Scientific publications

Light-inducible gene switches represent a key strategy for the precise manipulation of cellular events in fundamental and applied research. However, the performance of widely used gene switches is limited due to low tissue penetrance and possible phototoxicity of the light stimulus. To overcome these limitations, we engineer optogenetic synthetic transcription factors to undergo liquid-liquid phase separation in close spatial proximity to promoters. Phase separation of constitutive and optogenetic synthetic transcription factors was achieved by incorporation of intrinsically disordered regions. Supported by a quantitative mathematical model, we demonstrate that engineered transcription factor droplets form at target promoters and increase gene expression up to fivefold. This increase in performance was observed in multiple mammalian cells lines as well as in mice following in situ transfection. The results of this work suggest that the introduction of intrinsically disordered domains is a simple yet effective means to boost synthetic transcription factor activity. Copyright © 2021 The Authors, some rights reserved.

Activation of T cells by agonistic peptide-MHC can be inhibited by antagonistic ones. However, the exact mechanism remains elusive. We used Jurkat cells expressing two different TCRs and tested whether stimulation of the endogenous TCR by agonistic anti-Vβ8 antibodies can be modulated by ligand-binding to the second, optogenetic TCR. The latter TCR uses phytochrome B tetramers (PhyBt) as ligand, the binding half-life of which can be altered by light. We show that this half-life determined whether the PhyBt acted as a second agonist (long half-life), an antagonist (short half-life) or did not have any influence (very short half-life) on calcium influx. A mathematical model of this cross-antagonism shows that a mechanism based on an inhibitory signal generated by early recruitment of a phosphatase and an activating signal by later recruitment of a kinase explains the data. © 2021 by the authors. Licensee MDPI, Basel, Switzerland.

The conquest of fire has been an essential component of the civilizing process. Milazzo and Buehler from MIT spearhead a novel direction of research by seeking inspiration from fire through deep learning, paving a new avenue for the design and fabrication of novel materials.

Here, fundamental aspects affecting template-assisted engineering of oxidase-associated peroxide oxidation co-catalysis of the modeled microanalytical system based on the hybrid palladium nanoparticles (Pd-NPs) with tailored functional properties were studied. By an accurate tuning and validation of the experimental setup, a modular Pd-NPs-doped one-pot/one-electrode amperometric nanobiosensor for advanced multiplex analyte detection was constructed. The specific operational conditions (electrochemical read-out mode, pH, regeneration procedure) of the modular one-pot/one-electrode nanobiosensor allowed a reliable sensing of L-lactate (with linear dynamic range, LDR=500 µM – 2 mM, R2 =0.977), D-glucose (with LDR=200 µM – 50 mM, R2 =0.987), hydrogen peroxide (with LDR=20 µM – 100 mM, R2 =0.998) and glutaraldehyde (with LDR=1 – 100 mM, R2 =0.971). In addition, mechanistic aspects influencing the performance of Pd-NPs-doped one-pot/one-electrode for multiplex analyte sensing were studied in detail. The designed one-pot/one-electrode amperometric nanobiosensor showed a thin layer electrochemical behavior that greatly enhanced electron transfer between the functional hybrid layer and the electrode. Finally, a specific regeneration procedure of the hybrid one-pot/one-electrode and algorithm towards its usage for modular biocatalysis were developed. The reported strategy can readily be considered as a guideline towards the fabrication of commercialized nanobiosensors with tailored properties for advanced modular biocatalysis.

Abstract In the presence of water and amines the etherate of bicyclic Al2(OSiPh2OSiPh2O)3 (II a) can be used to generate novel alumosiloxane polycycles like [O(Ph2SiOSiPh2)O−]2Al2O[O(Ph2SiOSiPh2)O] ⋅ 2 H2N+Et2 (1), [O(Ph2SiOSiPh2)O−]2Al2[O(Ph2Si)O]2 ⋅ 2 HN+Et3 (2), [O(Ph2SiOSiPh2)O−]2Al2[O(Ph2SiOSiPh2)O]2 ⋅ 2 HN+Et3 (3 a, 3 b), which crystallizes in two different phases, and [O(Ph2SiOSiPh2)O−]2Al2[O(Ph2SiOSiPh2)O]2 ⋅ 2 HN+(CH2CH2)3N (4). As a common structural feature of these compounds two aluminum atoms which are incorporated in six-membered Al[O(SiPh2OSiPh2)O−] rings are connected as spiro cyclic centers through oxygen and/or siloxane bridges [(OSiPh2)nO] (n=1, 2) to form an assembly of three fused rings at the aluminum corners. The central ring is either eight- (1, 2) or twelve-membered (3, 4). Alkyl ammonium cations balance the charges and form hydrogen bridges to oxygen atoms of the six membered rings. The pentacyclic (Ph2SiO)8[Al(O)OH]4 (I) can be used indirectly (addition of water) and directly as chelating ligand versus Co(II)Cl and In-CH3 fragments as shown with the isolated and structurally characterized compounds (HN+Et3)2{[(Ph2Si)2O3][Al4(OH)4O2](CoCl)2}2− (5 a, 5 b) and (Ph2SiO)8[AlO(OH)]2[AlO2]2(InCH3) ⋅ 2 O(CH2)4 (6).

Hydrogels are widely used as hydrated matrices for cell encapsulation in a number of applications, spanning from advanced 3D cultures and tissue models to cell-based therapeutics and tissue engineering. Hydrogel formation in the presence of living cells requires cross-linking reactions that proceed efficiently under close to physiological conditions. Recently, the nucleophilic aromatic substitution of phenyl-oxadiazole (Ox) methylsulfones (MS) by thiols was introduced as a new cross-linking reaction for cell encapsulation. Reported poly(ethylene glycol) (PEG)-based hydrogels featured tunable gelation times within seconds to a few minutes within pH 8.0 to 6.6 and allowed reasonably good mixing with cells. However, their rapid degradation prevented cell cultures to be maintained beyond 1 week. In this Article, we present the reactivity optimization of the heteroaromatic ring of the MS partner to slow down the cross-linking kinetics and the degradability of the derived hydrogels. New MS substrates based on phenyl-tetrazole (Tz) and benzothiazole (Bt) rings, with lower electrophilicity than Ox, were synthesized by simple pathways. When mixed with PEG-thiol, the novel PEG-MS extended the working time of precursor mixtures and allowed longer term cell culture. The Tz-based MS substrate was identified as the best candidate, as it is accessible by simple chemical reactions from cost-effective reactants, hydrogel precursors show good stability in aqueous solution and keep high chemoselectivity for thiols, and the derived Tz gels support cell cultures for >2 weeks. The Tz system also shows tunable gelation kinetics within seconds to hours and allows comfortable manipulation and cell encapsulation. Our findings expand the toolkit of thiol-mediated chemistry for the synthesis of hydrogels with improved properties for laboratory handling and future automatization.

Faradaic electrode materials have significantly improved the performance of membrane capacitive deionization, which offers an opportunity to produce freshwater from seawater or brackish water in an energy-efficient way. However, Faradaic materials hold the drawbacks of slow desalination rate due to the intrinsic low ion diffusion kinetics and inferior stability arising from the volume expansion during ion intercalation, impeding the engineering application of capacitive deionization. Herein, a pseudocapacitive material with hollow architecture was prepared via template-etching method, namely, cuboid cobalt hydroxide, with fast desalination rate (3.3 mg (NaCl)·g-1 (h-Co(OH)2)·min-1 at 100 mA·g-1) and outstanding stability (90% capacity retention after 100 cycles). The hollow structure enables swift ion transport inside the material and keeps the electrode intact by alleviating the stress induced from volume expansion during the ion capture process, which is corroborated well by in situ electrochemical dilatometry and finite element simulation. Additionally, benefiting from the elimination of unreacted bulk material and vertical cobalt hydroxide nanosheets on the exterior surface, the synthesized material provides a high desalination capacity ( mg (NaCl)·g-1 (h-Co(OH)2) at 30 mA·g-1). This work provides a new strategy, constructing microscale hollow faradic configuration, to further boost the desalination performance of Faradaic materials.

Experimental evidence suggests that suction may play a role in the attachment strength of mushroom-tipped adhesive structures, but the system parameters which control this effect are not well established. A fracture mechanics-based model is introduced to determine the critical stress for defect propagation at the interface in the presence of trapped air. These results are compared with an experimental investigation of millimeter-scale elastomeric structures. These structures are found to exhibit a greater increase in strength due to suction than is typical in the literature, as they have a large tip diameter relative to the stalk. The model additionally provides insight into differences in expected behavior across the design space of mushroom-shaped structures. For example, the model reveals that the suction contribution is length-scale dependent. It is enhanced for larger structures due to increased volume change, and thus the attainment of lower pressures, inside of the defect. This scaling effect is shown to be less pronounced if the tip is made wider relative to the stalk. An asymptotic result is also provided in the limit that the defect is far outside of the stalk, showing that the critical stress is lower by a factor of 1/2 than the result often used in the literature to estimate the effect of suction. This discrepancy arises as the latter considers only the balance of remote stress and pressure inside the defect and neglects the influence of compressive tractions outside of the defect.

The Ca2+ selective channel ORAI1 and endoplasmic reticulum (ER)-resident STIM proteins form the core of the channel complex mediating store operated Ca2+ entry (SOCE). Using liquid phase electron microscopy (LPEM), the distribution of ORAI1 proteins was examined at rest and after SOCE-activation at nanoscale resolution. The analysis of over seven hundred thousand ORAI1 positions revealed a number of ORAI1 channels had formed STIM-independent distinct supra-molecular clusters. Upon SOCE activation and in the presence of STIM proteins, a fraction of ORAI1 assembled in micron-sized two-dimensional structures, such as the known puncta at the ER plasma membrane contact zones, but also in divergent structures such as strands, and ring-like shapes. Our results thus question the hypothesis that stochastically migrating single ORAI1 channels are trapped at regions containing activated STIM, and we propose instead that supra-molecular ORAI1 clusters fulfill an amplifying function for creating dense ORAI1 accumulations upon SOCE-activation

The effect of chromatic aberration (CC) on the spatial resolution in transmission electron microscopy (TEM) was studied in thick specimens in which the sample becomes the limiting factor in the resolution. The sample influences the energy spread of the electron beam, allows only a limited electron dose, and modulates electron scattering events. The experimental set-up consisted of a thin silicon nitride membrane and a silicon wedge containing gold nanoparticles. The resolution was measured as a function of electron dose and sample thickness for different sample configurations and for different microscopy modalities including regular TEM, energy filtered TEM (EFTEM) and CC-corrected TEM. Comparison with an analytical model aided the understanding of the experimental data applied over varied conditions. The general trend for all microscopy modalities was a transition from a noise-limited resolution at low electron dose to a CC-limited resolution at high-dose in the absence of beam blurring. EFTEM required an accurate energy slit offset and an optimal energy spread to energy-slit width ratio to surpass regular TEM. The key advantage of CC correction appeared to be the best possible resolution for larger sample thickness at low electron dose outperforming EFTEM by about fifty percent. Several hypothetical sample configurations relevant to liquid phase electron microscopy were evaluated as well to demonstrate the capabilities of the analytical model and to determine the most optimal microscopy modality for this type of experiment. The analytical model included an automated optimization of the EFTEM settings and may aid in optimizing the sample-limited resolution for experimental analysis and planning.