People_

Professor Antoine van Oijen

Interim Pro-Vice-Chancellor (Research Enterprise)
Professor
NHMRC Leadership Fellow
Faculty of Medicine and Health

Email

antoine.vanoijen@sydney.edu.au

Professor van Oijen has led research groups at Harvard Medical School (USA), Groningen University (the Netherlands), and the University of Wollongong (Australia). He was an ARC Laureate Fellow (2015-2020) and is currently an NHMRC Leadership Fellow (L2; 2021-2025). His primary research interests revolve around DNA replication and repair, with a focus on developing imaging approaches and integrating these with molecular biophysical approaches to understand how microbial systems copy and maintain DNA. In Wollongong he founded Molecular Horizons, a molecular life sciences institute, and led the establishment of major core facilities. At the University of Sydney, Professor van Oijen is responsible for the Faculty of Medicine and Health's research portfolio and for achieving its strategic and operational objectives.

Publications

By Type

Expand all

Book Chapters

Kaur, G., Spenkelink, L., Lewis, J., Jergic, S., Dixon, N., Van Oijen, A. (2022). Production of long linear DNA substrates with site-specific chemical lesions for single-molecule replisome studies. Helicase Enzymes Part A, (pp. 299-315). United States: Academic Press Inc. [More Information]
Tanner, N., Van Oijen, A. (2010). Visualizing DNA Replication at the Single-Molecule Level. In Not known (Eds.), Methods in Enzymology, (pp. 256-278). Academic Press Inc. [More Information]
Hamdan, S., Van Oijen, A. (2008). Single Molecule Studies of Nucleic Acid Enzymes. Single Molecule Biology, (pp. 173-193). United States: Elsevier. [More Information]

Journals

Lewis, J., Van Oijen, A., Spenkelink, L. (2023). Embracing Heterogeneity: Challenging the Paradigm of Replisomes as Deterministic Machines. Chemical Reviews, 123(23), 13419-13440. [More Information]
Cox, M., Goodman, M., Keck, J., Van Oijen, A., Lovett, S., Robinson, A. (2023). Generation and Repair of Postreplication Gaps in Escherichia coli. Microbiology and Molecular Biology Reviews, 87(2). [More Information]
Mueller, S., Fitschen, L., Shirbini, A., Hamdan, S., Spenkelink, L., Van Oijen, A. (2023). Rapid single-molecule characterisation of enzymes involved in nucleic-acid metabolism. Nucleic Acids Research, 51(1), E5-E5. [More Information]
Henry, C., Kaur, G., Cherry, M., Henrikus, S., Bonde, N., Sharma, N., Beyer, H., Wood, E., Chitteni-Pattu, S., van Oijen, A., et al (2023). RecF protein targeting to post-replication (daughter strand) gaps II: RecF interaction with replisomes. Nucleic Acids Research, 51(11), 5714-5742. [More Information]
Whinn, K., Xu, Z., Jergic, S., Sharma, N., Spenkelink, L., Dixon, N., Van Oijen, A., Ghodke, H. (2023). Single-molecule visualization of stalled replication-fork rescue by the Escherichia coli Rep helicase. Nucleic Acids Research, 51(7), 3307-3326. [More Information]
Kusi-Appauh, N., Ralph, S., Van Oijen, A., Spenkelink, L. (2023). Understanding G-Quadruplex Biology and Stability Using Single-Molecule Techniques. The Journal of Physical Chemistry B, 127(25), 5521-5540. [More Information]
Hawkins, O., Scott, A., Montgomery, A., Nicholas, B., Mullan, J., van Oijen, A., Degeling, C. (2022). Comparing public attitudes, knowledge, beliefs and behaviours towards antibiotics and antimicrobial resistance in Australia, United Kingdom, and Sweden (2010-2021): A systematic review, meta-analysis, and comparative policy analysis. PloS One, 17(1 January). [More Information]
Blijleven, J., Bouma, E., Van Duijl-Richter, M., Smit, J., Van Oijen, A. (2022). Cooperative Chikungunya Virus Membrane Fusion and Its Substoichiometric Inhibition by CHK-152 Antibody. Viruses, 14(2). [More Information]
Revitt-Mills, S., Wright, E., Vereker, M., O'Flaherty, C., McPherson, F., Dawson, C., van Oijen, A., Robinson, A. (2022). Defects in DNA double-strand break repair resensitize antibiotic-resistant Escherichia coli to multiple bactericidal antibiotics. MicrobiologyOpen, 11(5). [More Information]
Ojha, D., Jaszczur, M., Sikand, A., McDonald, J., Robinson, A., van Oijen, A., Mak, C., Pinaud, F., Cox, M., Woodgate, R., et al (2022). Host cell RecA activates a mobile element-encoded mutagenic DNA polymerase. Nucleic Acids Research, 50(12), 6854-6869. [More Information]
Miyakis, S., Brentnall, S., Masso, M., Reynolds, G., Byrne, M., Newton, P., Crawford, S., Fish, J., Nicholas, B., Hill, T., et al (2022). Key predictors and burden of meticillin-resistant Staphylococcus aureus infection in comparison with meticillin-susceptible S. aureus infection in an Australian hospital setting. Journal of Hospital Infection, 129, 41-48. [More Information]
Paudel, B., Xu, Z., Jergic, S., Oakley, A., Sharma, N., Brown, S., Bouwer, J., Lewis, P., Dixon, N., Van Oijen, A., et al (2022). Mechanism of transcription modulation by the transcription-repair coupling factor. Nucleic Acids Research, 50(10), 5688-5712. [More Information]
Keighley, C., Van Oijen, A., Brentnall, S., Sanderson-Smith, M., Newton, P., Miyakis, S. (2022). Multi-year antimicrobial-resistance trends in urine Escherichia coli isolates from both community-based and hospital-based laboratories of an Australian local health district. Journal of Global Antimicrobial Resistance, 31, 386-390. [More Information]
Wilkinson, E., Spenkelink, L., Van Oijen, A. (2022). Observing protein dynamics during DNA-lesion bypass by the replisome. Frontiers in Molecular Biosciences, 9. [More Information]
Brown, J., Alford, R., Walsh, J., Spinney, R., Xu, S., Hertel, S., Berengut, J., Spenkelink, L., Van Oijen, A., Böcking, T., et al (2022). Rapid Exchange of Stably Bound Protein and DNA Cargo on a DNA Origami Receptor. ACS Nano, 16(4), 6455-6467. [More Information]
Marzano, N., Paudel, B., Van Oijen, A., Ecroyd, H. (2022). Real-time single-molecule observation of chaperoneassisted protein folding. Science Advances, 8(50). [More Information]
Zhong, Y., Moghaddas Sani, H., Paudel, B., Low, J., Silva, A., Mueller, S., Deshpande, C., Panjikar, S., Reid, X., Bedward, M., Mackay, J., et al (2022). The role of auxiliary domains in modulating CHD4 activity suggests mechanistic commonality between enzyme families. Nature Communications, 13(1). [More Information]
Seinen, A., Spakman, D., Van Oijen, A., Driessen, A. (2021). Cellular dynamics of the SecA ATPase at the single molecule level. Scientific Reports, 11(1). [More Information]
Spinks, R., Spenkelink, L., Stratmann, S., Xu, Z., Stamford, N., Brown, S., Dixon, N., Jergic, S., Van Oijen, A. (2021). DnaB helicase dynamics in bacterial DNA replication resolved by single-molecule studies. Nucleic Acids Research, 49(12), 6804-6816. [More Information]
Urbanska, M., Lüdecke, A., Walter, W., Van Oijen, A., Duderstadt, K., Diez, S. (2021). Highly-Parallel Microfluidics-Based Force Spectroscopy on Single Cytoskeletal Motors. Small, 17(18). [More Information]
Rice, L., Ecroyd, H., Van Oijen, A. (2021). Illuminating amyloid fibrils: Fluorescence-based single-molecule approaches. Computational and Structural Biotechnology Journal, 19, 4711-4724. [More Information]
Spinks, R., Spenkelink, L., Van Oijen, A. (2021). Single-Molecule Fluorescence Methods to Study Protein Exchange Kinetics in Supramolecular Complexes. Methods in Molecular Biology, 2281, 49-65. [More Information]
Henrikus, S., van Oijen, A., Robinson, A. (2021). Single-molecule fluorescence microscopy reveals modulation of DNA polymerase IV-binding lifetimes by UmuD (K97A) and UmuD′. Current Genetics, 67(2), 295-303. [More Information]
Johnston, C., Marzano, N., Paudel, B., Wright, G., Benesch, J., Van Oijen, A., Ecroyd, H. (2021). Single-molecule fluorescence-based approach reveals novel mechanistic insights into human small heat shock protein chaperone function. Journal of Biological Chemistry, 296. [More Information]
Spinks, R., Spenkelink, L., Dixon, N., Van Oijen, A. (2021). Single-Molecule Insights Into the Dynamics of Replicative Helicases. Frontiers in Molecular Biosciences, 8. [More Information]
Whinn, K., Van Oijen, A., Ghodke, H. (2021). Single-molecule studies of helicases and translocases in prokaryotic genome-maintenance pathways. DNA Repair, 108. [More Information]
Paudel, B., Moye, A., Assi, H., El-Khoury, R., Cohen, J., Holien, J., Birrento, M., Samosorn, S., Intharapichai, K., Tomlinson, C., Bryan, T., et al (2020). A mechanism for the extension and unfolding of parallel telomeric g-quadruplexes by human telomerase at single-molecule resolution. eLife, 9, 1-30. [More Information]
Monachino, E., Jergic, S., Lewis, J., Xu, Z., Lo, A., O'Shea, V., Berger, J., Dixon, N., Van Oijen, A. (2020). A Primase-Induced Conformational Switch Controls the Stability of the Bacterial Replisome. Molecular Cell, 79(1), 140-154.e7. [More Information]
Marzano, N., Wray, K., Johnston, C., Paudel, B., Hong, Y., Van Oijen, A., Ecroyd, H. (2020). An α-Cyanostilbene Derivative for the Enhanced Detection and Imaging of Amyloid Fibril Aggregates. ACS Chemical Neuroscience, 11(24), 4191-4202. [More Information]
Zhong, Y., Paudel, B., Ryan, D., Low, J., Franck, C., Patel, K., Bedward, M., Torrado, M., Payne, R., Van Oijen, A., Mackay, J. (2020). CHD4 slides nucleosomes by decoupling entry- and exit-side DNA translocation. Nature Communications, 11(1), 1519. [More Information]
Degeling, C., Carter, S., Van Oijen, A., McAnulty, J., Sintchenko, V., Braunack-Mayer, A., Yarwood, T., Johnson, J., Gilbert, G. (2020). Community perspectives on the benefits and risks of technologically enhanced communicable disease surveillance systems: A report on four community juries. BMC Medical Ethics, 21(1), 31. [More Information]
Mueller, S., Spenkelink, L., Van Oijen, A., Lewis, J. (2020). Design of customizable long linear DNA substrates with controlled end modifications for single-molecule studies. Analytical Biochemistry, 592. [More Information]
Dubiel, K., Henry, C., Spenkelink, L., Kozlov, A., Wood, E., Jergic, S., Dixon, N., Van Oijen, A., Cox, M., Lohman, T., et al (2020). Development of a single-stranded DNA-binding protein fluorescent fusion toolbox. Nucleic Acids Research, 48(11), 6053-6067. [More Information]
Romero, Z., Armstrong, T., Henrikus, S., Chen, S., Glass, D., Ferrazzoli, A., Wood, E., Chitteni-Pattu, S., van Oijen, A., Lovett, S., et al (2020). Frequent template switching in postreplication gaps: Suppression of deleterious consequences by the Escherichia coliUup and RadD proteins. Nucleic Acids Research, 48(1), 212-230. [More Information]
Schauer, G., Spenkelink, L., Lewis, J., Yurieva, O., Mueller, S., Van Oijen, A., O’Donnell, M. (2020). Replisome bypass of a protein-based R-loop block by Pif1. Proceedings of the National Academy of Sciences of the United States of America, 117(48), 30354-30361. [More Information]
Romero, Z., Chen, S., Armstrong, T., Wood, E., van Oijen, A., Robinson, A., Cox, M. (2020). Resolving Toxic DNA repair intermediates in every E. coli replication cycle: critical roles for RecG, Uup and RadD. Nucleic Acids Research, 48(15), 8445-8460. [More Information]
Ho, H., Van Oijen, A., Ghodke, H. (2020). Single-molecule imaging reveals molecular coupling between transcription and DNA repair machinery in live cells. Nature Communications, 11(1). [More Information]
Henrikus, S., Henry, C., Mcgrath, A., Jergic, S., McDonald, J., Hellmich, Y., Bruckbauer, S., Ritger, M., Cherry, M., Wood, E., et al (2020). Single-molecule live-cell imaging reveals RecB-dependent function of DNA polymerase IV in double strand break repair. Nucleic Acids Research, 48(15), 8490-8508. [More Information]
Ghodke, H., Ho, H., Van Oijen, A. (2020). Single-molecule live-cell imaging visualizes parallel pathways of prokaryotic nucleotide excision repair. Nature Communications, 11(1). [More Information]
Lewis, J., Spenkelink, L., Schauer, G., Yurieva, O., Mueller, S., Natarajan, V., Kaur, G., Maher, C., Kay, C., O'Donnell, M., et al (2020). Tunability of DNA Polymerase Stability during Eukaryotic DNA Replication. Molecular Cell, 77(1), 17-25.e5. [More Information]
Ho, H., Zalami, D., Köhler, J., Van Oijen, A., Ghodke, H. (2019). Identification of Multiple Kinetic Populations of DNA-Binding Proteins in Live Cells. Biophysical Journal, 117(5), 950-961. [More Information]
Whinn, K., Kaur, G., Lewis, J., Schauer, G., Mueller, S., Jergic, S., Maynard, H., Gan, Z., Naganbabu, M., Bruchez, M., et al (2019). Nuclease dead Cas9 is a programmable roadblock for DNA replication. Scientific Reports, 9(1). [More Information]
Henrikus, S., Henry, C., Ghodke, H., Wood, E., Mbele, N., Saxena, R., Basu, U., van Oijen, A., Cox, M., Robinson, A. (2019). RecFOR epistasis group: RecF and RecO have distinct localizations and functions in Escherichia coli. Nucleic Acids Research, 47(6), 2946-2965. [More Information]
Spenkelink, L., Lewis, J., Jergic, S., Xu, Z., Robinson, A., Dixon, N., Van Oijen, A. (2019). Recycling of single-stranded DNA-binding protein by the bacterial replisome. Nucleic Acids Research, 47(8), 4111-4123. [More Information]
Walsh, E., Henrikus, S., Vaisman, A., Makiela-Dzbenska, K., Armstrong, T., Łazowski, K., McDonald, J., Goodman, M., van Oijen, A., Jonczyk, P., et al (2019). Role of RNase H enzymes in maintaining genome stability in Escherichia coli expressing a steric-gate mutant of pol VICE391. DNA Repair, 84. [More Information]
Kaur, G., Lewis, J., Van Oijen, A. (2019). Shining a spotlight on DNA: Single-molecule methods to visualise DNA. Molecules, 24(3). [More Information]
Whinn, K., Van Oijen, A., Ghodke, H. (2019). Spy-ing on Cas9: Single-molecule tools reveal the enzymology of Cas9. Current Opinion in Biomedical Engineering, 12, 25-33. [More Information]
Mueller, S., Spenkelink, L., Van Oijen, A. (2019). When proteins play tag: the dynamic nature of the replisome. Biophysical Reviews, 11(4), 641-651. [More Information]
Ren, W., Wen, S., Tawfik, S., Su, Q., Lin, G., Ju, A., Ford, M., Ghodke, H., Van Oijen, A., Jin, D. (2018). Anisotropic functionalization of upconversion nanoparticles. Chemical Science, 9(18), 4352-4358. [More Information]
Monachino, E., Ghodke, H., Spinks, R., Hoatson, B., Jergic, S., Xu, Z., Dixon, N., Van Oijen, A. (2018). Design of DNA rolling-circle templates with controlled fork topology to study mechanisms of DNA replication. Analytical Biochemistry, 557, 42-45. [More Information]
Hill, F., Van Oijen, A., Duderstadt, K. (2018). Detection of kinetic change points in piece-wise linear single molecule motion. Journal of Chemical Physics, 148(12). [More Information]
Henrikus, S., Wood, E., McDonald, J., Cox, M., Woodgate, R., Goodman, M., Van Oijen, A., Robinson, A. (2018). DNA polymerase IV primarily operates outside of DNA replication forks in Escherichia coli. PLoS Genetics, 14(1). [More Information]
Boonstra, S., Blijleven, J., et al, Van Oijen, A. (2018). Hemagglutinin-Mediated Membrane Fusion: A Biophysical Perspective. Annual Review of Biophysics, 47, 153-173. [More Information]
Jin, D., Xi, P., Wang, B., Zhang, L., Enderlein, J., Van Oijen, A. (2018). Nanoparticles for super-resolution microscopy and single-molecule tracking. Nature Methods, 15(6), 415-423. [More Information]
Belfiore, L., Spenkelink, L., Ranson, M., Van Oijen, A., Vine, K. (2018). Quantification of ligand density and stoichiometry on the surface of liposomes using single-molecule fluorescence imaging. Journal of Controlled Release, 278, 80-86. [More Information]
Ghodke, H., Lewis, J., Van Oijen, A. (2018). Resolving the Gordian Knot: Srs2 Strips Intermediates Formed during Homologous Recombination. Trends in Biochemical Sciences, 43(3), 149-151. [More Information]
Ghodke, H., Ho, H., Van Oijen, A. (2018). Single-molecule live-cell imaging of bacterial DNA repair and damage tolerance. Biochemical Society Transactions, 46(1), 23-35. [More Information]
Van Der Borg, G., Braddock, S., Blijleven, J., Van Oijen, A., Roos, W. (2018). Single-particle fusion of influenza viruses reveals complex interactions with target membranes. Journal of Physics: Condensed Matter, 30(20). [More Information]
Henrikus, S., van Oijen, A., Robinson, A. (2018). Specialised DNA polymerases in Escherichia coli: roles within multiple pathways. Current Genetics, 64(6), 1189-1196. [More Information]
Bianchi, F., Syga, L., Moiset, G., Spakman, D., Schavemaker, P., Punter, C., Seinen, A., Van Oijen, A., Robinson, A., Poolman, B. (2018). Steric exclusion and protein conformation determine the localization of plasma membrane transporters. Nature Communications, 9(1). [More Information]
Cox, D., Whiten, D., Brown, J., Horrocks, M., Gil, R., Dobson, C., Klenerman, D., Van Oijen, A., Ecroyd, H. (2018). The small heat shock protein Hsp27 binds -synuclein fibrils, preventing elongation and cytotoxicity. Journal of Biological Chemistry, 293(12), 4486-4497. [More Information]
Ho, H., Van Oijen, A., Ghodke, H. (2018). The transcription-repair coupling factor Mfd associates with RNA polymerase in the absence of exogenous damage. Nature Communications, 9(1). [More Information]
Johnston, C., Marzano, N., Van Oijen, A., Ecroyd, H. (2018). Using Single-Molecule Approaches to Understand the Molecular Mechanisms of Heat-Shock Protein Chaperone Function. Journal of Molecular Biology, 430(22), 4525-4546. [More Information]
Vallotton, P., Van Oijen, A., Whitchurch, C., Gelfand, V., Yeo, L., Tsiavaliaris, G., Heinrich, S., Dultz, E., Weis, K., Grünwald, D. (2017). Diatrack particle tracking software: Review of applications and performance evaluation. Traffic, 18(12), 840-852. [More Information]
Van Oijen, A., Goudsmits, J., Slotboom, D. (2017). Single-Molecule Fluorescence Studies of Membrane Transporters Using Total Internal Reflection Microscopy. Methods in Enzymology, 594, 101-121. [More Information]
Goudsmits, J., Slotboom, D., Van Oijen, A. (2017). Single-molecule visualization of conformational changes and substrate transport in the Vitamin B12 ABC importer BtuCD-F. Nature Communications, 8(1). [More Information]
Lewis, J., Spenkelink, L., Jergic, S., Wood, E., Monachino, E., Horan, N., Duderstadt, K., Cox, M., Robinson, A., Dixon, N., et al (2017). Single-molecule visualization of fast polymerase turnover in the bacterial replisome. eLife, 6. [More Information]
Lewis, J., Spenkelink, L., Schauer, G., Hill, F., Georgescu, R., O’Donnell, M., Van Oijen, A. (2017). Single-molecule visualization of Saccharomyces cerevisiae leading-strand synthesis reveals dynamic interaction between MTC and the replisome. Proceedings of the National Academy of Sciences of the United States of America, 114(40), 10630-10635. [More Information]
Hill, F., Monachino, E., Van Oijen, A. (2017). The more the merrier: High-throughput single-molecule techniques. Biochemical Society Transactions, 45(3), 759-769. [More Information]
Monachino, E., Spenkelink, L., Van Oijen, A. (2017). Watching cellular machinery in action, one molecule at a time. The Journal of Cell Biology, 216(1), 41-51. [More Information]
Goudsmits, J., Van Oijen, A., Robinson, A. (2016). A tool for alignment and averaging of sparse fluorescence signals in rod-shaped bacteria. Biophysical Journal, 110(8), 1708-1715. [More Information]
Kalkman, G., Zhang, Y., Monachino, E., Mathwig, K., Kamminga, M., Pourhossein, P., Oomen, P., Stratmann, S., Zhao, Z., Van Oijen, A., et al (2016). Bisecting Microfluidic Channels with Metallic Nanowires Fabricated by Nanoskiving. ACS Nano, 10(2), 2852-2859. [More Information]
Mashaghi, S., Van Oijen, A. (2016). Droplet microfluidics for kinetic studies of viral fusion. Applied Physics Reviews, 10(2). [More Information]
Mashaghi, S., Abbaspourrad, A., Weitz, D., Van Oijen, A. (2016). Droplet microfluidics: A tool for biology, chemistry and nanotechnology. Trends In Analytical Chemistry, 82, 118-125. [More Information]
Koch, S., De Wit, J., Vos, I., Birkner, J., Gordiichuk, P., Herrmann, A., Van Oijen, A., Driessen, A. (2016). Lipids activate SecA for high affinity binding to the SecYEG complex. Journal of Biological Chemistry, 291(43), 22534-22543. [More Information]
Blijleven, J., Boonstra, S., Onck, P., van der Giessen, E., Van Oijen, A. (2016). Mechanisms of influenza viral membrane fusion. Seminars in Cell & Developmental Biology, 60, 78-88. [More Information]
Jaszczur, M., Bertram, J., Robinson, A., Van Oijen, A., Woodgate, R., Cox, M., Goodman, M. (2016). Mutations for Worse or Better: Low-Fidelity DNA Synthesis by SOS DNA Polymerase V Is a Tightly Regulated Double-Edged Sword. Biochemistry, 55(16), 2309-2318. [More Information]
van Gijtenbeek, L., Robinson, A., Van Oijen, A., Poolman, B., Kok, J. (2016). On the Spatial Organization of mRNA, Plasmids, and Ribosomes in a Bacterial Host Overexpressing Membrane Proteins. PLoS Genetics, 12(12). [More Information]
Duderstadt, K., Geertsema, H., Stratmann, S., Punter, C., Kulczyk, A., Richardson, C., Van Oijen, A. (2016). Simultaneous Real-Time Imaging of Leading and Lagging Strand Synthesis Reveals the Coordination Dynamics of Single Replisomes. Molecular Cell, 64(6), 1035-1047. [More Information]
Ghodke, H., Caldas, V., Punter, C., Van Oijen, A., Robinson, A. (2016). Single-Molecule Specific Mislocalization of Red Fluorescent Proteins in Live Escherichia coli. Biophysical Journal, 111(1), 25-27. [More Information]
Turkin, A., Zhang, L., Marcozzi, A., Mangel, W., Herrmann, A., Van Oijen, A. (2016). Speeding up biomolecular interactions by molecular sledding. Chemical Science, 7(2), 916-920. [More Information]
Åberg, C., Duderstadt, K., Van Oijen, A. (2016). Stability versus exchange: A paradox in DNA replication. Nucleic Acids Research, 44(10), 4846-4854. [More Information]
Van Duijl-Richter, M., Blijleven, J., Van Oijen, A., Smit, J. (2015). Chikungunya virus fusion properties elucidated by single-particle and bulk approaches. Journal of General Virology, 96(8), 2122-2132. [More Information]
Mashaghi, S., Van Oijen, A. (2015). External control of reactions in microdroplets. Scientific Reports, 5. [More Information]
Caldas, V., Punter, C., Ghodke, H., Robinson, A., Van Oijen, A. (2015). ISBatch: A batch-processing platform for data analysis and exploration of live-cell single-molecule microscopy images and other hierarchical datasets. Molecular BioSystems, 11(10), 2699-2708. [More Information]
Van Oijen, A., Dixon, N. (2015). Probing molecular choreography through single-molecule biochemistry. Nature Structural and Molecular Biology, 22(12), 948-952. [More Information]
Robinson, A., McDonald, J., Caldas, V., Patel, M., Wood, E., Punter, C., Ghodke, H., Cox, M., Woodgate, R., Goodman, M., et al (2015). Regulation of Mutagenic DNA Polymerase V Activation in Space and Time. PLoS Genetics, 11(8). [More Information]
Geertsema, H., Schulte, A., Spenkelink, L., McGrath, W., Morrone, S., Sohn, J., Mangel, W., Robinson, A., Van Oijen, A. (2015). Single-molecule imaging at high fluorophore concentrations by local activation of dye. Biophysical Journal, 108(4), 949-956. [More Information]
Geertsema, H., Van Oijen, A. (2015). Single-molecule observation of prokaryotic DNA replication. Methods in Molecular Biology, 1300, 219-238. [More Information]
Stratmann, S., Morrone, S., Van Oijen, A., Sohn, J. (2015). The innate immune sensor IFI16 recognizes foreign DNA in the nucleus by scanning along the duplex. eLife, 4(DECEMBER2015). [More Information]
Turkin, A., Van Oijen, A., Turkin, A. (2015). Theory of bimolecular reactions in a solution with linear traps: Application to the problem of target search on DNA. Physical Review E, 92(5). [More Information]
Mashaghi, S., Van Oijen, A. (2014). A versatile approach to the generation of fluid supported lipid bilayers and its applications. Biotechnology and Bioengineering, 111(10), 2076-2081. [More Information]
Stratmann, S., Van Oijen, A. (2014). DNA replication at the single-molecule level. Chemical Society Reviews, 43(4), 1201-1220. [More Information]
Kusters, I., Van Oijen, A., Driessen, A. (2014). Membrane-on-a-chip: Microstructured silicon/silicon-dioxide chips for high-throughput screening of membrane transport and viral membrane fusion. ACS Nano, 8(4), 3380-3392. [More Information]
Otterstrom, J., Brenburg, B., Koldijk, M., Juraszek, J., Tang, C., Mashaghi, S., Kwaks, T., Goudsmit, J., Vogels, R., Friesen, R., et al (2014). Relating influenza virus membrane fusion kinetics to stoichiometry of neutralizing antibodies at the single-particle level. Proceedings of the National Academy of Sciences of the United States of America, 111(48), E5143-E5148. [More Information]
Duderstadt, K., Reyes-Lamothe, R., Van Oijen, A., Sherratt, D. (2014). Replication-fork dynamics. Cold Spring Harbor Perspectives in Biology, 6(1). [More Information]
Geertsema, H., Kulczyk, A., Richardson, C., Van Oijen, A. (2014). Single-molecule studies of polymerase dynamics and stoichiometry at the bacteriophage T7 replication machinery. Proceedings of the National Academy of Sciences of the United States of America, 111(11), 4073-4078. [More Information]
Jergic, S., Horan, N., Elshenawy, M., Mason, C., Urathamakul, T., Ozawa, K., Robinson, A., Goudsmits, J., Wang, Y., Pan, X., et al (2013). A direct proofreader-clamp interaction stabilizes the Pol III replicase in the polymerization mode. EMBO Journal, 32(9), 1322-1333. [More Information]
Geertsema, H., Van Oijen, A. (2013). A single-molecule view of DNA replication: The dynamic nature of multi-protein complexes revealed. Current Opinion in Structural Biology, 23(5), 788-793. [More Information]
Robinson, A., Van Oijen, A. (2013). Bacterial replication, transcription and translation: Mechanistic insights from single-molecule biochemical studies. Nature Reviews Microbiology, 11(5), 303-315. [More Information]
Brandenburg, B., Koudstaal, W., Goudsmit, J., Klaren, V., Tang, C., Bujny, M., Korse, H., Kwaks, T., Otterstrom, J., Juraszek, J., et al (2013). Mechanisms of hemagglutinin targeted influenza virus neutralization. PloS One, 8(12). [More Information]
Erkens, G., Hänelt, I., Goudsmits, J., Slotboom, D., Van Oijen, A. (2013). Unsynchronised subunit motion in single trimeric sodium-coupled aspartate transporters. Nature, 502(7469), 119-123. [More Information]
Yardimci, H., Wang, X., Kochaniak, A., Tappin, I., Rudner, D., Hurwitz, J., Van Oijen, A., Walter, J. (2012). Bypass of a protein barrier by a replicative DNA helicase. Nature, 492(7428), 205-209. [More Information]
Leith, J., Tafvizi, A., Huang, F., Uspal, W., Doyle, P., Fersht, A., Mirny, L., Van Oijen, A. (2012). Sequence-dependent sliding kinetics of p53. Proceedings of the National Academy of Sciences of the United States of America, 109(41), 16552-16557. [More Information]
Yardimci, H., Kochaniak, A., Van Oijen, A., Walter, J. (2012). Single-molecule analysis of DNA replication in Xenopus egg extracts. Methods, 57(2), 179-186. [More Information]
Quessada-Vial, A., Van Oijen, A. (2012). Spotting the mistakes, one molecule at a time. Structure, 20(7), 1130-1132. [More Information]
Williams, K., Grafe, B., Burke, K., Tanner, N., Van Oijen, A., Loparo, J., Price, A. (2011). A single molecule DNA flow stretching microscope for undergraduates. American Journal of Physics, 79(11), 1112-1120. [More Information]
Lebofsky, R., Van Oijen, A., Walter, J. (2011). DNA is a co-factor for its own replication in Xenopus egg extracts. Nucleic Acids Research, 39(2), 545-555. [More Information]
Akabayov, B., Kulczyk, A., Akabayov, S., Theile, C., McLaughlin, L., Beauchamp, B., Van Oijen, A., Richardson, C. (2011). Pyrovanadolysis, a pyrophosphorolysis-like reaction mediated by pyrovanadate, Mn 2+, and DNA polymerase of bacteriophage T7. Journal of Biological Chemistry, 286(33), 29146-29157. [More Information]
Van Oijen, A. (2011). Single-molecule approaches to characterizing kinetics of biomolecular interactions. Current Opinion in Biotechnology, 22(1), 75-80. [More Information]
Van Oijen, A., Loparo, J. (2010). Single-molecule studies of the replisome. Annual Review of Biophysics, 39, 429-448. [More Information]
Kirchhausen, T., Boll, W., Van Oijen, A., Ehrlich, M. (2005). Single-molecule live-cell imaging of clathrin-based endocytosis. Biochemical Society Symposium, 72, 71-76. [More Information]

show 109 more

Conferences

Van Oijen, A. (2013). Biology at the nanoscale, one molecule at a time. 17th International Conference on Miniaturized Systems for Chemistry and Life Sciences, MicroTAS 2013, San Diego, USA: Chemical and Biological Microsystems Society.
Mashaghi, S., Van Oijen, A. (2013). Towards a high-throughput, droplet-based viral-fusion assay with single-particle sensitivity. 17th International Conference on Miniaturized Systems for Chemistry and Life Sciences, MicroTAS 2013, San Diego, USA: Chemical and Biological Microsystems Society.
Salentijn, G., van Dijk, E., Geertsema, H., Jellema, L., Van Oijen, A., Verpoorte, E. (2011). DNA purification in continuous nanoliter flows using flowinduced electrokinetic trapping: Influence of ionic strength and chip conditioning. 15th International Conference on Miniaturized Systems for Chemistry and Life Sciences 2011, MicroTAS 2011, United States: Chemical and Biological Microsystems Society.
Floyd, D., Otterstrom, J., Skehel, J., Harrison, S., Van Oijen, A. (2010). Visualizing viral fusion at the single-particle level in microchannels. 14th International Conference on Miniaturized Systems for Chemistry and Life Sciences 2010, MicroTAS 2010, United States: Chemical and Biological Microsystems Society.
Brakenhoff, R., van Oijen, A., Kohler, J., Muller, M., Schmidt, J. (1999). Three-dimensional super-resolution imaging of single molecules by spectrally selective confocal microscopy. 1999 Proceedings of SPIE - The International Society for Optical Engineering, Washingtion: Society of Photo-optical Instrumentation Engineers.

show 2 more

By Year

Expand all

2023

Lewis, J., Van Oijen, A., Spenkelink, L. (2023). Embracing Heterogeneity: Challenging the Paradigm of Replisomes as Deterministic Machines. Chemical Reviews, 123(23), 13419-13440. [More Information]
Cox, M., Goodman, M., Keck, J., Van Oijen, A., Lovett, S., Robinson, A. (2023). Generation and Repair of Postreplication Gaps in Escherichia coli. Microbiology and Molecular Biology Reviews, 87(2). [More Information]
Mueller, S., Fitschen, L., Shirbini, A., Hamdan, S., Spenkelink, L., Van Oijen, A. (2023). Rapid single-molecule characterisation of enzymes involved in nucleic-acid metabolism. Nucleic Acids Research, 51(1), E5-E5. [More Information]
Henry, C., Kaur, G., Cherry, M., Henrikus, S., Bonde, N., Sharma, N., Beyer, H., Wood, E., Chitteni-Pattu, S., van Oijen, A., et al (2023). RecF protein targeting to post-replication (daughter strand) gaps II: RecF interaction with replisomes. Nucleic Acids Research, 51(11), 5714-5742. [More Information]
Whinn, K., Xu, Z., Jergic, S., Sharma, N., Spenkelink, L., Dixon, N., Van Oijen, A., Ghodke, H. (2023). Single-molecule visualization of stalled replication-fork rescue by the Escherichia coli Rep helicase. Nucleic Acids Research, 51(7), 3307-3326. [More Information]
Kusi-Appauh, N., Ralph, S., Van Oijen, A., Spenkelink, L. (2023). Understanding G-Quadruplex Biology and Stability Using Single-Molecule Techniques. The Journal of Physical Chemistry B, 127(25), 5521-5540. [More Information]

show 3 more

2022

Hawkins, O., Scott, A., Montgomery, A., Nicholas, B., Mullan, J., van Oijen, A., Degeling, C. (2022). Comparing public attitudes, knowledge, beliefs and behaviours towards antibiotics and antimicrobial resistance in Australia, United Kingdom, and Sweden (2010-2021): A systematic review, meta-analysis, and comparative policy analysis. PloS One, 17(1 January). [More Information]
Blijleven, J., Bouma, E., Van Duijl-Richter, M., Smit, J., Van Oijen, A. (2022). Cooperative Chikungunya Virus Membrane Fusion and Its Substoichiometric Inhibition by CHK-152 Antibody. Viruses, 14(2). [More Information]
Revitt-Mills, S., Wright, E., Vereker, M., O'Flaherty, C., McPherson, F., Dawson, C., van Oijen, A., Robinson, A. (2022). Defects in DNA double-strand break repair resensitize antibiotic-resistant Escherichia coli to multiple bactericidal antibiotics. MicrobiologyOpen, 11(5). [More Information]
Ojha, D., Jaszczur, M., Sikand, A., McDonald, J., Robinson, A., van Oijen, A., Mak, C., Pinaud, F., Cox, M., Woodgate, R., et al (2022). Host cell RecA activates a mobile element-encoded mutagenic DNA polymerase. Nucleic Acids Research, 50(12), 6854-6869. [More Information]
Miyakis, S., Brentnall, S., Masso, M., Reynolds, G., Byrne, M., Newton, P., Crawford, S., Fish, J., Nicholas, B., Hill, T., et al (2022). Key predictors and burden of meticillin-resistant Staphylococcus aureus infection in comparison with meticillin-susceptible S. aureus infection in an Australian hospital setting. Journal of Hospital Infection, 129, 41-48. [More Information]
Paudel, B., Xu, Z., Jergic, S., Oakley, A., Sharma, N., Brown, S., Bouwer, J., Lewis, P., Dixon, N., Van Oijen, A., et al (2022). Mechanism of transcription modulation by the transcription-repair coupling factor. Nucleic Acids Research, 50(10), 5688-5712. [More Information]
Keighley, C., Van Oijen, A., Brentnall, S., Sanderson-Smith, M., Newton, P., Miyakis, S. (2022). Multi-year antimicrobial-resistance trends in urine Escherichia coli isolates from both community-based and hospital-based laboratories of an Australian local health district. Journal of Global Antimicrobial Resistance, 31, 386-390. [More Information]
Wilkinson, E., Spenkelink, L., Van Oijen, A. (2022). Observing protein dynamics during DNA-lesion bypass by the replisome. Frontiers in Molecular Biosciences, 9. [More Information]
Kaur, G., Spenkelink, L., Lewis, J., Jergic, S., Dixon, N., Van Oijen, A. (2022). Production of long linear DNA substrates with site-specific chemical lesions for single-molecule replisome studies. Helicase Enzymes Part A, (pp. 299-315). United States: Academic Press Inc. [More Information]
Brown, J., Alford, R., Walsh, J., Spinney, R., Xu, S., Hertel, S., Berengut, J., Spenkelink, L., Van Oijen, A., Böcking, T., et al (2022). Rapid Exchange of Stably Bound Protein and DNA Cargo on a DNA Origami Receptor. ACS Nano, 16(4), 6455-6467. [More Information]
Marzano, N., Paudel, B., Van Oijen, A., Ecroyd, H. (2022). Real-time single-molecule observation of chaperoneassisted protein folding. Science Advances, 8(50). [More Information]
Zhong, Y., Moghaddas Sani, H., Paudel, B., Low, J., Silva, A., Mueller, S., Deshpande, C., Panjikar, S., Reid, X., Bedward, M., Mackay, J., et al (2022). The role of auxiliary domains in modulating CHD4 activity suggests mechanistic commonality between enzyme families. Nature Communications, 13(1). [More Information]

show 9 more

2021

Seinen, A., Spakman, D., Van Oijen, A., Driessen, A. (2021). Cellular dynamics of the SecA ATPase at the single molecule level. Scientific Reports, 11(1). [More Information]
Spinks, R., Spenkelink, L., Stratmann, S., Xu, Z., Stamford, N., Brown, S., Dixon, N., Jergic, S., Van Oijen, A. (2021). DnaB helicase dynamics in bacterial DNA replication resolved by single-molecule studies. Nucleic Acids Research, 49(12), 6804-6816. [More Information]
Urbanska, M., Lüdecke, A., Walter, W., Van Oijen, A., Duderstadt, K., Diez, S. (2021). Highly-Parallel Microfluidics-Based Force Spectroscopy on Single Cytoskeletal Motors. Small, 17(18). [More Information]
Rice, L., Ecroyd, H., Van Oijen, A. (2021). Illuminating amyloid fibrils: Fluorescence-based single-molecule approaches. Computational and Structural Biotechnology Journal, 19, 4711-4724. [More Information]
Spinks, R., Spenkelink, L., Van Oijen, A. (2021). Single-Molecule Fluorescence Methods to Study Protein Exchange Kinetics in Supramolecular Complexes. Methods in Molecular Biology, 2281, 49-65. [More Information]
Henrikus, S., van Oijen, A., Robinson, A. (2021). Single-molecule fluorescence microscopy reveals modulation of DNA polymerase IV-binding lifetimes by UmuD (K97A) and UmuD′. Current Genetics, 67(2), 295-303. [More Information]
Johnston, C., Marzano, N., Paudel, B., Wright, G., Benesch, J., Van Oijen, A., Ecroyd, H. (2021). Single-molecule fluorescence-based approach reveals novel mechanistic insights into human small heat shock protein chaperone function. Journal of Biological Chemistry, 296. [More Information]
Spinks, R., Spenkelink, L., Dixon, N., Van Oijen, A. (2021). Single-Molecule Insights Into the Dynamics of Replicative Helicases. Frontiers in Molecular Biosciences, 8. [More Information]
Whinn, K., Van Oijen, A., Ghodke, H. (2021). Single-molecule studies of helicases and translocases in prokaryotic genome-maintenance pathways. DNA Repair, 108. [More Information]

show 6 more

2020

Paudel, B., Moye, A., Assi, H., El-Khoury, R., Cohen, J., Holien, J., Birrento, M., Samosorn, S., Intharapichai, K., Tomlinson, C., Bryan, T., et al (2020). A mechanism for the extension and unfolding of parallel telomeric g-quadruplexes by human telomerase at single-molecule resolution. eLife, 9, 1-30. [More Information]
Monachino, E., Jergic, S., Lewis, J., Xu, Z., Lo, A., O'Shea, V., Berger, J., Dixon, N., Van Oijen, A. (2020). A Primase-Induced Conformational Switch Controls the Stability of the Bacterial Replisome. Molecular Cell, 79(1), 140-154.e7. [More Information]
Marzano, N., Wray, K., Johnston, C., Paudel, B., Hong, Y., Van Oijen, A., Ecroyd, H. (2020). An α-Cyanostilbene Derivative for the Enhanced Detection and Imaging of Amyloid Fibril Aggregates. ACS Chemical Neuroscience, 11(24), 4191-4202. [More Information]
Zhong, Y., Paudel, B., Ryan, D., Low, J., Franck, C., Patel, K., Bedward, M., Torrado, M., Payne, R., Van Oijen, A., Mackay, J. (2020). CHD4 slides nucleosomes by decoupling entry- and exit-side DNA translocation. Nature Communications, 11(1), 1519. [More Information]
Degeling, C., Carter, S., Van Oijen, A., McAnulty, J., Sintchenko, V., Braunack-Mayer, A., Yarwood, T., Johnson, J., Gilbert, G. (2020). Community perspectives on the benefits and risks of technologically enhanced communicable disease surveillance systems: A report on four community juries. BMC Medical Ethics, 21(1), 31. [More Information]
Mueller, S., Spenkelink, L., Van Oijen, A., Lewis, J. (2020). Design of customizable long linear DNA substrates with controlled end modifications for single-molecule studies. Analytical Biochemistry, 592. [More Information]
Dubiel, K., Henry, C., Spenkelink, L., Kozlov, A., Wood, E., Jergic, S., Dixon, N., Van Oijen, A., Cox, M., Lohman, T., et al (2020). Development of a single-stranded DNA-binding protein fluorescent fusion toolbox. Nucleic Acids Research, 48(11), 6053-6067. [More Information]
Romero, Z., Armstrong, T., Henrikus, S., Chen, S., Glass, D., Ferrazzoli, A., Wood, E., Chitteni-Pattu, S., van Oijen, A., Lovett, S., et al (2020). Frequent template switching in postreplication gaps: Suppression of deleterious consequences by the Escherichia coliUup and RadD proteins. Nucleic Acids Research, 48(1), 212-230. [More Information]
Schauer, G., Spenkelink, L., Lewis, J., Yurieva, O., Mueller, S., Van Oijen, A., O’Donnell, M. (2020). Replisome bypass of a protein-based R-loop block by Pif1. Proceedings of the National Academy of Sciences of the United States of America, 117(48), 30354-30361. [More Information]
Romero, Z., Chen, S., Armstrong, T., Wood, E., van Oijen, A., Robinson, A., Cox, M. (2020). Resolving Toxic DNA repair intermediates in every E. coli replication cycle: critical roles for RecG, Uup and RadD. Nucleic Acids Research, 48(15), 8445-8460. [More Information]
Ho, H., Van Oijen, A., Ghodke, H. (2020). Single-molecule imaging reveals molecular coupling between transcription and DNA repair machinery in live cells. Nature Communications, 11(1). [More Information]
Henrikus, S., Henry, C., Mcgrath, A., Jergic, S., McDonald, J., Hellmich, Y., Bruckbauer, S., Ritger, M., Cherry, M., Wood, E., et al (2020). Single-molecule live-cell imaging reveals RecB-dependent function of DNA polymerase IV in double strand break repair. Nucleic Acids Research, 48(15), 8490-8508. [More Information]
Ghodke, H., Ho, H., Van Oijen, A. (2020). Single-molecule live-cell imaging visualizes parallel pathways of prokaryotic nucleotide excision repair. Nature Communications, 11(1). [More Information]
Lewis, J., Spenkelink, L., Schauer, G., Yurieva, O., Mueller, S., Natarajan, V., Kaur, G., Maher, C., Kay, C., O'Donnell, M., et al (2020). Tunability of DNA Polymerase Stability during Eukaryotic DNA Replication. Molecular Cell, 77(1), 17-25.e5. [More Information]

show 11 more

2019

Ho, H., Zalami, D., Köhler, J., Van Oijen, A., Ghodke, H. (2019). Identification of Multiple Kinetic Populations of DNA-Binding Proteins in Live Cells. Biophysical Journal, 117(5), 950-961. [More Information]
Whinn, K., Kaur, G., Lewis, J., Schauer, G., Mueller, S., Jergic, S., Maynard, H., Gan, Z., Naganbabu, M., Bruchez, M., et al (2019). Nuclease dead Cas9 is a programmable roadblock for DNA replication. Scientific Reports, 9(1). [More Information]
Henrikus, S., Henry, C., Ghodke, H., Wood, E., Mbele, N., Saxena, R., Basu, U., van Oijen, A., Cox, M., Robinson, A. (2019). RecFOR epistasis group: RecF and RecO have distinct localizations and functions in Escherichia coli. Nucleic Acids Research, 47(6), 2946-2965. [More Information]
Spenkelink, L., Lewis, J., Jergic, S., Xu, Z., Robinson, A., Dixon, N., Van Oijen, A. (2019). Recycling of single-stranded DNA-binding protein by the bacterial replisome. Nucleic Acids Research, 47(8), 4111-4123. [More Information]
Walsh, E., Henrikus, S., Vaisman, A., Makiela-Dzbenska, K., Armstrong, T., Łazowski, K., McDonald, J., Goodman, M., van Oijen, A., Jonczyk, P., et al (2019). Role of RNase H enzymes in maintaining genome stability in Escherichia coli expressing a steric-gate mutant of pol VICE391. DNA Repair, 84. [More Information]
Kaur, G., Lewis, J., Van Oijen, A. (2019). Shining a spotlight on DNA: Single-molecule methods to visualise DNA. Molecules, 24(3). [More Information]
Whinn, K., Van Oijen, A., Ghodke, H. (2019). Spy-ing on Cas9: Single-molecule tools reveal the enzymology of Cas9. Current Opinion in Biomedical Engineering, 12, 25-33. [More Information]
Mueller, S., Spenkelink, L., Van Oijen, A. (2019). When proteins play tag: the dynamic nature of the replisome. Biophysical Reviews, 11(4), 641-651. [More Information]

show 5 more

2018

Ren, W., Wen, S., Tawfik, S., Su, Q., Lin, G., Ju, A., Ford, M., Ghodke, H., Van Oijen, A., Jin, D. (2018). Anisotropic functionalization of upconversion nanoparticles. Chemical Science, 9(18), 4352-4358. [More Information]
Monachino, E., Ghodke, H., Spinks, R., Hoatson, B., Jergic, S., Xu, Z., Dixon, N., Van Oijen, A. (2018). Design of DNA rolling-circle templates with controlled fork topology to study mechanisms of DNA replication. Analytical Biochemistry, 557, 42-45. [More Information]
Hill, F., Van Oijen, A., Duderstadt, K. (2018). Detection of kinetic change points in piece-wise linear single molecule motion. Journal of Chemical Physics, 148(12). [More Information]
Henrikus, S., Wood, E., McDonald, J., Cox, M., Woodgate, R., Goodman, M., Van Oijen, A., Robinson, A. (2018). DNA polymerase IV primarily operates outside of DNA replication forks in Escherichia coli. PLoS Genetics, 14(1). [More Information]
Boonstra, S., Blijleven, J., et al, Van Oijen, A. (2018). Hemagglutinin-Mediated Membrane Fusion: A Biophysical Perspective. Annual Review of Biophysics, 47, 153-173. [More Information]
Jin, D., Xi, P., Wang, B., Zhang, L., Enderlein, J., Van Oijen, A. (2018). Nanoparticles for super-resolution microscopy and single-molecule tracking. Nature Methods, 15(6), 415-423. [More Information]
Belfiore, L., Spenkelink, L., Ranson, M., Van Oijen, A., Vine, K. (2018). Quantification of ligand density and stoichiometry on the surface of liposomes using single-molecule fluorescence imaging. Journal of Controlled Release, 278, 80-86. [More Information]
Ghodke, H., Lewis, J., Van Oijen, A. (2018). Resolving the Gordian Knot: Srs2 Strips Intermediates Formed during Homologous Recombination. Trends in Biochemical Sciences, 43(3), 149-151. [More Information]
Ghodke, H., Ho, H., Van Oijen, A. (2018). Single-molecule live-cell imaging of bacterial DNA repair and damage tolerance. Biochemical Society Transactions, 46(1), 23-35. [More Information]
Van Der Borg, G., Braddock, S., Blijleven, J., Van Oijen, A., Roos, W. (2018). Single-particle fusion of influenza viruses reveals complex interactions with target membranes. Journal of Physics: Condensed Matter, 30(20). [More Information]
Henrikus, S., van Oijen, A., Robinson, A. (2018). Specialised DNA polymerases in Escherichia coli: roles within multiple pathways. Current Genetics, 64(6), 1189-1196. [More Information]
Bianchi, F., Syga, L., Moiset, G., Spakman, D., Schavemaker, P., Punter, C., Seinen, A., Van Oijen, A., Robinson, A., Poolman, B. (2018). Steric exclusion and protein conformation determine the localization of plasma membrane transporters. Nature Communications, 9(1). [More Information]
Cox, D., Whiten, D., Brown, J., Horrocks, M., Gil, R., Dobson, C., Klenerman, D., Van Oijen, A., Ecroyd, H. (2018). The small heat shock protein Hsp27 binds -synuclein fibrils, preventing elongation and cytotoxicity. Journal of Biological Chemistry, 293(12), 4486-4497. [More Information]
Ho, H., Van Oijen, A., Ghodke, H. (2018). The transcription-repair coupling factor Mfd associates with RNA polymerase in the absence of exogenous damage. Nature Communications, 9(1). [More Information]
Johnston, C., Marzano, N., Van Oijen, A., Ecroyd, H. (2018). Using Single-Molecule Approaches to Understand the Molecular Mechanisms of Heat-Shock Protein Chaperone Function. Journal of Molecular Biology, 430(22), 4525-4546. [More Information]

show 12 more

2017

Vallotton, P., Van Oijen, A., Whitchurch, C., Gelfand, V., Yeo, L., Tsiavaliaris, G., Heinrich, S., Dultz, E., Weis, K., Grünwald, D. (2017). Diatrack particle tracking software: Review of applications and performance evaluation. Traffic, 18(12), 840-852. [More Information]
Van Oijen, A., Goudsmits, J., Slotboom, D. (2017). Single-Molecule Fluorescence Studies of Membrane Transporters Using Total Internal Reflection Microscopy. Methods in Enzymology, 594, 101-121. [More Information]
Goudsmits, J., Slotboom, D., Van Oijen, A. (2017). Single-molecule visualization of conformational changes and substrate transport in the Vitamin B12 ABC importer BtuCD-F. Nature Communications, 8(1). [More Information]
Lewis, J., Spenkelink, L., Jergic, S., Wood, E., Monachino, E., Horan, N., Duderstadt, K., Cox, M., Robinson, A., Dixon, N., et al (2017). Single-molecule visualization of fast polymerase turnover in the bacterial replisome. eLife, 6. [More Information]
Lewis, J., Spenkelink, L., Schauer, G., Hill, F., Georgescu, R., O’Donnell, M., Van Oijen, A. (2017). Single-molecule visualization of Saccharomyces cerevisiae leading-strand synthesis reveals dynamic interaction between MTC and the replisome. Proceedings of the National Academy of Sciences of the United States of America, 114(40), 10630-10635. [More Information]
Hill, F., Monachino, E., Van Oijen, A. (2017). The more the merrier: High-throughput single-molecule techniques. Biochemical Society Transactions, 45(3), 759-769. [More Information]
Monachino, E., Spenkelink, L., Van Oijen, A. (2017). Watching cellular machinery in action, one molecule at a time. The Journal of Cell Biology, 216(1), 41-51. [More Information]

show 4 more

2016

Goudsmits, J., Van Oijen, A., Robinson, A. (2016). A tool for alignment and averaging of sparse fluorescence signals in rod-shaped bacteria. Biophysical Journal, 110(8), 1708-1715. [More Information]
Kalkman, G., Zhang, Y., Monachino, E., Mathwig, K., Kamminga, M., Pourhossein, P., Oomen, P., Stratmann, S., Zhao, Z., Van Oijen, A., et al (2016). Bisecting Microfluidic Channels with Metallic Nanowires Fabricated by Nanoskiving. ACS Nano, 10(2), 2852-2859. [More Information]
Mashaghi, S., Van Oijen, A. (2016). Droplet microfluidics for kinetic studies of viral fusion. Applied Physics Reviews, 10(2). [More Information]
Mashaghi, S., Abbaspourrad, A., Weitz, D., Van Oijen, A. (2016). Droplet microfluidics: A tool for biology, chemistry and nanotechnology. Trends In Analytical Chemistry, 82, 118-125. [More Information]
Koch, S., De Wit, J., Vos, I., Birkner, J., Gordiichuk, P., Herrmann, A., Van Oijen, A., Driessen, A. (2016). Lipids activate SecA for high affinity binding to the SecYEG complex. Journal of Biological Chemistry, 291(43), 22534-22543. [More Information]
Blijleven, J., Boonstra, S., Onck, P., van der Giessen, E., Van Oijen, A. (2016). Mechanisms of influenza viral membrane fusion. Seminars in Cell & Developmental Biology, 60, 78-88. [More Information]
Jaszczur, M., Bertram, J., Robinson, A., Van Oijen, A., Woodgate, R., Cox, M., Goodman, M. (2016). Mutations for Worse or Better: Low-Fidelity DNA Synthesis by SOS DNA Polymerase V Is a Tightly Regulated Double-Edged Sword. Biochemistry, 55(16), 2309-2318. [More Information]
van Gijtenbeek, L., Robinson, A., Van Oijen, A., Poolman, B., Kok, J. (2016). On the Spatial Organization of mRNA, Plasmids, and Ribosomes in a Bacterial Host Overexpressing Membrane Proteins. PLoS Genetics, 12(12). [More Information]
Duderstadt, K., Geertsema, H., Stratmann, S., Punter, C., Kulczyk, A., Richardson, C., Van Oijen, A. (2016). Simultaneous Real-Time Imaging of Leading and Lagging Strand Synthesis Reveals the Coordination Dynamics of Single Replisomes. Molecular Cell, 64(6), 1035-1047. [More Information]
Ghodke, H., Caldas, V., Punter, C., Van Oijen, A., Robinson, A. (2016). Single-Molecule Specific Mislocalization of Red Fluorescent Proteins in Live Escherichia coli. Biophysical Journal, 111(1), 25-27. [More Information]
Turkin, A., Zhang, L., Marcozzi, A., Mangel, W., Herrmann, A., Van Oijen, A. (2016). Speeding up biomolecular interactions by molecular sledding. Chemical Science, 7(2), 916-920. [More Information]
Åberg, C., Duderstadt, K., Van Oijen, A. (2016). Stability versus exchange: A paradox in DNA replication. Nucleic Acids Research, 44(10), 4846-4854. [More Information]

show 9 more

2015

Van Duijl-Richter, M., Blijleven, J., Van Oijen, A., Smit, J. (2015). Chikungunya virus fusion properties elucidated by single-particle and bulk approaches. Journal of General Virology, 96(8), 2122-2132. [More Information]
Mashaghi, S., Van Oijen, A. (2015). External control of reactions in microdroplets. Scientific Reports, 5. [More Information]
Caldas, V., Punter, C., Ghodke, H., Robinson, A., Van Oijen, A. (2015). ISBatch: A batch-processing platform for data analysis and exploration of live-cell single-molecule microscopy images and other hierarchical datasets. Molecular BioSystems, 11(10), 2699-2708. [More Information]
Van Oijen, A., Dixon, N. (2015). Probing molecular choreography through single-molecule biochemistry. Nature Structural and Molecular Biology, 22(12), 948-952. [More Information]
Robinson, A., McDonald, J., Caldas, V., Patel, M., Wood, E., Punter, C., Ghodke, H., Cox, M., Woodgate, R., Goodman, M., et al (2015). Regulation of Mutagenic DNA Polymerase V Activation in Space and Time. PLoS Genetics, 11(8). [More Information]
Geertsema, H., Schulte, A., Spenkelink, L., McGrath, W., Morrone, S., Sohn, J., Mangel, W., Robinson, A., Van Oijen, A. (2015). Single-molecule imaging at high fluorophore concentrations by local activation of dye. Biophysical Journal, 108(4), 949-956. [More Information]
Geertsema, H., Van Oijen, A. (2015). Single-molecule observation of prokaryotic DNA replication. Methods in Molecular Biology, 1300, 219-238. [More Information]
Stratmann, S., Morrone, S., Van Oijen, A., Sohn, J. (2015). The innate immune sensor IFI16 recognizes foreign DNA in the nucleus by scanning along the duplex. eLife, 4(DECEMBER2015). [More Information]
Turkin, A., Van Oijen, A., Turkin, A. (2015). Theory of bimolecular reactions in a solution with linear traps: Application to the problem of target search on DNA. Physical Review E, 92(5). [More Information]

show 6 more

2014

Mashaghi, S., Van Oijen, A. (2014). A versatile approach to the generation of fluid supported lipid bilayers and its applications. Biotechnology and Bioengineering, 111(10), 2076-2081. [More Information]
Stratmann, S., Van Oijen, A. (2014). DNA replication at the single-molecule level. Chemical Society Reviews, 43(4), 1201-1220. [More Information]
Kusters, I., Van Oijen, A., Driessen, A. (2014). Membrane-on-a-chip: Microstructured silicon/silicon-dioxide chips for high-throughput screening of membrane transport and viral membrane fusion. ACS Nano, 8(4), 3380-3392. [More Information]
Otterstrom, J., Brenburg, B., Koldijk, M., Juraszek, J., Tang, C., Mashaghi, S., Kwaks, T., Goudsmit, J., Vogels, R., Friesen, R., et al (2014). Relating influenza virus membrane fusion kinetics to stoichiometry of neutralizing antibodies at the single-particle level. Proceedings of the National Academy of Sciences of the United States of America, 111(48), E5143-E5148. [More Information]
Duderstadt, K., Reyes-Lamothe, R., Van Oijen, A., Sherratt, D. (2014). Replication-fork dynamics. Cold Spring Harbor Perspectives in Biology, 6(1). [More Information]
Geertsema, H., Kulczyk, A., Richardson, C., Van Oijen, A. (2014). Single-molecule studies of polymerase dynamics and stoichiometry at the bacteriophage T7 replication machinery. Proceedings of the National Academy of Sciences of the United States of America, 111(11), 4073-4078. [More Information]

show 3 more

2013

Jergic, S., Horan, N., Elshenawy, M., Mason, C., Urathamakul, T., Ozawa, K., Robinson, A., Goudsmits, J., Wang, Y., Pan, X., et al (2013). A direct proofreader-clamp interaction stabilizes the Pol III replicase in the polymerization mode. EMBO Journal, 32(9), 1322-1333. [More Information]
Geertsema, H., Van Oijen, A. (2013). A single-molecule view of DNA replication: The dynamic nature of multi-protein complexes revealed. Current Opinion in Structural Biology, 23(5), 788-793. [More Information]
Robinson, A., Van Oijen, A. (2013). Bacterial replication, transcription and translation: Mechanistic insights from single-molecule biochemical studies. Nature Reviews Microbiology, 11(5), 303-315. [More Information]
Van Oijen, A. (2013). Biology at the nanoscale, one molecule at a time. 17th International Conference on Miniaturized Systems for Chemistry and Life Sciences, MicroTAS 2013, San Diego, USA: Chemical and Biological Microsystems Society.
Brandenburg, B., Koudstaal, W., Goudsmit, J., Klaren, V., Tang, C., Bujny, M., Korse, H., Kwaks, T., Otterstrom, J., Juraszek, J., et al (2013). Mechanisms of hemagglutinin targeted influenza virus neutralization. PloS One, 8(12). [More Information]
Mashaghi, S., Van Oijen, A. (2013). Towards a high-throughput, droplet-based viral-fusion assay with single-particle sensitivity. 17th International Conference on Miniaturized Systems for Chemistry and Life Sciences, MicroTAS 2013, San Diego, USA: Chemical and Biological Microsystems Society.
Erkens, G., Hänelt, I., Goudsmits, J., Slotboom, D., Van Oijen, A. (2013). Unsynchronised subunit motion in single trimeric sodium-coupled aspartate transporters. Nature, 502(7469), 119-123. [More Information]

show 4 more

2012

Yardimci, H., Wang, X., Kochaniak, A., Tappin, I., Rudner, D., Hurwitz, J., Van Oijen, A., Walter, J. (2012). Bypass of a protein barrier by a replicative DNA helicase. Nature, 492(7428), 205-209. [More Information]
Leith, J., Tafvizi, A., Huang, F., Uspal, W., Doyle, P., Fersht, A., Mirny, L., Van Oijen, A. (2012). Sequence-dependent sliding kinetics of p53. Proceedings of the National Academy of Sciences of the United States of America, 109(41), 16552-16557. [More Information]
Yardimci, H., Kochaniak, A., Van Oijen, A., Walter, J. (2012). Single-molecule analysis of DNA replication in Xenopus egg extracts. Methods, 57(2), 179-186. [More Information]
Quessada-Vial, A., Van Oijen, A. (2012). Spotting the mistakes, one molecule at a time. Structure, 20(7), 1130-1132. [More Information]

show 1 more

2011

Williams, K., Grafe, B., Burke, K., Tanner, N., Van Oijen, A., Loparo, J., Price, A. (2011). A single molecule DNA flow stretching microscope for undergraduates. American Journal of Physics, 79(11), 1112-1120. [More Information]
Lebofsky, R., Van Oijen, A., Walter, J. (2011). DNA is a co-factor for its own replication in Xenopus egg extracts. Nucleic Acids Research, 39(2), 545-555. [More Information]
Salentijn, G., van Dijk, E., Geertsema, H., Jellema, L., Van Oijen, A., Verpoorte, E. (2011). DNA purification in continuous nanoliter flows using flowinduced electrokinetic trapping: Influence of ionic strength and chip conditioning. 15th International Conference on Miniaturized Systems for Chemistry and Life Sciences 2011, MicroTAS 2011, United States: Chemical and Biological Microsystems Society.
Akabayov, B., Kulczyk, A., Akabayov, S., Theile, C., McLaughlin, L., Beauchamp, B., Van Oijen, A., Richardson, C. (2011). Pyrovanadolysis, a pyrophosphorolysis-like reaction mediated by pyrovanadate, Mn 2+, and DNA polymerase of bacteriophage T7. Journal of Biological Chemistry, 286(33), 29146-29157. [More Information]
Van Oijen, A. (2011). Single-molecule approaches to characterizing kinetics of biomolecular interactions. Current Opinion in Biotechnology, 22(1), 75-80. [More Information]

show 2 more

2010

Van Oijen, A., Loparo, J. (2010). Single-molecule studies of the replisome. Annual Review of Biophysics, 39, 429-448. [More Information]
Tanner, N., Van Oijen, A. (2010). Visualizing DNA Replication at the Single-Molecule Level. In Not known (Eds.), Methods in Enzymology, (pp. 256-278). Academic Press Inc. [More Information]
Floyd, D., Otterstrom, J., Skehel, J., Harrison, S., Van Oijen, A. (2010). Visualizing viral fusion at the single-particle level in microchannels. 14th International Conference on Miniaturized Systems for Chemistry and Life Sciences 2010, MicroTAS 2010, United States: Chemical and Biological Microsystems Society.

2008

Hamdan, S., Van Oijen, A. (2008). Single Molecule Studies of Nucleic Acid Enzymes. Single Molecule Biology, (pp. 173-193). United States: Elsevier. [More Information]

2005

Kirchhausen, T., Boll, W., Van Oijen, A., Ehrlich, M. (2005). Single-molecule live-cell imaging of clathrin-based endocytosis. Biochemical Society Symposium, 72, 71-76. [More Information]

1999

Brakenhoff, R., van Oijen, A., Kohler, J., Muller, M., Schmidt, J. (1999). Three-dimensional super-resolution imaging of single molecules by spectrally selective confocal microscopy. 1999 Proceedings of SPIE - The International Society for Optical Engineering, Washingtion: Society of Photo-optical Instrumentation Engineers.

Selected Grants

2024

Single-molecule Manipulation and Interaction Facility (SMIF), Ju A, Kabakova I, Van Oijen A, Baker M, Wickham S, Spenkelink L, Gu Z, Su Q, Shen Y, Qiao R, Cheng W, Davis T, Yong K, Eggleton B, Morsch M, Australian Research Council (ARC)/Linkage Infrastructure, Equipment and Facilities (LIEF)

2023

USYD-Glasgow Biomedical Engineering Alliance: Revolutionising Cancer Immunotherapy with Triboelectric Nanogenerator (TENG)-Based Sensor Systems and zMovi High-throughput Cell Avidity Analyser Platform, Ju A, Jing Q, Rasko J, Vassali M, Van Oijen A, Mulvihill D, McGuire H, Li G, Wang Y, He Z, Yeo D, Silavnieks U, Office of Global Engagement/Ignition Grants