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Bale, Nicole J. (author), Sorokin, Dimitry Y. (author), Hopmans, Ellen C. (author), Koenen, Michel (author), Irene Rijpstra, W. C. (author), Villanueva, Laura (author), Wienk, Hans (author), Sinninghe Damsté, Jaap S. (author)We analyzed the polar membrane lipids of 13 strains of halo(alkali)philic euryarchaea from hypersaline lakes. Nine belong to the class Halobacteria, representing two functional groups: aerobic polysaccharide utilizers and sulfur-respiring anaerobes. The other four strains represent halo(alkali)philic methanogens from the class Methanomicrobia...journal article 2019
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Szabo Corbacho, M. (author), Pacheco-Ruiz, Santiago (author), Míguez, Diana (author), Hooijmans, Christine Maria (author), Garcia, H. (author), Brdjanovic, Damir (author), van Lier, J.B. (author)In this study, the impact of applied solids retention time (SRT) on the biological performance of an anaerobic membrane bioreactor (AnMBR) treating synthetic dairy wastewater with high lipid content was assessed. Two side-stream AnMBR systems were operated at an SRT of 20 and 40 days (R20 and R40, respectively), equipped with an inside-out...journal article 2019
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Beekers, D.I. (author), Lattwein, Kirby R. (author), Kouijzer, Joop J.P. (author), Langeveld, Simone A.G. (author), Vegter, M. (author), Beurskens, Robert (author), Mastik, F. (author), Verduyn Lunel, Rogier (author), van der Steen, A.F.W. (author), de Jong, N. (author)Controlling microbubble-mediated drug delivery requires the underlying biological and physical mechanisms to be unraveled. To image both microbubble oscillation upon ultrasound insonification and the resulting cellular response, we developed an optical imaging system that can achieve the necessary nanosecond temporal and nanometer spatial...journal article 2019
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Dols Perez, A. (author), Marin Lizarraga, V.M. (author), Amador, G.J. (author), Kieffer, R.Y. (author), Tam, D.S.W. (author), Aubin-Tam, M.E. (author)Cell lipid membranes are the site of vital biological processes, such as motility, trafficking, and sensing, many of which involve mechanical forces. Elucidating the interplay between such bioprocesses and mechanical forces requires the use of tools that apply and measure piconewton-level forces, e.g., optical tweezers. Here, we introduce the...journal article 2019
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Perrier, D.L. (author)Electroporation is a popular technique to permeabilize the membrane for different purposes such as medical treatments, food processing and biomass processing. In this thesis, we use the bottom-up approach to unravel the role of specific cellular components in the electroporation of cellular membranes. We have studied the role of the gel-phase...doctoral thesis 2018
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Marin Lizarraga, V.M. (author)This thesis presents a reliable technology to assemble free standing lipid membranes using microfabricated devices. A microfluidic cartridge consisting of parallel channels connected with a rectangular aperture was designed and characterized to assemble artificial membranes. This methodology resulted on a system capable of assembling lipid...doctoral thesis 2018
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Ezerskaia, A. (author), Ras, A. (author), Pereira, S.F. (author), Urbach, Paul (author), Varghese, B. (author)We report a low-cost optical method with high sensitivity for the quantitative assessment of the gloss of human skin in the low gloss regime relevant for physiological skin gloss conditions. Using Monte Carlo simulations, experiments on gloss calibration standards and in-vivo skin gloss experiments using an optical prototype, we demonstrate...conference paper 2018
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Ezerskaia, A. (author), Pereira, S.F. (author), Urbach, Paul (author), Varghese, Babu (author)We show the feasibility of short wave infrared spectroscopy combined with tape stripping as a simple and noninvasive method for the analysis of lipids and the degree of hydration as a function of depth in the stratum corneum. The spectroscopic method utilizes differential detection with three wavelengths 1720, 1750, and 1770 nm, corresponding...conference paper 2018
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Poltorak, L. (author), Verheijden, Mark L. (author), Bosma, D. (author), Jonkheijm, Pascal (author), de Smet, L.C.P.M. (author), Sudhölter, Ernst J. R. (author)Silicon semiconductors with a thin surface layer of silica were first modified with polyelectrolytes (polyethyleneimine, polystyrene sulfonate and poly(allylamine)) via a facile layer-by-layer deposition approach. Subsequently, lipid vesicles were added to the preformed polymeric cushion, resulting in the adsorption of intact vesicles or...journal article 2018
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Vrieling, Frank (author), Ronacher, Katharina (author), Kleynhans, Léanie (author), van den Akker, E.B. (author), Walzl, Gerhard (author), Ottenhoff, Tom H.M. (author), Joosten, Simone A. (author)Background: Type 2 diabetes mellitus (DM) is a major risk factor for development of tuberculosis (TB), however the underlying molecular foundations are unclear. Since lipids play a central role in the development of both DM and TB, lipid metabolism may be important for TB-DM pathophysiology. Methods: A <sup>1</sup> H NMR spectroscopy-based...journal article 2018
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Anella, F.M. (author), Danelon, C.J.A. (author)An RNA-lipid origin of life scenario provides a plausible route for compartmentalized replication of an informational polymer and subsequent division of the container. However, a full narrative to form such RNA protocells implies that catalytic RNA molecules, called ribozymes, can operate in the presence of self-assembled vesicles composed of...journal article 2017
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van Rooij, Tom (author), Beekers, D.I. (author), Lattwein, Kirby R. (author), van der Steen, A.F.W. (author), de Jong, N. (author), Kooiman, Klazina (author)One of the main challenges for ultrasound molecular imaging is acoustically distinguishing nonbound microbubbles from those bound to their molecular target. In this in vitro study, we compared two types of in-house produced targeted lipid-coated microbubbles, either consisting of 1,2-dipalmitoyl-sn-glycero-3-phosphocholine, C16:0 (DPPC) or 1...journal article 2017
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Perrier, D.L. (author), Rems, L. (author), Boukany, P. (author)The present review focuses on the effects of pulsed electric fields on lipid vesicles ranging from giant unilamellar vesicles (GUVs) to small unilamellar vesicles (SUVs), from both fundamental and applicative perspectives. Lipid vesicles are the most popular model membrane systems for studying biophysical and biological processes in living...journal article 2017
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Gnanadesigan, Muthukaruppan (author), Hussain, Ali S. (author), White, Stephen (author), Scoltock, Simon (author), Baumbach, Andreas (author), van der Steen, A.F.W. (author), Regar, E.S. (author), Johnson, Thomas W. (author), van Soest, G. (author)Lipid-core atherosclerotic plaques are associated with disease progression, procedural complications, and cardiac events. Coronary plaque lipid can be quantified in optical coherence tomography (OCT) pullbacks by measurement of lipid arcs and lipid lengths; parameters frequently used in clinical research, but labor intensive and subjective to...journal article 2017
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Ezerskaia, A. (author), Pereira, S.F. (author), Urbach, Paul (author), Varghese, Babu (author)Skin barrier function relies on well balanced water and lipid system of stratum corneum. Optimal hydration and oiliness levels are indicators of skin health and integrity. We demonstrate an accurate and sensitive depth profiling of stratum corneum sebum and hydration levels using short wave infrared spectroscopy in the spectral range around...conference paper 2017
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Liu, Shengnan (author), Sotomi, Yohei (author), Eggermont, Jeroen (author), Nakazawa, Gaku (author), Torii, Sho (author), Ijichi, Takeshi (author), Onuma, Yoshinobu (author), Serruys, Patrick W. (author), Lelieveldt, B.P.F. (author), Dijkstra, J. (author)An important application of intravascular optical coherence tomography (IVOCT) for atherosclerotic tissue analysis is using it to estimate attenuation and backscatter coefficients. This work aims at exploring the potential of the attenuation coefficient, a proposed backscatter term, and image intensities in distinguishing different...journal article 2017
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Scott, A.D.D. (author)Natural life is extraordinarily complex, which by definition means that it has many interconnected and functioning parts. The goal of synthetic biology is to engineer living systems, though due to their very complexity they remain recalcitrant to engineering. What if it were possible to reduce the complexity to a finite amount of parts that are...doctoral thesis 2016
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Scott, A.D.D. (author), Noga, M.J. (author), de Graaf, P. (author), Westerlaken, I. (author), Yildirim, E. (author), Danelon, C.J.A. (author)The goal of bottom-up synthetic biology culminates in the assembly of an entire cell from separate biological building blocks. One major challenge resides in the in vitro production and implementation of complex genetic and metabolic pathways that can support essential cellular functions. Here, we show that phospholipid biosynthesis, a multiple...journal article 2016
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Anella, F. (author), Danelon, C. (author)The “RNA world” and the “Lipid world” theories for the origin of cellular life are often considered incompatible due to the differences in the environmental conditions at which they can emerge. One obstacle resides in the conflicting requirements for divalent metal ions, in particular Mg2+, with respect to optimal ribozyme activity, fatty acid...journal article 2014
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Jadidi, T. (author), Seyyed-Allaei, H. (author), Reza Tahimi Tabar, M. (author), Mashaghi, A. (author)A general computational method is introduced to estimate the Poisson’s ratio for membranes with small thickness. In this method, the Poisson’s ratio is calculated by utilizing a rescaling of inter-particle distances in one lateral direction under periodic boundary conditions. As an example for the coarse grained lipid model introduced by Lenz...journal article 2014