bluuebunny/crossref_metadata_2025_split huggingface dataset:
Realizing topological edge states with Rydberg-atom synthetic dimensions
Authors: Kanungo S. K. , Whalen J. D. , Lu Y. , Yuan M. , Dasgupta S. , Dunning F. B. , Hazzard K. R. A. , Killian T. C. 
Published: February 2022

AbstractA discrete degree of freedom can be engineered to match the Hamiltonian of particles moving in a real-space lattice potential. Such synthetic dimensions are powerful tools for quantum simulation because of the control they offer and the ability to create configurations difficult to access in real space. Here, in an ultracold 84Sr atom, we demonstrate a synthetic-dimension based on Rydberg levels coupled with millimeter waves. Tunneling amplitudes between synthetic lattice sites and on-site potentials are set by the millimeter-wave amplitudes and detunings respectively. Alternating weak and strong tunneling in a one-dimensional configuration realizes the single-particle Su-Schrieffer-Heeger (SSH) Hamiltonian, a paradigmatic model of topological matter. Band structure is probed through optical excitation from the ground state to Rydberg levels, revealing symmetry-protected topological edge states at zero energy. Edge-state energies are robust to perturbations of tunneling-rates that preserve chiral symmetry, but can be shifted by the introduction of on-site potentials.
Specific length and structure rather than high thermodynamic stability enable regulatory mRNA stem-loops to pause translation
Authors: Bao Chen , Zhu Mingyi , Nykonchuk Inna , Wakabayashi Hironao , Mathews David H. , Ermolenko Dmitri N. 
Published: February 2022

AbstractTranslating ribosomes unwind mRNA secondary structures by three basepairs each elongation cycle. Despite the ribosome helicase, certain mRNA stem-loops stimulate programmed ribosomal frameshift by inhibiting translation elongation. Here, using mutagenesis, biochemical and single-molecule experiments, we examine whether high stability of three basepairs, which are unwound by the translating ribosome, is critical for inducing ribosome pauses. We find that encountering frameshift-inducing mRNA stem-loops from the E. coli dnaX mRNA and the gag-pol transcript of Human Immunodeficiency Virus (HIV) hinders A-site tRNA binding and slows down ribosome translocation by 15-20 folds. By contrast, unwinding of first three basepairs adjacent to the mRNA entry channel slows down the translating ribosome by only 2-3 folds. Rather than high thermodynamic stability, specific length and structure enable regulatory mRNA stem-loops to stall translation by forming inhibitory interactions with the ribosome. Our data provide the basis for rationalizing transcriptome-wide studies of translation and searching for novel regulatory mRNA stem-loops.
Strong in-plane scattering of acoustic graphene plasmons by surface atomic steps
Authors: Zhang Ni , Luo Weiwei , Wang Lei , Fan Jiang , Wu Wei , Ren Mengxin , Zhang Xinzheng , Cai Wei , Xu Jingjun 
Published: February 2022

AbstractAcoustic graphene plasmons (AGPs) have ultrastrong field confinement and low loss, which have been applied for quantum effect exploration and ångström-thick material sensing. However, the exploration of in-plane scattering of AGPs is still lacking, although it is essential for the manipulation of ultraconfined optical fields down to atomic level. Here, by using scattering-type scanning near-field optical microscopy (s-SNOM), we show that the mid-infrared AGPs can be strongly scattered by atomic level height steps, even though the step height of the scatterer is four orders of magnitude smaller than the incident free wavelength. This effect can be attributed to larger back scattering of AGPs than that of the traditional graphene plasmons. Besides, the scattering of AGPs by individual scatterers can be controlled via electrical back gating. Our work suggests a feasible way to control confined optical fields with atomic level height nanostructures, which can be used for ultra-compacted strong light–matter interactions.
Microbial-driven preterm labour involves crosstalk between the innate and adaptive immune response
Authors: Chan Denise , Bennett Phillip R. , Lee Yun S. , Kundu Samit , Teoh T. G. , Adan Malko , Ahmed Saqa , Brown Richard G. , David Anna L. , Lewis Holly V. , Gimeno-Molina Belen , Norman Jane E. , Stock Sarah J. , Terzidou Vasso , Kropf Pascale , Botto Marina , MacIntyre David A. , Sykes Lynne 
Published: February 2022

AbstractThere has been a surge in studies implicating a role of vaginal microbiota in spontaneous preterm birth (sPTB), but most are associative without mechanistic insight. Here we show a comprehensive approach to understand the causative factors of preterm birth, based on the integration of longitudinal vaginal microbiota and cervicovaginal fluid (CVF) immunophenotype data collected from 133 women at high-risk of sPTB. We show that vaginal depletion of Lactobacillus species and high bacterial diversity leads to increased mannose binding lectin (MBL), IgM, IgG, C3b, C5, IL-8, IL-6 and IL-1β and to increased risk of sPTB. Cervical shortening, which often precedes preterm birth, is associated with Lactobacillus iners and elevated levels of IgM, C3b, C5, C5a and IL-6. These data demonstrate a role for the complement system in microbial-driven sPTB and provide a scientific rationale for the development of live biotherapeutics and complement therapeutics to prevent sPTB.
Multichannel optogenetics combined with laminar recordings for ultra-controlled neuronal interrogation
Authors: Eriksson David , Schneider Artur , Thirumalai Anupriya , Alyahyay Mansour , de la Crompe Brice , Sharma Kirti , Ruther Patrick , Diester Ilka 
Published: February 2022

AbstractSimultaneous large-scale recordings and optogenetic interventions may hold the key to deciphering the fast-paced and multifaceted dialogue between neurons that sustains brain function. Here we have taken advantage of thin, cell-sized, optical fibers for minimally invasive optogenetics and flexible implantations. We describe a simple procedure for making those fibers side-emitting with a Lambertian emission distribution. Here we combined those fibers with silicon probes to achieve high-quality recordings and ultrafast multichannel optogenetic inhibition. Furthermore, we developed a multi-channel optical commutator and general-purpose patch-cord for flexible experiments. We demonstrate that our framework allows to conduct simultaneous laminar recordings and multifiber stimulations, 3D optogenetic stimulation, connectivity inference, and behavioral quantification in freely moving animals. Our framework paves the way for large-scale photo tagging and controlled interrogation of rapid neuronal communication in any combination of brain areas.
Atmospheric dryness reduces photosynthesis along a large range of soil water deficits
Authors: Fu Zheng , Ciais Philippe , Prentice I. Colin , Gentine Pierre , Makowski David , Bastos Ana , Luo Xiangzhong , Green Julia K. , Stoy Paul C. , Yang Hui , Hajima Tomohiro 
Published: February 2022

AbstractBoth low soil water content (SWC) and high atmospheric dryness (vapor pressure deficit, VPD) can negatively affect terrestrial gross primary production (GPP). The sensitivity of GPP to soil versus atmospheric dryness is difficult to disentangle, however, because of their covariation. Using global eddy-covariance observations, here we show that a decrease in SWC is not universally associated with GPP reduction. GPP increases in response to decreasing SWC when SWC is high and decreases only when SWC is below a threshold. By contrast, the sensitivity of GPP to an increase of VPD is always negative across the full SWC range. We further find canopy conductance decreases with increasing VPD (irrespective of SWC), and with decreasing SWC on drier soils. Maximum photosynthetic assimilation rate has negative sensitivity to VPD, and a positive sensitivity to decreasing SWC when SWC is high. Earth System Models underestimate the negative effect of VPD and the positive effect of SWC on GPP such that they should underestimate the GPP reduction due to increasing VPD in future climates.
Safinamide in the treatment pathway of Parkinson’s Disease: a European Delphi Consensus
Authors: Stocchi Fabrizio , Antonini Angelo , Berg Daniela , Bergmans Bruno , Jost Wolfgang , Katzenschlager Regina , Kulisevsky Jaime , Odin Per , Valldeoriola Francesc , Ray Chaudhuri K. 
Published: February 2022

AbstractSafinamide is a highly selective, reversible MAO B-inhibitor recently marketed in European and North American countries. To better define clinical indications regarding motor and non-motor symptoms, targeted population and safety of this compound, ten movement disorders specialists, experts in their field, convened and developed a panel of statements on: the role of glutamate in Parkinson’s disease, introduction to fluctuations, efficacy of safinamide on motor symptoms, motor complications and non-motor symptoms, quality of life, safety of safinamide and target population for use. Strong consensus was reached for all the statements on the efficacy of safinamide on motor symptoms, motor fluctuations, quality of life and safety. Among non-motor symptoms, a positive consensus was reached for the symptoms sleep/fatigue, mood, and pain while there was a lack of consensus for the statements regarding the efficacy of safinamide in improving cognition, urinary and sexual functions. The statement on orthostatic hypotension obtained a negative consensus. The consistent and large agreement reached in this Delphi panel perfectly reflects the perception of efficacy, safety and tolerability of safinamide as evident from pivotal trials and clinical practice and shows how these findings may guide movement disorders specialists in their clinical therapeutic approach. The impact of non-motor symptoms in PD is considerable, and management remains an unmet need. In this context, the ability of safinamide to impact some non-motor symptoms may represent the most promising and distinctive feature of this compound and deserves further investigations.
Large scale dataset of real space electronic charge density of cubic inorganic materials from density functional theory (DFT) calculations
Authors: Wang Fancy Qian , Choudhary Kamal , Liu Yu , Hu Jianjun , Hu Ming 
Published: February 2022

AbstractDriven by the big data science, material informatics has attracted enormous research interests recently along with many recognized achievements. To acquire knowledge of materials by previous experience, both feature descriptors and databases are essential for training machine learning (ML) models with high accuracy. In this regard, the electronic charge density ρ(r), which in principle determines the properties of materials at their ground state, can be considered as one of the most appropriate descriptors. However, the systematic electronic charge density ρ(r) database of inorganic materials is still in its infancy due to the difficulties in collecting raw data in experiment and the expensive first-principles based computational cost in theory. Herein, a real space electronic charge density ρ(r) database of 17,418 cubic inorganic materials is constructed by performing high-throughput density functional theory calculations. The displayed ρ(r) patterns show good agreements with those reported in previous studies, which validates our computations. Further statistical analysis reveals that it possesses abundant and diverse data, which could accelerate ρ(r) related machine learning studies. Moreover, the electronic charge density database will also assists chemical bonding identifications and promotes new crystal discovery in experiments.
Severe conservation risks of roads on apex predators
Authors: Quintana Itxaso , Cifuentes Edgar F. , Dunnink Jeffrey A. , Ariza María , Martínez-Medina Daniela , Fantacini Felipe M. , Shrestha Bibek R. , Richard Freddie-Jeanne 
Published: February 2022

AbstractThe global expansion of road networks threatens apex predator conservation and ecosystem functioning. This occurs through wildlife-vehicle collisions, habitat loss and fragmentation, reduced genetic connectivity and increased poaching. We reviewed road impacts on 36 apex predator species and assessed their risk from current roads based on road exposure and species vulnerability. Our findings reveal all apex predators are exposed to road impacts. Eight of the ten species with the highest risk occur in Asia, although other high-risk species are present in the Americas, Africa and Europe. The sloth bear suffers the highest risk of all apex predators, followed by the tiger and dhole. Based on species risk from roads, we propose a widely applicable method to assess the potential impact of future roads on apex predators. We applied this method to proposed road developments in three areas: the Brazilian Amazon, Africa, and Nepal, to locate high-impact road segments. Roughly 500 protected areas will be intersected by these roads, threatening core apex predator habitats. We advocate the need for rigorous road development planning to apply effective mitigation measures as an urgent priority and to avoid construction in wilderness areas and predator strongholds.
Biomarker LEPRE1 induces pelitinib-specific drug responsiveness by regulating ABCG2 expression and tumor transition states in human leukemia and lung cancer
Authors: Lee A-Ram , Lee Sunho , Shin Jee Yoon , Kim Ji-Young , Moon Kyoung-Sik , Jung Joungsun 
Published: February 2022

AbstractBiomarkers for treatment sensitivity or drug resistance used in precision medicine include prognostic and predictive molecules, critical factors in selecting appropriate treatment protocols and improving survival rates. However, identification of accurate biomarkers remain challenging due to the high risk of false-positive findings and lack of functional validation results for each biomarker. Here, we discovered a mechanical correlation between leucine proline-enriched proteoglycan 1 (LEPRE1) and pelitinib drug sensitivity using in silico statistical methods and confirmed the correlation in acute myeloid leukemia (AML) and A549 lung cancer cells. We determined that high LEPRE1 levels induce protein kinase B activation, overexpression of ATP-binding cassette superfamily G member 2 (ABCG2) and E-cadherin, and cell colonization, resulting in a cancer stem cell-like phenotype. Sensitivity to pelitinib increases in LEPRE1-overexpressing cells due to the reversing effect of ABCG2 upregulation. LEPRE1 silencing induces pelitinib resistance and promotes epithelial-to-mesenchymal transition through actin rearrangement via a series of Src/ERK/cofilin cascades. The in silico results identified a mechanistic relationship between LEPRE1 and pelitinib drug sensitivity, confirmed in two cancer types. This study demonstrates the potential of LEPRE1 as a biomarker in cancer through in-silico prediction and in vitro experiments supporting the clinical development of personalized medicine strategies based on bioinformatics findings.
Superposition mechanism as a neural basis for understanding others
Authors: Noguchi Wataru , Iizuka Hiroyuki , Yamamoto Masahito , Taguchi Shigeru 
Published: February 2022

AbstractSocial cognition has received much attention in fields such as neuroscience, psychology, cognitive science, and philosophy. Theory-theory (TT) and simulation theory (ST) provide the dominant theoretical frameworks for research on social cognition. However, neither theory addresses the matter of how the concepts of “self” and “other” are acquired through the development of human and nonhuman agents. Here, we show that the internal representations of “self” and “other” can be developed in an artificial agent only through the simple predictive learning achieved by deep neural networks with thesuperposition mechanismwe herein propose. That is, social cognition can be achieved without a pre-given (or innate) framework of self and other; this is not assumed (or is at least unclear) in TT and ST. We demonstrate that the agent with the proposed model can acquire basic abilities of social cognition such as shared spatial representations of self and other, perspective-taking, and mirror-neuron-like activities of the agent’s neural network. The result indicates that the superposition mechanism we propose is a necessary condition for the development of the concepts of “self” and “other” and, hence, for the development of social cognition in general.
A novel base-metal multifunctional catalyst for the synthesis of 2-amino-3-cyano-4H-chromenes by a multicomponent tandem oxidation process
Authors: Chahkamali Farhad Omarzehi , Sobhani Sara , Sansano Jose Miguel 
Published: February 2022

AbstractA novel base-metal multifunctional nanomagnetic catalyst is prepared by the immobilization of tungstate anions onto γ-Fe2O3 supported with imidazolium moieties. The (γ-Fe2O3-Im-Py)2WO4 was fully characterized using FT-IR, XPS, TEM, FESEM, ICP, TGA, VSM and XRD and used as a multifunctional heterogeneous catalyst for the synthesis of 2-amino-3-cyano-4H-chromenes via a multicomponent tandem oxidation process starting from alcohols under solvent-free conditions. During this process, tungstate catalyzes the oxidation of a wide range of alcohols in the presence of TBHP as a clean source. The in-situ formed aldehydes are condensed with malononitrile and β-dicarbonyl compounds/naphthols/4-hydroxycumarin through promotion by pyridine and imidazolium moieties of the catalyst. By this method, a variety of 2-amino-3-cyano-4H-chromenes are generated in good to high yields from alcohols as inexpensive and easily available starting materials. The catalyst is recovered easily by the aid of an external magnetic field and reused in five successive runs with insignificant decreasing activity.
Weak antilocalization, spin–orbit interaction, and phase coherence length of a Dirac semimetal Bi0.97Sb0.03
Authors: Salawu Yusuff Adeyemi , Yun Jae Hyun , Rhyee Jong-Soo , Sasaki Minoru , Kim Heon-Jung 
Published: February 2022

AbstractThe present study develops a general framework for weak antilocalization (WAL) in a three-dimensional (3D) system, which can be applied for a consistent description of longitudinal resistivity $$\rho_{xx} \left( B \right)$$

ρ

xx

B

and Hall resistivity $$\rho_{xy} \left( B \right)$$

ρ

xy

B

over a wide temperature (T) range. Compared to the previous approach Vu et al. (Phys Rev B 100:125162, 2019), which assumes infinite phase coherence length (lϕ) and a zero spin–orbit scattering length (lSO), the present framework is more general, covering high T and the intermediate spin–orbit coupling strength. Based on the new approach, the $$\rho_{xx} \left( B \right)$$

ρ

xx

B

and $$\rho_{xy} \left( B \right)$$

ρ

xy

B

of the Dirac semimetal Bi0.97Sb0.03 was analyzed over a wide T range from 1.7 to 300 K. The present framework not only explains the main features of the experimental data but also enables one to estimate lϕ and lSO at different temperatures. The lϕ has a power-law T dependence at high T and saturates at low T. In contrast, the lSO shows negligible T dependence. Because of the different T dependence, a crossover occurs from the lSO-dominant low-T to the lϕ-dominant high-T regions. Accordingly, the hallmark features of weak antilocalization (WAL) in $$\rho_{xx} \left( B \right)$$

ρ

xx

B

and $$\rho_{xy} \left( B \right)$$

ρ

xy

B

are gradually suppressed across the crossover with increasing T. The present theory describes both low-T and high-T regions successfully, which is impossible in the previous approximate approach. This work offers insights for understanding quantum electrical transport phenomena and their underlying physics, particularly when multiple WAL length scales are competing.
Quantitative in vivo micro-computed tomography for monitoring disease activity and treatment response in a collagen-induced arthritis mouse model
Authors: Lord Audrey E. , Zhang Liang , Erickson Jamie E. , Bryant Shaughn , Nelson Christine M. , Gaudette Stephanie M. , Phillips Lucy A. , Schwartz Sterman Annette J. , Mitra Soumya 
Published: February 2022

AbstractA painful, chronic condition, Rheumatoid Arthritis, is marked by bone erosion and soft tissue swelling at the joint. As treatments are investigated in pre-clinical models, characterizing disease progression is integral to assessing treatment efficacy. Here, in vivo and ex vivo micro-computed tomography (µCT) are used in parallel with traditional caliper score measurement to quantify physiological changes in the tarsal region in a murine, collagen-induced arthritis model. In vivo imaging methods, which are validated here through comparison to ex vivo and caliper methods, afford longitudinal analysis of both bone and soft tissue through a single image acquisition. This method removes the subjectivity of swelling quantification which is inherently associated with traditional caliper measurements. Histopathology offers an additional assessment of bone erosion and inflammation by providing a microscopic characterization of disease activity. In comparison to untreated animals, daily prednisolone (glucocorticoid) treatment is shown to restore bone volume, as reflected through in vivo and ex vivo µCT images, as well as histopathology. Prednisolone-associated reduction in inflammation is shown through in vivo µCT soft tissue volume measurements, paw caliper measurements, and histopathology. The findings reported here provide a comprehensive validation of in vivo µCT with a sensitivity that enables characterization of pre-clinical disease assessment in response to treatment in a murine, collagen-induced arthritis model.
Recyclable NiO/sepiolite as adsorbent to remove organic dye and its regeneration
Authors: Gao Shu , Wang Dahua , Huang Zhi , Su Chengyuan , Chen Menglin , Lin Xiangfeng 
Published: February 2022

AbstractIn this study, the impregnation synthesis of NiO/sepiolite and its application for dye removal during wastewater treatment is introduced. The NiO/sepiolite materials act as an adsorbent/catalyst. It comprises a unique combination of adsorption and high-temperature gas flow regeneration (the NiO/sepiolite acts as a catalyst at this stage, using regeneration rate as evaluation index of catalytic activity of NiO/sepiolite) in a single unit, in which the NiO/sepiolite was regenerated and reused for the next round adsorption of dye. An aqueous solution of methylene blue was used to evaluate the adsorption and regeneration performance of the adsorbent/catalyst. The regeneration rate reached 74% when the reaction time and temperature were 7 min and 350 °C, respectively. The effects of the regeneration temperature and volume fraction of O2 on the regeneration rate were investigated. And the regeneration reaction kinetics was provided. The combination of adsorptive and catalytic properties in the NiO/sepiolite composites received interesting results for removing refractory biodegradable organic pollutants. This work provides new insights for the removal of dye from wastewater using Ni catalysts supported on natural low-cost clay.