bluuebunny/crossref_metadata_2025_split huggingface dataset:
Species identification of two closely exploited flatfish, turbot (Scophthalmus maximus) and brill (Scophthalmus rhombus), using a ddRADseq genomic approach
Authors: Maroso Francesco , Casanova Adrián , do Prado Fernanda D. , Bouza Carmen , Pardo Belén G. , Blanco Andrés , Hermida Miguel , Fernández Carlos , Vera Manuel , Martínez Paulino 
Published: July 2018

Abstract

Application of genomics tools for conservation purposes (i.e. conservation genomics) allows looking deep into the genetic structure and adaptations of populations and species in order to define management units, trace exploited stocks, and identification of species.
In this work, a double‐digestion restriction‐site‐associated DNA sequencing (ddRADseq) approach was performed to identify individuals belonging to two important commercial flatfish, the turbot (Scophthalmus maximus) and the brill (Scophthalmus rhombus), and their potential hybrids.
A total of 83 diagnostic single nucleotide polymorphisms (SNPs) between brill and turbot were detected in the genomic RAD‐tag database created with 122 turbot and 20 brill individuals. Markers consisted of an SNP with alternative alleles fixed in each species. From these diagnostic markers, a molecular tool comprising 10 SNPs located far apart in the turbot genome (>100 kb) was successfully designed and validated using the SNaPshot® method from a new sample set of 154 brill and turbot samples distributed throughout the natural range of both species. Additionally, 10 individuals (two turbot and eight brill) previously genotyped with ddRADseq were genotyped with SNaPshot to check for genotyping accuracy.
ddRADseq and SNaPshot genotyping of these 10 markers were identical in the 10 individuals used as controls. Species assignment based on the SNP tool corresponded with phenotypic identification for all samples. Using the SNP tool in a set of 29 unknown samples, all individuals were identified as S. maximus except one identified as a hybrid (heterozygous for all diagnostic SNPs).
The methodology (i.e. ddRADseq) has enabled the development of a helpful traceability tool for sustainable management and conservation of turbot and brill resources. Similar approaches could also be applied to other non‐model organisms despite lacking an assembled genome.
Demographics and length and weight relationships of commercially important sharks along the north‐western coast of India
Authors: Barnes Alissa , Sutaria Dipani , Harry Alastair V. , Jabado Rima W. 
Published: July 2018

Abstract

Biological data including size, sex ratios, male maturity, and length and weight relationships for four commercially important shark species, including the milk shark (Rhizoprionodon acutus Rüppell, 1837), the grey sharpnose shark (Rhizoprionodon oligolinx Springer, 1964), the spadenose shark (Scoliodon laticaudus Muller & Henle, 1838), and the bigeye smoothhound shark (Iago omanensis Norman, 1939), landed in Porbandar, Gujarat, India, are provided.
All four species were landed by trawlers and gill‐netters across three defined seasons, with seasonal differences. Higher proportions of mature R. acutus and S. laticaudus were observed in the pre‐monsoon season, with neonates caught throughout the year, whereas higher proportions of mature R. oligolinx and I. omanensis were recorded during the monsoon season, with neonates caught in post‐monsoon and pre‐monsoon, respectively, showing important species‐level differences.
These small‐bodied shark species (less than 1 m in total length) showed positive allometry in their length and weight relationships. Unlike the other three species, I. omanensis showed high disparity in total lengths (LT) between the sexes, with females being larger than males, and with males maturing faster, with the smallest mature male of 33.58 cm LT. Females outnumbered males except in R. acutus, and pregnant females of all species were recorded at least once. Of the 971 males recorded across species, 55.1% were mature and 44.9% were immature.
Results from this study indicate that there is substantial overlap between the distributions of these species and fishing activities, and show that most, if not all, life stages are susceptible to mortality as a result of fishing.
This study provides managers with a better understanding of the life‐history traits of these commercially important species to support future quantitative population assessments, and provides a baseline of trends in fishing‐related mortality.
A perturbed gamma degradation process with degradation dependent non‐Gaussian measurement errors
Authors: Giorgio Massimiliano , Mele Agostino , Pulcini Gianpaolo 
Published: July 2018

AbstractThis paper proposes and illustrates a new perturbed gamma degradation process where the measurement error is modeled as a non‐Gaussian random variable that depends stochastically on the actual degradation level. The expression of the likelihood function for a generic set of noisy degradation measurements is derived, and the expression of the remaining useful life distribution of a degrading unit that fails when its degradation level exceeds a given threshold limit is formulated. A particle filter method is suggested, which allows one to compute the likelihood function and to estimate the remaining useful life distribution in a quick yet efficient manner. In addition, a closed‐form approximation of the perturbed gamma process is proposed to use in the special, yet meaningful, case where the standard deviation of the measurement error depends linearly on the actual degradation level. Finally, an applicative example is discussed, where the parameters of the perturbed gamma process, the remaining useful life distribution, and the mean remaining useful life of the degrading units are estimated from a set of noisy real degradation data.
Comparative evaluation of lignocellulosic biorefinery scenarios under a life‐cycle assessment approach
Authors: Bello Sara , Ríos Carmen , Feijoo Gumersindo , Moreira María Teresa 
Published: July 2018

AbstractThe exploitation of lignocellulosic materials with the aim of producing high value‐added products will potentially counteract concerns such as depletion of fossil resources or exponential population growth. The present study focuses on the assessment of an integrated process based on organosolv fractionation of residual beech woodchips, with the objective of implementing concepts such as circular economy or process integration. The life‐cycle assessment (LCA) methodology and the eco‐efficiency concept allow for a holistic analysis of sustainability in terms of the system's environmental approach.The results show that the pre‐treatment of biomass together with the energy demands of the process and enzyme production constitute the hotspots of the system. Analyzing the system by means of the ecoefficiency indicator demonstrates that broadening the multi‐production spectrum of a biorefinery provides better results when production volume and processing steps fit environmental and techno‐economical requirements. © 2018 Society of Chemical Industry and John Wiley & Sons, Ltd
A novel SETX gene mutation associated with Juvenile amyotrophic lateral sclerosis
Authors: Ma Limin , Shi Yingying , Chen Zhongcan , Li Shujian , Zhang Jiewen 
Published: July 2018

AbstractObjectsThis study aimed to report a novel point mutation associated with juvenile amyotrophic lateral sclerosis (JALS) in a Chinese Han family.MethodsDetailed clinical assessment was applied to two patients, including proband (II‐2) and his mother (I‐2). Next‐generation sequencing (NGS), also known as high‐throughput sequencing in whole exon sequence, was performed in the proband to reach the target region. Sanger sequencing was also used to detect DNA sequence variants of the proband and other three members of his family.ResultsThe proband (II‐2) and his mother (I‐2) were successfully diagnosed according to the clinical manifestations and physical examination. A novel point mutation c.1157T > C in the exon 10 of the SETX gene was identified in II‐2 and I‐2, resulting in a substitution of methionine (ATG) to threonine (ACG). However, we ultimately did not find the same variant in the other two normal members of his family in addition to 100 unrelated normal subjects.ConclusionWe presented a novel probably pathogenic missense mutation in exon 10 of SETX gene in a Chinese Han family with JALS.
High glucose condition limited the angiogenic/cardiogenic capacity of murine cardiac progenitor cells in in vitro and in vivo milieu
Authors: Khaksar Majid , Sayyari Mansour , Rezaie Jafar , Pouyafar Ayda , Montazersaheb Soheila , Rahbarghazi Reza 
Published: July 2018

Murine c‐kit+ cardiac cells were isolated and enriched by magnetic activated cell sorting technique. c‐kit+ cells viability and colony‐forming activity were evaluated by MTT and clonogenic assay. c‐kit+ cells were exposed to endothelial, pericyte, and cardiomyocyte induction media containing 30mM glucose for 7 days. We monitored the level of endothelial (VE‐cadherin, CD31, and vWF), pericyte (NG2, α‐SMA, and PDGFR‐β), and cardiomyocyte markers (cTnT) using flow cytometry, real‐time Polymerase Chain Reaction (PCR), and Enzyme‐Linked Immunosorbent Assay (ELISA) analyses. Ultrastructural changes were studied by transmission electron microscopy (TEM) in cells treated with 5‐Azacytidine and 30mM glucose. Matrigel plug assay was performed to determine the angio/cardiogenic property of c‐kit+ cells in a diabetic mouse model. Glucose of 30mM decreased c‐kit+ cells viability and clonogenicity (P < 0.05). The transdifferentiation capacity of c‐kit+ cells into the endothelial lineage, pericytes, and cardiomyocytes were reduced through the inhibition of related genes (P < 0.05). TEM analysis revealed cardiomyocyte differentiation rate in c‐kit+ cells coincided with an increased intracellular lipid accumulation and reduced number of mitochondria. Similar to in vitro condition, the angiogenic capacity of c‐kit+ cells was aborted in vivo indicated by reduced NG2, α‐SMA, CD31, and vWF levels. High glucose condition reduces the angio/cardiogenic capacity of cardiac c‐kit+ cells in vitro and in vivo.Significance of the studyHigh glucose condition seen in diabetes mellitus could affect the regenerative potential of cardiac tissue. The current experiment showed that the exposure of murine cardiac progenitor cells (CD117+ cells) to condition containing 30mM glucose could decrease the differentiation properties into endothelial cells, pericytes, and mature cardiomyocytes in vitro and in vivo. Our finding confirmed that the angiogenic/cardiogenic potential cardiac progenitor cells decrease under treatment with high glucose content as seen in the diabetic condition.
Nanoscopic Characterisation of Individual Endogenous Protein Aggregates in Human Neuronal Cells
Authors: Whiten Daniel R. , Zuo Yukun , Calo Laura , Choi Minee‐Liane , De Suman , Flagmeier Patrick , Wirthensohn David C. , Kundel Franziska , Ranasinghe Rohan T. , Sanchez Santiago E. , Athauda Dilan , Lee Steven F. , Dobson Christopher M. , Gandhi Sonia , Spillantini Maria‐Grazia , Klenerman David , Horrocks Mathew H. 
Published: July 2018

AbstractThe aberrant misfolding and subsequent conversion of monomeric protein into amyloid aggregates characterises many neurodegenerative disorders, including Parkinson's and Alzheimer's diseases. These aggregates are highly heterogeneous in structure, generally of low abundance and typically smaller than the diffraction limit of light (≈250 nm). To overcome the challenges these characteristics pose to the study of endogenous aggregates formed in cells, we have developed a method to characterise them at the nanometre scale without the need for a conjugated fluorophore. Using a combination of DNA PAINT and an amyloid‐specific aptamer, we demonstrate that this technique is able to detect and super‐resolve a range of aggregated species, including those formed by α‐synuclein and amyloid‐β. Additionally, this method enables endogenous protein aggregates within cells to be characterised. We found that neuronal cells derived from patients with Parkinson's disease contain a larger number of protein aggregates than those from healthy controls.
A comprehensive meta‐analysis of randomized controlled trials comparing drug‐eluting stents with bare‐metal stents in saphenous vein graft interventions
Authors: Shah Rahman , Jovin Ion S. , Latham Samuel B. , Hesterberg Kirstin , Heckle Mark R. , Rashid Abdul , Vetrovec George W. 
Published: July 2018

AbstractBackgroundSeveral large randomized controlled trials (RCTs) have proven the superiority of drug‐eluting stents (DESs) over bare‐metal stents (BMSs) for native coronary stenosis. However, RCTs comparing DESs with BMSs for SVG lesions have predominantly been small in size and have yielded conflicting results. Therefore, we conducted an updated comprehensive meta‐analysis of RCTs comparing DESs versus BMSs for SVG interventions using the largest sample size to date.MethodsScientific databases and websites were searched to find RCTs. Data from six RCTs involving 1,582 patients were included. Pooled risk ratios (RRs) were calculated using random‐effects models. The primary outcome of this meta‐analysis was target vessel revascularization (TVR). The secondary outcomes were major adverse cardiac events (MACEs), myocardial infarction (MI), stent thrombosis, all‐cause mortality, and cardiac mortality.ResultsData from six RCTs involving 1,582 patients were included. Saphenous vein graft interventions with DESs reduced TVR (RR, 0.52; 95% CI, 0.30–0.88; P = 0.017) and MACE rate (RR, 0.60; 95% CI, 0.42–0.87; P = 0.007) compared to BMSs. No difference between the stents were found in rates of MI (RR, 0.69; 95% CI, 0.43–1.10; P = 0.123), stent thrombosis (RR, 0.61; 95% CI, 0.27–1.41; P = 0.255), all‐cause mortality (RR, 1.13; 95% CI, 0.74–1.71; P = 0.554), or cardiac mortality.ConclusionFor SVG intervention, the MACE rate was lower for DESs compared to BMSs, driven primarily by decreased non‐MI‐related TVR. Rates of MI, all‐cause mortality, cardiac mortality, and stent thrombosis were not different between the stents.
Abdominal aortic aneurysm: screening and management
Authors: Giugliano G. , Gerardi D. , Annunziata M. , Trimarco B. , Esposito G. , Stabile E. 
Published: July 2018

AbstractAbdominal aortic aneurysm (AAA) is a frequent cause of death. Management of AAA includes different strategies: open surgery repair, endovascular repair and, for small AAA, medical therapy and careful follow‐up. Endovascular repair is a valid alternative to surgical repair, especially in patients whit high procedural risk.
Enhanced Lithium Storage Performance of Liquid‐Phase Exfoliated Graphene Supported WS2 Heterojunctions
Authors: Li Jianhui , Yan Haiting , Wei Wei , Li Xifei , Meng Lingjie 
Published: July 2018

AbstractTo improve the electrical conductivity and the cycling stability of layered transition metal disulfides (TMDs) as lithium‐ion battery anode, graphene@WS2 heterojunction composites are prepared by a facile one‐pot process, involving liquid‐phase exfoliation of graphene in N‐methylpyrrolidone, followed by in‐situ growth of WS2 in the graphene dispersion induced by a microwave‐assisted solvothermal method. The liquid‐phase exfoliated graphene (LEGr) with exceptional atomic structure not only serves as a substrate to couple WS2, but also serves as a mini‐current collector for the rapid transport of electrons within the anode. The LEGr‐based heterojunction WS2 composites exhibit improved lithium storage performance compared to the counterpart based on graphene oxide (GO), including higher lithium storage capacity, superior rate capability and outstanding cycling stability. This protocol enables processing and construction of advanced TMD heterojunction electrodes based on LEGr using an economical pathway.
Managerial Practices to Reduce Psychosocial Risk Exposure: A Competency‐Based Approach
Authors: St‐Hilaire France , Gilbert Marie‐Hélène , Lefebvre Rébecca 
Published: July 2018

AbstractThis paper aims to identify the behaviours a manager can use to reduce subordinates' exposure to psychosocial risks. Although leadership appears significant in the prediction of employees' mental health, recent studies tend to emphasize the importance of managers' behaviours without identifying them concretely. To create an inventory of specific management behaviours, two qualitative studies, involving 210 workers (in Quebec and in France) were conducted. Semi‐directed interviews were used with managers and subordinates to identify management behaviours associated with psychosocial risks. Results show a taxonomy of 92 behaviours grouped into 24 competencies and eight broad themes. The results define the role for managers in supporting the mental health of their subordinates more concretely. © 2018 ASAC. Published by John Wiley & Sons, Ltd.
Every word is valuable: Studied influence of negative words that spread during election period in social media
Authors: Hu Xiangyu , Li Lemin , Wu Tingmin , Ai Xiaoxiang , Gu Jie , Wen Sheng 
Published: July 2018

SummaryStudying the influence of negative words that spread during election period is an important work in social media. Most of current methods rely on sentiment analysis of tweets to determine the users' preference. However, sentiment analysis can only makes use of emotional words (ie, adverbs and adjectives), which only take 30 percent of the context in the Internet. According to our empirical analysis based on real datasets, the bias on word selection largely reduced the accuracy of the context in the Internet. In order to address this critical problem, we propose a new method that makes use of nouns with emotional context to determine the election preference of each user. By collecting the frequencies of words in context, we weigh the impact of each supportive/objective noun to strengthen the determination of users' preference. Final results will further be integrated to examine the effectiveness and efficiency of our proposed method. To indicate this idea, we collect and adopt real datasets (UK Prime Minister 2017 and US President Campaign 2016) in the experiments. All the experiment results suggested that our integrated method largely outperformed previous prediction methods. In particular, the prediction results were quite similar to the final results of the UK and US election. Meanwhile, for UK election, we found that the daily approval rate is closely related to the event happened everyday.
IP Geolocation based on identification routers and local delay distribution similarity
Authors: Zhao Fan , Luo Xiangyang , Gan Yong , Zu Shuodi , Cheng Qingfeng , Liu Fenlin 
Published: July 2018

SummaryIP geolocation is usually used in fog computing to avoid high latency and discriminate malicious requests by judging the location of users. Existing delay measurement‐based IP geolocation approaches are not applicable to the network that has hierarchical topology and weak connectivity, and the precision of the classical Street‐Level Geolocation (SLG) method will decrease dramatically when the common routers are anonymous. In this paper, an IP geolocation method based on identification routers and local delay distribution similarity is proposed. The target IP's location at city‐level is firstly derived by matching its routing path with the identification routers that only forward packets to the same city. After that, the target IP's local delay between the nearest common router and the target IP is gathered, and the landmarks' are obtained at the same time. Finally, the location of the landmark that has the most similar local delay distribution with the target IP is taken as the geolocation result. Theoretical analysis and experimental results show that the proposed method can derive reliably geolocation results at city‐level for the target IP in the network with hierarchical architecture. Moreover, the geolocation accuracy of classical SLG method is improved obviously when the common routers are anonymous.
@PT: Unobtrusive parallel programming with Java annotations
Authors: Mehrabi Mostafa , Giacaman Nasser , Sinnen Oliver 
Published: July 2018

SummaryParallel computing techniques have been supported by programming languages in two major ways: either library‐based APIs or extended language constructs. Library‐based features are portable and offer fine‐grained control on parallelization details. However, they rely on individual programmer skills; thus, they may lead to inconsistent implementations and considerable code restructurings. On the contrary, language constructs promote environments that largely conceal the details of parallel programming techniques. However, they normally reduce programmer control over the granularity of parallelization and impose additional development concepts and compilation requirements that may sacrifice ease of use and portability. Therefore, approaches that balance between programmer control on parallelization details, intuitiveness of concepts, and portability can gain priority over other paradigms. In this paper, we discuss @PT (Annotation Parallel Task), a parallel computing framework that proposes Java annotations, standard Java components, as its language constructs. @PT takes an object‐oriented approach on efficient execution and management of asynchronous tasks, with a special focus on GUI‐responsive applications. This paper presents the annotation‐based programming interface of the framework and its fundamental parallelization concepts. Furthermore, it studies the usability and performance of @PT by comparisons with other Java parallelization approaches in a set of standard benchmarks. The observations suggest that @PT maintains a simple programming interface, whereas it performs efficiently in different parallel computing domains.
Relieve the congestion by shuttle bus in rush hours using aggregation clustering algorithm on group travel pattern
Authors: Li Zejun , Wang Jingjing , Shi Zhongheng , Zou Yan 
Published: July 2018

SummaryThe travel demand is of vital importance for transport planning. Especially in rush hours, the commuters aggregate in certain areas, resulting in traffic jams, which hinder the normal operation of the urban traffic. The key issue to solve the problem is to find out the demand of the passengers and accordingly arrange the transit resource more reasonably. This paper proposes a framework that provides a shuttle bus solution to satisfy the travel demand of the gathered passengers in rush hours according to their travel history obtained by smartcard data. Firstly, an aggregation algorithm basing on Clustering by fast search and find of density peaks (CFSFDP) is presented to highlight the area, which consists of adjacent bus stations with high passenger flow, addressed as spark region. Secondly, group travel pattern (GTP) is put forward to describe the travel trend on a city‐wide scale, which reveals the common travel demand of the commuters. Lastly, an algorithm named Variable Visibility Path Optimization Algorithm based on ant colony algorithm is proposed to make schedule solution of shuttle bus according to GTP basing on the historical running information of the bus. The experiment basing on the bus passenger flow data collected by AFCS in Aug 2014 from Beijing shows that our method helps to ease the traffic aggregation effectively and practically and offer reference to the bus scheduling issue.