A Cordial Introduction to Double Scaled SYK.

We review recent progress regarding the double scaled Sachdev-Ye-Kitaev model and other p-local quantum mechanical random Hamiltonians. These models exhibit an expansion using chord diagrams, which can be solved by combinatorial methods. We describe exact results in these models, including their spectrum, correlation functions, and Lyapunov exponent.

Perturbative ensemble density functional theory applied to charge transfer excitations.

Charge transfer excitation energies are known to be challenging for standard time-dependent (TD) density functional theory (DFT) calculations. Perturbative ensemble DFT (pEDFT) was suggested as an easy-to-implelemt, low-cost alternative to TDDFT, because it is an in principle exact theory for calculating excitation energies that produces useful valence excitation energies. Here, we examine analytically and numerically (based on the benzene-tetracyanoethylene complex) how well pEDFT performs in the charge transfer limit.

Paleo aridity in the Levant driven by a strong North Atlantic latitudinal surface temperature gradient and present-day relevance.

The mechanisms underlying the current greenhouse gas (GHG) forced decline in Mediterranean rainfall remain a matter of debate. To inform our understanding of the current and projected drying, we examined extended arid intervals in the late Quaternary, Eastern Mediterranean (EM) Levant indicated by substantial salt deposits in a Dead Sea sediment core covering the past 220 kyr. These arid events occurred during interglacials, when the Earth was at perihelion to the sun in boreal fall and during glacial-interglacial transitions, associated with icesheet melting.

Biogenesis of extracellular vesicles from the pathogen perspective: Transkingdom strategies for delivering messages.

EVs are nanoparticles enclosing proteins, nucleic acids and lipids released by cells and are essential for their metabolism and useful for intercellular communication. The importance of EVs has been highlighted by their use as biomarkers or as vaccine antigens. The release of vesicles is exploited by a wide range of organisms: from unicellular bacteria or protozoa to multicellular prokaryotes like fungi, helminths and arthropods.

Short and long range 2D N-N NMR correlations among peptide groups by novel solid state dipolar mixing schemes.

A recently developed homonuclear dipolar recoupling scheme, Adiabatic Linearly FREquency Swept reCOupling (AL FRESCO), was applied to record two-dimensional (2D) N-N correlations on uniformly N-labeled GB1 powders. A major feature exploited in these N-N correlations was AL FRESCO's remarkably low RF power demands, which enabled seconds-long mixing schemes when establishing direct correlations. These N-N mixing schemes proved efficient regardless of the magic-angle spinning (MAS) rate and, being nearly free from dipolar truncation effects, they enabled the detection of long-range, weak dipolar couplings, even in the presence of strong short-range dipolar couplings.

Structural study of UFL1-UFC1 interaction uncovers the role of UFL1 N-terminal helix in ufmylation.

Ufmylation plays a crucial role in various cellular processes including DNA damage response, protein translation, and ER homeostasis. To date, little is known about how the enzymes responsible for ufmylation coordinate their action. Here, we study the details of UFL1 (E3) activity, its binding to UFC1 (E2), and its relation to UBA5 (E1), using a combination of structural modeling, X-ray crystallography, NMR, and biochemical assays.

Visualization of Organelles In Situ by Cryo-STEM Tomography.

Cryogenic electron microscopy (cryo-EM) relies on the imaging of biological or organic specimens embedded in their native aqueous medium; water is solidified into a glass (i.e., vitrified) without crystallization.

Sec61 channel subunit Sbh1/Sec61β promotes ER translocation of proteins with suboptimal targeting sequences and is fine-tuned by phosphorylation.

The highly conserved endoplasmic reticulum (ER) protein translocation channel contains one nonessential subunit, Sec61β/Sbh1, whose function is poorly understood so far. Its intrinsically unstructured cytosolic domain makes transient contact with ER-targeting sequences in the cytosolic channel vestibule and contains multiple phosphorylation sites suggesting a potential for regulating ER protein import. In a microscopic screen, we show that 12% of a GFP-tagged secretory protein library depends on Sbh1 for translocation into the ER.

Proton-detected solution-state NMR at 14.1 T based on scalar-driven C Overhauser dynamic nuclear polarization.

Overhauser dynamic nuclear polarization (ODNP) NMR of solutions at high fields is usually mediated by scalar couplings that polarize the nuclei of heavier, electron-rich atoms. This leaves H-detected NMR outside the realm of such studies. This study presents experiments that deliver H-detected NMR experiments on relatively large liquid volumes (60 ∼ 100 μL) and at high fields (14.

A proposed unified interphase nucleus chromosome structure: Preliminary preponderance of evidence.

Cryoelectron tomography of the cell nucleus using scanning transmission electron microscopy and deconvolution processing technology has highlighted a large-scale, 100- to 300-nm interphase chromosome structure, which is present throughout the nucleus. This study further documents and analyzes these chromosome structures. The paper is divided into four parts: 1) evidence (preliminary) for a unified interphase chromosome structure; 2) a proposed unified interphase chromosome architecture; 3) organization as chromosome territories (e.

Targeted Drug Delivery for the Treatment of Blood Cancers.

Blood cancers are a type of liquid tumor which means cancer is present in the body fluid. Multiple myeloma, leukemia, and lymphoma are the three common types of blood cancers. Chemotherapy is the major therapy of blood cancers by systemic administration of anticancer agents into the blood.

Structural basis for UFM1 transfer from UBA5 to UFC1.

Ufmylation is a post-translational modification essential for regulating key cellular processes. A three-enzyme cascade involving E1, E2 and E3 is required for UFM1 attachment to target proteins. How UBA5 (E1) and UFC1 (E2) cooperatively activate and transfer UFM1 is still unclear.

Post-ER degradation of misfolded GPI-anchored proteins is linked with microautophagy.

Glycosylphosphatidylinositol-anchored proteins (GPI-APs) are membrane-conjugated cell-surface proteins with diverse structural, developmental, and signaling functions and clinical relevance. Typically, after biosynthesis and attachment to the preassembled GPI anchor, GPI-APs rapidly leave the endoplasmic reticulum (ER) and rely on post-ER quality control. Terminally misfolded GPI-APs end up inside the vacuole/lysosome for degradation, but their trafficking itinerary to this organelle and the processes linked to their uptake by the vacuole/lysosome remain uncharacterized.

Strong local, not global, controls on marine pyrite sulfur isotopes.

Understanding variation in the sulfur isotopic composition of sedimentary pyrite (δS) is motivated by the key role of sulfur biogeochemistry in regulating Earth's surface oxidation state. Until recently, the impact of local depositional conditions on δS has remained underappreciated, and stratigraphic variations in δS were interpreted mostly to reflect global changes in biogeochemical cycling. We present two coeval δS records from shelf and basin settings in a single sedimentary system.

Developmental axon regrowth and primary neuron sprouting utilize distinct actin elongation factors.

Intrinsic neurite growth potential is a key determinant of neuronal regeneration efficiency following injury. The stereotypical remodeling of Drosophila γ-neurons includes developmental regrowth of pruned axons to form adult specific connections, thereby offering a unique system to uncover growth potential regulators. Motivated by the dynamic expression in remodeling γ-neurons, we focus here on the role of actin elongation factors as potential regulators of developmental axon regrowth.

Cofilin regulates axon growth and branching of γ-neurons.

The mechanisms that control intrinsic axon growth potential, and thus axon regeneration following injury, are not well understood. Developmental axon regrowth of mushroom body γ-neurons during neuronal remodeling offers a unique opportunity to study the molecular mechanisms controlling intrinsic growth potential. Motivated by the recently uncovered developmental expression atlas of γ-neurons, we here focus on the role of the actin-severing protein cofilin during axon regrowth.

Molecular Evolution and Diversification of Proteins Involved in miRNA Maturation Pathway.

Small RNAs (smRNA, 19-25 nucleotides long), which are transcribed by RNA polymerase II, regulate the expression of genes involved in a multitude of processes in eukaryotes. miRNA biogenesis and the proteins involved in the biogenesis pathway differ across plant and animal lineages. The major proteins constituting the biogenesis pathway, namely, the Dicers (DCL/DCR) and Argonautes (AGOs), have been extensively studied.

Shigella impairs human T lymphocyte responsiveness by hijacking actin cytoskeleton dynamics and T cell receptor vesicular trafficking.

Strategies employed by pathogenic enteric bacteria, such as Shigella, to subvert the host adaptive immunity are not well defined. Impairment of T lymphocyte chemotaxis by blockage of polarised edge formation has been reported upon Shigella infection. However, the functional impact of Shigella on T lymphocytes remains to be determined.

An Efficient, Robust New Scheme for Establishing Broadband Homonuclear Correlations in Biomolecular Solid State NMR.

An efficient mixing scheme is introduced for establishing two-dimensional (2D) homonuclear correlations based on dipolar couplings. This mixing scheme achieves broadband dipolar recoupling using remarkably low powers even under ultrafast magic-angle spinning (MAS) rates. This Adiabatic Linearly FREquency Swept reCOupling (AL FRESCO) method applies a series of weak frequency-chirped pluses on the H channel, for performing efficient C- C magnetization transfers leading to cross peaks between sites separated over small or large chemical shift differences.

Glial Derived TGF-β Instructs Axon Midline Stopping.

A fundamental question that underlies the proper wiring and function of the nervous system is how axon extension stops during development. However, our mechanistic understanding of axon stopping is currently poor. The stereotypic development of the mushroom body (MB) provides a unique system in which three types of anatomically distinct neurons (γ, α'/β', and α/β) develop and interact to form a complex neuronal structure.

Helminth-Based Product and the Microbiome of Mice with Lupus.

The hygiene hypothesis claims that the lack of exposure to microorganisms in developed countries correlates with a rise in the incidence of autoimmune diseases. It was also found that helminths are able to modulate the immune response in hosts in order to survive. Consequently, several successful trials using helminths as a treatment for autoimmune patients have been reported.