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Optical and Magnetic Tweezers

  • Dr. Borja Ibarra Urruela

    PhD: Universidad Autónoma Madrid, Spain / CNB-CSIC Madrid, Spain
    Previous Position: Centro Nacional Biotecnologia (CNB- CSIC), Madrid, Spain
    Research: Optical tweezers
    Joining Date: January, 2010
    User Name: borja.ibarra
    Telephone: +34 91 299 88 63
    Ibarra Urruela

    Borja Ibarra (BSs in Biochemistry) obtained his PhD. in Molecular Biology from Universidad Autónoma Madrid in 2001. He made the ‘leap’ to molecular biophysics as a postdoctoral fellow in Prof. Carlos Bustamante lab at UC Berkeley (USA) where he learned to generate, analyze and interpret single molecule data on complex, multi-state biological systems. Back in Spain in 2007, he applied single molecule manipulation methods as optical tweezers at the CNB-CSIC (Madrid) to study biological molecular motors at single molecule level. He joined the Nanobiosystems research line at IMDEA Nanoscience in 2010, where he started the Molecular Motors Nanomanipulation Lab.

    Research Lines

    Our laboratory combines biochemical, molecular biology, single-molecule (optical tweezers) and theoreti- cal modelling techniques to unravel the mechanistic aspects of biological molecular motors. Due to the highly interdisciplinary nature of the single molecule research field we successfully established a series of collaborations with national and foreign scientists from different. Our research lines include:

    1.Single molecule characterization of the dynamic and mechanistic principles governing the operation of molecular motors involved in DNA replication and repair reactions. (EMBO J 2009, PNAS 2012, Cell Cycle 2012, Nuc. Acid Res. 2015, JSAT 2016)

    2.MolecularMachinery.Weareworkingtounderstandthedynamicalandmechanisticprocessesbehind the coordinated action of the molecular motors responsible for: A) the replication of the human mito- chondrial genome and B) the membrane fission reaction.

    3.Synthetic molecular motors. This research line aims to characterize at the single molecule level the mechanistic principles of operation of synthetic or hybrid molecular motors under physiological conditions.

    4.Technologicaldevelopmentsinsinglemoleculemanipulation.Weareworkingtoimprovetheresolution of the optical tweezers technique and to combine optical manipulation with fluorescence detection and temperature control systems. This exciting marriage of techniques will open up a wealth of new promising applications.

    Relevant publications

    1. 'DNA synthesis determines the binding mode of the human mitochondrial single-stranded DNA-binding protein'. Morin JA, Cerrón F, Jarillo J, Beltran-Heredia E, Ciesielski GL, Arias-Gonzalez JR, Kaguni LS, Cao FJ, Ibarra B. Nucleic Acids Res (2017) 45 (12): 7237-7248
     
    2. 'Mechano-chemical kinetics of DNA replication: identification of the translocation step of a replicative DNA polymerase'. JA. Morin , FJ. Cao, JM. Lazaro, JR Arias-Gonzalez, JM. Valpuesta, JL. Carrascosa, M. Salas and B Ibarra. Nucleic Acids Res (2015), 43, 7; 3643–3652
     
    3. "Active DNA unwinding dynamics during processive DNA replication". JA. Morin , FJ. Cao, JM. Lazaro, JR Arias-Gonzalez, JM. Valpuesta, JL. Carrascosa, M. Salas and B Ibarra. PNAS (2012), 109(21); 8115-20;

     Lab: www.borjaibarralab.com

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