bluuebunny/crossref_metadata_2025_split huggingface dataset:
Simulation-based establishment of base pools for a hybrid breeding program in winter rapeseed
Authors: Krenzer Daniel , Frisch Matthias , Beckmann Katrin , Kox Tobias , Flachenecker Christian , Abbadi Amine , Snowdon Rod , Herzog Eva 
Published: January 2024

Abstract
Key message
Simulation planned pre-breeding can increase the efficiency of starting a hybrid breeding program.

Abstract
Starting a hybrid breeding program commonly comprises a grouping of the initial germplasm in two pools and subsequent selection on general combining ability. Investigations on pre-breeding steps before starting the selection on general combining ability are not available. Our goals were (1) to use computer simulations on the basis of DNA markers and testcross data to plan crosses that separate genetically two initial germplasm pools of rapeseed, (2) to carry out the planned crosses, and (3) to verify experimentally the pool separation as well as the increase in testcross performance. We designed a crossing program consisting of four cycles of recombination. In each cycle, the experimentally generated material was used to plan the subsequent crossing cycle with computer simulations. After finishing the crossing program, the initially overlapping pools were clearly separated in principal coordinate plots. Doubled haploid lines derived from the material of crossing cycles 1 and 2 showed an increase in relative testcross performance for yield of about 5% per cycle. We conclude that simulation-designed pre-breeding crossing schemes, that were carried out before the general combining ability-based selection of a newly started hybrid breeding program, can save time and resources, and in addition conserve more of the initial genetic variation than a direct start of a hybrid breeding program with general combining ability-based selection.
Persistence of Marine Bacterial Plasmid in the House Fly (Musca domestica): Marine-Derived Antimicrobial Resistance Genes Have a Chance of Invading the Human Environment
Authors: Nawata Kanoko , Kadoya Aya , Suzuki Satoru 
Published: January 2024

AbstractThe house fly is known to be a vector of antibiotic-resistant bacteria (ARB) in animal farms. It is also possible that the house fly contributes to the spread of ARB and antibiotic resistance genes (ARGs) among various environments. We hypothesized that ARB and ARGs present in marine fish and fishery food may gain access to humans via the house fly. We show herein that pAQU1, a marine bacterial ARG-bearing plasmid, persists in the house fly intestine for 5 days after fly ingestion of marine bacteria. In the case of Escherichia coli bearing the same plasmid, the persistence period exceeded 7 days. This interval is sufficient for transmission to human environments, meaning that the house fly is capable of serving as a vector of marine-derived ARGs. Time course monitoring of the house fly intestinal microflora showed that the initial microflora was occupied abundantly with Enterobacteriaceae. Experimentally ingested bacteria dominated the intestinal environment immediately following ingestion; however, after 72 h, the intestinal microflora recovered to resemble that observed at baseline, when diverse genera of Enterobacteriaceae were seen. Given that pAQU1 in marine bacteria and E. coli were detected in fly excrement (defined here as any combination of feces and regurgitated material) at 7 days post-bacterial ingestion, we hypothesize that the house fly may serve as a vector for transmission of ARGs from marine items and fish to humans via contamination with fly excrement.
Added insult to injury? The response of meat-associated pathogens to proposed antimicrobial interventions
Authors: Marmion Maitiú , Macori Guerrino , Barroug Soukaina , Soro Arturo B. , Bourke Paula , Tiwari Brijesh K. , Whyte Paul , Scannell Amalia G. M. 
Published: January 2024

Abstract
Modern requirements for ‘green label’ meat products have led to the design of novel antimicrobial innovations which prioritise quality, safety and longevity. Plasma-functionalised water (PFW), ultraviolet light and natural antimicrobial compositions have been investigated and optimised for control of foodborne pathogens like Campylobacter jejuni and Salmonella enterica serovar Typhimurium. However, given the adaptive mechanisms present in bacteria under external stresses, it is imperative to understand the effect that sublethal treatment may have on the bacterial transcriptome. In this study, Salmonella Typhimurium and C. jejuni were treated with sublethal doses of ultraviolet light, a citrus juice/essential oil marinade, and ‘spark’ or ‘glow’ cold plasma generation system-produced PFW. Immediately after treatment, cells were lysed and RNA was extracted and purified. mRNA was converted to cDNA by reverse transcription-PCR and sequenced by an Illumina MiSeq® system. Sequences were filtered and analysed using the Tuxedo workflow. Sublethal treatment of Campylobacter jejuni and Salmonella Typhimurium led to increased immediate cellular and metabolic activity, as well as diversification in protein and metabolic functioning. There was further expression of pathogenesis and virulence-associated traits associated with spark PFW and marinade treatment of Salmonella Typhimurium. However, similar concerns were not raised with glow PFW or UV-treated samples. This study provides science-based evidence of the efficacy of multi-hurdle antimicrobial system using green-label marinades and PFW or UV to inactivate pathogens without upregulating virulence traits in surviving cells. This study will inform policymakers and food industry stakeholders and reinforces the need to incorporate in-line novel technologies to ensure consumer safety.

Key points
• Salmonella and C. jejuni showed increased cell activity in immediate response to stress.
• Virulence genes showed increased expression when treated with natural antimicrobials and sPFW.
• Reduced immediate transcriptomic response to gPFW and UV treatment indicates lower risk.
Reliability of large language models in managing odontogenic sinusitis clinical scenarios: a preliminary multidisciplinary evaluation
Authors: Saibene Alberto Maria , Allevi Fabiana , Calvo-Henriquez Christian , Maniaci Antonino , Mayo-Yáñez Miguel , Paderno Alberto , Vaira Luigi Angelo , Felisati Giovanni , Craig John R. 
Published: January 2024

Abstract
Purpose
This study aimed to evaluate the utility of large language model (LLM) artificial intelligence tools, Chat Generative Pre-Trained Transformer (ChatGPT) versions 3.5 and 4, in managing complex otolaryngological clinical scenarios, specifically for the multidisciplinary management of odontogenic sinusitis (ODS).

Methods
A prospective, structured multidisciplinary specialist evaluation was conducted using five ad hoc designed ODS-related clinical scenarios. LLM responses to these scenarios were critically reviewed by a multidisciplinary panel of eight specialist evaluators (2 ODS experts, 2 rhinologists, 2 general otolaryngologists, and 2 maxillofacial surgeons). Based on the level of disagreement from panel members, a Total Disagreement Score (TDS) was calculated for each LLM response, and TDS comparisons were made between ChatGPT3.5 and ChatGPT4, as well as between different evaluators.

Results
While disagreement to some degree was demonstrated in 73/80 evaluator reviews of LLMs’ responses, TDSs were significantly lower for ChatGPT4 compared to ChatGPT3.5. Highest TDSs were found in the case of complicated ODS with orbital abscess, presumably due to increased case complexity with dental, rhinologic, and orbital factors affecting diagnostic and therapeutic options. There were no statistically significant differences in TDSs between evaluators’ specialties, though ODS experts and maxillofacial surgeons tended to assign higher TDSs.

Conclusions
LLMs like ChatGPT, especially newer versions, showed potential for complimenting evidence-based clinical decision-making, but substantial disagreement was still demonstrated between LLMs and clinical specialists across most case examples, suggesting they are not yet optimal in aiding clinical management decisions. Future studies will be important to analyze LLMs’ performance as they evolve over time.
CT analysis of frontal recess air cell and fluid dynamics simulation of frontal sinus in people with different frontal sinus development after Draf1–3 surgery
Authors: Zhu Zhengru , Wang Jian , Du Weijia , Xu Min , Xue Tao , Lai Yubing , Chen Fuquan 
Published: January 2024

Abstract
Objective
To explore the effects of Draf1–3 on frontal sinus airflow and frontal sinus irrigation in people with different frontal sinus development

Methods
The development of the frontal sinus and the distribution of the frontal recess cells were evaluated by CT scan in 150 adults (300 sides). The airflow changes into the frontal sinus and frontal recess after Draf were analyzed by Fluent software under a steady state and quiet inspiratory state. Nasal irrigation after Draf in adults with well-developed frontal sinus was simulated using 120 mL saline at a rate of 12 mL/s in a position at 45° to observe the changes in transient flow distribution.

Results
The moderately developed type of the frontal sinus was the most common. The airflow patterns in the frontal sinus and frontal recess in the moderate development group were laminar, while several large vortexes were formed between the frontal sinus and frontal recess in the well-development group. The Draf exerted more significant effects on the patterns, pressure, and velocity of the airflow in the frontal sinus and frontal recess in the well development group than in the moderate development group. The volume fraction of saline in the frontal sinus increased significantly from Draf1 to Draf3, and the time required for a complete infiltration of saline in the frontal sinus mucosa was significantly reduced.

Conclusions
Draf1–3 has different effects on the airflow field of the frontal sinus with different developmental types; and Draf1–3 can significantly improve the postoperative flushing of the frontal sinus.
A deep neural network for MRI spinal inflammation in axial spondyloarthritis
Authors: Lin Yingying , Chan Shirley Chiu Wai , Chung Ho Yin , Lee Kam Ho , Cao Peng 
Published: January 2024

Abstract
Objective
To develop a deep neural network for the detection of inflammatory spine in short tau inversion recovery (STIR) sequence of magnetic resonance imaging (MRI) on patients with axial spondyloarthritis (axSpA).

Methods
A total 330 patients with axSpA were recruited. STIR MRI of the whole spine and clinical data were obtained. Regions of interests (ROIs) were drawn outlining the active inflammatory lesion consisting of bone marrow edema (BME). Spinal inflammation was defined by the presence of an active inflammatory lesion on the STIR sequence. The 'fake-color' images were constructed. Images from 270 and 60 patients were randomly separated into the training/validation and testing sets, respectively. Deep neural network was developed using attention UNet. The neural network performance was compared to the image interpretation by a radiologist blinded to the ground truth.

Results
Active inflammatory lesions were identified in 2891 MR images and were absent in 14,590 MR images. The sensitivity and specificity of the derived deep neural network were 0.80 ± 0.03 and 0.88 ± 0.02, respectively. The Dice coefficient of the true positive lesions was 0.55 ± 0.02. The area under the curve of the receiver operating characteristic (AUC-ROC) curve of the deep neural network was 0.87 ± 0.02. The performance of the developed deep neural network was comparable to the interpretation of a radiologist with similar sensitivity and specificity.

Conclusion
The developed deep neural network showed similar sensitivity and specificity to a radiologist with four years of experience. The results indicated that the network can provide a reliable and straightforward way of interpreting spinal MRI. The use of this deep neural network has the potential to expand the use of spinal MRI in managing axSpA.
Cancer Survivorship
Authors: Löwe Amelie , Hasenburg Annette , Seeger Alexander , Almstedt Katrin 
Published: January 2024

ZusammenfassungInternational steigt die Anzahl an Menschen, die mit oder nach einer Tumorerkrankung leben. Die große Gruppe der Langzeitüberlebenden, der sog. „cancer survivors“, ist in verschiedener Hinsicht sehr heterogen und der hieraus resultierende Unterstützungsbedarf entsprechend individuell. Strukturierte Survivorship-Programme haben zum Ziel, die verschiedenen Bedürfnisse sowie den Bedarf der Betroffenen zu erfassen. Zur besseren Information und Kommunikation innerhalb des interdisziplinären Versorgungsnetzwerks von Langzeitüberlebenden wird die Ausstellung eines individualisierten Survivorship Care Plan empfohlen – ein Projekt, das nur im interdisziplinären Team gelingen kann.
Eignung des Manchester Triage System zur Weiterleitung nichttraumatologischer Notfallpatienten mit geringer Fallschwere in die kassenärztliche Notfallversorgung: Ergebnisse einer holistischen Kohortenstudie
Authors: Rovas Alexandros , Korf Luisa , Finke Markus , Bernhard Michael , Pavenstädt Hermann , Kümpers Philipp 
Published: January 2024

Zusammenfassung
Hintergrund
Zur optimalen Disposition von Selbstvorstellern mit geringer Fallschwere wurde die Einrichtung von integrierten Notfallzentren (INZ) vorgeschlagen. Da jedoch validierte Instrumente zur gezielten Patientenlenkung innerhalb der INZ fehlen, wird in dieser Studie untersucht, ob das Manchester Triage System (MTS) zur sicheren Lenkung von Notfallpatienten in der vertragsärztlichen Notfallversorgung eingesetzt werden kann.

Methode
Mittels Datenbankabfrage wurden die MTS-Kategorien aller nichttraumatologischen erwachsenen Notfallpatienten über einen Zeitraum von sechs Wochen ermittelt. Anschließend wurden die elektronischen Patientenakten aller Patienten mit niedriger Fallschwere der MTS-Kategorien 4 (grün) und 5 (blau) genauestens analysiert.

Ergebnisse
Von den 400 konsekutiven Notfallpatienten der MTS-Kategorien blau (n = 72) und grün (n = 328) wurden 139 Patienten als primär nicht weiterleitbar exkludiert (Vorstellung mit fachärztlicher Überweisung [n = 110], Liegendeinlieferung durch Rettungsdienst [n = 29]). Von den verbleibenden 261 Patienten hätten 78,1 % aufgrund der lokalen Praxisöffnungszeiten ex ante in die vertragsärztliche Notfallversorgung weitergeleitet werden können. In Kenntnis des Verlaufs (ex post) wären dies jedoch nur 15,3 % der Patienten gewesen.

Schlussfolgerung
Unsere Daten zeigen, dass das MTS kein geeignetes Instrument ist, um Patienten sicher in den ambulanten Sektor zu lenken.
Bibliometric indices as a measure of performance and competitive balance in the knockout stage of the UEFA Champions League
Authors: Csató László , Petróczy Dóra Gréta 
Published: January 2024

AbstractWe argue for the application of bibliometric indices to quantify the long-term uncertainty of outcome in sports. The Euclidean index is proposed to reward quality over quantity, while the rectangle index can be an appropriate measure of core performance. Their differences are highlighted through an axiomatic analysis and several examples. Our approach also requires a weighting scheme to compare different achievements. The methodology is illustrated by studying the knockout stage of the UEFA Champions League in the 20 seasons played between 2003 and 2023: club and country performances as well as three types of competitive balance are considered. Measuring competition at the level of national associations is a novelty. All results are remarkably robust concerning the bibliometric index and the assigned weights. Since the performances of national associations are more stable than the results of individual clubs, it would be better to build the seeding in the UEFA Champions League group stage upon association coefficients adjusted for league finishing positions rather than club coefficients.
A quantitative approach to the understanding of social-ecological systems: a case study from the Pyrenees
Authors: Zango-Palau Anna , Jolivet Anaïs , Lurgi Miguel , Claramunt-López Bernat 
Published: January 2024

AbstractMountains are social-ecological systems exposed to multiple climatic and socioeconomic drivers. The Pyrenees are a clear example of the concomitant challenges that these regions face, as they are exposed to stressors linked to depopulation, an economic shift towards tourism, and climate change. To understand how these multiple stressors affect the system’s resources, it is useful to study them from a social-ecological system (SES) perspective. Focusing on a Pyrenean SES, we use piecewise structural equation modeling and network analysis to quantitatively describe the interactions between water resources, biodiversity, and the social and economic elements of the system. Our results show that the current economic focus and dependency on tourism severely impact water resources and biodiversity. Future climatic scenarios forecast a worsening of the pressures on the hydrological system and may threaten winter tourism. Actions to alleviate the pressures on water and biodiversity and to increase socioeconomic resilience are a priority. We argue that such actions will have to include both a diversification of the region’s touristic offer and of the economy, coupled with a more sustainable use of water resources. Our findings highlight the importance of studying the interactions and causal relationships between SES elements. This can help gain a comprehensive understanding of how the SES functions and its sustainability challenges.
Benefits and limitations of recycled water systems in the building sector: a review
Authors: Chen Lin , Chen Zhonghao , Liu Yunfei , Lichtfouse Eric , Jiang Yushan , Hua Jianmin , Osman Ahmed I. , Farghali Mohamed , Huang Lepeng , Zhang Yubing , Rooney David W. , Yap Pow-Seng 
Published: January 2024

AbstractBuilding construction requires important amounts of freshwater, thus depleting the already stressed natural water resources. This issue could be addressed by using recycled water in construction and in building systems. However, integrating greywater recycling systems is limited by complexity, costs, vulnerability to environmental fluctuations, and coordination of policymakers, developers, and construction practitioners. Here, we review recycled water systems in buildings with focus on case studies of successful implementations, policies, recycled water treatment in buildings, and health aspects. Compared to conventional tap water, the incorporation of recycled water enhances the consistency and workability of reclaimed water concrete by 12–14%, and it increases concrete viscosity by 11% and yield stress by 25%. We discuss the intricacies of building water recycling systems, with emphasizing on conserving water, mitigating environmental impact, and enhancing economic efficiency. Challenges include water quality assurance, dual piping infrastructure, and regulatory compliance. Government interventions, including incentives, mandates, and subsidy policies, emerge as drivers for widespread adoption. Technological advancements, such as membrane filtration and advanced oxidation processes, are examined for strengths and limitations.
Are climate-change actions present in community-based obesity prevention interventions? Development and application of the DoublE-duty actions in CommunIty-baSed obesity InterVEntions (DECISIVE) framework
Authors: Ward Nicole , Nichols Melanie , Moodie Marj , Swinburn Boyd , Bolton Kristy A. , Fraser Penny , Brown Vicki 
Published: January 2024

Abstract
Aim
Community-based obesity prevention interventions (CBOPIs) target the causes of obesity. Actions implemented in CBOPIs could simultaneously impact both climate change and obesity, making them a potentially important approach. To date, limited work has been undertaken to identify and categorise double-duty actions (those that simultaneously influence obesity and climate change) in CBOPIs. The prevalence of double-duty actions in CBOPIs is currently unknown. This paper outlines the development and application of the DoublE-duty actions in CommunIty-baSed obesity InterVEntions (DECISIVE) framework to address this gap.

Subjects and methods
A scoping review focusing on obesity and climate change was performed, and the results informed the development of DECISIVE. DECISIVE was applied to studies included in the Cochrane review of obesity prevention interventions in children, and both the published and unpublished data of a completed intervention.

Results
The scoping review identified one study and one systematic review which contributed to the development of DECISIVE. The framework lists nine double-duty actions, plus an ‘Other’ action. Each action’s potential impact on both obesity and climate change is summarised and example strategies are provided. Reduce the availability and consumption of ultra-processed foods was the most prevalent double-duty action when applying DECISIVE to published studies.

Conclusion
DECISIVE is the first framework to recognise double-duty actions on obesity and climate change in CBOPIs. The development of DECISIVE holds important implications for community stakeholders who may be able to better identify, incorporate, and promote double-duty actions. This may enhance stakeholder acceptability, feasibility, and value-for-money of interventions.
In search of maximum non-overlapping codes
Authors: Stanovnik Lidija , Moškon Miha , Mraz Miha 
Published: January 2024

AbstractNon-overlapping codes are block codes that have arisen in diverse contexts of computer science and biology. Applications typically require finding non-overlapping codes with large cardinalities, but the maximum size of non-overlapping codes has been determined only for cases where the codeword length divides the size of the alphabet, and for codes with codewords of length two or three. For all other alphabet sizes and codeword lengths no computationally feasible way to identify non-overlapping codes that attain the maximum size has been found to date. Herein we characterize maximal non-overlapping codes. We formulate the maximum non-overlapping code problem as an integer optimization problem and determine necessary conditions for optimality of a non-overlapping code. Moreover, we solve several instances of the optimization problem to show that the hitherto known constructions do not generate the optimal codes for many alphabet sizes and codeword lengths. We also evaluate the number of distinct maximum non-overlapping codes.