bluuebunny/crossref_metadata_2025_split huggingface dataset:
Probing atom dynamics of excited Co-Mo-S nanocrystals in 3D
Authors: Chen Fu-Rong , Van Dyck Dirk , Kisielowski Christian , Hansen Lars P. , Barton Bastian , Helveg Stig 
Published: August 2021

AbstractAdvances in electron microscopy have enabled visualizations of the three-dimensional (3D) atom arrangements in nano-scale objects. The observations are, however, prone to electron-beam-induced object alterations, so tracking of single atoms in space and time becomes key to unravel inherent structures and properties. Here, we introduce an analytical approach to quantitatively account for atom dynamics in 3D atomic-resolution imaging. The approach is showcased for a Co-Mo-S nanocrystal by analysis of time-resolved in-line holograms achieving ~1.5 Å resolution in 3D. The analysis reveals a decay of phase image contrast towards the nanocrystal edges and meta-stable edge motifs with crystallographic dependence. These findings are explained by beam-stimulated vibrations that exceed Debye-Waller factors and cause chemical transformations at catalytically relevant edges. This ability to simultaneously probe atom vibrations and displacements enables a recovery of the pristine Co-Mo-S structure and establishes, in turn, a foundation to understand heterogeneous chemical functionality of nanostructures, surfaces and molecules.
Structures of a deAMPylation complex rationalise the switch between antagonistic catalytic activities of FICD
Authors: Perera Luke A. , Preissler Steffen , Zaccai Nathan R. , Prévost Sylvain , Devos Juliette M. , Haertlein Michael , Ron David 
Published: August 2021

AbstractThe endoplasmic reticulum (ER) Hsp70 chaperone BiP is regulated by AMPylation, a reversible inactivating post-translational modification. Both BiP AMPylation and deAMPylation are catalysed by a single ER-localised enzyme, FICD. Here we present crystallographic and solution structures of a deAMPylation Michaelis complex formed between mammalian AMPylated BiP and FICD. The latter, via its tetratricopeptide repeat domain, binds a surface that is specific to ATP-state Hsp70 chaperones, explaining the exquisite selectivity of FICD for BiP’s ATP-bound conformation both when AMPylating and deAMPylating Thr518. The eukaryotic deAMPylation mechanism thus revealed, rationalises the role of the conserved Fic domain Glu234 as a gatekeeper residue that both inhibits AMPylation and facilitates hydrolytic deAMPylation catalysed by dimeric FICD. These findings point to a monomerisation-induced increase in Glu234 flexibility as the basis of an oligomeric state-dependent switch between FICD’s antagonistic activities, despite a similar mode of engagement of its two substrates — unmodified and AMPylated BiP.
The underappreciated role of agricultural soil nitrogen oxide emissions in ozone pollution regulation in North China
Authors: Lu Xiao , Ye Xingpei , Zhou Mi , Zhao Yuanhong , Weng Hongjian , Kong Hao , Li Ke , Gao Meng , Zheng Bo , Lin Jintai , Zhou Feng , Zhang Qiang , Wu Dianming , Zhang Lin , Zhang Yuanhang 
Published: August 2021

AbstractIntensive agricultural activities in the North China Plain (NCP) lead to substantial emissions of nitrogen oxides (NOx) from soil, while the role of this source on local severe ozone pollution is unknown. Here we use a mechanistic parameterization of soil NOx emissions combined with two atmospheric chemistry models to investigate the issue. We find that the presence of soil NOx emissions in the NCP significantly reduces the sensitivity of ozone to anthropogenic emissions. The maximum ozone air quality improvements in July 2017, as can be achieved by controlling all domestic anthropogenic emissions of air pollutants, decrease by 30% due to the presence of soil NOx. This effect causes an emission control penalty such that large additional emission reductions are required to achieve ozone regulation targets. As NOx emissions from fuel combustion are being controlled, the soil emission penalty would become increasingly prominent and shall be considered in emission control strategies.
Single-cell evaluation reveals shifts in the tumor-immune niches that shape and maintain aggressive lesions in the breast
Authors: Sinha Vidya C. , Rinkenbaugh Amanda L. , Xu Mingchu , Zhou Xinhui , Zhang Xiaomei , Jeter-Jones Sabrina , Shao Jiansu , Qi Yuan , Zebala John A. , Maeda Dean Y. , McAllister Florencia , Piwnica-Worms Helen 
Published: August 2021

AbstractThere is an unmet clinical need for stratification of breast lesions as indolent or aggressive to tailor treatment. Here, single-cell transcriptomics and multiparametric imaging applied to a mouse model of breast cancer reveals that the aggressive tumor niche is characterized by an expanded basal-like population, specialization of tumor subpopulations, and mixed-lineage tumor cells potentially serving as a transition state between luminal and basal phenotypes. Despite vast tumor cell-intrinsic differences, aggressive and indolent tumor cells are functionally indistinguishable once isolated from their local niche, suggesting a role for non-tumor collaborators in determining aggressiveness. Aggressive lesions harbor fewer total but more suppressed-like T cells, and elevated tumor-promoting neutrophils and IL-17 signaling, disruption of which increase tumor latency and reduce the number of aggressive lesions. Our study provides insight into tumor-immune features distinguishing indolent from aggressive lesions, identifies heterogeneous populations comprising these lesions, and supports a role for IL-17 signaling in aggressive progression.
DL4-μbeads induce T cell lineage differentiation from stem cells in a stromal cell-free system
Authors: Trotman-Grant Ashton C. , Mohtashami Mahmood , De Sousa Casal Joshua , Martinez Elisa C. , Lee Dylan , Teichman Sintia , Brauer Patrick M. , Han Jianxun , Anderson Michele K. , Zúñiga-Pflücker Juan Carlos 
Published: August 2021

AbstractT cells are pivotal effectors of the immune system and can be harnessed as therapeutics for regenerative medicine and cancer immunotherapy. An unmet challenge in the field is the development of a clinically relevant system that is readily scalable to generate large numbers of T-lineage cells from hematopoietic stem/progenitor cells (HSPCs). Here, we report a stromal cell-free, microbead-based approach that supports the efficient in vitro development of both human progenitor T (proT) cells and T-lineage cells from CD34+cells sourced from cord blood, GCSF-mobilized peripheral blood, and pluripotent stem cells (PSCs). DL4-μbeads, along with lymphopoietic cytokines, induce an ordered sequence of differentiation from CD34+cells to CD34+CD7+CD5+proT cells to CD3+αβ T cells. Single-cell RNA sequencing of human PSC-derived proT cells reveals a transcriptional profile similar to the earliest thymocytes found in the embryonic and fetal thymus. Furthermore, the adoptive transfer of CD34+CD7+proT cells into immunodeficient mice demonstrates efficient thymic engraftment and functional maturation of peripheral T cells. DL4-μbeads provide a simple and robust platform to both study human T cell development and facilitate the development of engineered T cell therapies from renewable sources.
Ionitronic manipulation of current-induced domain wall motion in synthetic antiferromagnets
Authors: Guan Yicheng , Zhou Xilin , Li Fan , Ma Tianping , Yang See-Hun , Parkin Stuart S. P. 
Published: August 2021

AbstractThe current induced motion of domain walls forms the basis of several advanced spintronic technologies. The most efficient domain wall motion is found in synthetic antiferromagnetic (SAF) structures that are composed of an upper and a lower ferromagnetic layer coupled antiferromagnetically via a thin ruthenium layer. The antiferromagnetic coupling gives rise to a giant exchange torque with which current moves domain walls at maximum velocities when the magnetic moments of the two layers are matched. Here we show that the velocity of domain walls in SAF nanowires can be reversibly tuned by several hundred m/s in a non-volatile manner by ionic liquid gating. Ionic liquid gating results in reversible changes in oxidation of the upper magnetic layer in the SAF over a wide gate-voltage window. This changes the delicate balance in the magnetic properties of the SAF and, thereby, results in large changes in the exchange coupling torque and the current-induced domain wall velocity. Furthermore, we demonstrate an example of an ionitronic-based spintronic switch as a component of a potential logic technology towards energy-efficient, all electrical, memory-in-logic.
Superior photo-carrier diffusion dynamics in organic-inorganic hybrid perovskites revealed by spatiotemporal conductivity imaging
Authors: Ma Xuejian , Zhang Fei , Chu Zhaodong , Hao Ji , Chen Xihan , Quan Jiamin , Huang Zhiyuan , Wang Xiaoming , Li Xiaoqin , Yan Yanfa , Zhu Kai , Lai Keji 
Published: August 2021

AbstractThe outstanding performance of organic-inorganic metal trihalide solar cells benefits from the exceptional photo-physical properties of both electrons and holes in the material. Here, we directly probe the free-carrier dynamics in Cs-doped FAPbI3 thin films by spatiotemporal photoconductivity imaging. Using charge transport layers to selectively quench one type of carriers, we show that the two relaxation times on the order of 1 μs and 10 μs correspond to the lifetimes of electrons and holes in FACsPbI3, respectively. Strikingly, the diffusion mapping indicates that the difference in electron/hole lifetimes is largely compensated by their disparate mobility. Consequently, the long diffusion lengths (3~5 μm) of both carriers are comparable to each other, a feature closely related to the unique charge trapping and de-trapping processes in hybrid trihalide perovskites. Our results unveil the origin of superior diffusion dynamics in this material, crucially important for solar-cell applications.
Improving fragment-based ab initio protein structure assembly using low-accuracy contact-map predictions
Authors: Mortuza S. M. , Zheng Wei , Zhang Chengxin , Li Yang , Pearce Robin , Zhang Yang 
Published: August 2021

AbstractSequence-based contact prediction has shown considerable promise in assisting non-homologous structure modeling, but it often requires many homologous sequences and a sufficient number of correct contacts to achieve correct folds. Here, we developed a method, C-QUARK, that integrates multiple deep-learning and coevolution-based contact-maps to guide the replica-exchange Monte Carlo fragment assembly simulations. The method was tested on 247 non-redundant proteins, where C-QUARK could fold 75% of the cases with TM-scores (template-modeling scores) ≥0.5, which was 2.6 times more than that achieved by QUARK. For the 59 cases that had either low contact accuracy or few homologous sequences, C-QUARK correctly folded 6 times more proteins than other contact-based folding methods. C-QUARK was also tested on 64 free-modeling targets from the 13th CASP (critical assessment of protein structure prediction) experiment and had an average GDT_TS (global distance test) score that was 5% higher than the best CASP predictors. These data demonstrate, in a robust manner, the progress in modeling non-homologous protein structures using low-accuracy and sparse contact-map predictions.
α-Synuclein-induced dysregulation of neuronal activity contributes to murine dopamine neuron vulnerability
Authors: Dagra Abeer , Miller Douglas R. , Lin Min , Gopinath Adithya , Shaerzadeh Fatemeh , Harris Sharonda , Sorrentino Zachary A. , Støier Jonatan Fullerton , Velasco Sophia , Azar Janelle , Alonge Adetola R. , Lebowitz Joseph J. , Ulm Brittany , Bu Mengfei , Hansen Carissa A. , Urs Nikhil , Giasson Benoit I. , Khoshbouei Habibeh 
Published: August 2021

AbstractPathophysiological damages and loss of function of dopamine neurons precede their demise and contribute to the early phases of Parkinson’s disease. The presence of aberrant intracellular pathological inclusions of the protein α-synuclein within ventral midbrain dopaminergic neurons is one of the cardinal features of Parkinson’s disease. We employed molecular biology, electrophysiology, and live-cell imaging to investigate how excessive α-synuclein expression alters multiple characteristics of dopaminergic neuronal dynamics and dopamine transmission in cultured dopamine neurons conditionally expressing GCaMP6f. We found that overexpression of α-synuclein in mouse (male and female) dopaminergic neurons altered neuronal firing properties, calcium dynamics, dopamine release, protein expression, and morphology. Moreover, prolonged exposure to the D2 receptor agonist, quinpirole, rescues many of the alterations induced by α-synuclein overexpression. These studies demonstrate that α-synuclein dysregulation of neuronal activity contributes to the vulnerability of dopaminergic neurons and that modulation of D2 receptor activity can ameliorate the pathophysiology. These findings provide mechanistic insights into the insidious changes in dopaminergic neuronal activity and neuronal loss that characterize Parkinson’s disease progression with significant therapeutic implications.
Robots facilitate human language production
Authors: Wudarczyk Olga A. , Kirtay Murat , Pischedda Doris , Hafner Verena V. , Haynes John-Dylan , Kuhlen Anna K. , Abdel Rahman Rasha 
Published: August 2021

AbstractDespite recent developments in integrating autonomous and human-like robots into many aspects of everyday life, social interactions with robots are still a challenge. Here, we focus on a central tool for social interaction: verbal communication. We assess the extent to which humans co-represent (simulate and predict) a robot’s verbal actions. During a joint picture naming task, participants took turns in naming objects together with a social robot (Pepper, Softbank Robotics). Previous findings using this task with human partners revealed internal simulations on behalf of the partner down to the level of selecting words from the mental lexicon, reflected in partner-elicited inhibitory effects on subsequent naming. Here, with the robot, the partner-elicited inhibitory effects were not observed. Instead, naming was facilitated, as revealed by faster naming of word categories co-named with the robot. This facilitation suggests that robots, unlike humans, are not simulated down to the level of lexical selection. Instead, a robot’s speaking appears to be simulated at the initial level of language production where the meaning of the verbal message is generated, resulting in facilitated language production due to conceptual priming. We conclude that robots facilitate core conceptualization processes when humans transform thoughts to language during speaking.
Evidence of new intragenic HBB haplotypes model for the prediction of beta-thalassemia in the Malaysian population
Authors: Aziz Nur-Aisyah , Taib Wan-Rohani Wan , Kharolazaman Nur-Khairunnisa , Ismail Imilia , Al-Jamal Hamid Ali Nagi , Jamil Nadiah Wan-Arfah Wan Abdul , Esa Ezalia , Ibrahim Hishamshah 
Published: August 2021

AbstractThis study sought to determine the potential role of HBB haplotypes to predict beta-thalassemia in the Malaysian population. A total of 543 archived samples were selected for this study. Five tagging SNPs in the beta-globin gene (HBB; NG_000007.3) were analyzed for SNP-based and haplotype association using SHEsis online software. Single-SNP-based association analysis showed three SNPs have a statistically significant association with beta-thalassemia. When Bonferroni correction was applied, four SNPs were found statistically significant with beta-thalassemia; IVS2-74T>G (padj = 0.047), IVS2-16G>C (padj = 0.017), IVS2-666C>T (padj = 0.017) and 3’UTR + 314G>A (padj = 0.002). However, 3'UTR + 233G>C did not yield a significant association with padj value = 0.076. Further investigation using combined five SNPs for haplotype association analysis revealed three susceptible haplotypes with significant p values of which, haplotypes 1-2-2-1-1 (p = 6.49 × 10−7, OR = 10.371 [3.345–32.148]), 1-2-1-1-1 (p = 0.009, OR = 1.423 [1.095–1.850] and 1-1-1-1-1 (p = 1.39 × 10−4, OR = 10.221 [2.345–44.555]). Three haplotypes showed protective effect with significant p value of which, 2-2-1-1-1 (p = 0.006, OR = 0.668 [0.500–0.893]), 1-1-2-2-1 (p = 0.013, OR = 0.357 [0.153–0.830]) and 1-1-2-1-1 (p = 0.033, OR = 0.745 [0.567–0.977]). This study has identified the potential use of intragenic polymorphic markers in the HBB gene, which were significantly associated with beta-thalassemia. Combining these five SNPs defined a new haplotype model for beta-thalassemia and further evaluation for predicting severity in beta-thalassemia.
Highly restricted dispersal in habitat-forming seaweed may impede natural recovery of disturbed populations
Authors: Riquet Florentine , De Kuyper Christiane-Arnilda , Fauvelot Cécile , Airoldi Laura , Planes Serge , Fraschetti Simonetta , Mačić Vesna , Milchakova Nataliya , Mangialajo Luisa , Bottin Lorraine 
Published: August 2021

AbstractCystoseirasensu lato (Class Phaeophyceae, Order Fucales, Family Sargassaceae) forests play a central role in marine Mediterranean ecosystems. Over the last decades,Cystoseiras.l. suffered from a severe loss as a result of multiple anthropogenic stressors. In particular,Gongolaria barbatahas faced multiple human-induced threats, and, despite its ecological importance in structuring rocky communities and hosting a large number of species, the natural recovery ofG. barbatadepleted populations is uncertain. Here, we used nine microsatellite loci specifically developed forG. barbatato assess the genetic diversity of this species and its genetic connectivity among fifteen sites located in the Ionian, the Adriatic and the Black Seas. In line with strong and significant heterozygosity deficiencies across loci, likely explained by Wahlund effect, high genetic structure was observed among the three seas (ENA corrected FST = 0.355, IC = [0.283, 0.440]), with an estimated dispersal distance per generation smaller than 600 m, both in the Adriatic and Black Sea. This strong genetic structure likely results from restricted gene flow driven by geographic distances and limited dispersal abilities, along with genetic drift within isolated populations. The presence of genetically disconnected populations at small spatial scales (< 10 km) has important implications for the identification of relevant conservation and management measures forG. barbata: each population should be considered as separated evolutionary units with dedicated conservation efforts.
The effect of norepinephrine on common carotid artery blood flow in septic shock patients
Authors: Kim Seok Goo , Jo Ik Joon , Kang Soo Yeon , Yoo Jonghoon , Lee Guntak , Park Jong Eun , Kim Taerim , Hwang Sung Yeon , Cha Won Chul , Shin Tae Gun , Han Heewon , Yoon Hee 
Published: August 2021

AbstractThis study was designed to evaluate the hemodynamic effect of norepinephrine (NE) on the peak systolic velocity (PSV), diameter, and blood flow of the common carotid artery (CCA) using the point-of-care ultrasound (POCUS) in patients with septic shock. The study involved patients above 18 years old with septic shock. Arterial monitoring, carotid ultrasonography, and transthoracic echocardiography were performed before NE administration (T0). When the mean arterial pressure exceeded 65 mmHg after NE administration (T1), the measurement was repeated. Twenty-four patients (median age 67 [interquartile range: 54–77] years; 42% female) with septic shock were examined in this study. Before (T0) and after (T1) NE administration, the PSV (mean, standard deviation [SD]) changed from 85.3 (21.1) cm/s to 83.5 (23.5) cm/s (p = 0.417); this change was not significant. However, the diameter and blood flow of the CCA increased significantly from 0.6 (0.09) cm and 0.75 (0.27) L/min to 0.66 (0.09) cm and 0.85 (0.27) L/min, respectively (p < 0.001). The diameter of the left ventricular outflow tract (LVOT) remained unchanged, but the velocity time integral of the LVOT increased significantly from 21.7 (4.39) cm to 23.6 (5.14) cm. There was no significant correlation between changes in blood flow of the CCA and changes in cardiac output (coefficient −0.365, p = 0.079). In conclusion, NE increased the diameter and blood flow of the CCA significantly, without changing the PSV in patients with septic shock.
Higher VO2max is associated with thicker cortex and lower grey matter blood flow in older adults
Authors: Olivo Gaia , Nilsson Jonna , Garzón Benjamín , Lebedev Alexander , Wåhlin Anders , Tarassova Olga , Ekblom Maria M. , Lövdén Martin 
Published: August 2021

AbstractVO2max (maximal oxygen consumption), a validated measure of aerobic fitness, has been associated with better cerebral artery compliance and measures of brain morphology, such as higher cortical thickness (CT) in frontal, temporal and cingular cortices, and larger grey matter volume (GMV) of the middle temporal gyrus, hippocampus, orbitofrontal cortex and cingulate cortex. Single sessions of physical exercise can promptly enhance cognitive performance and brain activity during executive tasks. However, the immediate effects of exercise on macro-scale properties of the brain’s grey matter remain unclear. We investigated the impact of one session of moderate-intensity physical exercise, compared with rest, on grey matter volume, cortical thickness, working memory performance, and task-related brain activity in older adults. Cross-sectional associations between brain measures and VO2max were also tested. Exercise did not induce statistically significant changes in brain activity, grey matter volume, or cortical thickness. Cardiovascular fitness, measured by VO2max, was associated with lower grey matter blood flow in the left hippocampus and thicker cortex in the left superior temporal gyrus. Cortical thickness was reduced at post-test independent of exercise/rest. Our findings support that (1) fitter individuals may need lower grey matter blood flow to meet metabolic oxygen demand, and (2) have thicker cortex.
Green nanotechnology of MGF-AuNPs for immunomodulatory intervention in prostate cancer therapy
Authors: Khoobchandani Menka , Khan Aslam , Katti Kavita K. , Thipe Velaphi C. , Al-Yasiri Amal Y. , MohanDoss Darsha K. D. , Nicholl Michael B. , Lugão Ademar B. , Hans Chetan P. , Katti Kattesh V. 
Published: August 2021

AbstractMen with castration-resistant prostate cancer (CRPC) face poor prognosis and increased risk of treatment-incurred adverse effects resulting in one of the highest mortalities among patient population globally. Immune cells act as double-edged sword depending on the tumor microenvironment, which leads to increased infiltration of pro-tumor (M2) macrophages. Development of new immunomodulatory therapeutic agents capable of targeting the tumor microenvironment, and hence orchestrating the transformation of pro-tumor M2 macrophages to anti-tumor M1, would substantially improve treatment outcomes of CRPC patients. We report, herein, Mangiferin functionalized gold nanoparticulate agent (MGF-AuNPs) and its immunomodulatory characteristics in treating prostate cancer. We provide evidence of immunomodulatory intervention of MGF-AuNPs in prostate cancers through observations of enhanced levels of anti-tumor cytokines (IL-12 and TNF-α) with concomitant reductions in the levels of pro-tumor cytokines (IL-10 and IL-6). In the MGF-AuNPs treated groups, IL-12 was elevated to ten-fold while TNF-α was elevated to about 50-fold, while IL-10 and IL-6 were reduced by two-fold. Ability of MGF-AuNPs to target splenic macrophages is invoked via targeting of NF-kB signaling pathway. Finally, therapeutic efficacy of MGF-AuNPs, in treating prostate cancer in vivo in tumor bearing mice, is described taking into consideration various immunomodulatory interventions triggered by this green nanotechnology-based nanomedicine agent.