bluuebunny/crossref_metadata_2025_split huggingface dataset:
miR-92a-3p controls cell cycle progression in zebrafish
Authors: Presslauer Christopher E. , Bizuayehu Teshome T. , Fernandes Jorge M.O. , Babiak Igor S. 
Published: June 2019

AbstractBiological functions of micro RNAs (miRNAs) in the early stages of vertebrate development remain largely unknown. In zebrafish, miRNA miR-92a-3p is abundant in the germ cells throughout gonadal development, as well as in ovulated oocytes. Previously, we demonstrated that inhibition of miR-92a-3p in mature ovaries resulted in developmental arrest at the 1-cell stage upon fertilization of the affected oocytes. This suggested functions of miR-92a-3p in early development. In the present study, we identified wee2, an oocyte-specific protein tyrosine kinase, as a target of maternal miR-92a-3p during the early stages of zebrafish embryogenesis. Spatiotemporal co-presence of both miR-92a-3p and wee2 during early embryo development was confirmed by absolute quantification and in situ hybridization. Targeted knockdown of miR-92a-3p in embryos resulted in retarded embryonic development over the first 24 hours. Target validation assays demonstrated that miR-92a-3p interacted with the predicted wee2 3’UTR binding site, which was strongly suppressed by endogenous miR-92a-3p. Our results suggest that miR-92a-3p regulates the abundance of wee2, a cyclin-dependent kinase 1 inhibitor, thus having important role in regulation of the cell cycle during cleavage stages in zebrafish.Summary statementIn zebrafish, maternal miR-92a-3p was demonstrated to suppress translation of wee2, a cyclin-dependent kinase 1 inhibitor which regulates cell cycle progression during the early stages of embryogenesis.
5-Fluorouracil treatment induces characteristic T>G mutations in human cancer
Authors: Christensen Sharon , Van der Roest Bastiaan , Besselink Nicolle , Janssen Roel , Boymans Sander , Martens John , Yaspo Marie-Laure , Priestley Peter ,   Center for Personalized Cancer Treatment, Kuijk Ewart , Cuppen Edwin , Van Hoeck Arne 
Published: June 2019

Abstract5-Fluorouracil (5-FU) is a chemotherapeutic drug component that is commonly used for the treatment of solid cancers. It is proposed that 5-FU possesses anticancer properties via the interference with nucleotide synthesis and incorporation into DNA. As both mechanisms may have a mutational impact on both surviving tumor and healthy cells, we treated intestinal organoids with 5-FU followed by whole genome sequencing analysis and uncovered a highly characteristic mutational pattern that is dominated by T>G substitutions in a CTT context. Analysis of tumor whole genome sequencing data confirmed that this signature can also be identified in vivo in colorectal and breast cancer patients that have undergone treatment with 5-FU. We also found that more 5-FU mutations are induced in TP53 null backgrounds which may be of clinical relevance. Taken together, our results demonstrate that 5-FU is mutagenic and may drive tumor evolution and increase the risk of secondary malignancies. Furthermore, the identified signature shows a strong resemblance to COSMIC signature 17, the hallmark signature of treatment-naive esophageal and gastric tumors, which indicates that distinct endogenous and exogenous triggers can converge onto highly similar mutational signatures.
STING recruits NLRP3 to the ER and deubiquitinates NLRP3 to activate the inflammasome
Authors: Wang Wenbiao , Hu Dingwen , Feng Yuqian , Wu Caifeng , Li Aixin , Wang Yingchong , Cheng Keli , Tian Mingfu , Xiao Feng , Zhang Qi , Shereen Muhammad Adnan , Chen Weijie , Pan Pan , Wan Pin , Liu Weiyong , Liu Fang , Wu Kailang , Li Geng , Liu Yingle , Wu Jianguo 
Published: June 2019

AbstractOne of the fundamental reactions of the innate immune responses to pathogen infection is the release of pro-inflammatory cytokines, including IL-1β, processed by the NLRP3 inflammasome. STING is essential for innate immune responses and inflammasome activation. Here we reveal a distinct mechanism by which STING regulates the NLRP3 inflammasome activation, IL-1β secretion, and inflammatory responses in human cell lines, mice primary cells, and mice. Interestingly, upon HSV-1 infection and cytosolic DNA stimulation, STING binds to NLRP3 and promotes the inflammasome activation through two approaches. First, STING recruits NLRP3 and promotes NLRP3 translocation to the endoplasmic reticulum, thereby facilitating the inflammasome formation. Second, STING interacts with NLRP3 and removes K48- and K63-linked polyubiquitination of NLRP3, thereby promoting the inflammasome activation. Collectively, we demonstrate that the cGAS-STING-NLRP3 signaling is essential for host defense against DNA virus infection.
Gaze and Movement Assessment (GaMA): Inter-site validation of a visuomotor upper limb functional protocol
Authors: Williams Heather E. , Chapman Craig S. , Pilarski Patrick M. , Vette Albert H. , Hebert Jacqueline S. 
Published: June 2019

AbstractBackgroundSuccessful hand-object interactions require precise hand-eye coordination with continual movement adjustments. Quantitative measurement of this visuomotor behaviour could provide valuable insight into upper limb impairments. The Gaze and Movement Assessment (GaMA) was developed to provide protocols for simultaneous motion capture and eye tracking during the administration of two functional tasks, along with data analysis methods to generate standard measures of visuomotor behaviour. The objective of this study was to investigate the reproducibility of the GaMA protocol across two independent groups of non-disabled participants, with different raters using different motion capture and eye tracking technology.MethodsTwenty non-disabled adults performed the Pasta Box Task and the Cup Transfer Task. Upper body and eye movements were recorded using motion capture and eye tracking, respectively. Measures of hand movement, angular joint kinematics, and eye gaze were compared to those from a different sample of twenty non-disabled adults who had previously performed the same protocol with different technology, rater and site.ResultsParticipants took longer to perform the tasks versus those from the earlier study, although the relative time of each movement phase was similar. Measures that were dissimilar between the groups included hand distances travelled, hand trajectories, number of movement units, eye latencies, and peak angular velocities. Similarities included all hand velocity and grip aperture measures, eye fixations, and most peak joint angle and range of motion measures.DiscussionThe reproducibility of GaMA was confirmed by this study, despite a few differences introduced by learning effects, task demonstration variation, and limitations of the kinematic model. The findings from this study provide confidence in the reliability of normative results obtained by GaMA, indicating it accurately quantifies the typical behaviours of a non-disabled population. This work advances the consideration for use of GaMA in populations with upper limb sensorimotor impairment.
Do atmospheric events explain the arrival of an invasive ladybird (Harmonia axyridis) in the UK?
Authors: Siljamo Pilvi , Ashbrook Kate , Comont Richard F. , Skjøth Carsten Ambelas 
Published: June 2019

AbstractSpecies introduced outside their natural range threaten global biodiversity and despite greater awareness of invasive species risks at ports and airports, control measures in place only concern anthropogenic routes of dispersal. Here, we use the Harlequin ladybird,Harmonia axyridis, an invasive species which first arrived in the UK from continental Europe in 2003, to test whether records from 2004 and 2005 were associated with atmospheric events. We used the atmospheric dispersion model SILAM to model the movement of this species from known distributions in continental Europe and tested whether the predicted atmospheric events were associated with the frequency of ladybird records in the UK. We show that the distribution of this species in the early years of its arrival does not provide substantial evidence for a purely anthropogenic introduction and show instead that atmospheric events can better explain this invasion event. Our results suggest that air flows which may assist dispersal over the English Channel are relatively frequent; ranging from once a week from Belgium and the Netherlands to 1-2 times a week from France over our study period. Given the frequency of these events, we demonstrate that atmospheric-assisted dispersal is a viable route for flying species to cross natural barriers.
Cyclin binding Cy motifs have multiple activities in the initiation of DNA replication
Authors: Hossain Manzar , Bhalla Kuhulika , Stillman Bruce 
Published: June 2019

SummaryThe initiation of DNA replication involves the cell cycle-dependent assembly and disassembly of protein complexes, including the Origin Recognition Complex (ORC) and CDC6 AAA+ ATPases. We report that multiple short, linear protein motifs (SLiMs) within intrinsically disordered regions in ORC1 and CDC6, including Cyclin-binding (Cy) motifs, mediate Cyclin-CDK dependent and independent protein-protein interactions, conditional on cell cycle phase. The ORC1 Cy motif mediates an auto-regulatory self-interaction, and the same Cy motif prevents CDC6 binding to ORC1 in mitosis, but then facilitates the destruction of ORC1 in S phase. In contrast, in G1, the CDC6 Cy motif promotes ORC1-CDC6 interaction independent of Cyclin-CDK protein phosphorylation. CDC6 interaction with ORC also requires a basic region of ORC1 that in yeast mediates ORC-DNA interactions. We also demonstrate that protein phosphatase 1 binds directly to a SLiM in ORC1, causing de-phosphorylation upon mitotic exit. Thus, Cy-motifs have wider roles, functioning as a ligand and as a degron.
Augmentation of Virtual Endoscopic Images with Intra-operative Data using Content-Nets
Authors: Esteban-Lansaque A. , Sanchez Carles , Borras Agnes , Gil Debora 
Published: June 2019

AbstractMedical imaging applications are challenging for machine learning and computer vision methods, in general, for two main reasons: it is difficult to generate reliable ground truth and databases are usually too small in size for training state of the art methods. Virtual images obtained from computer simulations could be used to train classifiers and validate image processing methods if their appearances were comparable (in texture and color) to the actual appearance of intra-operative medical images. Recent works focus on style transfer to generate artistic images by combining the content of an image and the style of another one. A main challenge is the generation of pairs with similar content ensuring preservation of anatomical features, especially across multi-modal data. This paper presents a deep-learning approach to content-preserving style transfer of intra-operative medical data for realistic virtual endoscopy. We propose a multi-objective optimization strategy for Generative Adversarial Networks (GANs) to obtain content-matching pairs that are blended using a siamese u-net architecture (called Content-net) that uses a measure of the content of activations to modulate skip connections. Our approach has been applied to transfer the appearance of bronchoscopic intra-operative videos to virtual bronchoscopies. Experiments assess images in terms of, both, content and appearance and show that our simulated data can substitute intra-operative videos for the design and training of image processing methods.
Enhanced Golic+: Gene targeting with 100% recovery inDrosophilamale germ cells
Authors: Chen Hui-Min , Yao Xiaohao , Ren Qingzhong , Chang Chuan-Chie , Liu Ling-Yu , Lee Tzumin 
Published: June 2019

ABSTRACTThe efficiency of gene targeting can vary drastically. Even utilizing CRISPR/Cas9 does not ensure rapid, successful gene targeting. InDrosophila, we previously established Golic+ to augment gene-targeting productivity simply through fly pushing. This transgene-based system elicits gene targeting in germ cells. It further implements lethality selection to enrich for progeny with accurate gene targeting. However, limitations still remain. Here we deliver an improved Golic+ technique that we name Enhanced Golic+ (E-Golic+). E-Golic+ incorporates genetic modifications to eliminate false positives while simultaneously boosting efficiency. Strikingly, male germ cells are exceptionally susceptible to gene targeting using E-Golic+. With male founders, we easily achieve 100% recovery of correct gene targeting. Given the superior efficiency/specificity and relatively effortless scalability, E-Golic+ promises to triumph in any challenging and otherwise unattainable gene targeting projects inDrosophila.
Measuring glycolytic flux in single yeast cells with an orthogonal synthetic biosensor
Authors: Monteiro Francisca , Hubmann Georg , Norder Justin , Hekelaar Johan , Saldida Joana , Litsios Athanasios , Wijma Hein J. , Schmidt Alexander , Heinemann Matthias 
Published: June 2019

AbstractMetabolic heterogeneity between individual cells of a population harbors offers significant challenges for fundamental and applied research. Identifying metabolic heterogeneity and investigating its emergence requires tools to zoom into metabolism of individual cells. While methods exist to measure metabolite levels in single cells, we lack capability to measure metabolic flux, i.e. the ultimate functional output of metabolic activity, on the single-cell level. Here, combining promoter engineering, computational protein design, biochemical methods, proteomics and metabolomics, we developed a biosensor to measure glycolytic flux in single yeast cells, by drawing on the robust cell-intrinsic correlation between glycolytic flux and levels of fructose-1,6-bisphosphate (FBP), and by transplanting the B. subtilis FBP-binding transcription factor CggR into yeast. As proof of principle, using fluorescence microscopy, we applied the sensor to identify metabolic subpopulations in yeast cultures. We anticipate that our biosensor will become a valuable tool to identify and study metabolic heterogeneity in cell populations.
Synthesis, detailed geometric analysis and bond-valence method evaluation of the strength of π-arene bonding of two isotypic cationic prehnitene tin(II) complexes: [{1,2,3,4-(CH3)4C6H2}2Sn2Cl2][MCl4]2 (M = Al and Ga)
Authors: Merkelbach Johannes , Frank Walter 
Published: June 2019

From solutions of prehnitene and the ternary halides (SnCl)[MCl4] (M = Al, Ga) in chlorobenzene, the new cationic SnII–π-arene complexes catena-poly[[chloridoaluminate(III)]-tri-μ-chlorido-4′:1κ2
Cl,1:2κ4
Cl-[(η6-1,2,3,4-tetramethylbenzene)tin(II)]-di-μ-chlorido-2:3κ4
Cl-[(η6-1,2,3,4-tetramethylbenzene)tin(II)]-di-μ-chlorido-3:4κ4
Cl-[chloridoaluminate(III)]-μ-chlorido-4:1′κ2
Cl], [Al2Sn2Cl10(C10H14)2]
n
, (1) and catena-poly[[chloridogallate(III)]-tri-μ-chlorido-4′:1κ2
Cl,1:2κ4
Cl-[(η6-1,2,3,4-tetramethylbenzene)tin(II)]-di-μ-chlorido-2:3κ4
Cl-[(η6-1,2,3,4-tetramethylbenzene)tin(II)]-di-μ-chlorido-3:4κ4
Cl-[chloridogallate(III)]-μ-chlorido-4:1′κ2
Cl], [Ga2Sn2Cl10(C10H14)2]
n
, (2), were isolated. In these first main-group metal–prehnitene complexes, the distorted η6 arene π-bonding to the tin atoms of the Sn2Cl2
2+ moieties in the centre of [{1,2,3,4-(CH3)4C6H2}2Sn2Cl2][MCl4]2 repeating units (site symmetry \overline{1}) is characterized by: (i) a significant ring slippage of ca 0.4 Å indicated by the dispersion of Sn—C distances [1: 2.881 (2)–3.216 (2) Å; 2: 2.891 (3)–3.214 (3) Å]; (ii) the non-methyl-substituted arene C atoms positioned closest to the SnII central atom; (iii) a pronounced tilt of the plane of the arene ligand against the plane of the central (Sn2Cl2)2+ four-membered ring species [1: 15.59 (11)°, 2: 15.69 (9)°]; (iv) metal–arene bonding of medium strength as illustrated by application of the bond-valence method in an indirect manner, defining the π-arene bonding interaction of the SnII central atoms as s(SnII—arene) = 2 − Σs(SnII—Cl), that gives s(SnII—arene) = 0.37 and 0.38 valence units for the aluminate and the gallate, respectively, indicating that comparatively strong main-group metal–arene bonding is present and in line with the expectation that [AlCl4]− is the slightly weaker coordinating anion as compared to [GaCl4]−.
Numerical simulation of flow with large eddy simulation at Re = 3900
Authors: Khan Niaz B. , Ibrahim Zainah B. , Ali Mian Ashfaq , Jameel Mohammed , Khan Muhammad Ijaz , Javanmardi Ahad , Oyejobi D.O. 
Published: June 2019

Purpose
Over the past few decades, the flow around circular cylinders has been one of the highly researched topics in the field of offshore engineering and fluid-structure interaction (FSI). In the current study, numerical simulations for flow around a fixed circular cylinder are performed at Reynolds number (Re) = 3900 with the LES method using the ICEM-CFD and ANSYS Fluent tool for meshing and analysis, respectively. Previously, similar studies have been conducted at the same Reynolds number, but there have been discrepancies in the results, particularly in calculating the recirculation length and angle of separation. In addition, the purpose of this study is to address the impact of time interval averaging to obtain the fully converged solution.

Design/methodology/approach
This study presents the LES method, using the ICEM-CFD and ANSYS fluent tool for meshing and analysis.

Findings
In the current study, turbulence statistics are sampled for 25, 50, 75 and 100 vortex-shedding cycles with the CFL value O (1). The recirculation length, angle of separation, hydrodynamic coefficients and the wake behind the cylinder are investigated up to ten diameters. The drag coefficient and Strouhal number are observed to be less sensitive, whereas the recirculation length appeared to be highly dependent on the average time statistics and the non-dimensional time step. Similarly, the mean streamwise and cross-flow velocity are observed to be sensitive to the average time statistics and non-dimensional time step in the wake region near the cylinder.

Originality/value
In the current investigation, turbulence statistics are sampled for 25, 50, 75 and 100 vortex-shedding cycles with the CFL value O (1), using large eddy simulation method at Re = 3900 around a circular cylinder. The impact of time interval averaging to obtain the fully converged mean flow field is addressed. No such consideration is yet published in the literature.
Efficiency assessment of using graphene nanoplatelets-silver/water nanofluids in microchannel heat sinks with different cross-sections for electronics cooling
Authors: Goodarzi Marjan , Tlili Iskander , Tian Zhe , Safaei Mohammad Reza 
Published: June 2019

Purpose
This study aims to model the nanofluid flow in microchannel heat sinks having the same length and hydraulic diameter but different cross-sections (circular, trapezoidal and square).

Design/methodology/approach
The nanofluid is graphene nanoplatelets-silver/water, and the heat transfer in laminar flow was investigated. The range of coolant Reynolds number in this investigation was 200 ≤ Re ≤ 1000, and the concentrations of nano-sheets were from 0 to 0.1 vol. %.

Findings
Results show that higher temperature leads to smaller Nusselt number, pressure drop and pumping power, and increasing solid nano-sheet volume fraction results in an expected increase in heat transfer. However, the influence of temperature on the friction factor is insignificant. In addition, by increasing the Reynolds number, the values of pressure drop, pumping power and Nusselt number augments, but friction factor diminishes.

Research limitations/implications
Data extracted from a recent experimental work were used to obtain thermo-physical properties of nanofluids.

Originality/value
The effects of temperature, microchannel cross-section shape, the volume concentration of nanoparticles and Reynolds number on thermal and hydraulics behavior of the nanofluid were investigated. Results are presented in terms of velocity, Nusselt number, pressure drop, friction loss and pumping power in various conditions. Validation of the model against previous papers showed satisfactory agreement.
Ascertaining the interaction effects among organisational citizenship behaviour, work overload and employees’ performance in the Ghanaian construction industry
Authors: Kissi Ernest , Asare Odoi Ansah , Agyekum Kofi , Yamoah Agyemang Daniel , Labaran Musah 
Published: June 2019

Purpose
The purpose of this paper is to ascertain the interaction effects among organizational citizenship behavior (OCB), work overload (WO) and employees’ performance in the Ghanaian construction industry, thus identifying the thin boundary between advocating OCB and avoiding WO in attempt to increase higher employee performance.

Design/methodology/approach
Using a quantitative research method, three hypotheses were tested. The views of 86 project teams were elicited using a structured questionnaire, and linear regression was utilized to validate the hypotheses.

Findings
The study proved that OCBs positively affect employee performance in the construction industry. The results implied that increased work load on employees do not increase their productivity levels, but adversely increase the unconsiderable effects of employees’ work lives. In addition, WO played the role of homologizing moderation in the relationship between OCB and employee performance.

Practical implications
The findings suggest that there is a considerable effect of WO on overall employee performance in the construction industry; thus, there is a need for stakeholders to address this issue for performance improvement.

Originality/value
The application and investigation of these issues have dominated the banking industry but lacked in the construction industry. The current study therefore provides useful insight into the interaction effects among organizational citizenship behavior, WO and employees’ performance in the Ghanaian construction industry.
From monitoring of seismic fields to the automatic forecasting of earthquakes
Authors: Gitis Valery , Derendyaev Alexander 
Published: June 2019

PurposeThe purpose of this paper is to offer two Web-based platforms for systematic analysis of seismic processes. Both platforms are designed to analyze and forecast the state of the environment and, in particular, the level of seismic hazard. The first platform analyzes the fields representing the properties of the seismic process; the second platform forecasts strong earthquakes. Earthquake forecasting is based on a new one-class classification method.Design/methodology/approachThe paper suggests an approach to systematic forecasting of earthquakes and examines the results of tests. This approach is based on a new method of machine learning, called the method of the minimum area of alarm. The method allows to construct a forecast rule that optimizes the probability of detecting target earthquakes in a learning sample set, provided that the area of the alarm zone does not exceed a predetermined one.FindingsThe paper presents two platforms alongside the method of analysis. It was shown that these platforms can be used for systematic analysis of seismic process. By testing of the earthquake forecasting method in several regions, it was shown that the method of the minimum area of alarm has satisfactory forecast quality.Originality/valueThe described technology has two advantages: simplicity of configuration for a new problem area and a combination of interactive easy analysis supported by intuitive operations and a simplified user interface with a detailed, comprehensive analysis of spatio-temporal processes intended for specialists. The method of the minimum area of alarm solves the problem of one-class classification. The method is original. It uses in training the precedents of anomalous objects and statistically takes into account normal objects.