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At least 73 records · Page 4

Efficient gene activation in plants by the MoonTag programmable transcriptional activator

Abstract CRISPR/Cas-based transcriptional activators have been developed to induce gene expression in eukaryotic and prokaryotic organisms. The main advantages of CRISPR/Cas-based systems is that they can achieve high levels of transcriptional activation and are very easy to program via pairing between the guide RNA and the DNA target strand. SunTag is a second-generation system that activates transcription by recruiting multiple copies of an activation domain (AD) to its target promoters. SunTag is a strong activator; however, in some species it is difficult to stably express. To overcome this problem, we designed MoonTag, a new activator that works on the same basic principle as SunTag, but whose components are better tolerated when stably expressed in transgenic plants. We demonstrate that MoonTag is capable of inducing high levels of transcription in all plants tested. In Setaria, MoonTag is capable of inducing high levels of transcription of reporter genes as well as of endogenous genes. More important, MoonTag components are expressed in transgenic plants to high levels without any deleterious effects. MoonTag is also able to efficiently activate genes in eudicotyledonous species such as Arabidopsis and tomato. Finally, we show that MoonTag activation is functional across a range of temperatures, which is promising for potential field applications.

42 ENGINEERING↗

Prediction of L⁢i 3 ⁢F⁡e 8 ⁢B 8 compound with rapid one-dimensional ion diffusion channels

Using a computational crystal structure search in the Li-Fe-B ternary system, we predict a stable phase of L⁢i 3 ⁢F⁡e 8 ⁢B 8 , featuring 1D channels that enable rapid Li-ion transport. Ab initio molecular dynamics simulations show that the Li-ion diffusion coefficient in L⁢i 3 ⁢F⁡e 8⁢ B 8 surpasses that of common electrode and conductive additive materials by several orders of magnitude. The high diffusion in L⁢i 3 ⁢F⁡e 8 ⁢B 8 can be explained by the Frenkel–Kontorova model, which describes an incommensurate state between the Li diffusion chain and the periodic potential field caused by the FeB backbone structure. The favorable lithium-ion diffusivity and mechanical properties of L⁢i 3 ⁢F⁡e 8 ⁢B 8 make it a promising conductive additive for battery materials. Furthermore, an external magnetic field can further manipulate the properties of this material due to its predicted itinerant ferromagnetism, which also offers a platform for exploring spin-dependent phenomena.

1-dimensional systems↗

Magnetic and quadrupole coupling emerging in NdB 4 with geometrically frustrated orthogonal antiferromagnetic dimer

Unusual successive order in NdB 4 with the frustrated Shastry-Sutherland lattice was investigated by means of inelastic neutron scattering. Here, we found that the pseudoquartet with |±5/2⟩ and |±7/2⟩ in the paramagnetic state splits into four levels in the magnetically ordered states. The observed spectra are in good agreement with the 𝑓-electron states obtained from the on-site Hamiltonian with the magnetic interaction ⟨𝐽 𝑥 ⟩ ⁢𝐽 𝑥 , the coupling of 𝐽 𝑥 with quadrupole 𝑂 𝑧⁢𝑥 , and the crystalline electric field potential. The 𝑓-electron states reproduce the temperature dependences of the in-plane moment 𝑚 ⊥ = ⟨𝐽 𝑥 ⟩, which is the primary order parameter, and a weakly induced 𝑚 𝑐 = ⟨𝐽 𝑧 ⟩ as the secondary order parameter. The magnetic-quadrupole coupling emerges and plays an essential role under the geometrical frustration, where the Heisenberg interactions are canceled out.

75 CONDENSED MATTER PHYSICS, SUPERCONDUCTIVITY AND↗

Total absorption spectroscopy of the β decay of 101,102 Zr and 109 Tc

The β decay of 101,102 Zr and 109 Tc was studied using the technique of total absorption spectroscopy. The experiment was performed at the National Superconducting Cyclotron Laboratory using the Summing NaI(Tl) (SuN) detector in the first-ever application of total absorption spectroscopy with a fast beam produced via projectile fragmentation. The β -decay feeding intensity and Gamow-Teller transition strength distributions were extracted for these three decays. The extracted distributions were compared to three different quasiparticle random-phase approximation (QRPA) models based on different mean-field potentials. A comparison with calculations from one of the QRPA models was performed to learn about the ground-state shape of the parent nucleus. For 101 Zr and 102 Zr, calculations assuming a pure shape configuration (oblate or prolate) were not able to reproduce the extracted distributions. These results may indicate that some type of mixture between oblate and prolate shapes is necessary to reproduce the extracted distributions. For 109 Tc, a comparison of the extracted distributions with QRPA calculations suggests a dominant oblate configuration. The other two QRPA models are commonly used to provide β-decay properties in r-process network calculations. This work shows the importance of making comparisons between the experimental and theoretical β-decay distributions, rather than just half-lives and β-delayed neutron emission probabilities, as close to the r-process path as possible.

79 ASTRONOMY AND ASTROPHYSICS↗

Probing the high-density nuclear symmetry energy with the Ξ – / Ξ 0 ratio in heavy-ion collisions at s N N ≈ 3 GeV

Recent beam energy scan experiments at the BNL Relativistic Heavy Ion Collider by the STAR Collaboration found that hadronic interactions dominate the collective flow and the proton cumulant ratios are driven by baryon number conservation in a region of high baryon density in √ s NN = 3 GeV Au + Au reactions, indicating that the dense medium formed in such collisions is likely hadronic matter. Within an updated a relativistic transport model with momentum dependent isoscalar and isovector single-nucleon mean-field potentials corresponding to different symmetry energies at suprasaturation densities, the n/p, π – /π + , $K$ $^{0}_{s}$/K + , Σ – /Σ + , and Ξ – /Ξ 0 ratios are studied for central Au + Au collisions at √ s NN = 3 GeV, where the maximum central density reaches about (3.6–4.0) ρ 0 . The doubly strange Ξ – /Ξ 0 ratio is found to have the strongest sensitivity to the variation of high-density nuclear symmetry energy. Furthermore, the Ξ – /Ξ 0 ratio in relativistic heavy-ion reactions at √ s NN~3 GeV may help probe sensitively the poorly known symmetry energy of dense neutron-rich matter critically important for understanding various properties of neutron stars.

73 NUCLEAR PHYSICS AND RADIATION PHYSICS↗

Comparing pion production in transport simulations of heavy-ion collisions at 270⁢𝐴 MeV under controlled conditions

Within the TMEP, we present a detailed study of the performance of different transport models in Sn+Sn collisions at 270A MeV, and put particular emphasis on the production of pions and Delta resonances, which have been used as probes of the nuclear symmetry energy. We prescribe a common and rather simple physics model, and follow in detail the results of 4 BUU models and 6 QMD models. The nucleonic evolution of the collision and the nucleonic observables in these codes do not completely converge, but the differences among the codes can be understood as being due to several reasons: the basic differences between BUU and QMD models in the representation of the phase-space distributions, computational differences in the mean-field evaluation, and differences in the adopted strategies for the Pauli blocking in the collision integrals. For pionic observables, we find that a higher maximum density leads to an enhanced pion yield and a reduced pi- pi+ yield ratio, while a more effective Pauli blocking generally leads to a slightly suppressed pion yield and an enhanced pi- pi+ yield ratio. We specifically investigate the effect of the Coulomb force, and find that it increases the total pi- pi+ yield ratio but reduces the ratio at high pion energies, although differences in its implementations do not have a dominating role in the differences among the codes. Taking into account only the results of codes that strictly follow the homework specifications, we find a convergence of the codes in the final charged pion yield ratio to a 1 sigma deviation of about 5%. Furthermore, the uncertainty is expected to be reduced to about 1.6% if the same or similar strategies and ingredients, i.e., an improved Pauli blocking and calculation of the non-linear term in the mean-field potential, are similarly used in all codes.

73 NUCLEAR PHYSICS AND RADIATION PHYSICS↗

Reaction plane correlated triangular flow in Au + Au collisions at $\sqrt{s_{NN}}$ = 3 GeV

Here, we measure triangular flow relative to the reaction plane at 3 GeV center-of-mass energy in Au + Au collisions at the BNL Relativistic Heavy Ion Collider. A significant v 3 signal for protons is observed, which increases for higher rapidity, higher transverse momentum, and more peripheral collisions. The triangular flow is essentially rapidity-odd with a slope at midrapidity, dv 3 /dy| (y=0) , opposite in sign compared to the slope for directed flow. No significant v 3 signal is observed for charged pions and kaons. Comparisons with models suggest that a mean field potential is required to describe these results, and that the triangular shape of the participant nucleons is the result of stopping and nuclear geometry.

73 NUCLEAR PHYSICS AND RADIATION PHYSICS↗

Spontaneous Relaxation through Graphene Suggests an Alternative Strain Relaxation Mechanism in Heteroepitaxy

While conventional epitaxy produces high-quality epitaxial layers, the limited set of commercially available wafers restricts the number of material choice that can be grown through epitaxy. To extend the set of epi-materials, heteroepitaxy has been widely used although the epi-materials have severe lattice mismatch from wafers. The problem of heteroepitaxy of the lattice mismatched systems is that introducing dislocations is unavoidable because of the strain energy built up in epitaxial layers exceeds the threshold energy value to create dislocation. As the dislocations significantly reduce the materials’ properties, people have put intensive effort into finding a new way to resolve this issue. Here, we introduce a new strain relaxation approach which can efficiently engineer the lattice with minimizing dislocation formation. Remote epitaxy allows single-crystalline growths on graphene-coated substrates as atomic potential field guides atomic registry through graphene while weakening binding energy of epilayer to the substrate. We discovered that this weakened interface offers a new pathway for strain relaxation during epitaxy in the lattice mismatched systems. While conventional heteroepitaxy relaxes accumulated strain energy through involving misfit dislocations, heteroepitaxy on graphene-coated substrates spontaneously relaxes its strain minimizing dislocation density. Thus, at the same thickness and misfit strain, the epilayer grown on graphene-coated substrates shows full relaxation with substantially reduced dislocations while that by conventional heteroepitaxy exhibits slight relaxation with full of dislocations. It means that full of strain relaxation at much lower thickness is available through this approach. We strongly believe that our strategy allows broadening range of available semiconductors through epitaxy, which could lead high performance electronic and photonics.

Bae, Sang-Hoon↗

A Novel Approach to Map Permeability Using Passive Seismic Emission Tomography

Newly acquired magnetotelluric data and passive seismic data collected with tightly spaced geophone arrays are combined with historic drilling, active seismic, and potential fields data to generate 3-D permeability maps. A cooperative inversion methodology has been developed using active seismic, magnetotelluric, and gravity data in order to produce more robust velocity models for passive seismic data processing without requiring expensive 3-D active seismic surveys. The cooperative inversion estimates velocities from other geophysical data where no prior seismic velocity information is available at two geothermal sites in Nevada: San Emidio and Crescent Valley.

15 GEOTHERMAL ENERGY↗

AI-Assisted Conceptual Development of a Pre-Geometric Cosmological Model - An Exercise in AI-Assisted Conceptual Framework Generation, Paper III: Cosmological Structure and Predictions

This paper develops the cosmological consequences of the replication-driven cosmogenesis framework introduced in Paper I and the emergent geometric structure established in Paper II. After the replication epoch freezes out, the coherent sector occupies a finite spectral band and contains a population of excited states. The relaxation of these excited coherent configurations does not produce coherent radiation; instead, all released energy flows into the incoherent substrate, where the randomizer acts as a rapid phase-scrambling mechanism. This process generates an effectively thermal radiation bath, providing a natural reheating mechanism that requires neither inflaton oscillations nor scalar-field potentials, and can be contrasted with standard scenarios of nonperturbative reheating dynamics. Subsequent symmetry-breaking transitions in the coherent vacuum inject additional radiation, yielding a multi-stage thermal history with well-defined energy transfers. We derive the effective equations of state for each component—the cosmological vacuum, the coherent vacuum, and the radiation bath—and show how their interplay produces an FRW-like expansion. The discrete sequence of coherent-state relaxations imprints a distinctive multi-peaked stochastic gravitational-wave background, whose spectral structure reflects the underlying hierarchy of coherent frequencies. Potential observational signatures in the LISA and mid-band frequency ranges are highlighted, providing concrete avenues to test this replication-based cosmological framework in the context of standard cosmological gravitational-wave backgrounds and LISA-oriented forecasts.

79 ASTRONOMY AND ASTROPHYSICS↗

A Modular 512-Channel Neural Signal Acquisition ASIC for High-Density 4096 Channel Electrophysiology

The complexity of information processing in the brain requires the development of technologies that can provide spatial and temporal resolution by means of dense electrode arrays paired with high-channel-count signal acquisition electronics. In this work, we present an ultra-low noise modular 512-channel neural recording circuit that is scalable to up to 4096 simultaneously recording channels. The neural readout application-specific integrated circuit (ASIC) uses a dense 8.2 mm × 6.8 mm 2D layout to enable high-channel count, creating an ultra-light 350 mg flexible module. The module can be deployed on headstages for small animals like rodents and songbirds, and it can be integrated with a variety of electrode arrays. The chip was fabricated in a TSMC 0.18 µm 1.8 V CMOS technology and dissipates a total of 125 mW. Each DC-coupled channel features a gain and bandwidth programmable analog front-end along with 14 b analog-to-digital conversion at speeds up to 30 kS/s. Additionally, each front-end includes programmable electrode plating and electrode impedance measurement capability. We present both standalone and in vivo measurements results, demonstrating the readout of spikes and field potentials that are modulated by a sensory input.

47 OTHER INSTRUMENTATION↗

Holographic Constraints on the String Landscape

We show that holography imposes strong and general constraints on scalar field potentials in the string landscape, determined by the asymptotic structure of the underlying spacetime. Applying these holographic consistency conditions, we identify broad classes of scalar potentials that are incompatible with a well-defined dual description. These include potentials with extended plateaus, excessively steep or shallow asymptotics, certain zero crossings, and specific alignments of stable AdS minima in moduli space. In particular, making the standard assumption that the CFT dual to a stable AdS vacuum must be realized as a worldvolume theory of a brane in string theory, we show that the brane selects an infinite-distance limit in moduli space where parametric scale separation is forbidden. Furthermore, the steepness and positivity of the potential are restricted in that infinite distance direction. We also find that requiring the validity of the effective theory in the future vacuum, a natural holographic criterion, automatically enforces the Trans-Planckian Censorship Conjecture (TCC) for classical cosmological solutions with positive potentials. Taken together, these constraints exclude the leading proposals to realize scale-separated AdS vacua and metastable de Sitter vacua in the string theory landscape such as DGKT and KKLT.

Cosmology and Nongalactic Astrophysics (astro-ph.C↗

Quantifying nitrogen loss hotspots and mitigation potential for individual fields in the US Corn Belt with a metamodeling approach

The high productivity in the US Corn Belt is largely enabled by the consumption of millions of tons of manufactured fertilizer. Excessive application of nitrogen (N) fertilizer has been pervasive in this region, and the unrecovered N eventually escaped from croplands in forms of nitrous oxide (N 2 O) emission and N leaching. Mitigating these negative impacts is hindered by a lack of practical information on where to focus and how much mitigation potential to expect. At a large scale, process-based crop models are the primary tools for predicting variables required by decision making, but their applications are prohibited by expensive computational and data storage costs. To overcome these challenges, we built a series of metamodels to learn the key mechanisms regarding the carbon (C) and N cycle from a well-validated process-based biogeochemical model, ecosys. The trained metamodel captures over 98% of the variability of the ecosys simulated outputs for 99 randomly selected counties in Iowa, Illinois, and Indiana. To identify hotspots with high mitigation potential, we introduce net societal benefit (NSB) as an indicator for synthesizing the loss in yield and social benefits through emissions and pollutants avoided. Our results show that reducing N fertilizer by 10% leads to 9.8% less N 2 O emissions and 9.6% less N leaching at the cost of 4.9% more SOC depletion and 0.6% yield reduction over the study region. The estimated total annual NSB is $\$395$ M (uncertainty ranges from $\$114$ M to $\$1271$ M), including $\$334$ from social benefits (uncertainty ranges from $\$46$ M to $\$1076$ M), $\$100$ M from saving fertilizer (uncertainty ranges from $\$13$ M to $\$455$ M), and –$\$40$ M due to yield changes (uncertainty ranges from –$\$261$ M to $\$69$ M). For the median scenario, we noted that 20% of the study area accounts for nearly 50% of the NSB, and thus represent hotspot locations for targeted mitigation. Although the uncertainty range suggests that developing such a high-resolution framework is not yet settled and the scenario based estimations are not appropriate to inform the management practices for individual farmers, our efforts shed light on the new generation of analytical tools for life cycle assessment.

54 ENVIRONMENTAL SCIENCES↗

Electrochemical grand potential-based phase-field simulation of electric field-assisted sintering

Here, an electrochemical grand potential functional was proposed to describe the sintering of an ionic ceramic green body. The resultant phase-field description enables simulation of the consolidation of an arbitrary number of granular particles and their interactions with the surrounding void phase. The model includes the effects of charged vacancies and the associated interactions between internal and applied electric fields. Defect segregation to grain boundaries is also accounted for, as well as enhanced interfacial defect mobilities. The model was parameterized for Y 2 O 3 . Simulations of two-particle systems showed that the applied electric field had an increasingly important impact on neck growth as particle size increased. A sudden rapid increase in temperature occurred for larger field strengths, which has been reported to be correlated to the onset of a flash event in flash sintering. Simulations of many particles showed that internal heat generation by Joule heating was localized at particle–particle contacts (grain boundaries), even though their conductivities were lower than nearby internal particle-void interfaces. A percolative path for ionic charge across the green body and the ceramic sintered solid was thus defined, accelerating the Joule heating process as the porosity of the green body is removed.

36 MATERIALS SCIENCE↗

Bispectral analysis of broadband turbulence and geodesic acoustic modes in the T-10 tokamak

Local fluctuations of electrostatic potential, poloidal electric field, magnetic potential and electron density are simultaneously measured in the T-10 tokamak by a heavy ion beam probe (HIBP) having a five-slit energy analyser, which allows an estimate of the turbulent particle flux and $\boldsymbol {E}\times \boldsymbol {B}$ rotation velocity in the off-minor-axis gradient zone of the toroidal plasma column. The high spatial and temporal resolution of the modern multichannel HIBP makes it an effective tool to study plasma oscillations. Motivated by previous work that has documented time-resolved interactions between measured plasma parameters using correlation analysis (coherence of $E_{\textrm {pol}}$ and density $n_e$ , and cross-phase), a new result from bicorrelation analysis (bicoherence of magnetic potential $A_\zeta$ and density $n_e$ , and biphase) is reported for documenting the evidence of wave–wave coupling and energy transfer associated with the interaction between geodesic acoustic modes (GAM) and broadband, quasi-coherent modes.

Physics↗