Agata Szuba and Fouzia Bano won 2nd place in the Royal Microscopical Society Scientific Imaging Competition 2021 with their AFM image of septins, gathered in the context of our recent eLife paper on membrane-templated septin assembly. You can find the full news article here.
Together with the Danelon and C. Dekker labs in the Bionanoscience department and the team of Kristina Ganzinger at AMOLF we developed a robust method to produce cell-like lipid vesicles that encapsulate biological systems such as cytoskeletal networks or living bacteria, an important step on the road to synthetic cells: Lori Van de Cauter, Federico Fanalista, Lennard van Buren, Nicola De Franceschi, Elisa Godino, Sharon Bouw, Christophe Danelon, Cees Dekker, Gijsje H. Koenderink, and Kristina A. Ganzinger, Optimized cDICE for Efficient Reconstitution of Biological Systems in Giant Unilamellar Vesicles, ACS Synthetic Biology june 29, 2021. Link to paper Link to AS news article Link to Synthetic Cell article
In a team effort with the labs of Manos Mavrakis (Institut Fresnel), Aurelie Bertin (Institut Curie) and Ralf Richter (University of Leeds), we studied how septins assemble into filamentous meshworks on model biomembranes, now out in eLife: Ref: A. Szuba, F. Bano, F. Iv, M. Mavrakis, R.P. Richter, A. Bertin, G.H. Koenderink, Membrane binding controls ordered self-assembly of animal septins, eLife 2021;10:e63349 You can find the full news article here.
Iain Muntz from the Koenderink lab together with Rachel Cahalane/Frank Vossen (ErasmusMC/TUD-3ME) and Milica Dostanic/Massimo Mastrangeli (TUD-EWI) were awarded €2500 by the Delft Bioengineering Institute to sponsor a joint interdisciplinary MSc project entitled ‘Engineering of a thrombus-on-chip model for stroke prevention’. The mechanical properties of blood clots are governed by interactions of platelets with blood clot components such as fibrin. The platelets strongly contract the fibrin matrix but to date, no quantitative measurements have been made to measure these contractile forces. In this project, we will combine biochemical reconstitution of artificial thrombi (TUD, 3ME) with the fabrication of PDMS micropillar devices to measure contractile forces (TUD, EWI) and with biophysical characterization using a microscale-indentation device (TUD, TNW). We can thus elucidate how the clot composition affects platelet-driven contraction during its formation, and how contraction in turn affects the mechanical properties of blood clots. The answers to these questions will provide key insight into blood clot mechanics and will lead to improvements in revascularisation techniques to prevent stroke.
Lucia has a blog and interview to inform the general public on the principles of her research
We just published a new preprint on biorxiv, work of Lennard van Buren and Federico Fanalista, together with the groups of Christophe Danelon, Cees Dekker, and Kristina Ganzinger: L. Van de Cauter, F. Fanalista, L. van Buren, N. De Franceschi, E. Godino, S. Bouw, C. Danelon, C. Dekker, G.H. Koenderink, K. Ganzinger, Optimized cDICE for efficient reconstitution of biological systems in giant unilamellar vesicles, ACS Synthetic Biology, biorxiv: 2021.02.24.432456
Welcome to all the new members joining the GK lab! Checkout our renewed “people” page and get to know them
Together with Giulia Giubertoni and Huib Bakker from AMOLF, we published a paper connecting spectroscopic measurements of hydrogen-bonding to the unique rheological properties of hyaluronic acid: G. Giubertoni, F. Burla, H.J. Bakker, G.H. Koenderink, Connecting the stimuli-responsive rheology of biopolymer hydrogels to underlying hydrogen-bonding interactions, Macromolecules 2020, 53, 23, 10503–10513
January 2021: Together with Aurelie Bertin (Institut Curie) and Manos Mavrakis (Institut Fresnel), we published a preprint on the purification and reconstitution of human septin octamers: link
December 2020: The Biosoft group wishes much success to Federico Fanalista in his future directions as he departs, and will miss deeply his bursting optimism:)
Friday 25th September 2020: Gijsje Koenderink presents her inaugural lecture entitled ‘Een langdradig verhaal over leven’
The Biosoft Group is happy to welcome 9 new arrivals this September! Check our people page for more info.
We are sad to say goodbye to Cristina Martinez Torres, who leaves us to start new page in Berlin. Much success in your future path Cristina!
Federica Burla defends her PhD thesis online at the VU Amsterdam and receives the degree cum laude
We have exciting new papers coming out!
K.A. Jansen, A. Zhmurov, B.E. Vos, G. Portale, D.H. Merino, R.I. Litvinov, V. Tutwiler, N.A. Kurniawana, W. Bras, J.W. Weisel, V. Barsegoi, G.H. Koenderink, Molecular packing structure of fibrin fibers resolved by X-ray scattering and molecular modeling, Soft Matter, in press, advance article: doi.org/10.1039/D0SM00916D
E.P. van Dam, G. Giubertoni, F. Burla, G.H. Koenderink, H. Bakker, Hyaluronan biopolymers release water upon pH-induced gelation, Phys. Chem. Chem. Phys., 22 (2020), 8667-8671
10 February 2020: MSc student Esther Kingma joins the lab! She will study the rheology of fibrin and hyaluronan hydrogels for applications in 3D-bioprinting, in collaboration with Prof. Amir Zadpoor & Dr. Lidy Fratila (TUD, 3ME) and Prof. Gerjo van Osch (ErasmusMC)
17 February 2020: MSc student Francois Lienard joins the lab! He will study the elastic properties of bacterial cell membranes
Friday 21 February 2020: Federico Fanalista has graduated and is now Dr. Fanalista!
24 February 2020: Together with other groups in a consortium led by prof. Erik Danen (Leiden) we were awarded an ENW-Groot grant ‘The Active Matter Physics of Collective Metastasis’ in the programme NWO Open Competition Domain Science – GROOT. In this program, we will elucidate the early stages of cancer metastasis by integrating theoretical models with experimental cell biology, biophysics, and tumor biology
13 January 2020: Goodbye drinks and dinner with Federica Burla
15 December 2019: Michal Shemesh joins the Biological Soft Matter group.
6 December 2019: Gijsje Koenderink gives a seminar at LUMICKS (Amsterdam) on single-molecule techniques in the context of cell and tissue mechanics.
15 November 2019: Federico Fanalista joined the Biological Soft Matter group.
12 November 2019 : Agata Szuba defended her PhD thesis ‘Deconstruction of septin assembly at the Vrije Universiteit Amsterdam.