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The ultimate performance of the Rasnik 3-point alignment system
Get PDFThe Rasnik system is a 3-point optical displacement monitor with sub-nanometer precision. The CCD-Rasnik alignment system was developed in 1993 for monitoring the alignment of the muon chambers of the ATLAS Muon Spectrometer at CERN. Since then, the development has continued as new CMOS imaging pixel chips became available. In this work the system processes and parameters that limit the precision are studied. We conclude that the spatial resolution of Rasnik is only limited by the quantum fluctuations of the photon flux arriving at the pixels of the image sensor. The results of two Rasnik systems are compared to results from simulations, which are in good agreement. The best spatial resolution obtained was 7 pm/Hz. Finally, some applications of high-precision Rasnik systems are set out
Towards evolutionary predictions: Current promises and challenges
Get PDFEvolution has traditionally been a historical and descriptive science, and predicting future evolutionary processes has long been considered impossible. However, evolutionary predictions are increasingly being developed and used in medicine, agriculture, biotechnology and conservation biology. Evolutionary predictions may be used for different purposes, such as to prepare for the future, to try and change the course of evolution or to determine how well we understand evolutionary processes. Similarly, the exact aspect of the evolved population that we want to predict may also differ. For example, we could try to predict which genotype will dominate, the fitness of the population or the extinction probability of a population. In addition, there are many uses of evolutionary predictions that may not always be recognized as such. The main goal of this review is to increase awareness of methods and data in different research fields by showing the breadth of situations in which evolutionary predictions are made. We describe how diverse evolutionary predictions share a common structure described by the predictive scope, time scale and precision. Then, by using examples ranging from SARS-CoV2 and influenza to CRISPR-based gene drives and sustainable product formation in biotechnology, we discuss the methods for predicting evolution, the factors that affect predictability and how predictions can be used to prevent evolution in undesirable directions or to promote beneficial evolution (i.e. evolutionary control). We hope that this review will stimulate collaboration between fields by establishing a common language for evolutionary predictions
Optical readout and actuation of plasmonic nano-optomechanical drum resonators
Get PDFWe demonstrate optical readout and actuation of nanomechanical motion using plasmonic fields in a nanoscale gap waveguide. The top gold layer of the waveguide is free to vibrate like a drumhead, and patterned with an optical grating to facilitate efficient coupling to free-space radiation. The change of the plasmonic gap mode with the top layer position couples the plasmonic resonance to the mechanical displacement of the drum. We characterize optical and mechanical resonances of the system, and demonstrate sensing of nanomechanical vibrations with ∼10−14 m/Hz−−−√ sensitivity. The mechanical resonators are actuated through plasmonic forces. Quantifying their magnitude shows that plasmonic forces can significantly exceed pure radiation pressure, indicating that their nature is dominated by a photothermoelastic effect. This work opens avenues to the use of plasmonic readout and control in nanomechanical sensing applications
Observation of a Two-Dimensional Hydrophobic Collapse at the Surface of Water Using Heterodyne-Detected Surface Sum-Frequency Generation
Get PDFWe study the effect of sodium chloride (NaCl) on the properties of the interface of water and the surfactant dodecyl sulfate (DS-) using heterodyne-detected vibrational sum-frequency generation spectroscopy. We find that the signal of the O-H stretch vibrations of oriented water molecules at the interface is highly nonlinearly dependent on the NaCl concentration. This nonlinear dependence is explained by a combination of screening of the electric field of surface-bound DS- ions pointing into the bulk and screening of the Coulomb repulsion between the headgroups of the DS- ions in the surface plane. The latter effect strongly increases the oriented water signal within a limited NaCl concentration range of 10-100 mM, indicating a two-dimensional hydrophobic collapse of the surfactant layer. The occurrence of collapse is supported by model calculations of the surface potential and surface surfactant density
The interplay between metabolic stochasticity and cAMP-CRP regulation in single E. coli cells
Get PDFThe inherent stochasticity of metabolism raises a critical question for understanding homeostasis: are cellular processes regulated in response to internal fluctuations? Here, we show that, in E. coli cells under constant external conditions, catabolic enzyme expression continuously responds to metabolic fluctuations. The underlying regulatory feedback is enabled by the cyclic AMP (cAMP) and cAMP receptor protein (CRP) system, which controls catabolic enzyme expression based on metabolite concentrations. Using single-cell microscopy, genetic constructs in which this feedback is disabled, and mathematical modeling, we show how fluctuations circulate through the metabolic and genetic network at sub-cell-cycle timescales. Modeling identifies four noise propagation modes, including one specific to CRP regulation. Together, these modes correctly predict noise circulation at perturbed cAMP levels. The cAMP-CRP system may thus have evolved to control internal metabolic fluctuations in addition to external growth conditions. We conjecture that second messengers may more broadly function to achieve cellular homeostasis
Human Small Heat Shock Protein B8 Inhibits Protein Aggregation without Affecting the Native Folding Process
Get PDFSmall Heat Shock Proteins (sHSPs) are key components of our Protein Quality Control system and are thought to act as reservoirs that neutralize irreversible protein aggregation. Yet, sHSPs can also act as sequestrases, promoting protein sequestration into aggregates, thus challenging our understanding of their exact mechanisms of action. Here, we employ optical tweezers to explore the mechanisms of action of the human small heat shock protein HSPB8 and its pathogenic mutant K141E, which is associated with neuromuscular disease. Through single-molecule manipulation experiments, we studied how HSPB8 and its K141E mutant affect the refolding and aggregation processes of the maltose binding protein. Our data show that HSPB8 selectively suppresses protein aggregation without affecting the native folding process. This anti-aggregation mechanism is distinct from previous models that rely on the stabilization of unfolded polypeptide chains or partially folded structures, as has been reported for other chaperones. Rather, it appears that HSPB8 selectively recognizes and binds to aggregated species formed at the early stages of aggregation, preventing them from growing into larger aggregated structures. Consistently, the K141E mutation specifically targets the affinity for aggregated structures without impacting native folding, and hence impairs its anti-aggregation activity
Vasculature: Exploring the dynamics of vascular adaptation
Get PDFA combination of in toto imaging and theory suggests a new mechanism for the remodeling of veins in vascular networks
Interplay of fibrinogen αEC globular domains and factor XIIIa cross-linking dictates the extensibility and strain stiffening of fibrin networks
Get PDFBackground: 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 in determining clot mechanical function remains poorly characterized. Objectives: By comparing 2 fibrinogen variants where the only difference is the Aα-chain length, with one variant having a globular domain at its C-terminus, this study aimed to reveal how the molecular structure impacts the structure and mechanics of fibrin networks. Methods: We characterized the mechanical response to large shear for networks formed from 2 recombinant fibrinogen variants: the most prevalent variant in circulation with a molecular weight of 340 kDa (recombinant human fibrinogen [rFib] 340) and a minor variant with a molecular weight of 420 kDa (rFib420). Results: We show that the elastic properties of the 2 variants are identical when fibrin is cross-linked with factor XIIIa but differ strongly in its absence. Uncross-linked rFib420 networks are softer and up to 3-fold more extensible than rFib340 networks. Electron microscopy imaging showed that the 2 variants formed networks with a comparable structure, except at 4 mg/mL, where rFib420 formed denser networks. Conclusion: We propose that the αEC domains of rFib420 increase the extensibility of uncross-linked fibrin networks by promoting protofibril sliding, which is blocked by FXIIIa cross-linking. Our findings can help explain the functional role of different circulating fibrinogen variants in blood clot mechanics and tissue repair
Transient High-Harmonic Spectroscopy in an Inorganic–Organic Lead Halide Perovskite
Get PDFHigh-harmonic generation is the frequency upconversion of an intense femtosecond infrared laser in a material. In condensed-phase high-harmonic generation, laser-driven currents of coherently excited charge carriers map the electronic structure onto the emitted light. This promises a thus far scarcely explored potential of condensed-phase time-resolved high-harmonic spectroscopy for probing carrier dynamics. Here, we realize this potential and use time-resolved solid-state high-harmonic spectroscopy from a laser-excited methylammonium lead bromide (MAPbBr3) thin film, a key material in perovskite solar cells, for measuring carrier cooling and relaxation on femto- and picosecond time scales. Through comparison with transient absorption, we show the links between carrier dynamics and experimental observables of generated harmonics. By highlighting and understanding the interplay of these dynamics, we demonstrate transient optical control over the emission of solid-state high-harmonic generation in MAPbBr3
Mycorrhizal mycelium as a global carbon pool
Get PDFFor more than 400 million years, mycorrhizal fungi and plants have formed partnerships that are crucial to the emergence and functioning of global ecosystems. The importance of these symbiotic fungi for plant nutrition is well established. However, the role of mycorrhizal fungi in transporting carbon into soil systems on a global scale remains under-explored. This is surprising given that ∼75% of terrestrial carbon is stored belowground and mycorrhizal fungi are stationed at a key entry point of carbon into soil food webs. Here, we analyze nearly 200 datasets to provide the first global quantitative estimates of carbon allocation from plants to the mycelium of mycorrhizal fungi. We estimate that global plant communities allocate 3.93 Gt CO2e per year to arbuscular mycorrhizal fungi, 9.07 Gt CO2e per year to ectomycorrhizal fungi, and 0.12 Gt CO2e per year to ericoid mycorrhizal fungi. Based on this estimate, 13.12 Gt of CO2e fixed by terrestrial plants is, at least temporarily, allocated to the underground mycelium of mycorrhizal fungi per year, equating to ∼36% of current annual CO2 emissions from fossil fuels. We explore the mechanisms by which mycorrhizal fungi affect soil carbon pools and identify approaches to increase our understanding of global carbon fluxes via plant–fungal pathways. Our estimates, although based on the best available evidence, are imperfect and should be interpreted with caution. Nonetheless, our estimations are conservative, and we argue that this work confirms the significant contribution made by mycorrhizal associations to global carbon dynamics. Our findings should motivate their inclusion both within global climate and carbon cycling models, and within conservation policy and practice