XX International Summer School Nicolás Cabrera BIOMOLECULES AND SINGLE MOLECULE TECHNIQUES. (21-26 July 2013)
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1 School scope and goals: XX International Summer School Nicolás Cabrera BIOMOLECULES AND SINGLE MOLECULE TECHNIQUES (21-26 July 2013) Most of what we know in chemistry and biology has been determined by bulk studies where billions of individual entities (molecules or molecular aggregates) are considered, providingaveraged results. The usual approach is to assume that all the molecules are indistinguishable when performing their task, although this is often not the case. Biochemical processes are likely to be highly asynchronous and intermediate states will be poorly populated. Moreover, some physical magnitudes such as forces or intermolecular distances are hardly accessible using bulk techniques. The development of single-molecule approaches opened the possibility of observing individual molecules and to measure properties that otherwise were impossible to obtain from an undifferentiated ensemble. The main goal of this school is to give an introduction to both theoretical and experimental single-molecule approaches to solve a number of biological problems. There will be dedicated sessions to atomic force microscopy, optical and magnetic tweezers, single-molecule fluorescence techniques as well as a full day dedicated to theoretical approaches to biology. Therefore, this summer school is intended for biologists, experimental and theoretical physicists willing to get a dive in the exciting field of single-molecule biophysics. School Topics: Atomic force microscopy Optical and magnetic tweezers Single-molecule fluorescence techniques Theory on soft matter. Single-molecule applications Organizers Pedro José de Pablo Gómez [email protected] Departamento de Física de la Materia Condensada, C03 Facultad de Ciencias Universidad Autónoma de Madrid Madrid Spain Fernando Moreno-Herrero [email protected] Dept. Macromolecular Structures Lab. B17-B-18 Centro Nacional de Biotecnología (CNB-CSIC) C/ Darwin, , Cantoblanco, Spain 1
2 Secretary (inc[at]uam.es) KEYNOTE SPEAKERS. Philip Nelson University of Pennsylvania, USA Toshio Ando Kanazawa University, Japan Erwin Peterman Vrije Universiteit, Amsterdam, The Netherlands Félix Ritort Universtitat de Barcelona, Spain Ulrich Keyser University of Cambridge, UK Urs Greber University of Zurich, Switzerland Fred MacKintosh Vrije Universiteit, Amsterdam, The Netherlands Daniel Müller Eidgenössische Technische Hochschule Zürich, Switzerland Ricardo García Instituto de Ciencia de Materiales de Madrid, CSIC, Spain Rudolf Podgornik Institut "Jožef Stefan", Slovenija Melike Lakadamyali The Institut of Photonic Sciences ICFO, Barcelona, Spain Jan Lipfert Delft University of Technology, The Netherlands Iwan Schaap Georg August Universität, Göttingen, Germany INVITED SPEAKERS. Mauricio García-Mateu Centro de Biología Molecular Severo Ochoa, Madrid, Spain Arvind Raman Purdue University, USA Wouter Roos Vrije Universiteit, Amsterdam, The Netherlands Sergi García-Manyes King s College London, UK Carolina Carrasco Centro Nacional de Biotecnología, CSIC, Madrid, Spain Alessandro Podesta Università degli Studi di Milano, Italy Francesco Mantegazza Università di Milano-Bicocca, Italy Borja Ibarra IMDEA Nanociencia, Madrid, Spain Ricardo Arias-González IMDEA Nanociencia, Madrid, Spain 2
3 Scientific Programme Sunday 21 July :00-20:00 Registration and check-in 20:00-21:00 Dinner Monday 22 July 2013 Morning Session Day 1 Optical and Magnetic Tweezers (I) Fernando Moreno-Herrero (Centro Nacional de Biotecnología, CSIC, Spain) 8:50-9:00 Welcome words. The organizers. 9:00-10:00 10:00-11:00 Inference in biological physics Philip Nelson (University of Pennsylvania, USA) Optical tweezers Force spectroscopy on single molecules (part I) Ulrich Keyser (University of Cambridge, UK) 11:00-11:30 Coffee break 11:30-12:30 12:30-13:00 13:00-13:30 Magnetic tweezers: how do they work, what are they good for, and how can their capabilities be expanded? Jan Lipfert (Delft University of Technology, The Netherlands) Using optical tweezers to study DNA replication dynamics at single-molecule level Borja Ibarra (IMDEA Nanociencia, Madrid, Spain) Mechano-chemical characterization of the genetic information carriers Ricardo Arias-González (IMDEA Nanociencia, Madrid, Spain) 13:30-15:00 Lunch Afternoon Session Day 1 15:00-16:00 Optical and Magnetic Tweezers (II) Optical tweezers Force spectroscopy on single molecules (part II) Ulrich Keyser (University of Cambridge, UK) 3
4 16:00-17:00 Applications of magnetic tweezers: Probing the response of double-stranded RNA to force and torque at the single-molecule level Jan Lipfert (Delft University of Technology, The Netherlands) 17:00-17:30 Coffee break 17:30-18:00 18:00-18:30 18:30-18:45 18:45-19:00 Magnetic tweezers measurements of the nanomechanical properties of DNA Francesco Mantegazza (Università di Milano-Bicocca, Italy) Modulation of the translocation properties of a model helicase by DNA sequence content within the track Carolina Carrasco (Centro Nacional de Biotecnología, CSIC, Spain) Wringing out a ribonucleoprotein complex Maria Tikhomirova (Westfalen Wilhelms-University Muenster) Selected poster presentation 1 Single-molecule folding mechanisms of the apo- and Mg 2+ -bound forms of the human neuronal calcium sensor 1 (NCS1) Mohsin M. Naqvi (University of Modena and Reggio Emilia) Selected poster presentation 2 19:00-20:00 Free time 20:00-21:00 Dinner 21:00-22:00 Posters and beers Tuesday 23 July 2013 Morning Session Day 2 9:00-10:00 10:00-11:00 Atomic Force Microscopy (I) What happens inside the eye's photoreceptor cells Philip Nelson (University of Pennsylvania, USA) Atomic force microscopy in biology Iwan Schaap (Georg August Universität Friedrich Hund, Göttingen, Germany) 4
5 11:00-11:30 Coffee break 11:30-12:30 12:30-13:00 13:00-13:30 Development of high-speed atomic force microscopy Toshio Ando (Kanazawa University, Japan) Manipulation and Biological Implications of the Mechanical Properties of Viruses Mauricio García-Mateu (Centro de Biología Molecular Severo Ochoa, Madrid, Spain) Adsorption of proteins on nanostructured surfaces: investigating the nanoscale interaction mechanisms by atomic force microscopy Alessandro Podesta (Università degli Studi di Milano, Italy) 13:30-15:00 Lunch Afternoon Session Day 2 15:00-16:00 16:00-17:00 Atomic Force Microscopy (II) Fernando Moreno-Herrero (Centro Nacional de Biotecnología, CSIC, Spain) Applications of high-speed atomic force microscopy Toshio Ando (Kanazawa University, Japan) Cell mechanics with AFM and optical traps Iwan Schaap (Georg August Universität Friedrich Hund, Göttingen, Germany) 17:00-17:30 Coffee break 17:30-18:30 18:30-19:00 High-resolution atomic force microscopy and spectroscopy of native membrane proteins Daniel Müller (Eidgenössische Technische Hochschule Zürich, Switzerland) Probing viral material properties by Atomic Force Microscopy Wouter Roos (Vrije Universiteit, Amsterdam, The Netherlands) 19:00-20:00 Free time 20:00-21:00 Dinner 21:00-22:00 Posters and beers Wednesday 24 July
6 Morning Session Day 3 9:00-10:00 10:00-11:00 Physics of single-molecule approaches and Fluorescence (I) Spying on single biomolecules using fluorescence microscopy Erwin Peterman (Vrije Universiteit, Amsterdam, The Netherlands) Elasticity and dynamics of cytoskeletal and extracellular networks (Part I) Fred MacKintosh (Vrije Universiteit, Amsterdam, The Netherlands) 11:00-11:30 Coffee break 11:30-12:30 12:30-13:30 Through the eyes of a virus imaging adenovirus entry into cells Urs Greber (University of Zurich, Switzerland) Towards quantitative structure-property relationships of biological samples using dynamic atomic force microscopy Arvind Raman (Purdue University, USA) 13:30-15:00 Lunch Afternoon Session Day 3 15:00-16:00 16:00-17:00 Physics of single-molecule approaches and Fluorescence (II) Fernando Moreno-Herrero (Centro Nacional de Biotecnología, CSIC, Spain) Intraflagellar transport in the chemosensory cilia of C. elegans tracked and captured with single-molecule fluorescence microscopy Erwin Peterman (Vrije Universiteit, Amsterdam, The Netherlands) Elasticity and dynamics of cytoskeletal and extracellular networks (Part II) Fred MacKintosh (Vrije Universiteit, Amsterdam, The Netherlands) 17:00-17:30 Coffee break 17:30-18:30 Imaging and modeling of virus egress from infected cells Urs Greber (University of Zurich, Switzerland) 18:30-22:00 Visit to the city of Segovia. Dinner in town. Thursday 25 July
7 Morning Session Day 4 9:00-10:00 10:00-11:00 Physics of single-molecule approaches and Fluorescence (III) Nonequilibrium work relations: basic concepts and derivations Félix Ritort (Universtitat de Barcelona, Spain) Super-resolution fluorescence microscopy: concepts and technical developments Melike Lakadamyali (The Institut of Photonic Sciences ICFO, Barcelona, Spain) 11:00-11:30 Coffee break 11:30-12:30 12:30-12:45 12:45-13:00 Order and energetics of nucleic acids in viral capsids (part I) Rudolf Podgornik (Institut "Jožef Stefan", Slovenija) Using Highly Inclined, Laminated Optical sheet (HILO) and off-focus imaging for 3D tracking of single molecules in bacteria Matteo Prayer Galletti (University of Florence) Selected poster presentation 3 Signal-Driven Tethering System based on DNA-Origami linked to Lipid Bilayers Alexander Ohmann (Technische Universität Dresden) Selected poster presentation 4 13:00-13:30 Free time 13:30-15:00 Lunch Afternoon Session Day 4 15:00-16:00 16:00-17:00 Physics of single-molecule approaches and Fluorescence (IV) Fernando Moreno-Herrero (Centro Nacional de Biotecnología, CSIC, Spain) Extended fluctuation relations applied to free energy recovery of kinetic structures Félix Ritort (Universtitat de Barcelona, Spain) Super-resolution fluorescence microscopy: biological applications Melike Lakadamyali (The Institut of Photonic Sciences ICFO, Barcelona, Spain) 17:00-17:30 Coffee break 17:30-18:30 Order and energetics of nucleic acids in viral capsids (part II) Rudolf Podgornik (Institut "Jožef Stefan", Slovenija) 7
8 18:30-18:45 18:45-19:00 Mechanical Unfolding of the One-State Downhill Folding Protein BBL Jörg Schönfelder (Centro Nacional de Biotecnologia, CSIC, and IMDEA nanociencia) Selected poster presentation 5 Monitoring dynamics of human adenovirus disassembly induced by mechanical fatigue Alvaro Ortega-Esteban (Universidad Autónoma de Madrid) Selected poster presentation 6 19:00-20:00 Free time 20:00-21:00 Dinner 21:00-22:00 Posters and beers Friday 26 July 2013 Morning Session Day 5 9:30-10:30 10:30-11:00 Applied single-molecule techniques Fundamental aspects of high resolution imaging and quantitative mapping of biomolecules by dynamic force microscopy Ricardo García (Instituto de Ciencia de Materiales de Madrid, CSIC, Spain) The nanomechanics of individual biomolecules Sergi García-Manyes (King s College London, UK) 11:00-11:30 Coffee break 11:30-11:45 11:45-12:00 12:00-12:15 A temperature-controlled Magnetic Tweezers to investigate DNA-translocating proteins Benjamin Gollnick (Centro Nacional de Biotecnología, CSIC, Spain) Selected poster presentation 7 Mechanical stability and reversible fracture of vault particles Aida Llauró (Universidad Autónoma de Madrid. Spain) Selected poster presentation 8 (Un) Folding of Engrailed Homeodomain by Multiple Spectroscopic Probes: From Equilibrium to Ultrafast Temperature Jump Kinetics Nagalakshmi T Sooriyanarayanan (Centro Nacional de Biotecnología, CSIC, Spain) Selected poster presentation 9 12:15-12:30 Energy transfer studies in binary dye solution mixture of Coumarin 540 and 8
9 Rhodamine B and its lifetime calculations Amitansu Pattanaik (University of Delhi, India) Selected poster presentation 10 12:30-13:00 Poster awards. Closing remarks. The organizers. 14:00 Bus to Barajas Airport 9
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