bluuebunny/crossref_metadata_2025_split huggingface dataset:
Novel eco-friendly [1,2,4]triazolo[3,4-a]isoquinoline chalcone derivatives efficiency against fungal deterioration of ancient Egyptian mummy cartonnage, Egypt
Authors: Geweely Neveen S. , Soliman Mona M. , Ali Rania A. , Hassaneen Hamdi M. , Abdelhamid Ismail A. 
Published: January 2023

AbstractFungal deterioration is one of the major factors that significantly contribute to mummy cartonnage damage. Isolation and molecular identification of thirteen fungal species contributing to the deterioration of ancient Egyptian mummy cartonnage located in El-Lahun regions, Fayoum government, Egypt was performed. The most dominant deteriorated fungal species are Aspergillus flavus (25.70%), Aspergillus terreus (16.76%), followed by A. niger (13.97%). A newly synthesized series of tetrahydro-[1,2,4]triazolo[3,4-a]isoquinoline chalcone derivatives were synthesized and evaluated for their antifungal activities in vitro against the isolated deteriorated fungal species (Aspergillus flavus, A. niger, A. terreus, Athelia bombacina, Aureobasidium iranianum, Byssochlamys spectabilis, Cladosporium cladosporioides, C. ramotenellum, Penicillium crustosum, P. polonicum, Talaromyces atroroseus, T. minioluteus and T. purpureogenus). The most efficient chalcone derivatives are new chalcone derivative numbers 9 with minimum inhibitory concentration (MIC) ranging from 1 to 3 mg/mL followed by chalcone derivatives number 5 with MIC ranging from 1 to 4 mg/mL.
Contributions of Resin Cast Etching to Visualising the Osteocyte Lacuno-Canalicular Network Architecture in Bone Biology and Tissue Engineering
Authors: Sato Mari , Shah Furqan A. 
Published: January 2023

AbstractRecent years have witnessed an evolution of imaging technologies towards sophisticated approaches for visualising cells within their natural environment(s) and for investigating their interactions with other cells, with adjacent anatomical structures, and with implanted biomaterials. Resin cast etching (RCE) is an uncomplicated technique involving sequential acid etching and alkali digestion of resin embedded bone to observe the osteocyte lacuno-canalicular network using scanning electron microscopy. This review summarises the applicability of RCE to bone and the bone-implant interface. Quantitative parameters such as osteocyte size, osteocyte density, and number of canaliculi per osteocyte, and qualitative metrics including osteocyte shape, disturbances in the arrangement of osteocytes and canaliculi, and physical communication between osteocytes and implant surfaces can be investigated. Ageing, osteoporosis, long-term immobilisation, spinal cord injury, osteoarthritis, irradiation, and chronic kidney disease have been shown to impact osteocyte lacuno-canalicular network morphology. In addition to titanium, calcium phosphates, and bioactive glass, observation of direct connectivity between osteocytes and cobalt chromium provides new insights into the osseointegration potential of materials conventionally viewed as non-osseointegrating. Other applications include in vivo and in vitro testing of polymer-based tissue engineering scaffolds and tissue-engineered ossicles, validation of ectopic osteochondral defect models, ex vivo organ culture of whole bones, and observing the effects of gene dysfunction/deletion on the osteocyte lacuno-canalicular network. Without additional contrast staining, any resin embedded specimen (including clinical biopsies) can be used for RCE. The multitude of applications described here attest to the versatility of RCE for routine use within correlative analytical workflows, particularly in biomaterials science.
Drag reduction using longitudinal vortices on a flat-back Ahmed body
Authors: Darabasz T. , Bonnavion G. , Cadot O. , Goraguer Y. , Borée J. 
Published: January 2023

AbstractThe paper presents different cavity wall designs at the rear of a flat-back Ahmed body to achieve drag reduction. The wake balance is assessed using the variance of the base pressure gradient and correlated to the obtained drag reduction. Without the rear cavity, the flat-back Ahmed body is subject to a steady instability producing a strong wake imbalance in the horizontal direction. The low drag rear design consists of a $$5^\circ$$

5
∘

inclined spoiler at the bottom (refered to as a diffuser) that first provokes a vertical imbalance and a non-inclined top spoiler with central imprints that re-balance the wake. The drag reduction is 11.5%, the wake structure is observed to respect the symmetry of the body base in both lateral and vertical directions suggesting a full stabilization of the initial steady instability. Both the wake balance and the stabilization are associated with the formation of a longitudinal vortex pair initiated at the imprint edges and penetrating the recirculating area.
Optic flow based spatial vision in insects
Authors: Egelhaaf Martin 
Published: January 2023

AbstractThe optic flow, i.e., the displacement of retinal images of objects in the environment induced by self-motion, is an important source of spatial information, especially for fast-flying insects. Spatial information over a wide range of distances, from the animal's immediate surroundings over several hundred metres to kilometres, is necessary for mediating behaviours, such as landing manoeuvres, collision avoidance in spatially complex environments, learning environmental object constellations and path integration in spatial navigation. To facilitate the processing of spatial information, the complexity of the optic flow is often reduced by active vision strategies. These result in translations and rotations being largely separated by a saccadic flight and gaze mode. Only the translational components of the optic flow contain spatial information. In the first step of optic flow processing, an array of local motion detectors provides a retinotopic spatial proximity map of the environment. This local motion information is then processed in parallel neural pathways in a task-specific manner and used to control the different components of spatial behaviour. A particular challenge here is that the distance information extracted from the optic flow does not represent the distances unambiguously, but these are scaled by the animal’s speed of locomotion. Possible ways of coping with this ambiguity are discussed.
Cryo-EM structures of amyloid-β filaments with the Arctic mutation (E22G) from human and mouse brains
Authors: Yang Yang , Zhang Wenjuan , Murzin Alexey G. , Schweighauser Manuel , Huang Melissa , Lövestam Sofia , Peak-Chew Sew Y. , Saito Takashi , Saido Takaomi C. , Macdonald Jennifer , Lavenir Isabelle , Ghetti Bernardino , Graff Caroline , Kumar Amit , Nordberg Agneta , Goedert Michel , Scheres Sjors H. W. 
Published: January 2023

AbstractThe Arctic mutation, encoding E693G in the amyloid precursor protein (APP) gene [E22G in amyloid-β (Aβ)], causes dominantly inherited Alzheimer’s disease. Here, we report the high-resolution cryo-EM structures of Aβ filaments from the frontal cortex of a previously described case (AβPParc1) with the Arctic mutation. Most filaments consist of two pairs of non-identical protofilaments that comprise residues V12–V40 (human Arctic fold A) and E11–G37 (human Arctic fold B). They have a substructure (residues F20–G37) in common with the folds of type I and type II Aβ42. When compared to the structures of wild-type Aβ42 filaments, there are subtle conformational changes in the human Arctic folds, because of the lack of a side chain at G22, which may strengthen hydrogen bonding between mutant Aβ molecules and promote filament formation. A minority of Aβ42 filaments of type II was also present, as were tau paired helical filaments. In addition, we report the cryo-EM structures of Aβ filaments with the Arctic mutation from mouse knock-in line AppNL−G−F. Most filaments are made of two identical mutant protofilaments that extend from D1 to G37 (AppNL−G−F murine Arctic fold). In a minority of filaments, two dimeric folds pack against each other in an anti-parallel fashion. The AppNL−G−F murine Arctic fold differs from the human Arctic folds, but shares some substructure.
Blunt force trauma and blast injuries to head and chest caused by a potent pyrotechnic device: a case report
Authors: Hunold Thomas , Wittschieber Daniel , Ortmann Christian , Niederegger Senta , Eckardt Niklas , Mall Gita , Muggenthaler Holger 
Published: January 2023

AbstractIn times of peace and except for terrorist attacks, fatalities by explosions are rare. Fireworks have deadly potential, especially self-made or illegally acquired devices. The use of professional pyrotechnics by untrained persons poses a life-threatening hazard. We present a case of devastating blunt force and blast injuries to the head and chest of a young man. After ignition of a display shell (syn. a real shell or mortar shell) without the use of a launching pipe, the device hit the man’s face, nearly simultaneously followed by the explosion of the burst charge. The autopsy revealed injuries to the face and forehead as well as extensive tissue structure damage and a massive contusion with a bloody edema of the lungs. Autopsy results are supplemented with CT imaging and 3D reconstruction of the fractured mid face, as well as histological and toxicological examinations. This case of a misused display shell demonstrates both its devastating destructive potential and the corresponding and rarely observed injury pattern.
Co-design of a cancer nutrition care pathway by patients, carers, and health professionals: the CanEAT pathway
Authors: Loeliger Jenelle , Dewar Sarah , Kiss Nicole , Dumbrell Jodi , Elliott Andrea , Kaegi Kate , Kelaart Amber , McIntosh Rebecca , Swan Wendy , Stewart Jane 
Published: January 2023

Abstract

Purpose
Limited practical resources exist to guide optimal nutrition care for patients, carers, and health professionals (HPs). This study aimed to co-design a cancer nutrition care pathway to guide and improve the provision of consistent, evidence-based care with consumers and HPs.

Methods
This study utilised an experienced-based co-design (EBCD) approach over five stages. Stage 1 involved stakeholder engagement and a literature review. Stage 2 included a survey and focus groups with patients/carers. Co-design workshops were conducted within stage 3, key stakeholder consultation within stage 4, and the finalisation and dissemination of the cancer nutrition care pathway formed stage 5. Results of stages 3 to 5 are the focus of this paper.

Results
Two co-design workshops were held with patients, carers, and HPs (n = 32 workshop 1; n = 32 workshop 2), who collectively agreed on areas of focus and key priorities. Following this, a consultation period was completed with patients, carers, and HPs (n = 45) to refine the pathway. The collective outcome of all study stages was the co-design of a cancer nutrition care pathway (the CanEAT pathway) defining optimal cancer nutrition care that combines evidence-based practice tips into a centralised suite of resources, tools, and clinical guidance.

Conclusion
The CanEAT pathway was co-designed by patients, carers, and HPs. The EBCD approach is a meaningful way to develop targeted improvements in cancer care. The CanEAT pathway is freely available to guide and support patients, carers, and HPs to aid the implementation of optimal nutrition care into clinical practice.
Velocity pausing particle swarm optimization: a novel variant for global optimization
Authors: Shami Tareq M. , Mirjalili Seyedali , Al-Eryani Yasser , Daoudi Khadija , Izadi Saadat , Abualigah Laith 
Published: January 2023

AbstractParticle swarm optimization (PSO) is one of the most well-regard metaheuristics with remarkable performance when solving diverse optimization problems. However, PSO faces two main problems that degrade its performance: slow convergence and local optima entrapment. In addition, the performance of this algorithm substantially degrades on high-dimensional problems. In the classical PSO, particles can move in each iteration with either slower or faster speed. This work proposes a novel idea called velocity pausing where particles in the proposed velocity pausing PSO (VPPSO) variant are supported by a third movement option that allows them to move with the same velocity as they did in the previous iteration. As a result, VPPSO has a higher potential to balance exploration and exploitation. To avoid the PSO premature convergence, VPPSO modifies the first term of the PSO velocity equation. In addition, the population of VPPSO is divided into two swarms to maintain diversity. The performance of VPPSO is validated on forty three benchmark functions and four real-world engineering problems. According to the Wilcoxon rank-sum and Friedman tests, VPPSO can significantly outperform seven prominent algorithms on most of the tested functions on both low- and high-dimensional cases. Due to its superior performance in solving complex high-dimensional problems, VPPSO can be applied to solve diverse real-world optimization problems. Moreover, the velocity pausing concept can be easily integrated with new or existing metaheuristic algorithms to enhance their performances. The Matlab code of VPPSO is available at:https://uk.mathworks.com/matlabcentral/fileexchange/119633-vppso.
Characterization and genome analysis of Escherichia phage fBC-Eco01, isolated from wastewater in Tunisia
Authors: Grami Emna , Badawy Shimaa , Kiljunen Saija , Saidi Neila , Skurnik Mikael 
Published: January 2023

AbstractThe rise of antibiotic resistance in bacterial strains has led to vigorous exploration for alternative treatments. To this end, phage therapy has been revisited, and it is gaining increasing attention, as it may represent an efficient alternative for treating multiresistant pathogenic bacteria. Phage therapy is considered safe, and phages do not infect eukaryotic cells. There have been many studies investigating phage-host bacteria interactions and the ability of phages to target specific hosts. Escherichia coli is the causative agent of a multitude of infections, ranging from urinary tract infections to sepsis, with growing antibiotic resistance. In this study, we characterized the Escherichia phage fBC-Eco01, which was isolated from a water sample collected at Oued, Tunis. Electron microscopy showed that fBC-Eco01 phage particles have siphovirus morphology, with an icosahedral head of 61 ± 3 nm in diameter and a non-contractile tail of 94 ± 2 nm in length and 12 ± 0.9 nm in width. The genome of fBC-Eco01 is a linear double-stranded DNA of 43.466 bp with a GC content of 50.4%. Comparison to databases allowed annotation of the functions to 39 of the 78 predicted gene products. A single-step growth curve revealed that fBC-Eco01 has a latent period of 30 minutes and a burst size of 175 plaque-forming units (PFU) per infected cell. Genomic analysis indicated that fBC-Eco01 is a member of the subfamily Guernseyvirinae. It is most closely related to a group of phages of the genus Kagunavirus that infect Enterobacter, Raoultella, and Escherichia strains.
Non-functional requirements for machine learning: understanding current use and challenges among practitioners
Authors: Habibullah Khan Mohammad , Gay Gregory , Horkoff Jennifer 
Published: January 2023

AbstractSystems that rely on Machine Learning (ML systems) have differing demands on quality—known as non-functional requirements (NFRs)—from traditional systems. NFRs for ML systems may differ in their definition, measurement, scope, and comparative importance. Despite the importance of NFRs in ensuring the quality ML systems, our understanding of all of these aspects is lacking compared to our understanding of NFRs in traditional domains. We have conducted interviews and a survey to understand how NFRs for ML systems are perceived among practitioners from both industry and academia. We have identified the degree of importance that practitioners place on different NFRs, including cases where practitioners are in agreement or have differences of opinion. We explore how NFRs are defined and measured over different aspects of a ML system (i.e., model, data, or whole system). We also identify challenges associated with NFR definition and measurement. Finally, we explore differences in perspective between practitioners in industry, academia, or a blended context. This knowledge illustrates how NFRs for ML systems are treated in current practice, and helps to guide future RE for ML efforts.
Alterations of CD8+ T cells in the blood and salivary glands of patients with primary Sjögren’s syndrome
Authors: Li Hongxia , Zhou Yaxin , Wang Pengyu , Wang Yafei , Feng Yuan , Zhang Yan , Wu Zhenbiao 
Published: January 2023

Abstract
Objective
To identify the alterations of CD8+ T cells in blood and labial salivary glands (LSGs) of patients with Primary Sjögren’s syndrome (pSS).

Methods
Blood samples from 24 pSS patients were assayed for CD38+ HLA-DR+ CD8+ (activated CD8+, aCD8+) T cells and serum IFN-γ and TNF-α, using flow cytometry and ELISA respectively, and compared with samples from 27 healthy controls. Immunohistochemistry was used to count CD8+ T cells in LSG tissues of 24 pSS patients and of 6 control patients with normal pathology.

Results
pSS patients had more aCD8+ T cells than aCD4+ T cells (medians 33.13% vs. 9.43%, p < 0.0001), and had an increased level of aCD8+ T cells (medians 33.13% vs. 16.48%, p < 0.0001) and serum IFN-γ (medians 1026 pg/mL vs. 0.00 pg/mL, p < 0.0001) compared to the healthy controls. The levels of aCD8+ T cells and IFN-γ were both significant positively correlated with European League Against Rheumatism Sjögren’s Syndrome Disease Activity Index, IgG, anti-nuclear antibodies, rheumatoid factor. The LSGs focus score (FS) ≥1 group had more CD8+ T cell counts than 0≤ FS <1 group and control group (medians 256/mm2 vs. 126/mm2 and 256/mm2 vs. 64/mm2 respectively, both p < 0.05).

Conclusion
The aCD8+ T cells and IFN-γ are positively correlated with each other, and predominantly elevated in the blood of pSS patients. In the LSG tissues of pSS, CD8+ T cell counts increase with severity of the lesions. CD8+ T cells may play crucial role in the pathogenesis of pSS.

Key Points• Primary Sjögren’s syndrome (pSS) is a chronic and systemic autoimmune disease. pSS patients had elevated blood levels of CD38+HLA-DR+CD8+T cells and IFN-γ.• The CD38+HLA-DR+CD8+T cells positively correlated with disease parameters and serum IFN-γ.• The salivary glands of pSS patients had appreciable CD8+lymphocyte infiltration. CD8+T cells may play crucial role in the pathogenesis of pSS.
Information extraction pipelines for knowledge graphs
Authors: Jaradeh Mohamad Yaser , Singh Kuldeep , Stocker Markus , Both Andreas , Auer Sören 
Published: January 2023

AbstractIn the last decade, a large number of knowledge graph (KG) completion approaches were proposed. Albeit effective, these efforts are disjoint, and their collective strengths and weaknesses in effective KG completion have not been studied in the literature. We extendPlumber, a framework that brings together the research community’s disjoint efforts on KG completion. We include more components into the architecture ofPlumber to comprise 40 reusable components for various KG completion subtasks, such as coreference resolution, entity linking, and relation extraction. Using these components,Plumberdynamically generates suitable knowledge extraction pipelines and offers overall 432 distinct pipelines. We study the optimization problem of choosing optimal pipelines based on input sentences. To do so, we train a transformer-based classification model that extracts contextual embeddings from the input and finds an appropriate pipeline. We study the efficacy ofPlumberfor extracting the KG triples using standard datasets over three KGs: DBpedia, Wikidata, and Open Research Knowledge Graph. Our results demonstrate the effectiveness ofPlumberin dynamically generating KG completion pipelines, outperforming all baselines agnostic of the underlying KG. Furthermore, we provide an analysis of collective failure cases, study the similarities and synergies among integrated components and discuss their limitations.
Batrachochytrium salamandrivorans’ Amphibian Host Species and Invasion Range
Authors: Castro Monzon Federico , Rödel Mark-Oliver , Ruland Florian , Parra-Olea Gabriela , Jeschke Jonathan M. 
Published: January 2023

AbstractBatrachochytrium salamandrivorans (Bsal), a species related to the destructive pathogen Batrachochytrium dendrobatidis (Bd), was found and identified in Europe in 2013. Now, a decade later, a large amount of information is available. This includes data from studies in the field, reports of infection in captive amphibians, laboratory studies testing host susceptibility, and data from prospective studies that test for Bsal’s presence in a location. We conducted a systematic review of the published literature and compiled a dataset of Bsal tests. We identified 67 species that have been reported positive for Bsal, 20 of which have a threatened conservation status. The distribution of species that have been found with infection encompasses 69 countries, highlighting the potential threat that Bsal poses. We point out where surveillance to detect Bsal have taken place and highlight areas that have not been well monitored. The large number of host species belonging to the families Plethodontidae and Salamandridae suggests a taxonomic pattern of susceptibility. Our results provide insight into the risk posed by Bsal and identifies vulnerable species and areas where surveillance is needed to fill existing knowledge gaps.
Genomic evidence uncovers inbreeding and supports translocations in rescuing the genetic diversity of a landlocked seal population
Authors: Sundell Tarja , Kammonen Juhana I. , Mustanoja Ella , Biard Vincent , Kunnasranta Mervi , Niemi Marja , Nykänen Milaja , Nyman Tommi , Palo Jukka U. , Valtonen Mia , Paulin Lars , Jernvall Jukka , Auvinen Petri 
Published: January 2023

AbstractFragmentation of isolated populations increases the risk of inbreeding and loss of genetic diversity. The endemic Saimaa ringed seal (Pusa hispida saimensis) is one of the most endangered pinnipeds in the world with a population of only ~ 400 individuals. The current genetic diversity of this subspecies, isolated in Lake Saimaa in Finland for ca. 1000 generations, is alarmingly low. We performed whole-genome sequencing on Saimaa ringed seals (N = 30) and analyzed the level of homozygosity and genetic composition across the individual genomes. Our results show that the Saimaa ringed seal population has a high number of runs of homozygosity (RoH) compared with the neighboring Baltic ringed seal (Pusa hispida botnica) reference population (p < 0.001). There is also a tendency for stillborn seal pups to have more pronounced RoH. Since the population is divided into semi-isolated subpopulations within the Lake Saimaa exposing the population to deleterious genomic effects, our results support augmented gene flow as a genetic conservation action. Based on our results suggesting inbreeding depression in the population, we recommend Pihlajavesi as a potential source and Southern Saimaa as a potential recipient subpopulation for translocating individuals. The Saimaa ringed seal is a recognized subspecies and therefore translocations should be considered only within the lake to avoid an unpredictable risk of disease, the introduction of deleterious alleles, and severe ecological issues for the population.