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At least 1,009 records · Page 56

Microscale Thermophoresis (MST) as a Tool to Study Binding Interactions of Oxygen-Sensitive Biohybrids

Microscale thermophoresis (MST) is a technique used to measure the strength of molecular interactions. MST is a thermophoretic-based technique that monitors the change in fluorescence associated with the movement of fluorescent-labeled molecules in response to a temperature gradient triggered by an IR LASER. MST has advantages over other approaches for examining molecular interactions, such as isothermal titration calorimetry, nuclear magnetic resonance, biolayer interferometry, and surface plasmon resonance, requiring a small sample size that does not need to be immobilized and a high-sensitivity fluorescence detection. In addition, since the approach involves the loading of samples into capillaries that can be easily sealed, it can be adapted to analyze oxygen-sensitive samples. In this Bio-protocol, we describe the troubleshooting and optimization we have done to enable the use of MST to examine protein–protein interactions, protein–ligand interactions, and protein–nanocrystal interactions. The salient elements in the developed procedures include 1) loading and sealing capabilities in an anaerobic chamber for analysis using a NanoTemper MST located on the benchtop in air, 2) identification of the optimal reducing agents compatible with data acquisition with effective protection against trace oxygen, and 3) the optimization of data acquisition and analysis procedures. The procedures lay the groundwork to define the determinants of molecular interactions in these technically demanding systems.

37 INORGANIC, ORGANIC, PHYSICAL, AND ANALYTICAL CH↗

Modeling the Electronic Absorption Spectra of the Indocarbocyanine Cy3

Accurate modeling of optical spectra requires careful treatment of the molecular structures and vibronic, environmental, and thermal contributions. The accuracy of the computational methods used to simulate absorption spectra is limited by their ability to account for all the factors that affect the spectral shapes and energetics. The ensemble-based approaches are widely used to model the absorption spectra of molecules in the condensed-phase, and their performance is system dependent. The Franck–Condon approach is suitable for simulating high resolution spectra of rigid systems, and its accuracy is limited mainly by the harmonic approximation. In this work, the absorption spectrum of the widely used cyanine Cy3 is simulated using the ensemble approach via classical and quantum sampling, as well as, the Franck–Condon approach. The factors limiting the ensemble approaches, including the sampling and force field effects, are tested, while the vertical and adiabatic harmonic approximations of the Franck–Condon approach are also systematically examined. Our results show that all the vertical methods, including the ensemble approach, are not suitable to model the absorption spectrum of Cy3, and recommend the adiabatic methods as suitable approaches for the modeling of spectra with strong vibronic contributions. We find that the thermal effects, the low frequency modes, and the simultaneous vibrational excitations have prominent contributions to the Cy3 spectrum. The inclusion of the solvent stabilizes the energetics significantly, while its negligible effect on the spectral shapes aligns well with the experimental observations.

37 INORGANIC, ORGANIC, PHYSICAL, AND ANALYTICAL CH↗

A Near-infrared Chemical Inventory of the Atmosphere of 55 Cancri e

We present high-resolution near-infrared spectra taken during eight transits of 55 Cancri e, a nearby low-density super-Earth with a short orbital period (<18 hr). While this exoplanet’s bulk density indicates a possible atmosphere, one has not been detected definitively. Our analysis relies on the Doppler cross-correlation technique, which takes advantage of the high spectral resolution and broad wavelength coverage of our data, to search for the thousands of absorption features from hydrogen-, carbon-, and nitrogen-rich molecular species in the planetary atmosphere. Although we are unable to detect an atmosphere around 55 Cancri e, we do place strong constraints on the levels of HCN, NH{sub 3}, and C{sub 2}H{sub 2} that may be present. In particular, at a mean molecular weight of 5 amu, we can rule out the presence of HCN in the atmosphere down to a volume mixing ratio (VMR) of 0.02%, NH{sub 3} down to a VMR of 0.08%, and C{sub 2}H{sub 2} down to a VMR of 1.0%. If the mean molecular weight is relaxed to 2 amu, we can rule out the presence of HCN, NH{sub 3}, and C{sub 2}H{sub 2} down to VMRs of 0.001%, 0.0025%, and 0.08%, respectively. Our results reduce the parameter space of possible atmospheres consistent with the analysis of Hubble Space Telescope/WFC3 observations by Tsiaras et al. and indicate that if 55 Cancri e harbors an atmosphere, it must have a high mean molecular weight or clouds.

37 INORGANIC, ORGANIC, PHYSICAL, AND ANALYTICAL CH↗

Emission Lines of Fe xiv, Fe xv, and Fe xvi in the Extreme Ultraviolet Region 40–100 Å

We report on emission spectra of iron in the extreme ultraviolet recorded at an electron density of ~10 11 cm -3 on the Lawrence Livermore electron beam ion trap facility. We present a summary of the observed emission lines, including wavelengths and emission intensities, and present spectra of pure Fe xiv through Fe xvi emission derived from our measurements in the 40–100 Å wavelength range. We show that spectral models, especially the current version of CHIANTI v10.0, describe the M-shell emission from these three charge states of iron reasonably well, and we are able to verify several transitions in CHIANTI for the first time.

74 ATOMIC AND MOLECULAR PHYSICS↗

Enigmatic Line Broadening during Solar Flares: Magnetic Field Broadening?

The origin of the extreme broadening observed in chromospheric metal lines during solar and stellar flares—particularly Mg II h and k and Ca II H and K—remains poorly understood. These lines often display Lorentzian-like wings whose widths exceed standard Stark broadening predictions by factors of ∼30, with no known collisional mechanism capable of producing such enhancements. We posit that magnetic fields are responsible for this additional broadening, due to the increase of magnetic activity during flares. A magnetic field distribution of the form P(B) ∝ B −3 reproduces the observed Mg II profile wings while leaving H I Balmer lines and optically thin transitions largely unaffected. To explain the broadening using magnetic fields, the high-B tail can extend up to 10 6 G with extremely low probabilities where the filling factors are ≲10 −6 . We propose that observations of flares using spectropolarimetry can verify whether the anomalous broadening is from magnetic structures in flare ribbons.

70 PLASMA PHYSICS AND FUSION TECHNOLOGY↗

Attosecond light-field control of high-density plasmas (Final Scientific/Technical Report)

Sub-optical-cycle dynamics of dense electron bunches in relativistic-intensity laser—solid interactions (relativistic plasma mirrors) lead to the emission of high-order harmonics and attosecond light pulses. The aim of this project was to advance our understanding of the fundamental principles underlying high-energy-density physics behind this phenomenon. We achieved this goal by conducting experiments and a comprehensive theoretical analysis of harmonics driven by specially tailored light waveforms providing precise control over the sub-laser-cycle trajectories of the emitting electron bunches. The multi-color laser waveforms, generated in our experiments in a cascaded plasma mirror configuration, allowed us to manipulate (enhance and suppress) harmonic generation in relativistic laser-solid interactions by adjusting the relative phase between the colors.

70 PLASMA PHYSICS AND FUSION TECHNOLOGY↗

Precursor and neutral loss scan in an ion trap

The invention generally relates to systems and methods for precursor and neutral loss scan in an ion trap. In certain aspects, the invention provides a system that includes a mass spectrometer having an ion trap, and a central processing unit (CPU). The CPU includes storage coupled to the CPU for storing instructions that when executed by the CPU cause the system to excite a precursor ion and eject a product ion in the single ion trap.

37 INORGANIC, ORGANIC, PHYSICAL, AND ANALYTICAL CH↗

Excited-State and Nonadiabatic Molecular Dynamics Methods with Broad Applicability

Electronically excited states play a pivotal role in the capture, transformation, storage, and emission of radiative energy. Despite much recent progress for small model systems, excited state properties and dynamics in many larger molecular devices and materials have remained elusive for experiment and theory. Nonadiabatic transitions between electronic states turn radiative energy into heat and are particularly difficult to control. This project aims to develop new electronic structure and nonadiabatic molecular dynamics (NAMD) methods to simulate, predict, and ultimately control the flow and transformation of excitation energy in a wide-range of light-driven molecular devices such as dyes, photocatalysts, and fluorescence emitters.

37 INORGANIC, ORGANIC, PHYSICAL, AND ANALYTICAL CH↗

Rainbow scars: From area to volume law

Quantum many-body scars (QMBS) constitute a new quantum dynamical regime in which rare “scarred” eigenstates mediate weak ergodicity breaking. One open question is to understand the most general setting in which these states arise. In this work, we develop a generic construction that embeds a new class of QMBS, rainbow scars, into the spectrum of an arbitrary Hamiltonian. Unlike other examples of QMBS, rainbow scars display extensive bipartite entanglement entropy while retaining a simple entanglement structure. Specifically, the entanglement scaling is volume-law for a random bipartition, while scaling for a fine-tuned bipartition is subextensive. When internal symmetries are present, the construction leads to multiple, and even towers, of rainbow scars revealed through distinctive non-thermal dynamics. Remarkably, certain symmetries can lead rainbow scars to arise in translation-invariant models. To this end, we provide an experimental road map for realizing rainbow scar states in a Rydberg-atom quantum simulator, leading to coherent oscillations distinct from the strictly sub-volume-law QMBS previously realized in the same system.

36 MATERIALS SCIENCE↗

Cooperative effects in thin dielectric layers: Long-range Dicke superradiance

The realization and control of collective quantum effects so far have predominantly focused on cold atomic ensembles. Quantum photonic platforms, with their engineered Green's functions and integration capability of advanced solid-state quantum emitters, provide opportunities to explore regimes of light-matter interaction beyond the scope of atomic systems. In this work, we demonstrate that embedding quantum emitters within a thin dielectric layer fundamentally alters their collective radiative behavior. The optical modes in the dielectric layer mediate long-range dipole-dipole interactions between emitters, enabling both total and directional superradiance between emitters separated by several wavelengths. Crucially, this mechanism supports Dicke superradiance even in parameter regimes where standard settings fail to support an interaction, unveiling a dimensionality-driven enhancement of cooperative effects. By bridging many-body quantum optics and photonic engineering, our work reveals a distinct interplay between surrounding dimensionality and collective quantum dynamics. Experimental realization of these predictions, readily achievable in solid-state quantum optics platforms, paves the way for scalable, directional quantum light sources and frontiers in many-body quantum optics.

71 CLASSICAL AND QUANTUM MECHANICS, GENERAL PHYSIC↗

Long-lived Bell states in an array of optical clock qubits

The generation of long-lived entanglement in optical atomic clocks is one of the main goals of quantum metrology. Arrays of neutral atoms, where Rydberg-based interactions may generate entanglement between individually controlled and resolved atoms, constitute a promising quantum platform to achieve this. Here we leverage the programmable state preparation afforded by optical tweezers and the efficient strong confinement of a three-dimensional optical lattice to prepare an ensemble of strontium-atom pairs in their motional ground state. We engineer global single-qubit gates on the optical clock transition and two-qubit entangling gates via adiabatic Rydberg dressing, enabling the generation of Bell states with a state-preparation-and-measurement-corrected fidelity of 92.8(2.0)% (87.1(1.6)% without state-preparation-and-measurement correction). For use in quantum metrology, it is furthermore critical that the resulting entanglement be long lived; we find that the coherence of the Bell state has a lifetime of 4.2(6) s via parity correlations and simultaneous comparisons between entangled and unentangled ensembles. Such long-lived Bell states can be useful for enhancing metrological stability and bandwidth. In the future, atomic rearrangement will enable the implementation of many-qubit gates and cluster state generation, as well as explorations of the transverse field Ising model.

71 CLASSICAL AND QUANTUM MECHANICS, GENERAL PHYSIC↗

Quantum turbulence, superfluidity, non-Markovian dynamics, and wave function thermalization

While quantum turbulence has been addressed both experimentally (predominantly for superfluid He 4 and He 3 ) and theoretically, the dynamics of various ensembles of quantized vortices has been followed in time only until the vortices have decayed into phonons. How this “thermalization” is achieved is still an unaddressed and thus an unelucidated question. The unitary Fermi gas (UFG) is a unique quantum system, which has no classical counterpart and is of relevance to neutron stars, cold atoms, condensed-matter and nuclear many-body systems. The non-Markovian evolution of an isolated UFG is put in evidence and its entire nonequilibrium evolution can be studied theoretically within a unified theoretical framework. The initial lattice of quantum vortices and antivortices evolves through a couple of vortex tangles and excitation of Kelvin waves, where vortices cross and reconnect, until very slowly thermalization sets in. Published by the American Physical Society 2024

73 NUCLEAR PHYSICS AND RADIATION PHYSICS↗