bluuebunny/crossref_metadata_2025_split huggingface dataset:
Whole genome sequencing of hepatitis B virus using tiled amplicon (HEPTILE) and probe based enrichment on Illumina and Nanopore platforms
Authors: Lumley Sheila F. , Kent Chris , Jennings Daisy , Chai Haiting , Airey George , Waddilove Elizabeth , Delphin Marion , Trebes Amy , McNaughton Anna L. , Mohammed Khadija Said , Wilkinson Sam A. J. , Wu Yanxia , MacIntyre-Cockett George , Kimono Beatrice , Mbonye Kwizera Moses , Ojambo Kevin , Maponga Tongai G. , Tan Cedric C. S. , de Lara Catherine , Martin Jacqueline , Campbell James , Van Schalkwyk Marije , Goedhals Dominique , Newton Robert , Barnes Eleanor , Loman Nicholas J. , Piazza Paolo , Quick Joshua , Ansari M. Azim , Matthews Philippa C. 
Published: February 2025

Abstract
Hepatitis B virus (HBV) whole genome sequencing (WGS) is currently limited as the DNA viral loads (VL) of many clinical samples are below the threshold required to generate full genomes using current sequencing methods. We developed two pan-genotypic viral enrichment methods, using probe-based capture and tiled amplicon PCR (HEP-TILE) for HBV WGS. We demonstrate using mock samples that both enrichment methods are pan-genotypic (genotypes A-J). Using clinical samples, we demonstrate that HEP-TILE amplification successfully amplifies full genomes at the lowest HBV VL tested (30 IU/ml), and the PCR products can be sequenced using both Nanopore and Illumina platforms. Probe-based capture with Illumina sequencing required VL > 300,000 IU/ml to generate full length HBV genomes. The capture-Illumina and HEP-TILE-Nanopore pipelines had consensus sequencing accuracy of 100% in mock samples with known DNA sequences. Together, these protocols will facilitate the generation of HBV sequence data, enabling a more accurate and representative picture of HBV molecular epidemiology, cast light on persistence and pathogenesis, and enhance understanding of the outcomes of infection and its treatment.
Towards a reduced order model of the periodontal ligament
Authors: Kaiser Albert Heinrich , Bourauel Christoph 
Published: February 2025

Abstract
Based on previous in vitro experiments with specimens of porcine mandibular premolars, the simulation of the periodontal ligament response to force in the initial phase of orthodontic tooth movement is described. The initial response of the periodontal ligament can be simulated with a poro-visco-hyperelastic model. For the ground substance a hyperelastic constitutive model for compressible material was used. To facilitate parameter identification a reduced order model and an optimal interpolation metamodel were used. Parameters for the constitutive model identified herein are in good agreement with published values. They indicate a high initial compressibility of the periodontal ligament, which may be attributed to the compressibility of the vascular system within the periodontal ligament. Dimensionless analysis suggests that poroelastic behaviour will gradually cease when viscoelastic relaxation progresses. This was observed as well in the simulation and confirmed by varying the poroelastic model parameters within physically justified limits. Alveolar bone permeability has a significant influence on the flow of pore fluid in the periodontium due to poroelasticity. It is argued that in vivo alveolar bone perforation may adapt locally to optimise for the predominant load situation. A strain rate hardening effect was observed, which is not covered by the simulation, and may be the subject of further investigations.
Losing half the crown hardly affects the stem growth of a xeric southern beech population
Authors: Reiter Ernesto J. , Weigel Robert , Leuschner Christoph 
Published: February 2025

Abstract
Globally, forest ecosystems face increasing climate warming-driven stress. Crown dieback is commonly used as an indicator of declining tree vitality and is closely related to reduced stem radial growth rates. In a xeric northern Patagonian Nothofagus pumilio population, in which the majority of trees possess damaged crowns, we explored the relationship between percent crown damage and growth trends (basal area increment, BAI), interannual growth variability, and the climate sensitivity of growth. The majority of trees show stable BAI since about 1940 despite 5 to > 50% crown damage, which ranges from dieback of small branches to the presence of decades-old snagged branches. A minority of trees with more severe crown damage (> 50 to 95%) show continued growth decline during the last 80 years, but have not yet died. Crown damage was the best predictor of the BAI trend which turned negative at about 50% damage. Stronger damaged trees showed a higher growth sensitivity to summer heat and drought. Thus, the health of this population is apparently not threatened by crown damage up to 50%. Rather, trees might profit from the reduced foliage area, allowing them to stabilize their water relations and maintain stable but fairly slow growth in a drying climate.
Recent advances in retention and permeation of CO2 gas using MXene based membranes
Authors: Ibrahim Yasseen , Zagho Moustafa M. , ElAlfy Amr , Karim Alamgir , Elzatahry Ahmed A. 
Published: February 2025

Abstract
Human-induced emissions demand effective CO2 separation technologies. Energy-efficient membranes, like MXenes with 2D structures, enhance selective gas permeation. This review highlights advancements in improving CO2 retention of MXene membranes, including self-standing, ion-intercalation, and modification techniques. It also examines MXenes in mixed matrix membranes to optimize CO2 permeation. Strategies addressing the selectivity-permeability trade-off, humidified MXenes, and hybrid fillers are discussed, along with challenges and future directions in MXene-based CO2 separation technologies.
Heterogeneous thermal tolerance of dominant Andean montane tree species
Authors: Restrepo Zorayda , González-Caro Sebastián , Hartley Iain P. , Villegas Juan Camilo , Meir Patrick , Sanchez Adriana , Ruiz Carrascal Daniel , Mercado Lina M. 
Published: February 2025

Abstract
In tropical montane forests, the Earth’s largest biodiversity hotspots, there is increasing evidence that climate warming is resulting in montane species being displaced by their lowland counterparts. However, the drivers of these changes are poorly understood. Across a large elevation gradient in the Colombian Andes, we established three experimental plantations of 15 dominant tree species including both naturally occurring montane and lowland species and measured their survival and growth. Here we show that 55% of the studied montane species maintained growth at their survival’s hottest temperature with the remaining 45% being intolerant to such levels of warming, declining their growth, while lowland species benefited strongly from the warmest temperatures. Our findings suggest that the direct negative effects of warming and increased competition of montane species with lowland species are promoting increased homogeneity in community composition, resulting in reduced biodiversity.
AMPK activation by glycogen expenditure primes the exit of naïve pluripotency
Authors: Kim Seong-Min , Kwon Eun-Ji , Oh Ji-Young , Kim Han Sun , Park Sunghyouk , Jang Goo , Tae Do Jeong , Kim Keun-Tae , Cha Hyuk-Jin 
Published: February 2025

Abstract
Embryonic and epiblast stem cells in pre-and post-implantation embryos are characterized by their naïve and primed states, respectively which represent distinct phases of pluripotency. Thus, cellular transition from naïve-to-primed pluripotency recapitulates a drastic metabolic and cellular remodeling after implantation to adapt to changes in extracellular conditions. Here, we found that inhibition of AMPK occurs during naïve transition with two conventional inhibitors of the MEK1 and GSK3β pathways. The accumulation of glycogen due to iGSK3β is responsible for AMPK inhibition, which accounts for high de novo fatty acid synthesis in naïve (ESCs). The knockout of glycogen synthase 1 in naïve ESCs; GKO, resulting in a drastic glycogen loss, leads to a robust AMPK activation and lowers the level of fatty acids. GKO loses cellular characteristics of naïve ESCs and rapidly transitioned to a primed state. The characteristics of GKO are restored by the simultaneous AMPK KO. These findings suggest that high glycogen in epiblast within pre-implantation blastocyst may act as a signaling molecule for timely activation of AMPK, thus ultimately contributing to transition to post-implantation stage epiblast.
Titanium implants trigger extra-periodontal T cell-mediated immunity
Authors: Wang Li-Tzu , Juang Sin-Ei , Lan Chi-Lun , Chang Hsuan-Hao , He Ai-Chia , Chen Wei-An , Huang Yu-Wen , Van Dyke Thomas E. , Chen Yi-Wen , Ma Kevin Sheng-Kai 
Published: February 2025

The role of T cells in peri-implant inflammation was evidenced by transcriptomic profiles of the epithelium, changes in T cell immunity, and in vivo studies, enhancing our understanding of the inflammatory complications in implant surgeries.
A RIS‐Based Single‐Channel Direction‐of‐Arrival Estimation Method for Communication Signals
Authors: Ma Keming , Li Qinlong , Huang Kaizhi , Yi Ming , Jin Liang 
Published: February 2025

ABSTRACTThe development of reconfigurable intelligent surface (RIS) makes direction‐of‐arrival (DOA) estimation possible for single‐antenna receivers. However, non‐ideal situations such as spectral aliasing occur when facing communication signals using orthogonal frequency division multiplexing modulation. This paper proposes a RIS‐based single‐channel DOA estimation method for communication signals. Specifically, by extending the time intervals to dynamically reduce the RIS state change rate, a real‐time DOA estimation is achieved while mitigating the impact of non‐ideal spectral shifts on communication. Then, based on the compressed sensing and mutual incoherence property, the method exploits the sparse property of the signal in space to reduce the estimation time while improving the estimation accuracy. Simulation results show an reduction in computation time for the proposed method compared to the traditional CVX tool. Additionally, the estimation accuracy is as low as . To verify the practicality and robustness, we develop a prototype system and conduct extensive experiments. The results are consistent with our theoretical analysis, and the method proposed in this paper can realize single‐path DOA estimation with an accuracy of less than within . More excitingly, the presented experimental platform achieves DOA estimation for two coherent paths.
Cigarette defect detection based on independent feature extraction constraints
Authors: Su Zhendong , Li Jiang , Huang Guoyun , Tang Zhanheng , Qin Honghan , Huang Liren , Zhou Jian , Liu Benxue 
Published: February 2025

AbstractThe detection of appearance defects in cigarettes is crucial in the field of industrial defect detection. Most existing detection methods achieve defect detection by utilizing deep learning to learn feature representations of various types of defects. However, due to the complexity and randomness of the production and processing process, the differences between defects in different cigarettes are not significant, which greatly affects the detection performance. Therefore, to address this issue, this article proposes a cigarette defect detection method based on independent feature extraction constraints, called IFEC. The core idea of this method is to extract independent features of different defect categories to increase the differences between features of different categories, enhance the distinguishability of features, and achieve accurate cigarette defect detection. In IFEC, an independence feature extraction constraint module is proposed that constrains the network to extract highly independent defect features of different categories through feature decoupling and feature decorrelation. The sufficient experimental results indicate that the proposed IFEC has superior detection performance compared to existing detection methods.
Design and Implementation of Linear and Nonlinear Feedforward Controllers for High‐Performance Power Factor Corrected Circuits
Authors: Liu Tian‐Hua , Song Yu‐Cheng , Chen Woei‐Luen 
Published: February 2025

ABSTRACTThis paper investigates the design and implementation of a linear feedforward controller, which creates the compensation duty cycle near zero‐voltage crossing points for the power factor corrected (PFC) circuits, and a nonlinear feedforward controller, which is developed by using a linearization model of the high‐performance PFC circuits. These two control approaches are proposed, compared and analysed. To address the discontinuous current near the zero‐crossing point, two extra feedforward compensators with specific parameters are designed to refine the duty cycles of the switching devices. Experimental results and analytical results show that the proposed methods can provide a wider frequency range and flatter gain for the closed‐loop PFC system. Furthermore, the proposed control methods have quicker recovery times and smaller voltage drops at the direct current (DC) output voltage than the traditional control method when the PFC is operated at a repetitive switching resistance load. Control algorithms were implemented and tested on a digital signal processor‐based PFC circuit, which is a 500 W prototype with a single‐phase alternating current input of 110 V and a DC output of 300 V to validate the feasibility and effectiveness of the proposed methods. Experimental results demonstrate that these feedforward control methods are superior to traditional proportional integral controllers, offering an improved input power factor, reduced harmonic currents, better performance under a repetitive switching resistance load and more straightforward implementation.
Optimal contract selection considering the entry of a new supplier
Authors: Yan Hui , Dai Xiaobei , Shangguan Lili , Ye Fei 
Published: February 2025

Cooperation between the upstream and downstream in the supply chain requires the signing of contracts, which include contract length, pricing, quantity, and so forth. This paper studies the contract selection strategies for an incumbent supplier, a potential supplier and a retailer. We develop a two-stage model to illustrate the situation in which the incumbent supplier collaborates with the retailer first, followed by the potential supplier. And we obtain Nash equilibrium solutions for six cases. Only the incumbent supplier and retailer are involved in the first period, the potential supplier enters in the second period and sells substitutable product. Three mathematical models, i.e., the long-term wholesale model, short-term wholesale model, and an agency model, are formulated to appraise the benefits. We find that the long-term wholesale contract reduces double marginalization, resulting in a lower wholesale price. The greater the substitutability between two kinds of products, the more likely the incumbent supplier is to prefer the long-term wholesale contract. Additionally, increased collaboration with additional suppliers may not always yield benefits for the retailer. The retailer exhibits more proactive behavior in the selection of the long-term wholesale contract with small capacity.
Energy-carbon footprint, productivity, and profitability of fodder-based cropping patterns under different nutrient management options in north-west India
Authors: Yadav Malu Ram , Singh Magan , Kumar Rakesh , Behera Biswaranjan , Kumar Dinesh , Yadav Rajendra Kumar , Raza Md Basit , Lal Milan Kumar , Meena Rajesh Kumar , Makarana Govind , Baral Kirttiranjan , Panigrahi Kaushik Kumar , Pradhan Sanatan 
Published: February 2025

Context Intercropping of cereal–legume forages with integrated nutrient management could be an effective agronomic strategy to increase forage biomass production and economic returns. However, the energy-carbon footprints of the management strategies are of utmost importance in the present era of climate-conscious agriculture. Aim To identify the best possible combinations of fodder-based cropping patterns and nutrient management with higher yield and profitability with lower energy-carbon footprints. Methods This field study was carried out with four fodder-based cropping patterns under different nutrient management options in a split-plot design. Key results The maize (Zea mays) + cowpea (Vigna unguiculata) (1:1)–oats (Avena sativa) under 75% recommended fertiliser dose with zinc, plant growth promoting rhizobacteria and farmyard manure significantly increased system productivity and profitability and saved fertiliser by 25% compared to the same with 100% recommended dose only. In comparison to maize–oats, this combination showed lower energy and carbon footprints, but higher system productivity and profitability. The system yield and net returns of this combination were significantly higher than those of cowpea–oats cropping pattern, despite having a higher energy-carbon footprint. Conclusions The 1:1 cereal–legume intercropping-based cropping pattern maize + cowpea (1:1)–oats under 75% recommended dose of N, P2O5, K2O with zinc, plant growth promoting rhizobacteria and FYM could be the most productive, profitable fodder-based cropping pattern with lower energy-carbon footprints in north-west India. Implications The study identified the most profitable combination of fodder-based cropping patterns and nutrient management with low energy and carbon footprints in north-west India, which could be a component of climate-smart agriculture in similar agro-climates of the globe.
Language management and health tourism
Authors: Díaz-Millón Mar 
Published: February 2025

Abstract
Health tourism is an opportunity for growth in Spain. To attract international travelers, companies need to communicate with
them through the Internet and to apply language management strategies, like localization or transcreation. This study aims to identify
language management strategies in healthcare corporation’s websites. A sample of companies is compiled and data (processed with the SPSS
statistical package) is gathered about their Internet presence, language diversity, presence of the English language and language
selection modes. These companies have a strong online presence, although barely half of them apply language management strategies. English
is the dominant language and a non-specific international audience is identified. Although the sample companies are oriented towards
internationalization, greater language management strategies need to be implemented.
Methodological consideration in research on French second-language speech perception and spoken word
recognition
Authors: Tremblay Annie 
Published: February 2025

Abstract
The present chapter provides an overview of methodological considerations for research on French
speech perception and spoken word recognition by second/foreign language (L2) learners. French has several phonetic
and phonological characteristics that are relatively infrequent cross-linguistically and thus make it a very
interesting L2 to investigate from the perspective of speech perception
and spoken word recognition. The chapter provides a review of the methodological approaches used in studies that focus
on these characteristics, considering both the perception and processing of speech sounds that are lexically
contrastive and the perception and processing of speech sounds that signal word boundaries. The chapter also
identifies areas for further investigation and open research questions, and it makes theoretical and methodological
recommendations that take advantage of the unique properties of French speech for further advancing research on L2
learners’ speech perception and spoken word recognition.
L2-French acquisition of discursive competence
Authors: Leclercq Pascale 
Published: February 2025

Abstract
This chapter critically reviews the way discursive competence has been studied in French SLA, to
identify the methodological strengths and limitations of current research. A particular focus is taken on the methods
used to track the development of the means to produce cohesive speech in L2 French, at different ages of onset and
proficiency levels, and across various conceptual domains; and on the approaches taken to the development of
information structure at discourse level in a variety of tasks. We used a sample of 37 studies on L2 French, spanning
30 years of research on L2 development of discursive competence, to shed light on the methodological contribution of
L2 French in this area to wider SLA, before identifying promising avenues for future research.
Approaches to investigating French as a third language
Authors: Lindqvist Christina 
Published: February 2025

Abstract
Research on third language acquisition has increased over the last few decades with numerous
publications examining various aspects of the acquisition and use of a third language, as opposed to a second language
(cf. Cabrelli et al., 2023, Cenoz
et al., 2001, Ringbom, 2007). One of the most researched aspects
is that of transfer, that is the ways in which previously acquired languages (both first, L1, and second languages,
L2) influence the learning and use of yet another language, the L3. While transfer can occur at all linguistic levels,
the majority of the studies concern syntax and lexis, and to some extent phonology. The present chapter will focus on
L3 French. While the majority of prior studies have been devoted to transfer issues, there is also a growing body of
research into socio-psychological aspects such as motivation, learning experiences and foreign language anxiety.
Previous research will be reviewed from a methodological point of view by accounting for the study designs, the type
of data and data analyses, and language combinations. The review will also include reflections on how ethical issues
have been taken into account in previous research. Finally, it will bring up future methodological directions within
L3 French research.
Neutralization of voice in colloquial Arabic verbs
Authors: Pospíšil Adam 
Published: February 2025

Abstract
In this paper I propose the concept of neutralization of voice, motivated by certain cases of
intransitive usage of transitive verbs in some Arabic varieties and defined as the omission of coding of a de-transitivizing
valency alternation. I confront the concept with a sample of Arabic verbs
and argue that a class of constructions in a range of Arabic varieties can indeed be accounted for in terms of voice neutralization. I also suggest some factors licensing the phenomenon
and discuss its possible implications for cross-varietal and typological comparison, as well as its validity in terms
of the study of actual language use, including marginal and emergent constructions conditioned by context.