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Research at St Andrews

Carlos Penedo

Person

  1. 2019
  2. Published

    Asymmetric base pair opening drives helicase unwinding dynamics

    Colizzi, F., Perez Gonzalez, D. C., Fritzen, R., Levy, Y., White, M. F., Penedo-Esteiro, J. C. & Bussi, G., 5 Nov 2019, In : Proceedings of the National Academy of Sciences of the United States of America. 116, 45, p. 22471-22477 7 p.

    Research output: Contribution to journalArticle

  3. E-pub ahead of print

    Single molecule spectroscopy of polyfluorene chains reveals β-phase content and phase reversibility in organic solvents

    Brenlla, A., Tenopala-Carmona, F., Kanibolotsky, A. L., Skabara, P. J., Samuel, I. D. W. & Penedo-Esteiro, J. C., 9 Oct 2019, In : Matter. In press

    Research output: Contribution to journalArticle

  4. Published

    Twin-FRET: A New Molecular Ruler for Biomolecules

    Jana, S., Diez-Castellnou, M., Kay, E. R. & Penedo, C., 15 Feb 2019, In : Biophysical Journal. 116, 3, p. 565A-565A 1 p.

    Research output: Contribution to journalAbstract

  5. Published

    Unprecedented tunability of riboswitch structure and regulatory function by sub-millimolar variations in physiological Mg2+

    McCluskey, K. A., Boudreault, J., St-Pierre, P., Perez Gonzalez, C., Chauvier, A., Rizzi, A., Beauregard, P. B., Lafontaine, D. A. & Penedo-Esteiro, J. C., 9 Jul 2019, In : Nucleic Acids Research. 47, 12, p. 6478–6487 10 p.

    Research output: Contribution to journalArticle

  6. Published

    Unveiling the multi-step solubilization mechanism of sub-micron size vesicles by detergents

    Dalgarno, P. A., Juan-Colás, J., Hedley, G. J., Piñeiro, L., Novo, M., Perez-Gonzalez, C., Samuel, I. D. W., Leake, M., Johnson, S., Al-Soufi, W., Penedo-Esteiro, J. C. & Quinn, S. D., 9 Sep 2019, In : Scientific Reports. 9, 10 p., 12897.

    Research output: Contribution to journalArticle

  7. 2018
  8. Published

    Real-time observation of conformational switching in single conjugated polymer chains

    Tenopala Carmona, F., Fronk, S., Bazan, G. C., Samuel, I. D. W. & Penedo-Esteiro, J. C., 16 Feb 2018, In : Science Advances. 4, 2, p. 1-12 12 p., eaao5786.

    Research output: Contribution to journalArticle

  9. 2017
  10. Published

    An integrated perspective on RNA aptamer ligand-recognition models: clearing muddy waters

    McCluskey, K. & Penedo, J. C., 14 Mar 2017, In : Physical Chemistry Chemical Physics. 19, 10, p. 6921-6932 11 p.

    Research output: Contribution to journalReview article

  11. Published

    DNA binding and unwinding by Hel308 helicase requires dual functions of a winged helix domain

    Northall, S. J., Buckley, R., Jones, N., Penedo-Esteiro, J. C., Soultanas, P. & Bolt, E., Sep 2017, In : DNA Repair. 57, p. 125-132 7 p.

    Research output: Contribution to journalArticle

  12. Published

    High-affinity RNA binding by a hyperthermophilic single-stranded DNA-binding protein

    Morten, M. J., Gamsjaeger, R., Cubeddu, L., Kariawasam, R., Peregrina, J. R., Penedo-Esteiro, J. C. & White, M. F., Mar 2017, In : Extremophiles. 21, 2, p. 369-379 11 p.

    Research output: Contribution to journalArticle

  13. Published

    Transcriptional dynamics

    Lafontaine, D. A. & Penedo-Esteiro, J. C., 1 May 2017, In : Methods. 120, p. 1-2 2 p.

    Research output: Contribution to journalEditorial

  14. 2016
  15. Published

    Biophysical approaches to gene regulation by riboswitches: Biophysics of Infection

    Perez Gonzalez, D. C., Grondin, J. P., Lafontaine, D. A. & Penedo-Esteiro, J. C., 19 May 2016, Advances in Experimental Medicine and Biology: Biophysics of Infection. Leake, M. C. (ed.). Switzerland: Springer, Vol. 915. p. 157-190

    Research output: Chapter in Book/Report/Conference proceedingChapter

  16. Published

    Fluorescence-based strategies to investigate the structure and dynamics of aptamer-ligand complexes

    Perez Gonzalez, D. C., Lafontaine, D. A. & Penedo-Esteiro, J. C., 3 Aug 2016, In : Frontiers in Chemistry. 4, 33.

    Research output: Contribution to journalReview article

  17. Published

    Mechanism of DNA loading by the DNA repair helicase XPD

    Constantinescu-Aruxandei, D., Petrovic-Stojanovska, B., Penedo, C., White, M. F. & Naismith, J. H., 7 Apr 2016, In : Nucleic Acids Research. 44, 6, p. 2806-2815 10 p.

    Research output: Contribution to journalArticle

  18. Published

    Morphology-specific inhibition of β-amyloid aggregates by 17β-hydroxysteroid dehydrogenase type 10

    Aitken, L., Quinn, S. D., Perez-Gonzalez, D. C., Samuel, I. D. W., Penedo-Esteiro, J. C. & Gunn-Moore, F. J., 2 Jun 2016, In : ChemBioChem. 17, 11, p. 1029-1037

    Research output: Contribution to journalArticle

  19. 2015
  20. Published

    Binding dynamics of a monomeric SSB protein to DNA: a single-molecule multi-process approach

    Morten, M. J., Peregrina, J. R., Figueira-Gonzalez, M., Ackermann, K., Bode, B. E., White, M. F. & Penedo, C., 15 Dec 2015, In : Nucleic Acids Research. 43, 22, p. 10907-10924 18 p.

    Research output: Contribution to journalArticle

  21. Published

    Functional studies of DNA-protein interactions using FRET techniques

    Blouin, S., Craggs, T. D., Lafontaine, D. A. & Penedo, C., 1 Oct 2015, In : Methods in Molecular Biology. 1334, p. 115-141

    Research output: Contribution to journalArticle

  22. Published

    Single-Molecule Strategies for DNA and RNA Diagnostics

    Perez Gonzalez, D. C. & Penedo, C., 15 Jun 2015, RNA and DNA Diagnostics. Erdmann, V. A., Jurga, S. & Barciszewski, J. (eds.). Springer, p. 297-332 (RNA Technologies).

    Research output: Chapter in Book/Report/Conference proceedingChapter

  23. Published

    Single-molecule approaches for the characterization of riboswitch folding mechanisms

    Penedo, C., Boudreault, J., Perez Gonzalez, D. C. & Lafontaine, D. A., 1 Oct 2015, In : Methods in molecular biology (Clifton, N.J.). 1334, p. 101-107

    Research output: Contribution to journalArticle

  24. Published

    Towards ratiometric sensing of amyloid fibrils in vitro

    Freire, S., Rodriguez-Prieto, F., Rios-Rodriguez, M. C., Penedo, C., Al-Soufi, W. & Novo, M., 16 Feb 2015, In : Chemistry - A European Journal. 21, 8, p. 3425-3434

    Research output: Contribution to journalArticle

  25. 2014
  26. Published

    Fluorescence tools to investigate riboswitch structural dynamics

    Shaw, E. S., McCluskey, K., Lafontaine, D. A. & Penedo, C., 1 Oct 2014, In : Biochimica et Biophysica Acta - Gene regulatory mechanisms. 1839, 10

    Research output: Contribution to journalReview article

  27. Published

    Real-time probing of β-amyloid self-assembly and inhibition using fluorescence self-quenching between neighbouring dyes

    Quinn, S. D., Dalgarno, P. A., Cameron, R. T., Hedley, G. J., Hacker, C., Lucocq, J. M., Samuel, I. D. W. & Penedo, C., Jan 2014, In : Molecular BioSystems. 10, 1, p. 34-44 11 p.

    Research output: Contribution to journalArticle

  28. Published

    Single-molecule characterization of Fen1 and Fen1/PCNA complexes acting on flap substrates

    Craggs, T. D., Brenlla, A., Hutton, R. D., White, M. F. & Penedo, C., Feb 2014, In : Nucleic Acids Research. 42, 3, p. 1857-1872

    Research output: Contribution to journalArticle

  29. Published

    The phosphorylation of Hsp20 enhances its association with amyloid-β to increase protection against neuronal cell death

    Cameron, R. T., Quinn, S. D., Cairns, L. S., MacLeod, R., Samuel, I. D. W., Smith, B. O., Penedo, C. & Baillie, G. S., Jul 2014, In : Molecular and Cellular Neuroscience. 61, p. 46-55 10 p.

    Research output: Contribution to journalArticle

  30. Published

    Using sm-FRET and denaturants to reveal folding landscapes

    Shaw, E. S., St-Pierre, P., McCluskey, K., Lafontaine, D. A. & Penedo, C., 2014, In : Methods In Enzymology. 549, p. 313-341

    Research output: Contribution to journalReview article

  31. 2013
  32. Forthcoming

    Single molecule Fluorescence of Nucleic Acids

    McCluskey, K., Shaw, E. S., Lafontaine, D. & Penedo, C., 2013, (Accepted/In press) Methods in Molecular Biology: Fluorescence microscopy and spectroscopy. Vol. 1076.

    Research output: Chapter in Book/Report/Conference proceedingChapter

  33. Published

    Single-molecule chemical denaturation of riboswitches

    Dalgarno, P. A., Bordello, J., Morris, R., St-Pierre, P., Dubé, A., Samuel, I. D. W., Lafontaine, D. & Penedo, C., Feb 2013, In : Nucleic Acids Research. 41, 7, p. 4253-4265

    Research output: Contribution to journalArticle

  34. Published

    Solution-Based Single Molecule Imaging of Surface-Immobilized Conjugated Polymers

    Dalgarno, P. A., Traina, C. A., Penedo, C., Bazan, G. & Samuel, I. D. W., 2013, In : Journal of the American Chemical Society. 135, 19, 7187-7193.

    Research output: Contribution to journalArticle

  35. 2012
  36. Forthcoming

    Folding of the SAM-I riboswitch: A tale with a twist

    Eschbach, SH., St-Pierre, P., Penedo, C. & Lafontaine, DA., Apr 2012, (Accepted/In press) In : RNA Biology. 9, 2

    Research output: Contribution to journalReview article

  37. 2011
  38. Published

    Constitutive Regulatory Activity of an Evolutionarily Excluded Riboswitch Variant

    Tremblay, R., Lemay, J-F., Blouin, S., Mulhbacher, J., Bonneau, E., Legault, P., Dupont, P., Penedo, C. & Lafontaine, D. A., 5 Aug 2011, In : Journal of Biological Chemistry. 286, 31, p. 27406-27415 10 p.

    Research output: Contribution to journalArticle

  39. Published

    Molecular insights into the ligand-controlled organization of SAM-I riboswitch

    Heppell, B., Blouin, S., Dussault, A. M., Muhlbacher, J., Ennifar, J., Penedo, C. & Lafontaine, D., Jun 2011, In : Nature Chemical Biology. 7, 6, p. 384-392

    Research output: Contribution to journalArticle

  40. 2010
  41. Published

    PCNA and XPF cooperate to distort DNA substrates

    Hutton, R. D., Craggs, T. D., White, M. F. & Penedo, C., Mar 2010, In : Nucleic Acids Research. 38, 5, p. 1664-1675 12 p.

    Research output: Contribution to journalArticle

  42. 2009
  43. Published

    Application of fluorescence measurements for characterization of riboswitch-ligand interactions

    Penedo-Esteiro, J. C., Heppell, B., Mulbacher, J. & Lafontaine, D., 2009, Methods in Molecular Biology. New Jersey: Humana Press, Vol. 540.

    Research output: Chapter in Book/Report/Conference proceedingChapter

  44. Published

    Functional studies of DNA-protein interactions using FRET techniques

    Penedo-Esteiro, J. C., Blouin, S. & Lafontaine, D., 2009, Methods in Molecular Biology. Moss, T. & Leblanc, B. (eds.). New Jersey: Humana Press, Vol. 543.

    Research output: Chapter in Book/Report/Conference proceedingChapter

  45. Published

    Molecular basis of RNA-mediated gene regulation on the adenine riboswitch by single-molecule approaches

    Penedo-Esteiro, J. C., Lemay, JF., Mulbacher, J. & Lafontaine, D., 2009, Methods in Molecular Biology. Serganov, A. (ed.). New Jersey: Humana Press, Vol. 540.

    Research output: Chapter in Book/Report/Conference proceedingChapter

  46. Published

    Riboswitches: Ancient and Promising Genetic Regulators

    Blouin, S., Mulhbacher, J., Penedo-Esteiro, J. C. & Lafontaine, D. A., 13 Feb 2009, In : ChemBioChem. 10, 3, p. 400-416 17 p.

    Research output: Contribution to journalReview article

  47. 2008
  48. Published

    PCNA stimulates catalysis by structure-specific nucleases using two distinct mechanisms: substrate targeting and catalytic step

    Hutton, R. D., Roberts, J. A., Penedo, C. & White, M. F., Dec 2008, In : Nucleic Acids Research. 36, 21, p. 6720-6727 8 p.

    Research output: Contribution to journalArticle

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