Publications

  • Ália dos Santos, Daniel E. Rollins, Yukti Hari-Gupta, Hannah McArthur, Mingxue Du, Sabrina Yong Zi Ru, Kseniia Pidlisna, Ane Stranger, Faeeza Lorgat, Danielle Lambert, Ian Brown, Kevin Howland, Jesse Aaron, Lin Wang, Peter J. I. Ellis, Teng-Leong Chew, Marisa Martin-Fernandez, Alice L. B. Pyne & Christopher P. Toseland.^ 2023 Autophagy receptor NDP52 alters DNA conformation to modulate RNA polymerase II transcription. Nature Communications 14, 2855. DOI:10.1038/s41467-023-38572-9

  • Beton, J. G., Moorehead, R., Helfmann, L., Gray, R., Hoogenboom, B. W., Praveen Joseph, A., Topf, M. & Pyne, A.L.B.^ 2021 TopoStats – A program for automated tracing of biomolecules from AFM images. Methods 193, 68-79 DOI:10.1016/j.ymeth.2021.01.008

  • Pyne, A.L.B.*^, Noy, A.*^, Main, K.H.S., Velasco-Berrelleza, V., Piperakis, M.M., Mitchenall, L.A., Cugliandolo, F.M., Beton, J.G., Stevenson, C.E.M., Hoogenboom, B.W., Bates, A.D., Maxwell, A., Harris, S.A.^, 2021. Base-pair resolution analysis of the effect of supercoiling on DNA flexibility and major groove recognition by triplex-forming oligonucleotides. Nature Communications 12, 1053.DOI: 10.1038/s41467-021-21243-y

  • Bennett, I., Pyne, A.L.B.^, McKendry, R.A.^, 2020. Cantilever Sensors for Rapid Optical Antimicrobial Sensitivity Testing. ACS Sensors 5, 3133–3139. DOI: 10.1101/679399

  • Parsons, E.S., Stanley, G.J., Pyne, A.L.B., Hodel, A.W., Nievergelt, A.P., Menny, A., Yon, A.R., Rowley, A., Richter, R.P., Fantner, G.E., Bubeck, D., Hoogenboom, B.W., 2019. Single-molecule kinetics of pore assembly by the membrane attack complex. Nature Communications 10, 2066. DOI: 10.1038/s41467-019-10058-7

  • Akpinar, B., Haynes, P.J., Bell, N.A.W., Brunner, K., Pyne, A.L.B.^, Hoogenboom, B.W.^, 2019. PEGylated surfaces for the study of DNA–protein interactions by atomic force microscopy. Nanoscale 11, 20072–20080. DOI: 10.1039/C9NR07104K

  • Benn, G., Pyne, A.L.B., Ryadnov, M.G., Hoogenboom, B.W., 2019. Imaging live bacteria at the nanoscale: comparison of immobilisation strategies. Analyst 144, 6944–6952. DOI: 10.1039/C9AN01185D

  • Heesterbeek, D.A., Bardoel, B.W., Parsons, E.S., Bennett, I., Ruyken, M., Doorduijn, D.J., Gorham, R.D., Berends, E.T., Pyne, A.L.B., Hoogenboom, B.W., Rooijakkers, S.H., 2019. Bacterial killing by complement requires membrane attack complex formation via surface-bound C5 convertases. The EMBO Journal 38, e99852. DOI: 10.15252/embj.201899852

  • Pfeil, M.-P.*, Pyne, A.L.B.*, Losasso, V., Ravi, J., Lamarre, B., Faruqui, N., Alkassem, H., Hammond, K., Judge, P.J., Winn, M., Martyna, G.J., Crain, J., Watts, A., Hoogenboom, B.W., Ryadnov, M.G., 2018. Tuneable poration: host defense peptides as sequence probes for antimicrobial mechanisms. Scientific Reports 8, 14926. DOI: 10.1038/s41598-018-33289-y

  • Burns, J.R., Lamarre, B., Pyne, A.L.B., Noble, J.E., Ryadnov, M.G., 2018. DNA Origami Inside-Out Viruses. ACS Synthetic Biology 7, 767–773. DOI: 10.1021/acssynbio.7b00278

  • Pyne, A.*, Pfeil, M.-P.*, Bennett, I., Ravi, J., Iavicoli, P., Lamarre, B., Roethke, A., Ray, S., Jiang, H., Bella, A., Reisinger, B., Yin, D., Little, B., Muñoz-García, J.C., Cerasoli, E., Judge, P.J., Faruqui, N., Calzolai, L., Henrion, A., Martyna, G.J., Grovenor, C.R.M., Crain, J., Hoogenboom, B.W., Watts, A., Ryadnov, M.G., 2017. Engineering monolayer poration for rapid exfoliation of microbial membranes. Chemical Science 8, 1105–1115. DOI: 10.1039/C6SC02925F

  • Klejevskaja, B.*, Pyne, A.L.B.*, Reynolds, M.*, Shivalingam, A., Thorogate, R., Hoogenboom, B.W., Ying, L., Vilar, R., 2016. Studies of G-quadruplexes formed within self-assembled DNA mini-circles. Chemical Communications 52, 12454–12457. DOI: 10.1039/C6CC07110D

  • Messager, L., Burns, J.R., Kim, J., Cecchin, D., Hindley, J., Pyne, A.L.B., Gaitzsch, J., Battaglia, G., Howorka, S., 2016. Biomimetic Hybrid Nanocontainers with Selective Permeability. Angewandte Chemie 128, 11272–11275. DOI: 10.1002/ange.201604677

  • Pyne, A.L.B., Hoogenboom, B.W., 2016. Imaging DNA Structure by Atomic Force Microscopy, in: Leake, M.C. (Ed.), Chromosome Architecture. Springer New York, New York, NY, pp. 47–60. DOI: 10.1007/978-1-4939-3631-1_5

  • Pyne, A., Thompson, R., Leung, C., Roy, D., Hoogenboom, B.W., 2014. Single-Molecule Reconstruction of Oligonucleotide Secondary Structure by Atomic Force Microscopy. Small 10, 3257–3261. DOI: 10.1002/smll.201400265

  • Rakowska, P.D.*, Jiang, H.*, Ray, S.*, Pyne, A., Lamarre, B., Carr, M., Judge, P.J., Ravi, J., Gerling, U.I.M., Koksch, B., Martyna, G.J., Hoogenboom, B.W., Watts, A., Crain, J., Grovenor, C.R.M., Ryadnov, M.G., 2013. Nanoscale imaging reveals laterally expanding antimicrobial pores in lipid bilayers. Proceedings of the National Academy of Sciences of the United States of America 110, 8918–8923. DOI: 10.1073/pnas.1222824110

  • Leung, C., Bestembayeva, A., Thorogate, R., Stinson, J., Pyne, A., Marcovich, C., Yang, J.L., Drechsler, U., Despont, M., Jankowski, T., 2012. Atomic Force Microscopy with Nanoscale Cantilevers Resolves Different Structural Conformations of the DNA Double Helix. Nano letters 12, 3846–3850. DOI: 10.1021/nl301857p

  • Pyne, A.*, Marks, W.*, Picco, L., Dunton, P., Ulcinas, A., E Barbour, M., Jones, S., Gimzewski, J.K., Miles, M.J., 2009. High-speed atomic force microscopy of dental enamel dissolution in citric acid. Archives of Histology and Cytology 72, 209–215. DOI: 10.1679/aohc.72.209

    * authors contributed equally to this work

    ^ corresponding author(s)