bluuebunny/crossref_metadata_2025_split huggingface dataset:
Mangroves are an overlooked hotspot of insect diversity despite low plant diversity
Authors: Yeo Darren , Srivathsan Amrita , Puniamoorthy Jayanthi , Maosheng Foo , Grootaert Patrick , Chan Lena , Guénard Benoit , Damken Claas , Wahab Rodzay A. , Yuchen Ang , Meier Rudolf 
Published: December 2020

AbstractWe here compare the tropical arthropod fauna across a freshwater swamp and six different forest types (rain-, swamp, dry-coastal, urban, freshwater swamp, mangroves) based on 140,000 barcoded specimens belonging toca. 8,500 species. Surprisingly, we find that mangroves, a globally imperiled habitat that had been expected to be species-poor for insects, are an overlooked hotspot for insect diversity despite having low plant diversity. Our study reveals a species-rich mangrove insect fauna (>3,000 species) that is distinct (>50% of species are mangrove-specific), and has high species turnover across Southeast and East Asia. For most habitats, plant diversity is a good predictor for insect diversity, but mangroves are an exception and compensate for a comparatively low number of phytophagous and fungivorous insect species by supporting an unusually rich community of predators whose larvae feed in the productive mudflats. For the remaining tropical habitats, the insect communities have diversity patterns that are largely congruent across guilds. The discovery of such a sizeable and distinct insect fauna in a globally threatened habitat underlines how little is known about global insect biodiversity.
Absence of electroencephalographic evidence of implicit action-effect intentional binding with varying effect probability
Authors: Seignette Max , Christensen Mark Schram 
Published: December 2020

AbstractThe subjective experience of an attraction in time of an action, and the event caused by the action, is known as the intentional binding phenomenon. Intentional binding is a robust phenomenon and has previously been associated with subjective sense of agency, but recent studies have shown that binding can take place in the absence of action intentions. In this study, we tested possible electrophysiological equivalents to the intentional binding phenomenon under a simple action-effect task, where pressing of a button caused tones to occur at different pitches or delays with different probabilities. Changing the probabilities of the effect of an action has in some previous studies shown to influence the intentional binding phenomenon. We tested whether changes in action-effect probability gave rise to differences in movement related cortical potentials (MRCP) slopes, peak latency and auditory event related potential (aERP) changes of amplitude or latency of the N1, P2, P3 and N4 components of the central aERP, of which some has been related to sense of agency or intentional binding. We also tested differences in MRCP across the whole scalp prior to movements, and to differences in aERP across the whole scalp after the tone is played. We found no electrophysiological indications of intentional binding when action-effect contingencies were changed in accordance with conditions that have given rise to intentional binding in previous experiments. Our results are in line with several recent studies that have questioned whether intentional binding follows all voluntary actions and can be related to sense of agency at all.
The effect of perturbation magnitude on lower limb muscle activity during reactive stepping using functional data analysis
Authors: Saumur Tyler M. , Nestico Jacqueline , Mochizuki George , Perry Stephen D. , Mansfield Avril , Mathur Sunita 
Published: December 2020

AbstractThis study aimed to determine the effect of perturbation magnitude on stance and stepping limb muscle activation during reactive stepping using functional data analysis. Nineteen healthy, young adults responded to 6 small and 6 large perturbations using an anterior lean-and-release system, evoking a single reactive step. Muscle activity from surface electromyography was compared between the two conditions for medial gastrocnemius, biceps femoris, tibialis anterior, and vastus lateralis of the stance and stepping limb using functional data analysis. Stance limb medial gastrocnemius and biceps femoris activation increased in the large compared to small perturbation condition immediately prior to foot-off and at foot contact. In the stepping limb, significant increases in medial gastrocnemius, biceps femoris, and tibialis anterior activity occurred immediately prior to foot-off during the large perturbations. Similar to the stance limb, medial gastrocnemius and biceps femoris activity significantly increased during and following foot contact in the large, compared to small, perturbation condition. Lastly, vastus lateralis activity significantly increased for large, compared to small, perturbations during foot-off and immediately following foot contact. These findings highlight lower limb muscle activity modulation associated with perturbation magnitude throughout reactive stepping and the additional benefit of implementing functional data analysis to study reactive balance control.
Maternal vitamin D deficiency impairs heart formation in mouse offspring through a change in 3D-chromatin structure
Authors: Seipelt Eva M. , Bensadoun Paul , Sati Satish , Couturier Charlène , Astier Julien , Mounien Lourdes , Landrier Jean-François , Pucéat Michel 
Published: December 2020

AbstractThe origins of congenital heart diseases, the most common congenital diseases are still largely unknown. Environmental factors are now emerging as major causes of these diseases. Vitamin D deficiency has become a public health burden, notably for childbearing age, pregnant and breastfeeding women. Since maternal 25-hydroxyvitamin D (25(OH)D) determined fetal and neonatal 25(OH)D status, foetuses exposed to insufficient levels of vitamin D, may feature developmental defects.Herein, we investigated the effects of maternal vitamin D deficiency on cardiovascular defects in early and later life of offsprings in two generations as well as the molecular mechanisms underlying vitamin D effect.Eight weeks before and during pregnancy, C57BL/6JRj female mice received a sufficient or vitamin D deficient diet ((1.0 IU/g in control vs 0.0 IU/g in Vitamin D Deficient (VDD) group). E16.5 Embryos of maternal VDD diet featured hypertrophic heart revealed by a thicker left ventricular (LV) wall and septum. RNAseq analysis of LV revealed 1555 transcripts differentially expressed in the VDD group and among them cardiac transcription factors and constitutive cardiac genes (tbx5, gata4, myl2). Anti-Vitamin D receptor (VDR) Chip-seq from chromatin of E16.5 LV uncovered different targeting oftbx5andtbx3loci by VDR in the VDD vs control embryos. Anti-CTCF ChIP-loop experiments focusing on theTbx3andTbx5loci uncovered a change in the Topology Associated Domains associated with these loci.Echocardiography of 2-months-old VDD offspring revealed a significantly thicker left ventricle and increased fractional shortening while 6-months-old mice featured cardiac decompensation and in turn failing LV.Maternal vitamin D deficiency severely affects heart formation following a change in chromatin conformation on cardiac gene loci and impacts function of adult hearts in two generations. These defects are likely to be at the origin of cardiovascular diseases in the adulthood.
Analysis of Genetically Determined Gene Expression Suggests Role of Inflammatory Processes in Exfoliation Syndrome
Authors: Hirbo Jibril B. , Pasutto Francesca , Gamazon Eric R. , Evans Patrick , Pawar Priyanka , Berner Daniel , Sealock Julia , Tao Ran , Straub Peter S. , Konkashbaev Anuar I. , Breyer Max , Schlötzer-Schrehardt Ursula , Reis André , Brantley Milam A. , Khor Chiea C. , Joos Karen M. , Cox Nancy J. 
Published: December 2020

AbstractExfoliation syndrome (XFS) is an age-related systemic disorder characterized by excessive production and progressive accumulation of abnormal extracellular material, with pathognomonic ocular manifestations. It is the most common cause of secondary glaucoma, resulting in widespread global blindness. We performed Transcriptomic Wide Association Studies (TWAS) using PrediXcan models trained in 48 GTEx tissues to identify genetically- determined gene expression changes associated with XFS risk, leveraging on results from a global GWAS that included 123,457 individuals from 24 countries. We observed twenty-eight genes in a three-Megabase chr15q22-25 region that showed statistically significant associations, which were further whittled down to ten genes after additional statistical validations. In experimental analysist of these ten genes, mRNA transcript levels forARID3B, CD276, LOXL1, NEO1, SCAMP2,andUBL7were significantly decreased in iris tissues from XFS patients compared to control samples. Genes with genetically determined expression changes in XFS were significantly enriched for genes associated with inflammatory conditions. We further explored the health consequences of high susceptibility to XFS using a large electronic health record and observed a higher incidence of XFS comorbidity with inflammatory and connective tissue diseases. Our results implicate a role for connective tissues and inflammation in the etiology of XFS. Targeting the inflammatory pathway may be a potential therapeutic option to reduce progression in XFS.
Structural properties and peptide ligand binding of the capsid homology domains of human Arc
Authors: Hallin Erik I. , Bramham Clive R. , Kursula Petri 
Published: December 2020

AbstractThe activity-regulated cytoskeleton-associated protein (Arc) is important for synaptic scaling and the normal function of the brain. Arc interacts with many neuronal postsynaptic proteins, but the mechanistic details of its function have not been fully established. The C-terminal domain of Arc consists of tandem domains, termed the N- and C-lobe. The N-lobe harbours a peptide binding site, able to bind to multiple targets. By measuring the affinity of various peptides towards human Arc, we have refined the specificity determinants of this site. We found two sites in the GKAP repeat region that may bind to Arc and confirmed these interactions by X-ray crystallography. Comparison of the crystal structures of three human Arc-peptide complexes identifies 3 conserved C-H...πinteractions at the binding cavity, which explain the sequence specificity of short linear motif binding by Arc. By analysing the structures, we further characterise central residues of the Arc lobe fold, show the effects of peptide binding on protein dynamics, and identify acyl carrier proteins as structures similar to the Arc lobes. We hypothesise that Arc may affect protein-protein interactions and phase separation at the postsynaptic density, affecting protein turnover and re-modelling of the synapse.
Substrate-engaged type III secretion system structures reveal gating mechanism for unfolded protein translocation
Authors: Miletic Sean , Fahrenkamp Dirk , Goessweiner-Mohr Nikolaus , Wald Jiri , Pantel Maurice , Vesper Oliver , Kotov Vadim , Marlovits Thomas C. 
Published: December 2020

AbstractMany bacterial pathogens strictly rely on the activity of type III secretion systems (T3SSs) to secrete and translocate effector proteins in order to establish infection. The central component of T3SSs is the needle complex, a supramolecular machine which assembles a continuous conduit crossing the bacterial envelope and the host cell membrane to allow bacterial effectors to gain entry into the host cell cytoplasm to modulate signal transduction processes. Disruption of this process impairs pathogenicity, providing an avenue for antimicrobial design. However, the molecular principles underlying T3 secretion remain elusive. Here, we report the first structure of an activeSalmonella entericasv. Typhimurium needle complex engaged with the late effector protein SptP in two functional states, revealing the complete 800Å-long secretion conduit and unravelling the critical role of the export apparatus (EA) subcomplex in T3 secretion. Unfolded substrates enter the EA through a hydrophilic constriction formed by SpaQ proteins, which enables side chain-independent transport, explaining heterogeneity and structural disorder of signal sequences in T3SS effector proteins. Above, a methionine gasket formed by SpaP proteins functions as a gate that dilates to accommodate substrates but prevents leaky pore formation to maintain the physical boundaries of compartments separated by a biological membrane. Following gate penetration, a moveable SpaR loop first folds up to then act akin to a linear ratchet to steer substrates through the needle complex. Together, these findings establish the molecular basis for substrate translocation through T3SSs, improving our understanding of bacterial pathogenicity and motility of flagellated bacteria, and paves the way for the development of novel concepts combating bacterial infections.
AI4AMP: Sequence-based antimicrobial peptides predictor using physicochemical properties-based encoding method and deep learning
Authors: Lin Tzu-Tang , Yang Li-Yen , Lu I-Hsuan , Cheng Wen-Chih , Hsu Zhe-Ren , Chen Shu-Hwa , Lin Chung-Yen 
Published: December 2020

AbstractMotivationAntimicrobial peptides (AMPs) are innate immune components that have aroused a great deal of interest among drug developers recently, as they may become a substitution for antibiotics. However, AMPs discovery through traditional wet-lab research is expensive and inefficient. Thus, we developed AI4AMP, a user-friendly web-server that provides an accurate prediction of the antimicrobial activity of a given protein sequence, to accelerate the process of AMP discovery.ResultsOur results show that our prediction model is superior to the existing AMP predictors.AvailabilityAI4AMP is freely accessible athttp://symbiosis.iis.sinica.edu.tw/PC_6/Contactcylin@iis.sinica.edu.tw
Coordinated regulation of ribosomes and proteasomes by PRMT1 in the maintenance of neural stemness of cancer cells and neural stem cells
Authors: Chen Lu , Zhang Min , Fang Lei , Yang Xiaoli , Xu Liyang , Shi Lihua , Cao Ning , Cao Ying 
Published: December 2020

SummaryOur studies suggest that neural stemness contributes to cell tumorigenicity. The basic cell physiological machineries and developmental programs, such as cell cycle, ribosomes, proteasomes, epigenetic factors, etc., which are upregulated in and promote cancers, are enriched in embryonic neural cells. How these machineries are coordinated is unknown. Here, we show that loss of neural stemness in cancer cells or neural stem cells leads to simultaneous downregulation of components of ribosomes and proteasomes, which are responsible for protein synthesis and degradation, respectively, and downregulation of major epigenetic factors. Inhibition of PRMT1 causes neuron-like differentiation, downregulation of a similar set of proteins, and alteration of subcellular localization of ribosome and proteasome components. PRMT1 interacts with these components, catalyzes arginine methylation of them and protects them from degradation, thereby maintaining a high level of expression of epigenetic factors that maintain neural stemness. PRMT1 inhibition results in repression of cell tumorigenicity. Therefore, PRMT1 coordinates ribosomes and proteasomes to match the needs for high protein production and protein homeostasis in cells with fast cell cycle and proliferation.
On the timing of interventions to preserve hospital capacity: lessons to be learned from the Belgian SARS-CoV-2 pandemic
Authors: Hens Niel , Faes Christel , Gilbert Marius 
Published: December 2020

AbstractUsing publicly available data on the number of new hospitalisations we use a newly developed phase portrait to monitor the epidemic allowing for assessing whether or not intervention measures are needed to keep hospital capacity under control. Using this phase portrait, we show that intervention measures were effective in mitigating a Summer resurgence but that too little too late was done to prevent a large autumn wave in Belgium.
Perceptions and Practices of Key Worker Stakeholder Groups in Hospital Animal-Assisted Intervention Programs on Occupational Benefits and Perceived Risks
Authors: Dalton Kathryn R. , Altekruse William , Campbell Peter , Ruble Kathy , Carroll Karen C. , Thorpe Roland J. , Agnew Jacqueline , Davis Meghan F. 
Published: December 2020

AbstractBackgroundAnimal-assisted intervention (AAI) programs, used widely for patient benefit, have increasingly been used for healthcare workers (HCW) to reduce occupational stress. However, there are barriers to these programs which limit their utilization, for both patients and HCW, specifically infectious disease concerns. The aim of the research project is to identify barriers and facilitators to AAI program use for healthcare worker benefit, and determine knowledge, beliefs, and practices regarding infectious disease risk and control policies, in order to understand the contextual parameters of program implementation.MethodsWe collected perceptions of key stakeholders involved with hospital AAI programs (HCW and AAI workers) through semi-structured in-depth interviews. We used framework analysis to guide thematic coding, completed independently by three researchers.ResultsWe interviewed 37 participants. We divided our themes into two topic areas: program use for HCW and perceived infectious disease risk. Use for healthcare workers included perspectives on the benefits for HCW and program barriers and facilitators (specifically collaboration and leadership). Perceived risk included opinions on infection concerns with AAI, thoughts on control measures to reduce this risk, and responsibility for safety during these programs.ConclusionsWhile significant benefits were reported for HCW, they were limited by administrative barriers and hazard concerns. Facilitators to surmount these barriers are best implemented with collaboration across the hospital and appropriate leadership roles to direct safe program implementation. By addressing these barriers through targeted facilitators in the form of evidence-backed guidelines, AAI programs can be used to benefit both patients and HCW.
Impact of the COVID-19 Pandemic and Vaccine Hesitancy among Farmworkers from Monterey County, California
Authors: Mora Ana M. , Lewnard Joseph A. , Kogut Katherine , Rauch Stephen , Morga Norma , Jewell Nicholas , Cuevas Maximiliano , Eskenazi Brenda 
Published: December 2020

ABSTRACTObjectivesTo examine the impact of the COVID-19 pandemic on farmworkers from Monterey County, California.MethodsWe recruited adult farmworkers (n=1115) between July 16, 2020 and November 30, 2020. We collected information on sociodemographic characteristics, health behaviors, economic and social stressors experienced during COVID-19, and willingness to be vaccinated via interviews by phone.ResultsStudy participants, particularly female farmworkers, reported adverse effects of the pandemic on their mental health and home environment (e.g., 24% overall reported depression and/or anxiety symptoms). The pandemic also resulted in greater financial burden for many farmworkers, with 37% food insecure and 51% unable to pay bills. Half of respondents reported that they were extremely likely to be vaccinated. Vaccine hesitancy was most common in participants who were women, younger, born in the United States, and living in more rural areas.ConclusionsWe found that the pandemic has substantially impacted the mental and physical health and economic and food security of farmworkers.Public Health ImplicationsThis study highlights the need to provide farmworkers with supplemental income, and increased mental and family health, and food support services.
Progressing adaptation of SARS-CoV-2 to humans
Authors: Konishi Tomokazu 
Published: December 2020

AbstractThe second and subsequent waves of coronavirus disease 2019 (COVID-19) have caused problems worldwide1. Here, using an objective analytical method2, we present the changes that occurred in the severe acute respiratory syndrome coronavirus 2 (SARS-CoV-2), the causative virus of COVID-19, over time. The virus has mutated in three major directions, resulting in three groups to date. Analysis of the basic structure of the group of viruses was completed by April and shared across all continents. However, the virus continued to mutate independently in each country after the borders were closed. In particular, the virus mutated before the occurrence of the second and subsequent peaks. It seems that the mutations conferred higher infectivity to the virus, because of which the virus overcame previously effective protection and caused second waves of the disease. Currently, each country may possess such a unique, stronger variant. Some of them slowly entered other countries and caused epidemics. These viruses could also serve as sources of further mutations by exchanging parts of the genome, which could create variants with superior infectivity.
Genetic polymorphism of CYP2C19 and subcortical variability in the human adult brain
Authors: Stingl Julia C. , Scholl Catharina , Bosch Julia E. , Viviani Roberto 
Published: December 2020

AbstractPharmacogenetic studies have shown involvement of cytochrome P450 enzymes in the metabolism of psychotropic drugs. However, expression and activity on endogenous substrates in the brain may underlie a constitutive role of these enzymes beyond drug metabolism. CYP2C19, which is expressed in the human fetal brain during neurodevelopment, shows affinity for endogenous compounds including monoaminergic neurotransmitters, steroid hormones, and endocannabinoids. In this study (N=608), we looked at the genetic polymorphism of CYP2C19 and its potential associations with structural phenotypes of subcortical brain volume with structural imaging. Using two independent volume estimation techniques, we found converging evidence for a positive association betweenCYP2C19activity scores, as inferred from the genotype, and basal ganglia and hippocampal volume. This association was present only in female individuals, raising the possibility that effects on brain morphology may arise through a mechanism involving the metabolism of estrogen steroids.
Conditioned fear reactions are associated with gray matter density but not cortical microstructure
Authors: Fraenz Christoph , Metzen Dorothea , Merz Christian J. , Selpien Helene , Axmacher Nikolai , Genç Erhan 
Published: December 2020

AbstractResearch has shown that fear acquisition, in reaction to potentially harmful stimuli or situations, is characterized by pronounced interindividual differences. It is likely that such differences are evoked by variability in the macro- and microstructural properties of brain regions involved in the processing of threat or safety signals from the environment. Indeed, previous studies have shown that the strength of conditioned fear reactions is associated with the cortical thickness or volume of various brain regions. However, respective studies were exclusively targeted at single brain regions instead of whole brain networks. Here, we tested 60 young and healthy individuals in a differential fear conditioning paradigm while they underwent fMRI scanning. In addition, we acquired T1-weighted and multi-shell diffusion-weighted images prior to testing. We used task-based fMRI data to define global brain networks which exhibited increased BOLD responses towards CS+ or CS- presentations, respectively. From these networks, we obtained mean values of gray matter density, neurite density, and neurite orientation dispersion. We found that mean gray matter density averaged across the CS+ network was significantly correlated with the strength of conditioned fear reactions quantified via skin conductance response. Measures of neurite architecture were not associated with conditioned fear reaction in any of the two networks. Our results extend previous findings on the relationship between brain morphometry and fear learning. Most importantly, our study is the first to introduce neurite imaging to fear learning research and discusses how its implementation can be improved in future research.