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Voltage Imaging with Engineered Proton-Pumping Rhodopsins: Insights from the Proton Transfer PathwayMeng, X. (author), Ganapathy, S. (author), van Roemburg, Lars (author), Post, M.G. (author), Brinks, D. (author)Voltage imaging using genetically encoded voltage indicators (GEVIs) has taken the field of neuroscience by storm in the past decade. Its ability to create subcellular and network level readouts of electrical dynamics depends critically on the kinetics of the response to voltage of the indicator used. Engineered microbial rhodopsins form a...review 2023
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Ganapathy, S. (author), Meng, X. (author), Mossel, D.D.M. (author), Jagt, Mels (author), Brinks, D. (author)Genetically encoded voltage indicators, particularly those based on microbial rhodopsins, are gaining traction in neuroscience as fluorescent sensors for imaging voltage dynamics with high-spatiotemporal precision. Here we establish a novel genetically encoded voltage indicator candidate based on the recently discovered subfamily of the...journal article 2023
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Maddalena, L. (author), Pozzi, Paolo (author), Ceffa, Nicolò G. (author), Hoeven, Bas van der (author), Carroll, E.C.M. (author)Light-sheet microscopy is a powerful method for imaging small translucent samples in vivo, owing to its unique combination of fast imaging speeds, large field of view, and low phototoxicity. This chapter briefly reviews state-of-the-art technology for variations of light-sheet microscopy. We review recent examples of optogenetics in...book chapter 2023
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Martinez Torres, C.E. (author), Grimbergen, Jos (author), Koopman, Jaap (author), Koenderink, G.H. (author)Background: Fibrinogen is a plasma protein forming the fibrin scaffold of blood clots. Its mechanical properties therefore affect the risk of bleeding as well as thrombosis. There has been much recent interest in the biophysical mechanisms controlling fibrin mechanics; however, the role of molecular heterogeneity of the circulating fibrinogen...journal article 2023
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van der Maarel, Stefan (author)High-Speed Atomic Force Microscopy is widely used for investigating biological architectures and the semiconductor industry. The main limitation comes from parachuting or the Wile E. Coyote effect. Parachuting is the phenomenon where the cantilever taps on the sample towards a steep decrease in height, but does not get adjusted for this decrease...master thesis 2022
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Maddalena, L. (author)Optogenetics is a powerful addition to the spectrum of techniques available in neuroscience to investigate neurophysiology and unravel how neural circuit structure is related to circuit function. This technique relies on introducing lightsensitive proteins or molecules as actuators to transduce an optical signal into a physiological perturbation...doctoral thesis 2022
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Akella, Arun (author)The kato katz method was, and still is, an invaluable tool to diagnose schistosomiasis mansoni en masse in high and medium intensity infection areas that are economically backward. Due to the current sensitivity capabilities of 24 EPG, the standard kato katz method is unable to diagnose very low intensity infections. And even though alternatives...master thesis 2022
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Burghoorn, Niels (author)Medical technology has seen great progress over the last centuries, developing increasingly more specialised therapy to benefit human health. The rise of the pharmaceutical industry and the research it drives are contributors to this success. However, in humanity's attempt to tackle more and more complex health issues, the conventional methods...master thesis 2022
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Tromp, Bart (author)Confocal microscopy is often used to make three-dimensional high-resolution images of biological samples. It is done by reflecting a laser beam off of a dichroic mirror, and focusing it on a sample with the use of a microscope. This sample is treated with a fluorescent dye. The dye molecules emit light of a higher wavelength with an intensity...master thesis 2022
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Lane, R. (author)Multi-modal imaging techniques have become essential for better understanding fundamental questions in cell biology such as disease progression. While individual microscopy methods have rapidly advanced in recent years, the information content of any one imaging technique is limited to the type of contrast that particular technique is sensitive...doctoral thesis 2022
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Chandrashekar, A. (author)Most physical phenomena be it mechanical, chemical or biological are inherently nonlinear in nature. In fact, it is the linear phenomenon that is the exception rather than the rule. By harnessing these nonlinearities one can obtain far greater information about the underlying physics and develop more sensitive and efficient devices. This is...doctoral thesis 2022
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Rejali, R. (author)This thesis focuses on possible platforms for a bottom-up approach towards realizing and characterizing atomically assembled magnetic and electronic artificial lattices. For this, we make use of the scanning tunneling microscope (STM), which provides a local probe of the magnetic and electronic properties of the sample and allows for the atom-by...doctoral thesis 2022
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Fu, Y. (author)When high-temperature steels are loaded under under industrially relevant conditions not only creep (i.e. a time dependent strain increase even under nominally constant loading conditions) occurs, but also local damage is formed. At relatively short exposure times quasi-spherical micron-sized cavities form preferentially at the grain boundaries...doctoral thesis 2022
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van Dijk, Raymond (author)The microscope is an essential tool for biologists. Since the late 16th century, it has given researchers a better understanding of cell processes and greatly advanced healthcare. In this century, Single molecule localization microscopy (SMLM) has revolutionized optical microscopy by breaking the optical diffraction limit. Sparsely activating...master thesis 2022
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Wiersma, Myrthe (author)Ultrafast ultrasound localization microscopy (ULM) is a super-resolved vascular imaging method that provides a 10-fold improvement in resolution compared to ultrafast ultrasound Doppler imaging. Because typical ULM acquisitions accumulate large numbers of synthetic microbubble (MB) tracks over hundreds of cardiac cycles, transient hemodynamic...master thesis 2022
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Marques Pereira, V. (author)An approach to improve the performance of steels for fusion and fission reactors is to reinforce them with oxide nanoparticles. These can hinder dislocation and grain boundary movement and trap radiation-induced defects, thus increasing creep and radiation damage resistance. Steels containing these oxide particles are called ODS steels (Oxide...doctoral thesis 2022
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Srivastava, Akshat (author)Single Molecule Localization Microscopy (SMLM) has enabled researchers to breakthrough the diffraction limit and obtain nanometer resolution images of macromolecular structures. But due to the time involved in obtaining ample data for proper image, the technique is venerable to many problem including fluctuations due to thermal gradients from...master thesis 2022
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Hung, S. (author), Llobet Rosell, Arnau (author), Jurriens, Daphne (author), Soloviev, O.A. (author), Kapitein, Lukas C. (author), Grußmayer, K.S. (author), Neukomm, Lukas J. (author), Verhaegen, M.H.G. (author), Smith, C.S. (author)Single-molecule localization microscopy (SMLM) enables the high-resolution visualization of organelle structures and the precise localization of individual proteins. However, the expected resolution is not achieved in tissue as the imaging conditions deteriorate. Sample-induced aberrations distort the point spread function (PSF), and high...journal article 2022
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Engelhardt, M.L.K. (author), Grußmayer, K.S. (author)Optical microscopes allow us to study highly dynamic events from the molecular scale up to the whole animal level. However, conventional three-dimensional microscopy architectures face an inherent tradeoff between spatial resolution, imaging volume, light exposure and time required to record a single frame. Many biological processes, such as...review 2022
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Wiersma, M.S.J. (author), Heiles, B.G. (author), Kalisvaart, D. (author), Maresca, D. (author), Smith, C.S. (author)Ultrasound localization microscopy (ULM) is a vascular imaging method that provides a 10-fold improvement in resolution compared to ultrasound Doppler imaging. Because typical ULM acquisitions accumulate large numbers of synthetic microbubble (MB) trajectories over hundreds of cardiac cycles, transient hemodynamic variations such as pulsatility...journal article 2022