bluuebunny/crossref_metadata_2025_split huggingface dataset:
Net overboard: Comparing marine eDNA sampling methodologies at sea to unravel marine biodiversity
Authors: von Ammon Ulla , Pochon Xavier , Casanovas Paula , Trochel Branwen , Zirngibl Martin , Thomas Austen , Witting Jan , Joyce Paul , Zaiko Anastasija 
Published: October 2022

AbstractEnvironmental DNA (eDNA) analyses are powerful for describing marine biodiversity but must be optimized for their effective use in routine monitoring. To maximize eDNA detection probabilities of sparsely distributed populations, water samples are usually concentrated from larger volumes and filtered using fine‐pore membranes, often a significant cost–time bottleneck in the workflow. This study aimed to streamline eDNA sampling by investigating plankton net versus bucket sampling, direct versus sequential filtration including self‐preserving filters. Biodiversity was assessed using metabarcoding of the small ribosomal subunit (18S rRNA) and mitochondrial cytochrome c oxidase I (COI) genes. Multispecies detection probabilities were estimated for each workflow using a probabilistic occupancy modelling approach. Significant workflow‐related differences in biodiversity metrics were reported. Highest amplicon sequence variant (ASV) richness was attained by the bucket sampling combined with self‐preserving filters, comprising a large portion of microplankton. Less diversity but more metazoan taxa were captured in the net samples combined with 5 μm pore size filters. Prefiltered 1.2 μm samples yielded few or no unique ASVs. The highest average (~32%) metazoan detection probabilities in the 5 μm pore size net samples confirmed the effectiveness of preconcentration plankton for biodiversity screening. These results contribute to streamlining eDNA sampling protocols for uptake and implementation in marine biodiversity research and surveillance.
Hepatic CYP2B10 is highly induced by binge ethanol and contributes to acute‐on‐chronic alcohol‐induced liver injury
Authors: Mackowiak Bryan , Xu Mingjiang , Lin Yuhong , Guan Yukun , Seo Wonhyo , Ren Ruixue , Feng Dechun , Jones Jace W. , Wang Hongbing , Gao Bin 
Published: October 2022

AbstractBackgroundThe chronic‐plus‐binge model of ethanol consumption, where chronically (8‐week) ethanol‐fed mice are gavaged a single dose of ethanol (E8G1), is known to induce steatohepatitis in mice. However, how chronically ethanol‐fed mice respond to multiple binges of ethanol remains unknown.MethodsWe extended the E8G1 model to three gavages of ethanol (E8G3) spaced 24 h apart, sacrificed each group 9 h after the final gavage, analyzed liver injury, and examined gene expression changes using microarray analyses in each group to identify mechanisms contributing to liver responses to binge ethanol.ResultsSurprisingly, E8G3 treatment induced lower levels of liver injury, steatosis, inflammation, and fibrosis as compared to mice after E8G1 treatment. Microarray analyses identified several pathways that may contribute to the reduced liver injury after E8G3 treatment compared to E8G1 treatment. The gene encoding cytochrome P450 2B10 (Cyp2b10) was one of the top upregulated genes in the E8G1 group and was further upregulated in the E8G3 group, but only moderately induced after chronic ethanol consumption, as confirmed by RT‐qPCR and western blot analyses. Genetic disruption of Cyp2b10 worsened liver injury in E8G1 and E8G3 mice with higher blood ethanol levels compared to wild‐type control mice, while in vitro experiments revealed that CYP2b10 did not directly promote ethanol metabolism. Metabolomic analyses revealed significant differences in hepatic metabolites from E8G1‐treated Cyp2b10 knockout and WT mice, and these metabolic alterations may contribute to the reduced liver injury in Cyp2b10 knockout mice.ConclusionHepatic Cyp2b10 expression is highly induced after ethanol binge, and such upregulation reduces acute‐on‐chronic ethanol‐induced liver injury via the indirect modification of ethanol metabolism.
Quality of rural colonoscopy outperforms key performance indicators in a multi‐centre prospective clinical study
Authors: Watson Matthew M. ,   South Australian Rural Surgical Research Group, Watson Dianne C. , Maddern Guy J. , Wichmann Matthias W. 
Published: October 2022

AbstractBackgroundHigh‐quality colonoscopy is vital for the detection and removal of adenomatous polyps and early diagnosis of colorectal cancer. The aim of this study was to prospectively assess the quality and safety of colonoscopies performed in the non‐metropolitan setting. Key performance indicators measured include completion, polypectomy and adenoma/serrated polyp detection rates, rate of adequate bowel preparation, withdrawal time and complications.MethodsProspective data collection for all colonoscopies performed over a one‐year period in seven non‐metropolitan South Australian hospitals. Two general surgeons and twelve registrars working in rural South Australian hospitals (Mount Gambier, Millicent, Naracoorte, Port Lincoln, Port Augusta, Whyalla and Berri) contributed to this study.ResultsIn total 3497 colonoscopies were analysed. Complete colonoscopy was achieved in 96.1%. The adenoma detection and serrated polyp detection rates were 25.6% and 5.4% respectively. Cancer was detected in 71 patients (2%). Colonic perforation occurred in five patients (0.1%). There was no procedure‐related mortality.ConclusionsColonoscopy performed in the non‐metropolitan Australian setting outperforms key performance indicators set by national institutions. This is the first Australian prospective multi‐centre study investigating the quality and safety of endoscopic procedures.
Spatial Dependence Modeling of Latent Susceptibility and Time to Joint Damage in Psoriatic Arthritis
Authors: Mao Fangya , Cook Richard J. 
Published: October 2022

AbstractImportant scientific insights into chronic diseases affecting several organ systems can be gained from modeling spatial dependence of sites experiencing damage progression. We describe models and methods for studying spatial dependence of joint damage in psoriatic arthritis (PsA). Since a large number of joints may remain unaffected even among individuals with a long disease history, spatial dependence is first modeled in latent joint-specific indicators of susceptibility. Among susceptible joints, a Gaussian copula is adopted for dependence modeling of times to damage. Likelihood and composite likelihoods are developed for settings, where individuals are under intermittent observation and progression times are subject to type K interval censoring. Two-stage estimation procedures help mitigate the computational burden arising when a large number of processes (i.e., joints) are under consideration. Simulation studies confirm that the proposed methods provide valid inference, and an application to the motivating data from the University of Toronto Psoriatic Arthritis Clinic yields important insights which can help physicians distinguish PsA from arthritic conditions with different dependence patterns.
Intelligent short term traffic forecasting using deep learning models with Bayesian contextual hyperband tuning
Authors: Swaminatha Rao Lakshmi Priya , Jaganathan Suresh 
Published: October 2022

AbstractAn intelligent transport system (ITS) is fully valuable only if it can dynamically and aptly integrate all the latest cutting‐edge technologies. An ITS focuses on providing services like promptly offering real‐time road traffic information to interested parties, finding ways to reduce the average waiting time and offer secure and reliable services for commuters using past statistics. Short‐term traffic prediction is one such area in which the research community has focused in the past decade. Existing models developed for prediction has scope to improve in terms of accuracy and training time. There is a necessity to develop a best‐performing model that is computationally affluent to train with the optimal hyperparameter configuration as input which leads to improved performance. This article proposes a model that captures the traffic flow trend present in the past data to predict the flow for a future time interval. This model is an amalgamation of seasonal global trend (SGT) model and long short‐term memory (LSTM) model with attention mechanism. A novel hyperparameter tuning algorithm is also proposed which is based on multi‐armed bandit strategy with context, incorporating the right trade‐off between exploitation and exploration of the hyperparameter space using successive halving. Experimental results conducted proves that our forecast model in combination with the proposed hyperparameter tuning algorithm outperforms the existing models like SGT, LSTM models in terms of accuracy and time.
Role of glycosphingolipid SSEA‐3 and FGF2 in the stemness and lineage commitment of multilineage differentiating stress enduring (MUSE) cells
Authors: Aprile Domenico , Alessio Nicola , Squillaro Tiziana , Di Bernardo Giovanni , Peluso Gianfranco , Galderisi Umberto 
Published: October 2022

AbstractObjectivesMultilineage differentiating Stress Enduring (MUSE) cells are endogenous, stress‐resistant stem cells, expressing pluripotency master genes and able to differentiate in cells of the three embryonic sheets. Stage‐Specific Embryonic Antigen 3 (SSEA‐3), a glycosphingolipid (GSL), is the marker for identifying MUSE cells and is used to isolate this population from mesenchymal stromal cells. GSLs modulate signal transduction by interacting with plasma membrane components. The growth factor FGF2, important for MUSE cells biology, may interact with GSLs. Specific cell surface markers represent an invaluable tool for stem cell isolation. Nonetheless their role, if any, in stem cell biology is poorly investigated. Functions of stem cells, however, depend on niche external cues, which reach cells through surface markers. We addressed the role of SSEA‐3 in MUSE cell behaviour, trying to define whether SSEA‐3 is just a marker or if it plays a functional role in this cell population by determining if it has any relationship with FGF2 activity.ResultsWe evidenced how the SSEA‐3 and FGF2 cooperation affected the self‐renewal and clonogenic capacity of MUSE cells. The block of SSEA‐3 significantly reduced the multilineage potential of MUSE cells with production of nullipotent clones.ConclusionsWe contributed to dissecting the mechanisms underlying MUSE cell properties for establishing successful stem‐cell‐based therapies and the promotion of MUSE cells as a tool for the in vitro disease model.
Return migration, rural household investment decision, and poverty alleviation: Evidence from rural Guangdong, China
Authors: Wu Xinhui , Chen Luan , Ma Li , Cai Liru , Li Xun 
Published: October 2022

AbstractReturn migration has been considered advantageous to the productivity of labor and the economic development of origin regions and countries. However, how and why return migrants make their investment decisions and how such processes contribute to poverty alleviation remains unclear. This study evaluated how migration experience influences rural families' choices for productive investments and the underlying mechanism of village poverty alleviation. The result indicates that, when all are given the same monetary budgets, return migrants are more inclined to invest in single agricultural‐related subjects rather than multiple subjects. A concentrated investment implies the investor's intention of expanding the production scale, which can further lead to a more organized, professional agricultural production that can be considered beneficial for community poverty alleviation. Moreover, different approaches of human capital accumulation led to varied capacity growth, among which migration experience effectively enhances the non‐cognitive ability of return migrants. Based on these findings, we suggest that more returnee‐preferential policies, supporting production and organization services should be established to promote agricultural entrepreneurship among the returning groups in poor rural areas.
Synthesis of cerium aluminate by the mechanical activation of aluminum and ceria precursors and firing in controlled atmospheres
Authors: Pinto Rui G. , Frade Jorge R. , Yaremchenko Aleksey A. 
Published: October 2022

AbstractSingle‐phase cerium aluminate was synthesized from mixtures of ceria and metallic aluminum by milling and firing under controlled conditions in reducing (10%H2 + 90%N2) or inert atmospheres (N2 or CO2). Firing in an inert atmosphere (CO2) did not yield conversion to cerium aluminate, and conversion was also low after firing in reducing conditions (10%H2 + 90%N2) and only improved slightly on changing from powder mixtures with coarse Al powder (15 µm) to mixtures with submicron Al (0.77 µm). High‐energy milling promoted reactivity by the combined effects of improved homogeneity, decreasing grain size of the Al precursor, increase in lattice strain and decrease in crystallite size down to 40–50 nm. Extensive oxidation of the metallic Al precursor after long‐term milling prevented complete conversion to cerium aluminate even after firing under reducing conditions at temperatures up to 1400°C. Thermodynamic modeling of the Al–Ce–O system provided interpretation for differences between firing in reducing and inert atmospheres. Controlled milling time hinders oxidation of Al to the poorly reactive α‐Al2O3 polymorph. This was supported by thermogravimetry after controlled milling and yielded phase pure CeAlO3 at T ≥ 1200°C. The high conversion was achieved even by firing at 1100°C under an inert atmosphere.
Spatially explicit phylogeographical reconstruction sheds light on the history of the forest cover in the Congo Basin
Authors: Matvijev Katarina , Dellicour Simon , Kaymak Esra , Hardy Olivier J. 
Published: October 2022

AbstractAimThe impact of Pleistocene climatic oscillations on the biodiversity of African tropical rain forests remains poorly understood, and the Congo Basin is particularly understudied. We aim to elucidate how Pleistocene climatic oscillations shaped lowland tropical rain forests by investigating the intraspecific diversity and evolutionary history of a widespread tree species.LocationGuineo‐Congolian rain forest, Central Africa.TaxonStaudtia kamerunensis Warb. (Myristicaceae).MethodsWe used genome skimming combined with maximum likelihood and Bayesian inference to infer the plastid phylogeny. We estimated the time of speciation and differentiation, genetic diversity, and we employed a continuous phylogeographical approach to infer the dispersal history of its plastid lineages.ResultsWe sequenced an average of 5,827,783 reads per sample, and the reconstructed reference plastome had a mean depth of 73.3. We identified five plastid lineages that diverged during the Early or Middle Pleistocene and are parapatric, suggesting past population fragmentation. Four lineages are endemic to Lower Guinea, and one spans the Congo Basin. We found contrasting patterns of expansion in the two regions, with a rapid and recent range expansion of the Congolian lineage in the last 200,000 years, while the spread of the Lower Guinean lineages was substantially slower.Main conclusionThe contrasting demographic histories between eastern and western lineages, associated with contrasted levels of plant species richness and rates of endemism, suggest that forest cover was more stable in Lower Guinea during the Late Pleistocene than in Congolia, where the biodiversity might have been eroded before the forest re‐expanded in the Congo basin. This study illustrates how a continuous phylogeographical inference approach, mostly applied so far for inferring the spread of fast‐evolving pathogens over months or years, can provide new insights to reconstruct the dispersal history of tropical tree species over thousands or millions of years.
Metabolic signatures of β‐cell destruction in type 1 diabetes
Authors: Noso Shinsuke , Babaya Naru , Hiromine Yoshihisa , Taketomo Yasunori , Niwano Fumimaru , Yoshida Sawa , Ikegami Hiroshi 
Published: October 2022

ABSTRACTAims/IntroductionIn the development of type 1 diabetes, metabolites are significantly altered and might be involved in β‐cell destruction and protection. We aimed to identify new metabolic markers of β‐cell destruction in type 1 diabetes patients.Materials and MethodsA total of 33 participants were recruited for this cross‐sectional observational study: 23 with type 1 diabetes, seven with type 2 diabetes and three healthy controls. Those with type 1 diabetes were further subdivided into three groups: new‐onset, microsecretors and complete lack of endogenous insulin in type 1 diabetes.ResultsMetabolomic analysis identified a total of 737 peaks, and partial least square analysis was successful in discriminating between the three groups of type 1 diabetes. Among the factor loadings discriminating type 1 diabetes, 3‐phenylpropionic acid (r = 0.80, P = 4.7E−6) and hypotaurine (r = −0.484, P = 1.9E−2) strongly contributed to identifying new‐onset type 1 diabetes, and 5‐methylcytosine to identifying complete‐lack type 1 diabetes (r = 0.586, P = 6.5E−3). Reporter operating characteristics analysis, including all type 1 diabetes, type 2 diabetes and healthy controls, showed that high 3‐phenylpropionic acid (Pc <0.0001) and low hypotaurine (Pc <0.0001) were useful for identifying new‐onset type 1 diabetes, and high 5‐methylcytosine (Pc = 0.002) for the complete‐lack type 1 diabetes.ConclusionsIn the present study, metabolic signatures were shown to be useful in identifying type 1 diabetes at different clinical stages, and 3‐phenylpropionic acid and hypotaurine are novel biomarkers for identifying new‐onset type 1 diabetes, suggesting the involvement of the gut bacterial environment, anti‐oxidant mechanisms through the hypotaurine‐taurine pathway and methylated deoxyribonucleic acid fragmentation in the process of β‐cell destruction.
Dietary assessment methods used in adult digital weight loss interventions: A systematic literature review
Authors: Shoneye Charlene L. , Kwasnicka Dominika , Mullan Barbara , Pollard Christina M. , Boushey Carol J. , Kerr Deborah A. 
Published: October 2022

AbstractThe effectiveness of the tailored feedback in digital interventions may be limited by the quality of the dietary assessment (DA) upon which it is based. The present study systematically reviewed studies reporting the protocols for DA methods used to inform tailored feedback in digital weight loss interventions. The search included: PubMed—National Library of Medicine database, MEDLINE, Cochrane Library of Systematic Reviews, Web of Science and ProQuest. Search terms were related to five groups: dietary assessment, weight loss, clinical trials, technology and tailoring. Thirteen articles were eligible for inclusion. The most common DA method was a digital dietary record linked to a food database that provided instant feedback on daily energy intake. Only four studies provided feedback on overall diet quality and intake of fruit, vegetables and fibre. Dietary feedback was provided using text messages, email, mobile applications and online intervention websites. Most digital dietary feedback focused on reducing energy intake without providing feedback to enhance diet quality. This review highlighted the heterogeneity in DA methods used in tailored weight loss interventions, which may account for the range of outcome results reported. Future interventions should publish the protocols describing how dietary data was collected and used to inform dietary feedback.
PuHox52 promotes coordinated uptake of nitrate, phosphate, and iron under nitrogen deficiency in Populus ussuriensis
Authors: Wei Ming , Zhang Mengqiu , Sun Jiali , Zhao Ying , Pak Solme , Ma Miaomiao , Chen Yingxi , Lu Han , Yang Jingli , Wei Hairong , Li Yuhua , Li Chenghao 
Published: October 2022

ABSTRACTIt is of great importance to better understand how trees regulate nitrogen (N) uptake under N deficiency conditions which severely challenge afforestation practices, yet the underlying molecular mechanisms have not been well elucidated. Here, we functionally characterized PuHox52, a Populus ussuriensis HD‐ZIP transcription factor, whose overexpression greatly enhanced nutrient uptake and plant growth under N deficiency. We first conducted an RNA sequencing experiment to obtain root transcriptome using PuHox52‐overexpression lines of P. ussuriensis under low N treatment. We then performed multiple genetic and phenotypic analyses to identify key target genes of PuHox52 and validated how they acted against N deficiency under PuHox52 regulation. PuHox52 was specifically induced in roots by N deficiency, and overexpression of PuHox52 promoted N uptake, plant growth, and root development. We demonstrated that several nitrate‐responsive genes (PuNRT1.1, PuNRT2.4, PuCLC‐b, PuNIA2, PuNIR1, and PuNLP1), phosphate‐responsive genes (PuPHL1A and PuPHL1B), and an iron transporter gene (PuIRT1) were substantiated to be direct targets of PuHox52. Among them, PuNRT1.1, PuPHL1A/B, and PuIRT1 were upregulated to relatively higher levels during PuHox52‐mediated responses against N deficiency in PuHox52‐overexpression lines compared to WT. Our study revealed a novel regulatory mechanism underlying root adaption to N deficiency where PuHox52 modulated a coordinated uptake of nitrate, phosphate, and iron through ‘PuHox52‐PuNRT1.1’, ‘PuHox52‐PuPHL1A/PuPHL1B’, and ‘PuHox52‐PuIRT1’ regulatory relationships in poplar roots.
Wearables, sensors, and smart devices for the detection and monitoring of chemotherapy‐induced peripheral neurotoxicity: Systematic review and directions for future research
Authors: Mantovani Elisa , Demrozi Florenc , Hertz Daniel L. , Turetta Cristian , Ferro Omar , Argyriou Andreas A. , Pravadelli Graziano , Tamburin Stefano 
Published: October 2022

AbstractChemotherapy‐induced peripheral neurotoxicity (CIPN) diagnosis is largely based on patient reported outcomes. Wearables, sensors, and smart devices may potentially provide early detection and monitoring of CIPN. We systematically reviewed data on wearables, sensors, and smart devices to detect and/or monitor signs and symptoms of CIPN. Moreover, we provide directions and recommendations for future studies. A literature search using PubMed/MEDLINE, Web of Science, IEEE Xplore, and CINHAL databases was conducted from database inception until March 2021. The search was further updated in July 2022 to ensure currency of results. A total of 1885 records were title‐abstract screened, 33 full texts were assessed, and 16 were included. The retrieved papers were heterogeneous in terms of study design, sample size, CIPN severity, chemotherapy agents, type of wearable/sensor/device applied, parameters of interest, and purpose. Data are promising and provide preliminary evidence on wearables, sensors, and smart devices for CIPN detection and monitoring. There are several issues and knowledge gaps that should be addressed. We propose a framework for future studies.