005), 515 - 520 (paper highlighted in Nature Rev. Microbiol. and selected for the MIT OpenCourseWare program). A. Berquand, N. Xia, D.G. Castner, B.H. Clare, N.L. Abbott, V. Dupres, Y. Adriaensen, Y.F. Dufrêne, Antigen binding forces of single antilysozyme Fv fragments explored by atomic force microscopy, Langmuir, 21 (2005), 5517 -5523. Invited Review. K. El Kirat, I. Burton, V. Dupres, Y.F. Dufrêne, Sample preparation procedures for biological atomic force microscopy, J. Microsc., 218 (2005), 199-207. Invited. K. El Kirat, L. Lins, R. Brasseur, Y.F. Dufrêne, Nanoscale modification of supported lipid membranes: synergetic effect of Phospholipase D and viral fusion peptides, J. Biomed. Nanotechnol., 1 (2005), 39-46. K. El Kirat, L. Lins, R. Brasseur, Y.F. Dufrêne, Fusogenic tilted peptides induce nanoscale holes in supported phosphatidylcholine bilayers, Langmuir, 21 (2005), 3116-3121. M. Eeman, M. Deleu, M. Paquot, P. Thonart, Y. F. Dufrêne, Nanoscale properties of mixed fengycin/ceramide monolayers explored using atomic force microscopy, Langmuir, 21 (2005), 2505 - 2511. A. Berquand, N. Fa, Y.F. Dufrêne, M.P. Mingeot-Leclercq, Interaction of the macrolide antibiotic azithromycin with lipid bilayers : effect on membrane organization, fluidity, and permeability, Pharmaceutical research, 22 (2005), 465-475 F.A. Denis, P. Hanarp, D.S. Sutherland, Y.F. Dufrêne, Nanoscale chemical patterns fabricated by using colloidal lithography and self-assembled monolayers, Langmuir, 20 (2004), 9335 -9339. A. Berquand, M.-P. Mingeot-Leclercq, Y.F. Dufrêne, Real-time imaging of drug-membrane interactions by atomic force microscopy, Biochim. Biophys. Acta - Biomembranes, 1664 (2004), 198-205. Y.F. Dufrêne, Using nanotechniques to explore microbial surfaces, Nat. Rev. Microbiol., 2 (2004), 451-460 (paper highlighted in Nature). Guest commentary. Y.F. Dufrêne, Refining our perception of bacterial surfaces with the atomic force microscope, J. Bacteriol., 186 (2004), 3283- 3285. C.C. Dupont-Gillain, E. Pamula, F.A. Denis, V.M. De Cupere, Y.F. Dufrêne, P.G. Rouxhet, Controlling the supramolecular organisation of adsorbed collagen layers, J. Mater. Sci. : Mater. Med., 15 (2004), 347-353. E. Pamula, V. De Cupere, Y.F. Dufrêne, P.G. Rouxhet, Nanoscale organization of adsorbed collagen : influence of substrate hydrophobicity and adsorption time, J. Colloid Interface Sci., 271 (2004), 80-91. A. Touhami, B. Hoffmann, A. Vasella, F.A. Denis, Y.F. Dufrêne, Aggregation of yeast cells : direct measurement of discrete lectin-carbohydrate interactions, Microbiol.-SGM, 149 (2003), 2873-2878. Y.F. Dufrêne, Atomic force microscopy provides a new means for looking at microbial cells, ASM News, 69 (2003), 438-442. Y.F. Dufrêne, Use of functionalized atomic force microscopy probes in biophysics, Microscopy and Analysis, 85 (2003), 13-15. Y.F. Dufrêne, Recent progress in the application of atomic force microscopy imaging and force spectroscopy to microbiology, Curr. Opin. Microbiol., 6 (2003), 317- 323. A. Touhami, B. Nysten, Y.F. Dufrêne, Nanoscale mapping of the elasticity of microbial cells by atomic force microscopy, Langmuir, 19 (2003), 4539 - 4543. P.A. Gerin, Y.F. Dufrêne, Native surface structure of natural soil particles determined by combining atomic force microscopy and X-ray photoelectron spectroscopy, Colloids Surfaces B: Biointerfaces, 28 (2003), 295-305. Invited. A. Touhami, B. Hoffmann, A. Vasella, F.A. Denis, Y.F. Dufrêne, Probing specific lectin-carbohydrate interactions using atomic force microscopy imaging and force measurements, Langmuir, 19 (2003), 1745-1751. F. Ahimou, A. Touhami, Y.F. Dufrêne, Real-time imaging of the surface topography of living yeast cells by atomic force microscopy, Yeast, 20 (2003), 25-30. D. Tyteca, A. Schanck, Y.F. Dufrêne, M. Deleu, P.J. Courtoy, P.M. Tulkens, M.P. Mingeot-Leclercq, The macrolide antibiotic azithromycin interacts with lipids and affects membrane organization and fluidity : studies on Langmuir-Blodgett monolayers, liposomes and J774 macrophages, J. Membrane Biol., 192 (2003), 203-215. F.A. Denis, P. Hanarp, D.S. Sutherland, Y.F. Dufrêne, Fabrication of nanostructured polymer surfaces using colloidal lithography and spin-coating, Nano Lett., 2 (2002), 1419-1425. F. Ahimou, F.A. Denis, A. Touhami, Y.F. Dufrêne, Probing microbial cell surface charges by atomic force microscopy, Langmuir, 18 (2002), 9937-9941. Y.F. Dufrêne, Atomic force microscopy, a powerful tool in microbiology, J. Bacteriol., 184 (2002), 5205-5213. B.C. van der Aa, M. Asther, Y.F. Dufrêne, Surface properties of Aspergillus oryzae spores investigated by atomic force microscopy, Colloids Surfaces B: Biointerfaces, 24 (2002), 277-284. F.A. Denis, P. Hanarp, D.S. Sutherland, J. Gold, C. Mustin, P.G. Rouxhet, Y.F. Dufrêne, Protein adsorption on model surfaces with controlled nanotopography and chemistry, Langmuir, 18 (2002), 819-828. B.C. van der Aa, Y.F. Dufrêne, In situ characterization of bacterial extracellular polymeric substances by AFM, Colloid Surf. B-Biointerfaces, 23 (2002), 173-182. Y.F. Dufrêne, C.C. Dupont-Gillain, F.A. Denis, V.M. De Cupere, P.G. Rouxhet, Surfaces organiques, surfaces biologiques, Chimie Nouvelle, 79 (2002), 79-82. C.J.P. Boonaert, V. Toniazzo, Ch. Mustin, Y.F. Dufrêne, P.G. Rouxhet, Deformation of Lactococcus lactis surface in atomic force microscopy study, Colloid Surf. B-Biointerfaces, 23 (2002), 201-211. M. Deleu, K. Nott, R. Brasseur, P. Jacques, P. Thonart, Y.F. Dufrêne, Imaging mixed lipid monolayers by dynamic atomic force microscopy, Biochim. Biophys. Acta, 1513 (2001), 55-62. B.C. van der Aa, R.M. Michel, M. Asther, M.T. Zamora, P.G. Rouxhet, Y.F. Dufrêne, Stretching cell surface macromolecules by atomic force microscopy, Langmuir, 17 (2001), 3116-3119. Y.F. Dufrêne, Atomic force microscopy of microbial cells, Microscopy and Analysis, 70 (2001), 27-29. Y.F. Dufrêne, C.J.P. Boonaert, H.C. van der Mei, H.J. Busscher, P.G. Rouxhet, Probing molecular interactions and mechanical properties of microbial cell surfaces by atomic force microscopy, Ultramicroscopy, 86 (2001), 113-120. Y.F. Dufrêne, Application of atomic force microscopy to microbial surfaces : from reconstituted cell surface layers to living cells, Micron, 32 (2001), 153-165. C.J.P. Boonaert, Y.F. Dufrêne, S.R. Derclaye, P.G. Rouxhet, Adhesion of Lactococcus lactis to model substrata: direct study of the interface, Colloid Surf. B-Biointerfaces, 22 (2001), 171-182. Y.F. Dufrêne, Organisation des biosurfaces à l'échelle nanométrique, Chimie Nouvelle, 18 (2000), 3195-3200. Y.F. Dufrêne, G.U. Lee, Advances in the characterization of supported lipid films with the atomic force microscope, Biochim. Biophys. Acta, 1509 (2000), 14-41. G.U. Lee, S. Metzger, M. Natesan, C. Yanavich, Y.F. Dufrêne, Implementation of force differentiation in the immunoassay, Anal. Biochem., 287 (2000), 261-271. C.J.P. Boonaert, P.G. Rouxhet, Y.F. Dufrêne, Surface properties of microbial cells probed at the nanometer scale with atomic force microscopy, Surf. Interface Anal., 30 (2000), 32-35. H.C. van der Mei, H.J. Busscher, R. Bos, J. de Vries, C.J.P. Boonaert, Y.F. Dufrêne, Direct probing by atomic force microscopy of the cell surface softness of a fibrillated and non-fibrillated oral streptococcal strain, Biophys. J., 78 (2000), 2668-2674. Y.F. Dufrêne, Direct characterization of the physicochemical properties of fungal spores using functionalized AFM probes, Biophys. J., 78 (2000), 3286-3291. J. Schneider, Y.F. Dufrêne, W.R.Jr. Barger, G.U. Lee, Atomic force microscope image contrast mechanisms on supported lipid bilayers, Biophys. J., 79 (2000), 1107-1118. Y.F. Dufrêne, C.J.-P. Boonaert, P.G. Rouxhet, Surface analysis by X-ray photoelectron spectroscopy in the study of bioadhesion and biofilms, Method Enzymol., 310 (1999), 375-389. P.G. Rouxhet, J.L. Dewez, Th. Marchal, Ch. Dupont-Gillain, Y. Dufrêne, Protein adsorption, cell adhesion and polymer surfaces : molecular processes and experimental methods, Engineering of Biomaterials, 7-8 (1999), 4-7. M. Deleu, M. Paquot, P. Jacques, P. Thonart, Y. Adriaensen, Y.F. Dufrêne, Nanometer scale organization of mixed surfactin/phosphatidylcholine monolayers, Biophys. J., 77 (1999), 2304-2310. Y.F. Dufrêne, C.J.P. Boonaert, P.A. Gerin, M. Asther, P.G. Rouxhet, Direct probing of the surface ultrastructure and molecular interactions of dormant and germinating spores of Phanerochaete chrysosporium, J. Bacteriol., 181 (1999), 5350-5354. Y.F. Dufrêne, T.G. Marchal, P.G. Rouxhet, Influence of substratum surface properties on the organization of adsorbed collagen films: in situ characterization by atomic force microscopy, Langmuir, 15 (1999), 2871-2878. Y.F. Dufrêne, T.G. Marchal, P.G. Rouxhet, Probing the organization of adsorbed protein layers: complementarity of atomic force microscopy, X-ray photoelectron spectroscopy and radiolabeling, Appl. Surf. Sci., 144-145 (1999), 638-643. Invited. Y.F. Dufrêne, T. Boland, J.W. Schneider, W.R. Barger, G.U Lee, Characterization of the physical properties of model biomembranes at the nanometer scale with the atomic force microscope, Faraday Discuss., 111 (1998), 79-94. Y.F. Dufrêne, W.R. Barger, J.-B.D. Green, G.U Lee, Nanometer-scale surface properties of mixed phospholipid monolayers and bilayers, Langmuir, 13 (1997), 4779-4784. Y.F. Dufrêne, A. van der Wal, W. Norde, P.G. Rouxhet, X-ray photoelectron spectroscopy analysis of whole cells and isolated cell walls of Gram-positive bacteria: comparison with biochemical analysis, J. Bacteriol., 179 (1997), 1023-1028. R.J. Colton, D.R. Baselt, Y.F. Dufrêne, J.B.D. Green and G.U. Lee, Scanning probe microscopy, Curr. Opin. Chem. Biol., 1 (1997), 370-377. Y.F. Dufrêne, P.G. Rouxhet, X-ray photoelectron spectroscopy analysis of the surface composition of Azospirillum brasilense in relation to growth conditions, Colloids Surfaces B: Biointerfaces, 7 (1996), 271-279. Y.F. Dufrêne, C.J.-P. Boonaert, P.G. Rouxhet, Adhesion of Azospirillum brasilense: role of proteins at the cell-support interface, Colloids Surfaces B: Biointerfaces, 7 (1996), 113-128. Y.F. Dufrêne, V.B. Wiertz, P.G. Rouxhet, Adhesion of Azospirillum brasilense to polystyrene: influence of ionic strength through protein adsorption, Biofouling, 9 (1996), 307-315. Y.F. Dufrêne, P.G. Rouxhet, Surface composition, surface properties and adhesiveness of Azospirillum brasilense - variation during growth, Can. J. Microbiol., 42 (1996), 548-556. Y.F. Dufrêne, H. Vermeiren, J. Vanderleyden, P.G. Rouxhet, Direct evidence for the involvement of extracellular proteins in the adhesion of Azospirillum brasilense, Microbiol-UK, 142 (1996), 855-865. BOOK CHAPTERS A. Ebner, L. Chtcheglova, J. Tang, D. Alsteens, V. Dupres, Y.F. Dufrêne, P. Hinterdorfer, Recognition imaging using atomic force microscopy. In: P. Hinterdorfer, A. van Oijen (Editors), Handbook of Single-Molecule Biophysics, Springer-Verlag, New York Inc. (2009), ch. 18, 525-554. Y.F. Dufrêne, Atomic Force Microscopy Studies of Peptide–Membrane Interactions. In: M.A.R.B. Castanho (Editor), Membrane-active peptides: methods and results on structure and function, International University Line, La Jolla, California, USA (2009), ch. 13, 309-328. D. Alsteens, V. Dupres, E. Dague, Cl. Verbelen, G. Andre, G. Francius, Y.F. Dufrêne, Imaging chemical groups and molecular recognition sites on live cells using AFM. In: B. Bhushan, H. Fuchs (Editors), Applied scanning probe methods XII, Springer-Verlag, Berlin Heidelberg (2009), ch. 10, 33-48. D.P. Allison, Y.F. Dufrene, M.J. Doktycz, and M. Hildebrand, Biomineralization at the Nanoscale: Learning from Diatoms. In: B.P. Jena (Editor), Methods in Cell Biology, Elsevier Inc (2008), vol. 90, 59-84. C. Verbelen, G. Andre, X. Haulot, Y. Gilbert, D. Alsteens, E. Dague, Y.F. Dufrêne, Towards a Nanoscale View of Microbial Surfaces, Using the Atomic Force Microscope. In: B. Bhushan, H. Fuchs, M. Tomitori (Editors), Applied scanning probe methods IX, Springer-Verlag, Berlin Heidelberg (2008), ch. 17, 111-126. Y.F. Dufrêne, Atomic force microscopy. In: McGraw-Hill Encyclopedia of Science & Technology, 10th Edition, McGraw-Hill, New York (2007), vol 2, 375-377. Y.F. Dufrêne, Atomic Force Microscopy. In: C.A. Reddy, T.J. Beveridge, J.A. Breznak, G.A. Marzluf, T.M. Schmidt, L.R. Snyder (Editors), Methods for General and Molecular Microbiology, 3rd Edition, ASM Press, Washington DC (2007), ch. 6, 96-107. Y. F. Dufrêne, Properties of microbial cell surfaces examined by atomic force microscopy. In: B.P. Jena and J.K.H. Hörber (Editors), Force Microscopy : Applications in Biology and Medicine, John Wiley & Sons, New York (2006), 69-93. D.J. Müller, Y.F. Dufrêne, Microbial Surfaces Investigated Using Atomic Force Microscopy. In: T. Savidge, P. Charalabos (Editors), Microbial Imaging, Elsevier Ltd (2004), vol 34, 163-197. Y.F. Dufrêne, Atomic Force Microscopy Imaging and Force Spectroscopy of Microbial Cell Surfaces. In: J.A. Schwarz, C. Contescu, K. Putyera (Editors), Encyclopedia of Nanoscience and Nanotechnology, Marcel Dekker, Inc., New York (2004), 133-142. Y.F. Dufrêne, Advances in the Characterization of Microbial Cell Surfaces by Atomic Force Microscopy. In: S.G. Pandalai (Editor), Recent Developments in Bacteriology, Transworld Research Network, Trivandrum, 1 (2003), 45-58. P.G. Rouxhet, C.C. Dupont-Gillain, M.J. Genet, Y.F. Dufrêne, Use of X-ray Photoelectron Spectroscopy and Atomic Force Microscopy for Studying Interfaces in Biofilms. In: P. Lens, A.P. Moran, T. Mahony, P. Stoodley, V. O'Flaherty (Editors), Biofilms in Medicine, Industry and Environmental Biotechnology, IWA Publishing, London (2003), 259-284. Y.F. Dufrêne, C.J.P. Boonaert, P.G. Rouxhet, Role of proteins in the adhesion of Azospirillum brasilense to model substrata. In: J. Berthelin, P.M. Huang, J.M. Bollag, F. Andreux (Editors), Effect of Mineral-Organic-Microorganism Interactions on Soil and Freshwater Environments, Kluwer Academic / Plenum Publishers, New York (1999), 261-274. Y.F. Dufrêne, C.J.P. Boonaert, P.G. Rouxhet, Surface analysis by X-ray photoelectron spectroscopy in the study of bioadhesion and biofilms. In: R.J. Doyle (Editor), Method. Enzymol., Vol. 310, Biofilms, Academic Press (1999), 375-389. APPLICATION NOTE Y.F. Dufrêne, Drug interactions investigated using atomic force microscopy with functionalized tips, Veeco Application Note 110, 2007. V. Dupres, F.D. Menozzi, N.L. Abbott, Y.F. Dufrêne, AFM imaging and force spectroscopy of individual bacterial adhesins, Veeco Application Note 92, 2006. Y.F. Dufrêne, Atomic force microscopy of microbial cells, Veeco Application Note 50, 2001.
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