bluuebunny/crossref_metadata_2025_split huggingface dataset:
Preservation of KCC2 expression in axotomized abducens motoneurons and its enhancement by VEGF
Authors: Calvo Paula M. , Cruz Rosa R. de la , Pastor Angel M. , Alvarez Francisco J. 
Published: November 2022

Abstract
The potassium chloride cotransporter 2 (KCC2) is the main Cl− extruder in neurons. Any alteration in KCC2 levels leads to changes in Cl− homeostasis and, consequently, in the sign and amplitude of inhibitory synaptic potentials mediated by GABA or glycine. Axotomy downregulates KCC2 in many different motoneurons and it is suspected that interruption of muscle-derived factors maintaining motoneuron KCC2 expression is in part responsible. In here, we demonstrate that KCC2 is expressed in all oculomotor nuclei of cat and rat, but while trochlear and oculomotor motoneurons downregulate KCC2 after axotomy, expression is unaltered in abducens motoneurons. Exogenous application of vascular endothelial growth factor (VEGF), a neurotrophic factor expressed in muscle, upregulated KCC2 in axotomized abducens motoneurons above control levels. In parallel, a physiological study using cats chronically implanted with electrodes for recording abducens motoneurons in awake animals, demonstrated that inhibitory inputs related to off-fixations and off-directed saccades in VEGF-treated axotomized abducens motoneurons were significantly higher than in control, but eye-related excitatory signals in the on direction were unchanged. This is the first report of lack of KCC2 regulation in a motoneuron type after injury, proposing a role for VEGF in KCC2 regulation and demonstrating the link between KCC2 and synaptic inhibition in awake, behaving animals.
Treatment of Embroidery Wastewater Containing Poly (Vinyl Alcohol) by Electrooxidation Process
Authors: Gengec Erhan , Bozbas Seda Karayunlu , Ayhan Hasan Huseyin 
Published: November 2022

Abstract

Due to its high poly(vinyl) alcohol (PVA) concentration, Embroidery industry wastewater is very resistant to biodegradation and classical methods such as coagulation, and adsorption. On the other hand, high chemical consumption is required in chemical oxidation processes. In this study, wastewater containing PVA was treated by an electrooxidation process with Boron Doped Diamond (BDD) electrodes for the first time in literature. The effects of pH (2.0–8.0), temperature (25–45 ̊C), current (3.0–6.0 A), electrolyte concentration (NaCl of 3.0–8.0 g/L), and oxidation time (0-600 min) were determined. The total organic carbon (TOC) concentration in the wastewater was decreased from 6584 mg/L to 159.10 mg/L (97.6%) at pH 5.01, 6.0 A, 3.0 g/L of electrolyte concentration, 25°C, and 10 hours. In addition, the removal mechanism of the process was elucidated by using HPSEC, FT-IR, UV-VIS, and Fluorescence Spectroscopy methods. Characterization studies showed that the high amount of PVA in the embroidery process wastewater is degraded and the halogens have attached to the part of the polymer where the structure has deteriorated through oxidation. Raw wastewater contains a wide range of pollutants (103-1010 Da). The results showed that the EO process is not a pollutant-selective technique in terms of molecular weight and it shows its superiority over other processes.
FGFR2 controls growth, adhesion and migration of nontumorigenic human mammary epithelial cells by regulation of integrin β1 degradation
Authors: Mieczkowski Kamil , Popeda Marta , Lesniak Dagmara , Sadej Rafal , Kitowska Kamila 
Published: November 2022

Abstract
The role of fibroblast growth factor receptor 2 (FGFR2), an important mediator of stromal paracrine and autocrine signals, in mammary gland morphogenesis and breast cancer has been extensively studied over the last years. However, the function of FGFR2 signalling in the initiation of mammary epithelial oncogenic transformation remains elusive. Here, FGFR2-dependent behaviour of nontumorigenic model of mammary epithelial cells was studied. In vitro analyses demonstrated that FGFR2 regulates epithelial cell communication with extracellular matrix (ECM) proteins. Silencing of FGFR2 significantly changed the phenotype of cell colonies in three-dimensional cultures, decreased integrins α2, α5 and β1 protein levels and affected integrin-driven processes, such as cell adhesion and migration. More detailed analysis revealed the FGFR2 knock-down-induced proteasomal degradation of integrin β1. Analysis of RNA-seq databases showed significantly decreased FGFR2 and ITGB1 mRNA levels in breast tumour samples, when compared to non-transformed tissues. Additionally, high risk healthy individuals were found to have disrupted correlation profiles of genes associated with FGFR2 and integrin signalling, cell adhesion/migration and ECM remodelling. Taken together, our results strongly suggest that FGFR2 loss with concomitant integrin β1 degradation is responsible for deregulation of epithelial cell-ECM interactions and this process may play an important role in the initiation of mammary gland epithelial tumorigenesis.
MethMotif.org 2023: The transcription factor binding motifs database that integrates cell-specific functions, co-factors and DNA methylation profiles.
Authors: Dyer Matthew , Lin Quy Xiao Xuan , Shapoval Sofiia , Thieffry Denis , Benoukraf Touati 
Published: November 2022

Abstract
Motivation: Transcription factors binding events depend not only on a specific DNA motif but also on the chromatin context. To further explore this new transcriptional machinery level of complexity, we developed TFregulomeR, a MethMotif API R-library that facilitates batch queries. Our toolbox showed how the functions of TFs depend on cofactors, whose recruitment are also influenced by DNA methylation. This observation led us to release a new version of MethMotif that includes, in addition to more methyl-TF motifs and more organisms (Mus Musculus and Arabidopsis Thaliana), new features to discern context-specific TFs’ motifs associated with context-specific TFs' functions.
Results: Using TFregulomeR, we expanded the range of information available in the new release of MethMotif by segregating TF’s binding motifs in the context of their cofactors and DNA methylation status. This strategy enabled us to build the first TF binding motifs database that incorporates context-specific position weight matrices coupled to epigenetic information and context-specific TFs’ function. Using this repository, we were able to further demonstrate that gene ontology (GO) enriched terms associated with transcription factor target genes may differ notably based on association with alternative cofactors and DNA methylation status.
Conclusions: Overall, this update turns MethMotif into an integrative TF motif database with diverse regulatory element analysis tools accessible to a broad audience. Ultimately, this repository and its companion tools greatly facilitate the analysis of the consequences of epigenetic aberrations seen in diseases such as cancers.
Availability: The MethMotif database is freely available at https://methmotif.org.
Study of heat transfer under the influences ofpressure gradient and thermal non-equilibrium onDarcy-Bénard convection
Authors: N Sakshath T , V Chandan B 
Published: November 2022

Abstract
The study deals with the effect of pressure gradient on the onset of Darcy-Bénard convection of water-copper nanoliquidsaturatedporous layer and on amount of heat transport. The present study assumes thermal non-equilibrium (LTNE) betweensolid and liquid phases. The LTNE assumption results in advanced onset of convection and increase in heat transportwhen compared to that of local thermal equilibrium (LTE) assumption. Free-Free, isothermal boundaries are consideredfor investigation. Critical Rayleigh number and Nusselt number as functions of various parameters are analysed and this isdepicted graphically. The influence of pressure gradient, inter-phase heat transfer coefficient, ratio of thermal conductivities onthe onset of convection as well as on heat transport has been presented graphically and discussed in detail. The effect ofincreasing the value of porosity modified thermal conductivities advances the onset of convection and enhances the amount ofheat transport whereas the remaining parameters have an opposing influence on both onset of convection as well as heattransport. The classical results of LTE case are obtained as a limiting case of LTNE case for small values of H and large valuesof H, γ and γH.
Do trees on agrarian stone walls respond to contemporary climate warming?
Authors: Shetti Rohan , Lehejček Jiří , Zacharová Johana 
Published: November 2022

Abstract
Agrarian stone walls and associated landscapes are present in different parts of Central and Western Europe. Somewhere they are conserved as valuable components of cultural landscapes whereas elsewhere they do not have any formal conservation status. These stone walls and the habitats connected to them host many old trees, which are potential archives of environmental changes. In the available literature there are practically no studies looking at the archival value of trees on agrarian stone walls. In our study we investigated sycamore maples growing on stone walls in the Ore Mts region of Czechia. We focussed on annual wood growth using dendrochronological methods and carried out pointer year analyses to examine environment-growth relationships. Our main findings suggest moderately heterogeneous growth among individuals within sites but that there is a common environmental response apparent in overall site chronologies. We observed low inter-series correlations within sites but only a fair to moderate Gleichläufigkeit and express population signal among ring width series at most of the study sites. Generally, we revealed mostly significant positive correlations with precipitation and negative correlations with increasing temperatures over the last years. From climate correlations analysis and pointer year analysis we could clearly infer that (1) tree growth on agrarian stone walls at three out of four of our sites is significantly impacted by current climate change and that (2) these trees have a good ecological-archival value because they are sensitive to contemporary warming; they should therefore be identified to be given a relevant conservation status and management.
Differential alterations in topology property of resting state networks associated with mental health and childhood trauma
Authors: Wu Yankai , Fu Kailiang , Feng Xuran , Wang Yuzhao , Li Ling , Gao Duo , Geng Zuojun 
Published: November 2022

Abstract
Background
Childhood trauma experiences leads to greater psychopathological vulnerability. We identified potential brain networks that are susceptible to childhood trauma, and to investigate these changes mediate childhood adversity and mental health.
Methods
In total 80 youth aged 18–30 years participants, subjects with and without childhood trauma underwent resting-state functional magnetic resonance imaging scanning. Independent component analysis (ICA) and graph theory based on resting-state functional networks were compared between the two groups. We established a correlation analysis between changes in topological properties and neglect/abuse, and explored the mediating effect on childhood trauma and mental health. In addition, sex as a moderator of relationships between neglect and change in the global efficiency within-network connectivity was confirmed.
Results
Our findings suggest that childhood trauma is associated with altered global efficiency of salience network (SAN) and default mode network (DMN). Compared with male, neglect was more likely to change global efficiency of the SAN in female. There were significant roles of changes in global efficiency of SAN/DMN as mediators between neglect and novelty-seeking of three-dimensional personality (TPQ-NS).
Conclusions
These findings highlight childhood trauma experiences altered resting-state functional networks in healthy youth. Such abnormality of brain circuitry is relevant to DMN and SAN especially.
Will the circle be unbroken? The climate mitigation and sustainable development given by a circular economy of carbon, nitrogen, phosphorus and water
Authors: McKenna Patrick , Banwart Steven , Evans Barbara , Zakaria Fiona , Guest Jeremy 
Published: November 2022

Abstract
Closing the loop in the flow of C, nutrients and water between agriculture, the human diet and sanitation services offers benefits for humanity across multiple platforms of public health, food security and climate mitigation. This study assesses these benefits by describing the hypothetical scenario of a global, ‘fully functional’ circular economy, in which 100% of C, N and P were recovered from human excreta and returned to agricultural soil. Crop nutrient demand is calculated and compared with that which could be recovered, and greenhouse (GHG) emissions from fertilizer production, fertilizer application and sanitation services are presented, as are freshwater availability and crop irrigation requirements. These are considered to analyse the broader effects of this circular economy that is driven by dietary nutrition demand on climate change, the provision of sanitation services and crop irrigation, in 2022 and with projections to 2030 and 2050. We find the capacity of the circular economy to deliver crop nutrients and mitigate GHG emissions varies by region. Some regions benefit from supplementing conventional mineral fertilizers with excreta-derived fertilizers, others from reducing GHG emissions from sanitation services through improved resource recovery rates. A hypothetical, fully functional circular economy that recovers all excreta nutrient C, N and P would reduce global GHG emissions from N and P mineral fertilizer production and application by 140 Tg CO2 equivalents (CO2e) year-1 in 2022 (~12% of total emissions from mineral fertilizer production and application) and provide a maximum of 104 Tg C y-1 for sequestration in global cropland (~12% of estimated annual soil C sequestration potential). A portion of this sequestered C will return to the atmosphere via soil respiration, however, with co-benefits to other soil functions such as crop nutrient fertility. The maximum potential reduction in GHG emissions from sanitation services through these measures would bring reductions of 445 Tg CO2e year-1 in 2022, rising to 562 Tg CO2e in 2050. Our results provide evidence to guide specific regional policy on reducing GHG emissions, offsetting mineral fertilizer use and optimizing municipal water use using the circular economy. Our global results illustrate how the circular economy can make a significant contribution to achieving the Paris Accord both currently and going forward to 2050.
FINCA syndrome beyond pulmonary affection: biallelic NHLRC2 variants in eight families with intellectual disability and epilepsy
Authors: Boschann Felix , Sczakiel Henrike , Zhao Max , Danyel Magdalena , Stoltenburg Corinna , Damseh Nadirah , Ashhab Motee , Balci Tugce , Engelen Kalene van , Osmond Matt , Schallner Jens , Porrmann Joseph , McDonald Kimberly , Liao Mingjuan , Oppermann Henry , Platzer Konrad , Dierksen Nadine , Mojarad Majid , Eslahi Atieh , Bakaeean Behnaz , Maroofian Reza , Ehmke Nadja , Seelow Dominik , Horn Denise 
Published: November 2022

Abstract
FINCA syndrome is an autosomal recessive inherited multisystemic disorder characterized by pulmonary fibrosis, neurodegeneration and cerebral angiomatosis. So far, 13 patients from nine families with biallelic NHLRC2 variants have been published. In all of them, the recurrent missense variant p.(Asp148Tyr) was detected at least on one allele. Common manifestations comprised pulmonary fibrosis, respiratory distress, developmental delay, muscular hypotonia, dystonia, seizures and brain atrophy, followed mostly by early demise due to progression of disease. Here, we present ten individuals from eight families with an overlapping but static phenotype with much longer survival, associated with seven novel NHLRC2 variants identified by exome analysis. All of the here described patients presented with severe global developmental delay. While seizures and EEG abnormalities were observed as frequent manifestations, eight individuals did not show any signs of pulmonary involvement or distinct MRI abnormalities. Notably, we also present the first seven cases in which the recurrent p.(Asp148Tyr) variant was not detected, neither in homozygous nor in compound heterozygous state. Interestingly, none of these cases presented with the classic FINCA phenotype. However, bioinformatic modeling and analyses could not establish a distinct genotype phenotype correlation. Taken together, our findings broaden the known phenotypic and molecular spectrum and propose that NHLRC2 related disease should also be considered in patients presenting with intellectual disability, movement disorders, neuroregression and epilepsy without pulmonary findings.
Assessment of Air Pollution Tolerance Index (APTI) and Anticipated Performance Index (API) of selected Roadside plant species for the Green Belt Development at Ratnagiri City in the Konkan Region of Maharashtra, India
Authors: Patil Pandurang , Goud Ajay , Patil Pratiraj , Jadhav Kailas 
Published: November 2022

Abstract
Small towns are becoming hotspots of pollution due to industrial, urbanisation, and domestic activities. Air pollution affects human health and it is also, responsible for physiological changes in plants. Green belt development programmes are cost-effective for the minimisation of air pollution. In the present study, to calculate air pollution tolerance index (APTI) and anticipated performance index (API), samples of 25 plant species were collected from each area i.e. the Industrial (I), Urban (U), and Rural (R) areas and analysed for different parameters. Amongst all three areas, APTI of Artocarpus-heterophyllus (46.74), Calotropis gigantea (43.63), and Bauhinia racemose (42.11) have shown the highest values and these plants can act as an inhibitor of air pollution. Also, the APTI of Ocimum tenuiflorum has found to be the lowest (12.05, 11.32, 12.86) as compared to other plant species among the three areas. Statistical analysis reveals that values of R2 are consistent in case of Total Chlorophyll (TC) and Ascorbic Acid (AA). API index showed the efficiency of Calotropis gigantea (excellent), Artocarpus-heterophyllus (very good), and Mangifera Indica (very good) for the green belt development around the selected areas. It is recommended to plant above mentioned plant species along the roadside by considering their air pollution tolerance ability and medicinal as well as economic importance. Further, it is suggested to plant species of Artocarpus-heterophyllus (Jackfruit) and Mangifera Indica (Alphonso Mango) which will generate income source for the local government bodies (Ratnagiri Municipal Council), as the fruits and wood of these plants can be exported and sold.
Viral shedding among symptomatic COVID-19 cases infected with the ancestral strain and Omicron BA.2
Authors: Wu Peng , Lin Yun , Tsang Tim , Wong Jessica , Lau Eric H. Y. , Yang Bingyi , Leung Gabriel , Cowling Benjamin 
Published: November 2022

Abstract
Assessment of viral kinetics of SARS-CoV-2 may inform host immune responses to and transmission potential of the virus. We analyzed longitudinal data of RT-PCR tests conducted for symptomatic COVID-19 patients at confirmation and during hospital isolation in Hong Kong during three major epidemic waves, and modeled the temporal trajectories of viral burden in these patients. Our analysis demonstrated that a longer duration of viral shedding appeared in more severe and older cases. Vaccinated individuals with a breakthrough infection of Omicron BA.2 exhibited a lower viral burden than non-vaccinated Omicron cases in early days following onset and a shorter duration of viral shedding particularly in more recently vaccinated patients. The viral kinetics characterized in our study provided insight into further studies on host immune responses to SARS-CoV-2 infection, prognosis of COVID-19 patients as well as possible protective mechanisms of vaccination against infection and severe outcomes.
Low-Computation GNSS Acquisition Method for Sparse Doppler Frequency Hypotheses in High-dynamic Environment
Authors: wu chao 
Published: November 2022

Abstract

To acquire Global Navigation Satellite System (GNSS) signal detection means bit transition, Doppler frequency, Doppler rate and code phase four-dimension acquisition in high-dynamic and long integration applications, and this detection needs a high computational cost. To reduce the computations of parameters estimation, this paper proposes a low-computation GNSS acquisition method (LGAM) in the high-dynamic environment. Firstly, sparse Doppler frequency (SDF) process is performed for SDF hypotheses, and post-correlation signal model is derived based on SDF structure. Then, double-FFT based detection is proposed based on the post-correlation signal model for parameters estimation. The results demonstrate that due to the reduction of complex multiplications, the computational cost of LGAM is lower than that of the FFT based methods under the moderate signal to noise ratio (SNR).
Study on Fe-C-Al three-phase micro-electrolysis treatment of low concentration phosphorus wastewater
Authors: Hu Baoming , Qi Quan , Li Liang , Huan Yongzhao , Liu Zheng , Liu Xuqing 
Published: November 2022

Abstract
In this study, the iron-carbon-aluminum (Fe-C-Al) composite filler was prepared by aluminum modification of conventional iron-carbon (Fe-C) micro-electrolysis with a no-burn method. The optimal process conditions for Fe-C-Al three-phase micro-electrolysis treatment of low concentration phosphorus wastewater were determined to be the aluminum metal ratio of 14 wt% and solids dosing of 30 g/L. Under the optimal process conditions, Fe-C-Al three-phase micro-electrolysis was performed for the treatment of low concentration phosphorus wastewater (LCPW) with continuous experiment, while iron-carbon fillers before and after treatment were analyzed by X-ray diffraction (XRD) and scanning electron microscopy (SEM). The results showed that the amount of Fe2+ dissolved in the micro-electrolysis determined the micro-electrolysis phosphorus removal effect, Al promoted the dissolution of Fe2+, and the Fe-C-Al filler had a stable phosphorus removal effect, and the average removal efficiency of phosphorus was 67.40%, which is an average improvement of 29.25% compared with the conventional Fe-C filler. The treatment of LCPW by Fe-C-Al three-phase micro-electrolysis is consistent with a first-order kinetic reaction with apparent activation energy of 38.70 kJ·mol−1, which is controlled by the chemical reaction.
N-Glycosylation of the Fourth Repeat Unit of Human τ Protein Abolishes binding to the c-terminal acidic 1-binding segment of ­ βtubulin
Authors: Otvos Laszlo , Pease Anne Marie , Wade John D. , Hoffmann Ralf 
Published: November 2022

Abstract:
Tubulin binds to the 18-arnino acid repeat units of normal 1 protein through several sites. Fluorescence polarization showed 1 repeats 1, 3, and 4 bound to an acidic dodecapeptide fragment of tubulin in mM concentrations. From the proposed abnormal modifications of 1 in Alzheimer's disease, only addition of an N-acetyl-glucosarnine moiety to the potential N-glycosylation site Asn359 abolished the 1-tubulin interaction indicating the seminal role of overutilization of this site during the development of the paired helical filaments.
Designing β-hairpin forming short peptide
Authors: Yinlin Sha , Yongliang Huang , Qi Wang , Luhua Lai 
Published: November 2022

Abstract:
The short linear peptide sequence H2N-Val-Thr-Leu-D-Pro-Gly-Val-Thr-Val-COOH predicted to form β-hairpin was synthesized by Fmoc/But strategy and purified by RP-HPLC. The CD spectra show a minimum at ca. 216nm and a maximum at ca. 194nm, which have been concluded as the common contribution from β-turn and β-sheet, and the structure in water was enhanced by organic reagent, such as TFE, acetonitrile and isopropyl alcohol.