bluuebunny/crossref_metadata_2025_split huggingface dataset:
Three-dimensional and two-dimensional relationships of gangliogenesis with folliculogenesis in mature mouse ovary: a Golgi–Cox staining approach
Authors: Asadi Zarch Mohammad Ebrahim , Afshar Alireza , Rahmanifar Farhad , Jafarzadeh Shirazi Mohammad Reza , Baghban Mandana , Dadpasand Mohammad , Mohammad Rezazadeh Farzad , Khoradmehr Arezoo , Baharvand Hossein , Tamadon Amin 
Published: March 2021

AbstractThe present study was set out to investigate two-dimensional (2D) and three-dimensional (3D) evaluations of ovarian nervous network development and the structural relationship between folliculogenesis and gangliogenesis in mouse ovaries. Adult mice ovarian tissue samples were collected from follicular and luteal phases after cardiac perfusion. Ovarian samples were stained by a Golgi–Cox protocol. Following staining, tissues were serially sectioned for imaging. Neural filaments and ganglia were present in the ovaries. In both 2D and 3D studies, an increase in the number and area of ganglia was seen during the follicular growth. The same pattern was also seen in corpora lutea development. However, in some cases such as ratio of ganglia number to follicle area, the ratio of ganglia area to follicular area, 2D findings were different compared with the 3D results. 3D analysis of ovarian gangliogenesis showed the possible direct effect of them on folliculogenesis. Golgi–Cox staining was used in this study for 3D evaluation in non-brain tissue. The results of 3D analysis of the present study showed that, in some cases, the information provided by 2D analysis does not match the reality of ovarian neuronal function. This confirmed the importance of 3D analysis for evaluation of ovarian function.
A multicenter study of interocular symmetry of corneal biometrics in Chinese myopic patients
Authors: Xu Guihua , Hu Yijun , Zhu Shanqing , Guo Yunxiang , Xiong Lu , Fang Xuejun , Liu Jia , Zhang Qingsong , Huang Na , Zhou Jin , Li Fangfang , Lei Xiaohua , Jiang Li , Wang Zheng 
Published: March 2021

AbstractIt is essential to know the normal range of the interocular symmetry of the cornea (ISC) for keratoconus diagnosis and corneal substitutes design. In the present study we investigated the interocular symmetry of corneal biometrics in 6,644 Chinese myopic patients from multiple ophthalmic centers. Corneal biometrics of both eyes were exported from the Pentacam instrument. Interocular symmetry of the corneal biometrics was analyzed by Spearman’s correlation test, intraclass correlation coefficient (ICC) analysis and Bland–Altman plot. Significantly strong interocular correlations were found in anterior and posterior corneal curvatures, corneal diameter, corneal thickness, corneal volume, corneal eccentricity, and corneal asphericity (r = 0.87–0.98, all P < 0.001). Moderate interocular correlations were observed in whole corneal astigmatism (r = 0.78) and posterior corneal astigmatism (r = 0.73). ICC between the right and left eyes was 0.94–0.98 for anterior and posterior corneal curvatures, corneal diameter, corneal thickness and corneal volume, 0.80–0.88 for corneal eccentricity and asphericity, and 0.73–0.79 for corneal astigmatism (all P < 0.001). Bland–Altman plot showed that the 95% limit of agreement between both eyes was narrow and symmetric in most of the corneal biometrics, suggesting strong interocular agreements in these corneal biometrics. In conclusion, significant interocular symmetry of corneal biometrics is observed in Chinese myopia patients. Extra attention should be paid to patients with interocular corneal asymmetry.
Performance of EasyBreath Decathlon Snorkeling mask for delivering continuous positive airway pressure
Authors: Noto Alberto , Crimi Claudia , Cortegiani Andrea , Giardina Massimiliano , Benedetto Filippo , Princi Pietro , Carlucci Annalisa , Appendini Lorenzo , Gregoretti Cesare 
Published: March 2021

AbstractDuring the COVID-19 pandemic, the need for noninvasive respiratory support devices has dramatically increased, sometimes exceeding hospital capacity. The full-face Decathlon snorkeling mask, EasyBreath (EB mask), has been adapted to deliver continuous positive airway pressure (CPAP) as an emergency respiratory interface. We aimed to assess the performance of this modified EB mask and to test its use during different gas mixture supplies. CPAP set at 5, 10, and 15 cmH2O was delivered to 10 healthy volunteers with a high-flow system generator set at 40, 80, and 120 L min−1 and with a turbine-driven ventilator during both spontaneous and loaded (resistor) breathing. Inspiratory CO2 partial pressure (PiCO2), pressure inside the mask, breathing pattern and electrical activity of the diaphragm (EAdi) were measured at all combinations of CPAP/flows delivered, with and without the resistor. Using the high-flow generator set at 40 L min−1, the PiCO2 significantly increased and the system was unable to maintain the target CPAP of 10 and 15 cmH2O and a stable pressure within the respiratory cycle; conversely, the turbine-driven ventilator did. EAdi significantly increased with flow rates of 40 and 80 L min−1 but not at 120 L min−1 and with the turbine-driven ventilator. EB mask can be safely used to deliver CPAP only under strict constraints, using either a high-flow generator at a flow rate greater than 80 L min−1, or a high-performance turbine-driven ventilator.
Enhanced XUV harmonics generation from diatomic gases using two orthogonally polarized laser fields
Authors: Boltaev Ganjaboy S. , Iqbal Mazhar , Abbasi Naveed A. , Kim Vyacheslav V. , Ganeev Rashid A. , Alnaser Ali S. 
Published: March 2021

AbstractEnhanced high repetition rate coherent extreme ultraviolet (XUV) harmonics represent efficient probe of electron dynamics in atoms, molecules and solids. In this work, we used orthogonally-polarized two-color laser field to generate strong even and odd high order harmonics from molecular gas targets. The dynamics of odd and even harmonics from O2, and N2 gases were investigated by employing single- and two-color laser fields using the fundamental radiation and second harmonic of 1030 nm, 37 fs, 50 kHz pulses. The relative efficiencies of harmonics were analyzed as a function of the thickness of the barium borate crystal used for second harmonic generation. Defocusing-assisted phase matching conditions were achieved in N2 gas for different groups of XUV harmonics.
Deep learning predicts boiling heat transfer
Authors: Suh Youngjoon , Bostanabad Ramin , Won Yoonjin 
Published: March 2021

AbstractBoiling is arguably Nature’s most effective thermal management mechanism that cools submersed matter through bubble-induced advective transport. Central to the boiling process is the development of bubbles. Connecting boiling physics with bubble dynamics is an important, yet daunting challenge because of the intrinsically complex and high dimensional of bubble dynamics. Here, we introduce a data-driven learning framework that correlates high-quality imaging on dynamic bubbles with associated boiling curves. The framework leverages cutting-edge deep learning models including convolutional neural networks and object detection algorithms to automatically extract both hierarchical and physics-based features. By training on these features, our model learns physical boiling laws that statistically describe the manner in which bubbles nucleate, coalesce, and depart under boiling conditions, enabling in situ boiling curve prediction with a mean error of 6%. Our framework offers an automated, learning-based, alternative to conventional boiling heat transfer metrology.
Nano urea effects on Pleurotus ostreatus nutritional value depending on the dose and timing of application
Authors: Sassine Youssef N. , Naim Layla , El Sebaaly Zeina , Abou Fayssal Sami , Alsanad Mohammed A. , Yordanova Milena H. 
Published: March 2021

AbstractThe work investigated the effect of Lithovit-Urea50 on the composition of Pleurotus ostreatus (Jacq. Ex Fr.) P. Kumm. (1871) cultivated on spent oyster substrate mixed with wheat straw (1:1, w/w mixture). The product was applied in different doses (C1: 3 g kg−1 and C2: 5 g kg−1) at three distinct timings (t1: at spawning, t2: after first harvest, t3: at spawning and after first harvest). Protein and fiber contents increased respectively by 0.64 and 0.2% in C1t1 and by 0.46 and 0.8% in C2t2 compared to control (C0t0). Total carbohydrates increased by 0.48–3.76%. Sucrose and glucose contents decreased in the majority of treatments, while fructose increased in C2t1 (by 0.045%). Essential amino acids were the highest in C1t1, wherein respective improvement of 0.31, 0.10, 0.05, 0.21, 0.18, and 0.09% compared to C0t0. Similarly, C1t1 was superior in non-essential amino acids. Potassium, sodium, calcium, iron, and copper contents decreased in all treatments, with minor exceptions, zinc decreased in C1t1 and C2t1, while nickel and lead increased in all treatments. Conclusively, despite important ameliorations in the mushroom nutritional value, mostly in C1t1, the product should be further tested in lower doses (< 3 g kg−1) to counteract its effect on heavy metal bioaccumulation.
Variability of serum IgG sialylation and galactosylation degree in women with advanced endometriosis
Authors: Sołkiewicz Katarzyna , Krotkiewski Hubert , Jędryka Marcin , Kratz Ewa M. 
Published: March 2021

AbstractEndometriosis is an inflammatory disease which diagnostics is difficult and often invasive, therefore non-invasive diagnostics methods and parameters are needed for endometriosis detection. The aim of our study was to analyse the glycosylation of native serum IgG and IgG isolated from sera of women classified as: with endometriosis, without endometriosis but with some benign ginecological disease, and control group of healthy women, in context of its utility for differentiation of advanced endometriosis from the group of healthy women. IgG sialylation and galactosylation/agalactosylation degree was determined using specific lectins: MAA and SNA detecting sialic acid α2,3- and α2,6-linked, respectively, RCA-I and GSL-II specific to terminal Gal and terminal GlcNAc, respectively. The results of ROC and cluster analysis showed that the serum IgG MAA-reactivity, sialylation and agalactosylation factor may be used as supplementary parameters for endometriosis diagnostics and could be taken into account as a useful clinical tool to elucidate women with high risk of endometriosis development. Additionally, we have shown that the analysis of native serum IgG glycosylation, without the prior time-consuming and expensive isolation of the protein, is sufficient to differentiation endometriosis from a group of healthy women.
A pilot study of scleral thickness in central serous chorioretinopathy using anterior segment optical coherence tomography
Authors: Lee Yun Ji , Lee Yeon Jeong , Lee Jae Yeon , Lee Suhwan 
Published: March 2021

AbstractThe aim of this study is to compare the scleral thickness of central serous chorioretinopathy (CSC) eyes with controls using anterior segment optical coherence tomography (AS OCT). This prospective case control study included 15 patients (15 eyes) with CSC and 15 age and gender matched healthy subjects. All subjects underwent spectral domain OCT with enhanced depth imaging and swept source AS OCT of temporal sclera. We investigated difference in scleral thickness between the two groups and relationship between choroidal and scleral thickness. Among the 15 eyes in the study group, 1 eye had acute CSC, 4 had recurrent CSC, 7 had inactive CSC, and 3 had chronic CSC. There was no significant difference in terms of age, gender, axial length and spherical equivalent between the two groups. The choroidal and scleral thickness of the study group were significantly greater than those of the control group (P < 0.001, P = 0.034). Choroidal thickness was positively correlated with scleral thickness (P = 0.031). A thick sclera along with a thick choroid were demonstrated in CSC eyes using AS OCT. Scleral characteristics might be involved in the pathogenesis of CSC by affecting outflow resistance of venous drainage in choroidal circulation.
A novel approach to the classification of terrestrial drainage networks based on deep learning and preliminary results on solar system bodies
Authors: Donadio Carlo , Brescia Massimo , Riccardo Alessia , Angora Giuseppe , Veneri Michele Delli , Riccio Giuseppe 
Published: March 2021

AbstractSeveral approaches were proposed to describe the geomorphology of drainage networks and the abiotic/biotic factors determining their morphology. There is an intrinsic complexity of the explicit qualification of the morphological variations in response to various types of control factors and the difficulty of expressing the cause-effect links. Traditional methods of drainage network classification are based on the manual extraction of key characteristics, then applied as pattern recognition schemes. These approaches, however, have low predictive and uniform ability. We present a different approach, based on the data-driven supervised learning by images, extended also to extraterrestrial cases. With deep learning models, the extraction and classification phase is integrated within a more objective, analytical, and automatic framework. Despite the initial difficulties, due to the small number of training images available, and the similarity between the different shapes of the drainage samples, we obtained successful results, concluding that deep learning is a valid way for data exploration in geomorphology and related fields.
Differential normal skin transcriptomic response in total body irradiated mice exposed to scattered versus scanned proton beams
Authors: Leduc Alexandre , Chaouni Samia , Pouzoulet Frédéric , De Marzi Ludovic , Megnin-Chanet Frédérique , Corre Erwan , Stefan Dinu , Habrand Jean-Louis , Sichel François , Laurent Carine 
Published: March 2021

AbstractProton therapy allows to avoid excess radiation dose on normal tissues. However, there are some limitations. Indeed, passive delivery of proton beams results in an increase in the lateral dose upstream of the tumor and active scanning leads to strong differences in dose delivery. This study aims to assess possible differences in the transcriptomic response of skin in C57BL/6 mice after TBI irradiation by active or passive proton beams at the dose of 6 Gy compared to unirradiated mice. In that purpose, total RNA was extracted from skin samples 3 months after irradiation and RNA-Seq was performed. Results showed that active and passive delivery lead to completely different transcription profiles. Indeed, 140 and 167 genes were differentially expressed after active and passive scanning compared to unirradiated, respectively, with only one common gene corresponding to RIKEN cDNA 9930021J03. Moreover, protein–protein interactions performed by STRING analysis showed that 31 and 25 genes are functionally related after active and passive delivery, respectively, with no common gene between both types of proton delivery. Analysis showed that active scanning led to the regulation of genes involved in skin development which was not the case with passive delivery. Moreover, 14 ncRNA were differentially regulated after active scanning against none for passive delivery. Active scanning led to 49 potential mRNA-ncRNA pairs with one ncRNA mainly involved, Gm44383 which is a miRNA. The 43 genes potentially regulated by the miRNA Gm44393 confirmed an important role of active scanning on skin keratin pathway. Our results demonstrated that there are differences in skin gene expression still 3 months after proton irradiation versus unirradiated mouse skin. And strong differences do exist in late skin gene expression between scattered or scanned proton beams. Further investigations are strongly needed to understand this discrepancy and to improve treatments by proton therapy.
Seasonal to multi-year soil moisture drought forecasting
Authors: Esit Musa , Kumar Sanjiv , Pandey Ashutosh , Lawrence David M. , Rangwala Imtiaz , Yeager Stephen 
Published: March 2021

AbstractSoil moisture predictability on seasonal to decadal (S2D) continuum timescales over North America is examined from the Community Earth System Modeling (CESM) experiments. The effects of ocean and land initializations are disentangled using two large ensemble datasets—initialized and uninitialized experiments from the CESM. We find that soil moisture has significant predictability on S2D timescales despite limited predictability in precipitation. On sub-seasonal to seasonal timescales, precipitation variability is an order of magnitude greater than soil moisture, suggesting land surface processes, including soil moisture memory, reemergence, land–atmosphere interactions, transform a less predictable precipitation signal into a more predictable soil moisture signal.
Water orientation and dynamics in the closed and open influenza B virus M2 proton channels
Authors: Gelenter Martin D. , Mandala Venkata S. , Niesen Michiel J. M. , Sharon Dina A. , Dregni Aurelio J. , Willard Adam P. , Hong Mei 
Published: March 2021

AbstractThe influenza B M2 protein forms a water-filled tetrameric channel to conduct protons across the lipid membrane. To understand how channel water mediates proton transport, we have investigated the water orientation and dynamics using solid-state NMR spectroscopy and molecular dynamics (MD) simulations. 13C-detected water 1H NMR relaxation times indicate that water has faster rotational motion in the low-pH open channel than in the high-pH closed channel. Despite this faster dynamics, the open-channel water shows higher orientational order, as manifested by larger motionally-averaged 1H chemical shift anisotropies. MD simulations indicate that this order is induced by the cationic proton-selective histidine at low pH. Furthermore, the water network has fewer hydrogen-bonding bottlenecks in the open state than in the closed state. Thus, faster dynamics and higher orientational order of water molecules in the open channel establish the water network structure that is necessary for proton hopping.
Cryo-EM structure of the Rous sarcoma virus octameric cleaved synaptic complex intasome
Authors: Pandey Krishan K. , Bera Sibes , Shi Ke , Rau Michael J. , Oleru Amarachi V. , Fitzpatrick James A. J. , Engelman Alan N. , Aihara Hideki , Grandgenett Duane P. 
Published: March 2021

AbstractDespite conserved catalytic integration mechanisms, retroviral intasomes composed of integrase (IN) and viral DNA possess diverse structures with variable numbers of IN subunits. To investigate intasome assembly mechanisms, we employed the Rous sarcoma virus (RSV) IN dimer that assembles a precursor tetrameric structure in transit to the mature octameric intasome. We determined the structure of RSV octameric intasome stabilized by a HIV-1 IN strand transfer inhibitor using single particle cryo-electron microscopy. The structure revealed significant flexibility of the two non-catalytic distal IN dimers along with previously unrecognized movement of the conserved intasome core, suggesting ordered conformational transitions between intermediates that may be important to capture the target DNA. Single amino acid substitutions within the IN C-terminal domain affected intasome assembly and function in vitro and infectivity of pseudotyped RSV virions. Unexpectedly, 17 C-terminal amino acids of IN were dispensable for virus infection despite regulating the transition of the tetrameric intasome to the octameric form in vitro. We speculate that this region may regulate the binding of highly flexible distal IN dimers to the intasome core to form the octameric complex. Our studies reveal key steps in the assembly of RSV intasomes.
Creb5 establishes the competence for Prg4 expression in articular cartilage
Authors: Zhang Cheng-Hai , Gao Yao , Jadhav Unmesh , Hung Han-Hwa , Holton Kristina M. , Grodzinsky Alan J. , Shivdasani Ramesh A. , Lassar Andrew B. 
Published: March 2021

AbstractA hallmark of cells comprising the superficial zone of articular cartilage is their expression of lubricin, encoded by the Prg4 gene, that lubricates the joint and protects against the development of arthritis. Here, we identify Creb5 as a transcription factor that is specifically expressed in superficial zone articular chondrocytes and is required for TGF-β and EGFR signaling to induce Prg4 expression. Notably, forced expression of Creb5 in chondrocytes derived from the deep zone of the articular cartilage confers the competence for TGF-β and EGFR signals to induce Prg4 expression. Chromatin-IP and ATAC-Seq analyses have revealed that Creb5 directly binds to two Prg4 promoter-proximal regulatory elements, that display an open chromatin conformation specifically in superficial zone articular chondrocytes; and which work in combination with a more distal regulatory element to drive induction of Prg4 by TGF-β. Our results indicate that Creb5 is a critical regulator of Prg4/lubricin expression in the articular cartilage.
A multi-omic characterization of temperature stress in a halotolerant Scenedesmus strain for algal biotechnology
Authors: Calhoun Sara , Bell Tisza Ann Szeremy , Dahlin Lukas R. , Kunde Yuliya , LaButti Kurt , Louie Katherine B. , Kuftin Andrea , Treen Daniel , Dilworth David , Mihaltcheva Sirma , Daum Christopher , Bowen Benjamin P. , Northen Trent R. , Guarnieri Michael T. , Starkenburg Shawn R. , Grigoriev Igor V. 
Published: March 2021

AbstractMicroalgae efficiently convert sunlight into lipids and carbohydrates, offering bio-based alternatives for energy and chemical production. Improving algal productivity and robustness against abiotic stress requires a systems level characterization enabled by functional genomics. Here, we characterize a halotolerant microalgaScenedesmussp. NREL 46B-D3 demonstrating peak growth near 25 °C that reaches 30 g/m2/day and the highest biomass accumulation capacity post cell division reported to date for a halotolerant strain. Functional genomics analysis revealed that genes involved in lipid production, ion channels and antiporters are expanded and expressed. Exposure to temperature stress shifts fatty acid metabolism and increases amino acids synthesis. Co-expression analysis shows that many fatty acid biosynthesis genes are overexpressed with specific transcription factors under cold stress. These and other genes involved in the metabolic and regulatory response to temperature stress can be further explored for strain improvement.
Pocket MUSE: an affordable, versatile and high-performance fluorescence microscope using a smartphone
Authors: Liu Yehe , Rollins Andrew M. , Levenson Richard M. , Fereidouni Farzad , Jenkins Michael W. 
Published: March 2021

AbstractSmartphone microscopes can be useful tools for a broad range of imaging applications. This manuscript demonstrates the first practical implementation of Microscopy with Ultraviolet Surface Excitation (MUSE) in a compact smartphone microscope called Pocket MUSE, resulting in a remarkably effective design. Fabricated with parts from consumer electronics that are readily available at low cost, the small optical module attaches directly over the rear lens in a smartphone. It enables high-quality multichannel fluorescence microscopy with submicron resolution over a 10× equivalent field of view. In addition to the novel optical configuration, Pocket MUSE is compatible with a series of simple, portable, and user-friendly sample preparation strategies that can be directly implemented for various microscopy applications for point-of-care diagnostics, at-home health monitoring, plant biology, STEM education, environmental studies, etc.