bluuebunny/crossref_metadata_2025_split huggingface dataset:
Clonality in black locust (Robinia pseudoacacia L.) and implications for seed production
Authors: Pakull Birte , Schneck Volker , Liesebach Heike 
Published: September 2024

Abstract
Key message
The strong clonal growth of black locust (Robinia pseudoacacia L.) not only influences the stand structure of natural or artificially established stands, but also the genetic composition of seed harvested from such clonal stands. For the commercial production of genetically diverse seeds, the stand structure should be taken into account or, at best, seeds harvested from seed orchards should be used.

Context
Black locust is characterised by intensive asexual reproduction through the formation of root suckers. By this means clonal structures can develop within black locust stands, in which ramets of a single clone can dominate extensive areas.

Aims
We want to analyse to what extent clonal structures within black locust stands negatively influence the genetic composition and diversity in seed harvested in such stands. We discuss how a potential reduction in genetic diversity can be reduced by measures taken during harvesting and whether the harvesting of seed orchards may be a better alternative.

Methods
We compare the genetic composition and diversity of parent trees and seed harvested from a clonal black locust stand with a seed orchard in which multiple ramets of selected clones were arranged in a randomised design.

Results
Within the clonal stand, parent contributions to the seed lot analysed proved to be strongly uneven. Selfing rates were high and large full-sib families dominated within the seed lot. Although the relatively strong pollination from unknown pollen donors, probably located outside of the stand, prevented a massive loss of alleles, high selfing rates and the formation of large full-sib families led to an unequal distribution of alleles within the progeny. Within the seed orchard—even though it had a lower number of clones than expected—the randomised design promoted a more diverse pollination pattern.

Conclusion
We conclude that for black locust, seed orchards have the greater potential to ensure a balanced genetic composition of harvested seed lots. If economic considerations make it necessary to harvest seed stands, this should only be done in a considered manner and, if possible, with knowledge of the clonal structures of the stand.
Expression levels and stoichiometry of Hnf1β, Emx2, Pax8 and Hnf4α influence direct reprogramming of induced renal tubular epithelial cells
Authors: Hu Xueli , Sun Jianjian , Wan Meng , Zhang Bianhong , Wang Linhui , Zhong Tao P. 
Published: September 2024

AbstractGeneration of induced renal epithelial cells (iRECs) from fibroblasts offers great opportunities for renal disease modeling and kidney regeneration. However, the low reprogramming efficiency of the current approach to generate iRECs has hindered potential therapeutic application and regenerative approach. This could be in part attributed to heterogeneous and unbalanced expression of reprogramming factors (RFs) Hnf1β (H1), Emx2 (E), Pax8 (P), and Hnf4α (H4) in transduced fibroblasts. Here, we establish an advanced retroviral vector system that expresses H1, E, P, and H4 in high levels and distinct ratios from bicistronic transcripts separated by P2A. Mouse embryonic fibroblasts (MEFs) harboring Cdh16-Cre; mT/mG allele are utilized to conduct iREC reprogramming via directly monitoring single cell fate conversion. Three sets of bicistronic RF combinations including H1E/H4P, H1H4/EP, and H1P/H4E have been generated to induce iREC reprogramming. Each of the RF combinations gives rise to distinct H1, E, P, and H4 expression levels and different reprogramming efficiencies. The desired H1E/H4P combination that results in high expression levels of RFs with balanced stoichiometry. substantially enhances the efficiency and quality of iRECs compared with transduction of separate H1, E, P, and H4 lentiviruses. We find that H1E/H4P-induced iRECs exhibit the superior features of renal tubular epithelial cells, as evidenced by expressing renal tubular-specific genes, possessing endocytotic arrogation activity and assembling into tubules along decellularized kidney scaffolds. This study establishes H1E/H4P cassette as a valuable platform for future iREC studies and regenerative medicine.
Effect of the combination of Lithospermum erythrorhizon and Lonicera japonica on dexamethasone-induced muscle atrophy in mice
Authors: Yoo Ahyoung , Lee Hyunjung , Kim Jung-In , Hahm Jeong-Hoon , Jung Chang Hwa , Ahn Jiyun 
Published: September 2024

AbstractSkeletal muscle atrophy occurs in several pathological conditions. Among other reasons, high-dose or long-term administration of glucocorticoids increases circulating glucocorticoid levels and causes muscle atrophy. The purpose of this study was to investigate whether Lithospermum erythrorhizon and Lonicera japonica complex extract (LELJ) has a beneficial effect on dexamethasone (Dexa)-induced muscle atrophy. In Dexa-induced myotube atrophy, treatment with LELJ increased myotube diameter, decreased the expression of muscle atrophy markers, and increased the expression of myosin heavy chain (MHC) isoforms. Supplementation with LELJ improved muscle function and performance in mice with Dexa-induced muscle atrophy as demonstrated by grip strength and running tests. Additionally, it increased skeletal muscle mass, size, and expression of MHC isoforms and protein synthesis-related markers. Furthermore, it reduced the upregulated protein levels of skeletal muscle atrophy markers in Dexa-treated mice. Supplementation with LELJ reversed Dexa-induced translocation of the glucocorticoid receptor and forkhead box O3 from the cytosol to the nucleus in skeletal muscles. LELJ also ameliorated age-related muscle loss by extending lifespan and increasing locomotor capacity in Caenorhabditis elegans. We identified loganin and lithospermic acid as bioactive compounds of LELJ and found that treatment with these agents increased myotube diameter, MHC isoform, and puromycin protein levels, and decreased atrophy markers in Dexa-treated myotubes. The current findings underscore how LELJ can prevent Dexa-induced skeletal muscle atrophy, attributing the effects to loganin and lithospermic acid.
High-Strength Self-Compacting Concrete Production Incorporating Supplementary Cementitious Materials: Experimental Evaluations and Machine Learning Modelling
Authors: Sobuz Md. Habibur Rahman , Aditto Fahim Shahriyar , Datta Shuvo Dip , Kabbo Md. Kawsarul Islam , Jabin Jannat Ara , Hasan Noor Md. Sadiqul , Khan Md. Munir Hayet , Rahman S. M. Arifur , Raazi Mehernaz , Zaman Ahmad Akib Uz 
Published: September 2024

AbstractThis study investigates mechanical properties, durability performance, non-destructive testing (NDT) characteristics, environmental impact evaluation, and advanced machine learning (ML) modelling techniques employed in the analysis of high-strength self-compacting concrete (HSSCC) incorporating varying supplementary cementitious materials (SCMs) to develop sustainable building construction. The findings from the fresh characteristics test indicate that mixes’ optimal flowability and passing qualities can be achieved using different concentrations of marble powder (MP) alongside a consistent amount of silica fume (SF) and fly ash (FA). Moreover, the incorporation of 10% MP along with 10% FA and 20% SF in HSSCC significantly improved the compressive strength by 14.68%, while the splitting tensile strength increased by 15.59% compared to the reference mix at 56 days. While random forest (RF), gradient boosting (GB), and their ensemble models exhibit strong coefficient correlation (R2) values, the GB model demonstrates more precision, indicating reliable predicted outcomes of the mechanical properties. Following subsequent testing, it has been demonstrated that incorporating SCMs improves the NDT properties of HSSCC and enhances its durability. The finer MP, SF, and FA particles enhanced microstructural performance by minimizing voids and cracks while improving the C–H–S bond. As noticed by its lower CO2-eq per MPa for SCMs, the HSSCC mix with up to 15% MP inclusion increased mechanical strength while reducing the environmental footprint, making it an eco-friendly concrete alternative.
Further analysis of tuberculosis in eight high-burden countries based on the Global Burden of Disease Study 2021 data
Authors: Lv Hengliang , Wang Longhao , Zhang Xueli , Dang Caixia , Liu Feng , Zhang Xin , Bai Junzhu , You Shumeng , Chen Hui , Zhang Wenyi , Xu Yuanyong 
Published: September 2024

Abstract
Backgrounds
Most significant findings from the Global Tuberculosis (TB) Report 2023 indicate that India, Indonesia, China, the Philippines, Pakistan, Nigeria, Bangladesh, and the Democratic Republic of the Congo (DRC) collectively contribute to approximately two-thirds of global TB cases. This study aims to provide crucial data-driven insights and references to improve TB control measures through a comprehensive analysis of these eight high-burden countries.

Methods
The eight high-burden TB countries analyzed in this study include India, Indonesia, China, the Philippines, Pakistan, Nigeria, Bangladesh, and the DRC. Age-standardized incidence rates (ASIR) of TB were derived from the Global Burden of Diseases Study 2021 data. Temporal trends were analyzed using Joinpoint regression. An age-period-cohort model was applied to examine the risk ratios (RR) of TB across diverse age groups, periods, and birth cohorts. A Bayesian age-period-cohort framework was employed to predict the ASIR of TB by 2030.

Results
The study found that the Philippines (average annual percentage change = 3.1%, P < 0.001) exhibited an upward trend from 1990 to 2021. In India, the Philippines, Pakistan, and Bangladesh, the RR of TB incidence exceeded 1 after individuals reached 25 years old. Notably, the RR has shown a consistent upward trend since 2001, peaking during the period of 2017–2021 with an estimated RR of 1.5 (P < 0.001) in the Philippines. Similarly, the highest RR was observed during the period of 2017–2021 reaching 1.1 (P < 0.001) in the DRC. In the Philippines, the markedly increasing RR values for TB have been observed among individuals born after 1997–2001. Projections suggest that the ASIR of TB is expected to follow a continued upward trajectory, with an estimated rate of 392.9 per 100,000 by 2030 in the Philippines; India and Indonesia are projected to achieve less than 20.0% of the target set by the World Health Organization (WHO).

Conclusions
Among the eight high-burden countries, the Philippines, India and Indonesia are diverging from the goals set by the WHO, and the risk of TB in the Philippines and the DRC shows a trend toward affecting younger populations, which suggests that the management strategies for TB patients need to be further strengthened.

Graphical Abstract
“The only way that they can access help quickly”: a qualitative exploration of key stakeholders’ perspectives on guided self-help interventions for children and young people with eating disorders
Authors: Davey Emily , Micali Nadia , Bryant-Waugh Rachel , Bennett Sophie D , Lau Charmayne , Shafran Roz 
Published: September 2024

Abstract
Background
There is a significant unmet treatment need for children and young people (CYP) with eating disorders. Guided self-help interventions have the potential to expand access to evidence-based treatments. Guided self-help is a type of low intensity psychological intervention where individuals engage with a workbook or online programme, with the support of a health professional. Its primary aim is to equip patients and/or their caregivers with self-management skills. However, little is currently known about the acceptability and suitability of guided self-help interventions for CYP with eating disorders. This study aimed to explore the perspectives of three key stakeholder groups – CYP with lived experience of eating disorders, parents/carers, and healthcare professionals – on guided self-help for this population.

Methods
Qualitative focus groups and semi-structured interviews were conducted with 11 CYP (aged 13–19 years) with lived experience of eating disorders, 12 parents/carers, and 10 healthcare professionals. The study comprised a total of seven focus groups (including 2 with CYP, 3 with parent/carers, and 2 with healthcare professionals), as well as four semi-structured interviews (including 3 with CYP and 1 with a parent/carer). Discussion topics included past experiences of using/delivering guided self-help, the suitability of guided self-help for CYP with eating disorders, and preferences towards the content, structure and modes of guided self-help. Data were analysed using reflexive thematic analysis.

Results
Three themes were generated across all three stakeholder groups. Theme one, Bridging the gap, highlighted the role of guided self-help in increasing access to psychological support for CYP with eating disorders. Theme two, Timing matters, considered the suitability of guided self-help for CYP with eating disorders at different stages of illness and the care pathway. Theme three, One size does not fit all, emphasised the heterogeneity of eating disorders and the need for a personalised and flexible approach in guided self-help.

Conclusions
Findings from this study lay a foundation for the future design and delivery of guided self-help interventions for CYP with eating disorders. Future work must consider these findings in the context of best available research evidence to optimise the potential utility of guided self-help for this population.
The statistical building blocks of animal movement simulations
Authors: Getz Wayne M. , Salter Richard , Sethi Varun , Cain Shlomo , Spiegel Orr , Toledo Sivan 
Published: September 2024

AbstractAnimal movement plays a key role in many ecological processes and has a direct influence on an individual’s fitness at several scales of analysis (i.e., next-step, subdiel, day-by-day, seasonal). This highlights the need to dissect movement behavior at different spatio-temporal scales and develop hierarchical movement tools for generating realistic tracks to supplement existing single-temporal-scale simulators. In reality, animal movement paths are a concatenation of fundamental movement elements (FuMEs: e.g., a step or wing flap), but these are not generally extractable from a relocation time-series track (e.g., sequential GPS fixes) from which step-length (SL, aka velocity) and turning-angle (TA) time series can be extracted. For short, fixed-length segments of track, we generate their SL and TA statistics (e.g., means, standard deviations, correlations) to obtain segment-specific vectors that can be cluster into different types. We use the centroids of these clusters to obtain a set of statistical movement elements (StaMEs; e.g.,directed fast movement versus random slow movement elements) that we use as a basis for analyzing and simulating movement tracks. Our novel concept is that sequences of StaMEs provide a basis for constructing and fitting step-selection kernels at the scale of fixed-length canonical activity modes: short fixed-length sequences of interpretable activity such as dithering, ambling, directed walking, or running. Beyond this, variable length pure or characteristic mixtures of CAMs can be interpreted as behavioral activity modes (BAMs), such as gathering resources (a sequence of dithering and walking StaMEs) or beelining (a sequence of fast directed-walk StaMEs interspersed with vigilance and navigation stops). Here we formulate a multi-modal, step-selection kernel simulation framework, and construct a 2-mode movement simulator (Numerus ANIMOVER_1), using Numerus RAMP technology. These RAMPs run as stand alone applications: they require no coding but only the input of selected parameter values. They can also be used in R programming environments as virtual R packages. We illustrate our methods for extracting StaMEs from both ANIMOVER_1 simulated data and empirical data from two barn owls (Tyto alba) in the Harod Valley, Israel. Overall, our new bottom-up approach to path segmentation allows us to both dissect real movement tracks and generate realistic synthetic ones, thereby providing a general tool for testing hypothesis in movement ecology and simulating animal movement in diverse contexts such as evaluating an individual’s response to landscape changes, release of an individual into a novel environment, or identifying when individuals are sick or unusually stressed.
Mechanism of initiation and regeneration of convective cell in Bandung Basin, Indonesia
Authors: Firdaus Irfans Maulana , Trilaksono Nurjanna Joko , Yamazaki Takeshi 
Published: September 2024

AbstractThe mechanism of convective cell initiation and regeneration in the Bandung Basin ($$107.35^\circ \text{E}-107.95^\circ \text{E};6.75^\circ \text{S}-7.25^\circ \text{S}$$

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), Indonesia, is investigated using a Weather Research and Forecasting model. Based on the Cumulative Distribution Function and Regeneration Index, model simulations were conducted using case studies in February–March 2019. Upslope wind flows to the mountain peak in north and south of the basin due to solar heating, carrying water vapor from the bottom of the basin. Therefore, low-level convergence is formed due to the convergence of winds from the bottom of the basin and from outside the basin. The low-level convergence causes the developing updraft, makes atmosphere unstable, and generates convective initiation. The convective system will be developed in the mountains region, produced precipitation, and formed cold pools on the surface. The cold pool will fall down the slopes and convective activity from the mountains will continue to the bottom of the basin. The convective system’s outflow causes the cold pool to move in the west–east direction. The cold pool will collide with warmer air from the opposite direction, resulting in an updraft at the cold pool leading edge, and convection will be re-initiated (convective regeneration) in the Bandung Basin, with the new convective system tending to move eastward.
Personalized prediction of immunotherapy response in lung cancer patients using advanced radiomics and deep learning
Authors: Liao Chien-Yi , Chen Yuh-Min , Wu Yu-Te , Chao Heng-Sheng , Chiu Hwa-Yen , Wang Ting-Wei , Chen Jyun-Ru , Shiao Tsu-Hui , Lu Chia-Feng 
Published: September 2024

Abstract
Background
Lung cancer (LC) is a leading cause of cancer-related mortality, and immunotherapy (IO) has shown promise in treating advanced-stage LC. However, identifying patients likely to benefit from IO and monitoring treatment response remains challenging. This study aims to develop a predictive model for progression-free survival (PFS) in LC patients with IO based on clinical features and advanced imaging biomarkers.

Materials and methods
A retrospective analysis was conducted on a cohort of 206 LC patients receiving IO treatment. Pre-treatment computed tomography images were used to extract advanced imaging biomarkers, including intratumoral and peritumoral-vasculature radiomics. Clinical features, including age, gene status, hematology, and staging, were also collected. Key radiomic and clinical features for predicting IO outcomes were identified using a two-step feature selection process, including univariate Cox regression and chi-squared test, followed by sequential forward selection. The DeepSurv model was constructed to predict PFS based on clinical and radiomic features. Model performance was evaluated using the area under the time-dependent receiver operating characteristic curve (AUC) and concordance index (C-index).

Results
Combining radiomics of intratumoral heterogeneity and peritumoral-vasculature with clinical features demonstrated a significant enhancement (p < 0.001) in predicting IO response. The proposed DeepSurv model exhibited a prediction performance with AUCs ranging from 0.76 to 0.80 and a C-index of 0.83. Furthermore, the predicted personalized PFS curves revealed a significant difference (p < 0.05) between patients with favorable and unfavorable prognoses.

Conclusions
Integrating intratumoral and peritumoral-vasculature radiomics with clinical features enabled the development of a predictive model for PFS in LC patients with IO. The proposed model’s capability to estimate individualized PFS probability and differentiate the prognosis status held promise to facilitate personalized medicine and improve patient outcomes in LC.
Revisiting the Person-relative-to-Event (PrE) model of coping with threat: a study in the Azores (Portugal)
Authors: Pereira Sofia Morgado , Rego Isabel Estrela , Mónico Lisete dos Santos Mendes 
Published: September 2024

Abstract
Background
Approximately 20 years have passed since the Person-relative-to-Event (PrE) Model of Coping with Threat was conceptualized. Despite its familiar name, this model has been under-researched. This study investigates the main assumptions of the PrE, identifies predictors of actual household earthquake adjustments in the absence of fear appeals using a non-experimental design, and proposes an alternative model: the Sequential Person-relative-to-Event Model of Coping with Threat (SPrE).

Methods
A survey methodology was employed with self-completed questionnaires from 822 residents of the Azores, an earthquake-vulnerable location. The associations between variables were examined. Structural Equation Modeling was applied to test the PrE and SPrE models.

Results
Actual household earthquake adjustment was associated with person, event, and person-relative-to-event appraisals, responsibility attributions, age, and educational level. There was a non-significant association with gender. Person-relative-to-event appraisal was a non-significant predictor of actual household earthquake adjustments and responsibility attributions did not moderate this relationship. We found that event appraisal predicted person appraisal and that its relationship with actual household earthquake adjustments was moderated by the responsibility attributions. Thus, a new hypothesis is proposed regarding the relationship between risk perception (equivalent to event appraisal) and actual household earthquake adjustments.

Conclusions
These results contribute to the literature, practice and cumulative scientific knowledge.
The remarkable larval morphology of Rhaebo nasicus (Werner, 1903) (Amphibia: Anura: Bufonidae) with the erection of a new bufonid genus and insights into the evolution of suctorial tadpoles
Authors: Dias Pedro Henrique dos Santos , Phillips Jackson R. , Pereyra Martín O. , Means D. Bruce , Haas Alexander , Kok Philippe J. R. 
Published: September 2024

AbstractTadpoles serve as crucial evidence for testing systematic and taxonomic hypotheses. Suctorial tadpoles collected in Guyana were initially assigned to Rhaebo nasicus through molecular phylogeny. Subsequent analysis of larval and adult morphological traits revealed synapomorphies within the clade encompassing R. nasicus and R. ceratophrys, prompting the recognition of a new genus described herein as Adhaerobufo. The new genus is distinguished from other bufonids by specific phenotypic traits including an enlarged, suctorial oral disc with distinct papillae arrangements, and the presence of certain muscles and narial vacuities at the larval stage. However, only a few adult external characteristics (e.g., enlarged eyelids, infraocular cream spot), seem to be reliably discriminative from related genera. This study underscores the significance of larval morphology in anuran systematics and offers new insights into the evolution of suctorial and gastromyzophorous larvae within bufonids.