Irep Gözen

• Gözen, Irep & Dommersnes, Paul Gunnar (2020). Biological lipid nanotubes and their potential role in evolution. The European Physical Journal Special Topics.  ISSN 1951-6355.  229(17-18), s 2843- 2862 . doi: 10.1140/epjst/e2020-000130-7 Full text in Research Archive. Show summary

  The membrane of cells and organelles are highly deformable fluid interfaces, and can take on a multitude of shapes. One distinctive and particularly interesting property of biological membranes is their ability to from long and uniform nanotubes. These nanoconduits are surprisingly omnipresent in all domains of life, from archaea, bacteria, to plants and mammals. Some of these tubes have been known for a century, while others were only recently discovered. Their designations are different in different branches of biology, e.g. they are called stromule in plants and tunneling nanotubes in mammals. The mechanical transformation of flat membranes to tubes involves typically a combination of membrane anchoring and external forces, leading to a pulling action that results in very rapid membrane nanotube formation – micrometer long tubes can form in a matter of seconds. Their radius is set by a mechanical balance of tension and bending forces. There also exists a large class of membrane nanotubes that form due to curvature inducing molecules. It seems plausible that nanotube formation and functionality in plants and animals may have been inherited from their bacterial ancestors during endosymbiotic evolution. Here we attempt to connect observations of nanotubes in different branches of biology, and outline their similarities and differences with the aim of providing a perspective on their joint functions and evolutionary origin.

• Köksal, Elif; Liese, Susanne; Xue, Lin; Ryskulov, Ruslan; Viitala, Lauri; Carlson, Andreas & Gözen, Irep (2020). Rapid Growth and Fusion of Protocells in Surface‐Adhered Membrane Networks. Small.  ISSN 1613-6810.  16(38) . doi: 10.1002/smll.202002529 Show summary

  Elevated temperatures might have promoted the nucleation, growth, and replication of protocells on the early Earth. Recent reports have shown evidence that moderately high temperatures not only permit protocell assembly at the origin of life, but can have actively supported it. Here, the fast nucleation and growth of vesicular compartments from autonomously formed lipid networks on solid surfaces, induced by a moderate increase in temperature, are shown. Branches of the networks, initially consisting of self‐assembled interconnected nanotubes, rapidly swell into microcompartments which can spontaneously encapsulate RNA fragments. The increase in temperature further causes fusion of adjacent network‐connected compartments, resulting in the redistribution of the RNA. The experimental observations and the mathematical model indicate that the presence of nanotubular interconnections between protocells facilitates the fusion process.

• Spustová, Karolina; Köksal, Elif; Ainla, Alar & Gözen, Irep (2020). Subcompartmentalization and Pseudo‐Division of Model Protocells. Small.  ISSN 1613-6810.  17(2) . doi: 10.1002/smll.202005320 Show summary

  Membrane enclosed intracellular compartments have been exclusively associated with the eukaryotes, represented by the highly compartmentalized last eukaryotic common ancestor. Recent evidence showing the presence of membranous compartments with specific functions in archaea and bacteria makes it conceivable that the last universal common ancestor and its hypothetical precursor, the protocell, may have exhibited compartmentalization. To the authors’ knowledge, there are no experimental studies yet that have tested this hypothesis. They report on an autonomous subcompartmentalization mechanism for protocells which results in the transformation of initial subcompartments to daughter protocells. The process is solely determined by the fundamental materials properties and interfacial events, and does not require biological machinery or chemical energy supply. In the light of the authors’ findings, it is proposed that similar events may have taken place under early Earth conditions, leading to the development of compartmentalized cells and potentially, primitive division.

• Gözen, Irep (2019). A Hypothesis for Protocell Division on the Early Earth. ACS Nano.  ISSN 1936-0851.  13(10), s 10869- 10871 . doi: 10.1021/acsnano.9b06584
• Gupta, Abhay; Gözen, Irep & Taylor, Michael (2019). A cellular automaton for modeling non-trivial biomembrane ruptures. Soft Matter.  ISSN 1744-683X.  15(20), s 4178- 4186 . doi: 10.1039/c8sm02032a Full text in Research Archive.
• Horowitz, Viva R; Chambers, Zachary C; Gözen, Irep; Dimiduk, Thomas G & Manoharan, Vinothan N (2019). Active colloidal particles in emulsion droplets: a model system for the cytoplasm. The European Physical Journal Special Topics.  ISSN 1951-6355.  227(17), s 2413- 2424 . doi: 10.1140/epjst/e2019-800026-y Show summary

  In living cells, molecular motors create activity that enhances the diffusion of particles throughout the cytoplasm, and not just ones attached to the motors. We demonstrate initial steps toward creating artificial cells that mimic this phenomenon. Our system consists of active, Pt-coated Janus particles and passive tracers confined to emulsion droplets. We track the motion of both the active particles and passive tracers in a hydrogen peroxide solution, which serves as the fuel to drive the motion. We first show that correcting for bulk translational and rotational motion of the droplets induced by bubble formation is necessary to accurately track the particles. After drift correction, we find that the active particles show enhanced diffusion in the interior of the droplets and are not captured by the droplet interface. At the particle and hydrogen peroxide concentrations we use, we observe little coupling between the active and passive particles. We discuss the possible reasons for lack of coupling and describe ways to improve the system to more effectively mimic cytoplasmic activity.

• Joemetsa, Silver; Spustová, Karolina; Kustanovich, Kiryl; Ainla, Alar; Schindler, Severin; Eigler, Siegfried; Lobovkina, Tatsiana; Lara-Avila, Samuel; Jesorka, Aldo & Gözen, Irep (2019). Molecular Lipid Films on Microengineering Materials. Langmuir.  ISSN 0743-7463.  35(32), s 10286- 10298 . doi: 10.1021/acs.langmuir.9b01120
• Köksal, Elif; Belletati, Patrícia Fernandes; Reint, Ganna; Olsson, Ragni; Leitl, Kira; Kantarci, Ilayda & Gözen, Irep (2019). Spontaneous Formation and Rearrangement of Artificial Lipid Nanotube Networks as a Bottom-Up Model for Endoplasmic Reticulum. Journal of Visualized Experiments.  ISSN 1940-087X.  2019(143), s 1- 9 . doi: 10.3791/58923 Full text in Research Archive.
• Köksal, Elif; Liese, Susanne; Kantarci, Ilayda; Olsson, Ragni; Carlson, Andreas & Gözen, Irep (2019). Nanotube-Mediated Path to Protocell Formation. ACS Nano.  ISSN 1936-0851.  13(6), s 6867- 6878 . doi: 10.1021/acsnano.9b01646 Full text in Research Archive.
• Kustanovich, Kiryl; Yantchev, Ventsislav; Doosti, Baharan Ali; Gözen, Irep & Jesorka, Aldo (2019). A microfluidics-integrated impedance/surface acoustic resonance tandem sensor. Sensing and Bio-Sensing Research.  25 . doi: 10.1016/j.sbsr.2019.100291
• Rydmark, Marcella Orwick; Christensen, Mikkel; Köksal, Elif; Kantarci, Ilayda; Kustanovich, Kiryl; Yantchev, Ventsislav; Jesorka, Aldo & Gözen, Irep (2019). Styrene maleic acid copolymer induces pores in biomembranes. Soft Matter.  ISSN 1744-683X.  15(39), s 7934- 7944 . doi: 10.1039/C9SM01407A Full text in Research Archive.
• Bilal, Taylan & Gözen, Irep (2017). Formation and dynamics of endoplasmic reticulum-like lipid nanotube networks. Biomaterials Science.  ISSN 2047-4830.  5(7), s 1256- 1264 . doi: 10.1039/c7bm00227k
• Taylor, Michael; Gözen, Irep; Patel, Samir; Jesorka, Aldo & Bertoldi, Katia (2016). Peridynamic Modeling of Ruptures in Biomembranes. PLOS ONE.  ISSN 1932-6203. . doi: 10.1371/journal.pone.0165947
• Gözen, Irep & Jesorka, Aldo (2015). Lipid nanotube networks: Biomimetic Cell-to-Cell Communication and Soft-Matter Technology. Nanofabrication.  ISSN 2299-680X.  2, s 27- 31 . doi: 10.1515/nanofab-2015-0003
• Luo, ZhengYuan; Güven, Sinan; Gözen, Irep; Chen, Pu; Tasoglu, Savas; Anchan, Raymond M; Bai, BoFeng & Demirci, Utkan (2015). Deformation of a single mouse oocyte in a constricted microfluidic channel. Microfluidics and Nanofluidics.  ISSN 1613-4982.  19, s 883- 890 . doi: 10.1007/s10404-015-1614-0
• El Assal, Rami; Güven, Sinan; Gürkan, Umut Atakan; Gözen, Irep; Shafiee, Hadi; Dalbeyler, Sedef; Abdalla, Noor; Thomas, Gawain; Fuld, Wendy; Illigens, Ben M. W.; Estanislau, Jessica; Khoory, Joseph; Kaufman, Richard; Zylberberg, Claudia; Lindeman, Neal; Wen, Qi; Ghiran, Ionita & Demirci, Utkan (2014). Bio-Inspired Cryo-Ink Preserves Red Blood Cell Phenotype and Function During Nanoliter Vitrification. Advanced Materials.  ISSN 0935-9648.  26, s 5815- 5822 . doi: 10.1002/adma.201400941
• Gözen, Irep & Dommersnes, Paul Gunnar (2014). Pore dynamics in lipid membranes. The European Physical Journal Special Topics.  ISSN 1951-6355.  223, s 1813- 1829 . doi: 10.1140/epjst/e2014-02228-5
• Ainla, Alar; Gözen, Irep; Hakonen, Bodil & Jesorka, Aldo (2013). Lab on a Biomembrane: Rapid prototyping and manipulation of 2D fluidic lipid bilayer circuits. Scientific Reports.  ISSN 2045-2322.  3 . doi: 10.1038/srep02743
• Gözen, Irep; Örtmen, Bahanur; Põldsalu, Inga; Dommersnes, Paul Gunnar; Orwar, Owe & Jesorka, Aldo (2013). Repair of large area pores in supported double bilayers. Soft Matter.  ISSN 1744-683X.  9, s 2787- 2792 . doi: 10.1039/C3SM27429B
• Gözen, Irep; Shaali, Mehrnaz; Ainla, Alar; Örtmen, Bahanur; Põldsalu, Inga; Kustanovich, Kiryl; Jeffries, Gavin D. M.; Konkoli, Zoran; Dommersnes, Paul Gunnar & Jesorka, Aldo (2013). Thermal migration of molecular lipid films as a contactless fabrication strategy for lipid nanotube networks. Lab on a Chip.  ISSN 1473-0197.  13, s 3822- 3826 . doi: 10.1039/C3LC50391G
• Gözen, Irep; Dommersnes, Paul Gunnar; Orwar, Owe & Jesorka, Aldo (2012). Evidence for membrane flow through pores in stacked phospholipid membranes. Soft Matter.  ISSN 1744-683X.  8, s 6220- 6225 . doi: 10.1039/C2SM25629K
• Gözen, Irep & Jesorka, Aldo (2012). Instrumental Methods to Characterize Molecular Phospholipid Films on Solid Supports. Analytical Chemistry.  ISSN 0003-2700.  84 (2), s 822- 838 . doi: 10.1021/ac203126f
• Gözen, Irep; Billerit, Celine; Dommersnes, Paul Gunnar; Jesorka, Aldo & Orwar, Owe (2011). Calcium-ion-controlled nanoparticle-induced tubulation in supported flat phospholipid vesicles. Soft Matter.  ISSN 1744-683X.  7, s 9706- 9713 . doi: 10.1039/C1SM05677H
• Gözen, Irep; Dommersnes, Paul Gunnar; Czolkos, Ilja; Jesorka, Aldo; Lobovkina, Tatsiana & Orwar, Owe (2010). Fractal avalanche ruptures in biological membranes. Nature Materials.  ISSN 1476-1122.  9, s 908- 912 . doi: 10.1038/nmat2854
• Gözen, Irep & Örmeci, Banu (2010). Effect of daylight on regrowth of bacteria in anaerobically digested sludge. Water Science and Technology.  ISSN 0273-1223.  62 (2), s 364- 369 . doi: 10.2166/wst.2010.268
• Lobovkina, Tatsiana; Gözen, Irep; Erkan, Yavuz; Olofsson, Jessica; Weber, Stephen G. & Orwar, Owe (2010). Protrusive growth and periodic contractile motion in surface-adhered vesicles induced by Ca2+-gradients. Soft Matter.  ISSN 1744-683X.  6, s 268- 272 . doi: 10.1039/B916805M
• Ainla, Alar; Gözen, Irep; Orwar, Owe & Jesorka, Aldo (2009). A Microfluidic Diluter Based on Pulse Width Flow Modulation. Analytical Chemistry.  ISSN 0003-2700.  81 (13), s 5549- 5556 . doi: 10.1021/ac9010028

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• Gözen, Irep; Dommersnes, Paul Gunnar & Jesorka, Aldo (2015). Lipid Self-Spreading on Solid Substrates. IntechOpen.  ISBN 978-953-51-2216-6.  36 s.
• Gözen, Irep (2013). The self–spreading double bilayer/Advances in Lipid Membrane Nanotechnology. Chalmers University of Technology.  ISBN 978-91-7385-813-7.  110 s.

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• Balaban, Theodor Silviu; Gözen, Irep & Jesorka, Aldo (2016). The Nobel Prize for Chemistry 2016 highlights tiny synthetic machines. NBS-nytt.  ISSN 0801-3535.  (4), s 11- 11

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