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Keywords = spatial-time concordance

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29 pages, 1971 KB  
Article
Space-Time Analysis of Burgeoning US Atrial Septal Defect Rates Driven by Cannabis
by Albert Stuart Reece and Gary Kenneth Hulse
J. Xenobiot. 2026, 16(2), 68; https://doi.org/10.3390/jox16020068 - 14 Apr 2026
Viewed by 281
Abstract
Atrial septal defect (ASD) has become increasingly common in the USA and now affects 1 in 11.3 children in some places, but space–time analysis has not been applied to this emerging trend. ASD rate (ASDR) data were obtained from the National Birth Defects [...] Read more.
Atrial septal defect (ASD) has become increasingly common in the USA and now affects 1 in 11.3 children in some places, but space–time analysis has not been applied to this emerging trend. ASD rate (ASDR) data were obtained from the National Birth Defects Prevention Network 2003–2020. Substance (cigarettes, alcohol, cannabis, analgesics, cocaine) use data were obtained from the National Survey of Drug Use and Health. Income data were obtained from the US Census. Analysis was limited to the Non-Hispanic White population by technical factors. Time-sequential univariate and bivariate maps were prepared for both covariates and outcomes and their combinations. Spatial regression of the ASDR was performed using the R package splm. A total of 7.6% of data was interpolated by linear regression. A total of 110,107 ASD cases were identified amongst 17,751,437 live births in 27 US states across 10 reporting periods. Time series maps showed that ASDR showed concordant patterns with indices of cannabis use rather than other substances. This was confirmed by multivariate spatial regression where cannabis and cannabinoids alone were found to significantly relate to ASDR, with p = 0.00002 for cannabidiol. Cannabis legal status similarly tracked with ASDR. Compared to states where cannabis was not legal, ASDR was more prevalent in cannabis-legal states (OR = 2.73 (2.66, 2.80); E-Value 4.90 (lower C.I. 4.76)). Twenty-seven of 34 (79.4%) E-values were >9 (high range) and 34/34 were > 1.25 (causal threshold). Data show that cannabis, including cannabis legalization, is driving the US ASD epidemic. While most high-ASDR states have high rates of cannabis use, Midwestern states where cannabis is farmed, such as Kentucky, Tennessee and Missouri, do not, suggesting other routes of exposure, potentially implicating environmental contamination. ASD is a bellwether marker for cannabinoid teratogenicity, indicating that communities should carefully control cannabinoid exposure and limit transgenerational cannabinoid genotoxicity more generally. Full article
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17 pages, 3026 KB  
Article
A Plant-Level Survival Modeling Framework for Spatiotemporal Strawberry Canopy Decline Using UAV Multispectral Time Series
by Jon R. Detka, Adam J. Purdy, Forrest S. Melton, Oleg Daugovish, Christopher A. Greer and Frank N. Martin
Drones 2026, 10(4), 235; https://doi.org/10.3390/drones10040235 - 25 Mar 2026
Viewed by 431
Abstract
Timely identification of canopy decline in commercial strawberry production is challenging because visual scouting often misses subtle or spatially heterogeneous symptoms. We developed a plant-level UAV-based monitoring framework that integrates repeated multispectral imagery, canopy-derived metrics, unsupervised clustering, and Random Survival Forest (RSF) time-to-event [...] Read more.
Timely identification of canopy decline in commercial strawberry production is challenging because visual scouting often misses subtle or spatially heterogeneous symptoms. We developed a plant-level UAV-based monitoring framework that integrates repeated multispectral imagery, canopy-derived metrics, unsupervised clustering, and Random Survival Forest (RSF) time-to-event modeling. The framework was applied across three commercial strawberry fields in Oxnard, California using nine UAV surveys collected from December 2022 to June 2023, yielding 159,220 plant-level monitoring units. NDRE- and Redness Index-based classifications quantified proportional and absolute canopy dieback within standardized hexagonal units and supported survival-based modeling of canopy decline progression. Across withheld test plants from all survey dates, overall concordance indices ranged from 0.88 to 0.95 across fields, indicating strong ability to rank plants by time-to-decline risk under heterogeneous field conditions. Spatial risk maps revealed localized high-risk clusters that expanded over time in fields with greater canopy deterioration, while fields with minimal visible decline exhibited diffuse but stable risk distributions. Post-hoc comparison with operational fumigation rates (280, 336, and 392 kg Pic-Clor 60/ha) showed no consistent association with predicted canopy decline risk. These results demonstrate that framing repeated UAV observations as a time-to-event process enables fine-scale spatiotemporal modeling of canopy decline dynamics and supports risk stratification for targeted field monitoring in commercial strawberry systems. Full article
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13 pages, 1084 KB  
Article
Circulating Plasma Cells as a Minimally Invasive Adjunct to Bone Marrow Aspirates for Genetic Analysis of ER Stress and Autophagy in Multiple Myeloma: A Feasibility Study
by A.-M. Joëlle Marivel, Therese M. Becker, Alexander James, Yafeng Ma, Nirupama D. Verma, Tara L. Roberts and Silvia Ling
Biomedicines 2026, 14(4), 737; https://doi.org/10.3390/biomedicines14040737 - 24 Mar 2026
Viewed by 329
Abstract
Background: Multiple myeloma (MM) is characterised by clonal expansion of plasma cells (PCs) in the bone marrow (BM). Disease assessment and monitoring typically rely on invasive, single-site procedures, such as BM biopsies (BMBs), which may inadequately capture intra- and extra-medullary spatial heterogeneity. Circulating [...] Read more.
Background: Multiple myeloma (MM) is characterised by clonal expansion of plasma cells (PCs) in the bone marrow (BM). Disease assessment and monitoring typically rely on invasive, single-site procedures, such as BM biopsies (BMBs), which may inadequately capture intra- and extra-medullary spatial heterogeneity. Circulating plasma cells (CPCs), enriched from peripheral blood (PB), may represent a minimally invasive alternative or adjunct for molecular profiling. Objectives: This study aimed to evaluate the feasibility of using CPCs, enriched from PB, for mRNA analysis in plasma cell dyscrasia, including MM. A secondary objective was to assess whether mRNA expression levels of the endoplasmic reticulum (ER) stress sensors X-box-binding protein 1 (uXBP1) and activating transcription factor 6 (ATF6), and the chaperone-mediated autophagy marker Lysosomal-Associated Membrane Protein 2 (LAMP2A) by droplet digital PCR (ddPCR), were associated with resistance to the second-generation proteasome inhibitor (PI) carfilzomib (Cfz). Methods: Multiple myeloma (MM) cell lines (H929 and U266) and their carfilzomib-adapted derivatives were used to establish and validate droplet digital PCR (ddPCR) assays targeting ER stress (uXBP1, ATF6) and autophagy-related (LAMP2A) transcripts. Solid tumour cell lines, including serum-starved HeLa cells, served as biological controls to support assay specificity and sensitivity. Total RNA was extracted and reverse-transcribed to complementary DNA prior to analysis. Transcript levels were normalised to those of β-actin or GAPDH, as appropriate. ddPCR was performed using the BioRad QX200 system, with results reported as the normalised transcript copy number per microlitre of reaction. Matched bone marrow aspirate (BMA) and peripheral blood (PB) samples were collected at a single clinical time point from adults undergoing investigation for plasma cell dyscrasia between January 2021 and December 2023. Samples were obtained as part of standard clinical care and/or during treatment with Bortezomib (Btz) or Cfz. Mononuclear cells were isolated by density gradient centrifugation, and CD138+ plasma cells were enriched by fluorescence-activated cell sorting. Enrichment purity was assessed qualitatively by immunofluorescence microscopy using CD138 and CD117 markers. Samples yielding fewer than 1000 CD138+ plasma cells were excluded, resulting in 10 evaluable matched patient pairs. Results: Carfilzomib-adapted MM cell lines demonstrated reduced levels of uXBP1, ATF6, and LAMP2A mRNA compared to treatment-naïve cells. In matched BM and PB samples, uXBP1 mRNA levels were consistently lower in circulating PCs than in BM-derived PCs, whereas ATF6 mRNA levels were concordant between compartments. LAMP2A mRNA levels exhibited marked inter-patient heterogeneity. Conclusions: This study demonstrates the feasibility of using CPCs as a minimally invasive source for mRNA-based biomarker assessment and highlights ddPCR as a sensitive platform for quantifying ER stress and chaperone-mediated autophagy related transcripts in CPCs. Cfz adaptation was associated with reduced levels of uXBP1 and LAMP2A mRNA in MM cell lines. Future prospective studies evaluating the clinical utility of ER stress and chaperone-mediated autophagy associated transcripts in CPCs as predictors of resistance to PI are warranted. Full article
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20 pages, 6797 KB  
Article
Traffic-Informed Optimization of Last-Mile Delivery Using Hybrid Heuristic Approaches
by Afia Yeboah, Deo Chimba and Malshe Rohit
Future Transp. 2026, 6(2), 55; https://doi.org/10.3390/futuretransp6020055 - 27 Feb 2026
Viewed by 460
Abstract
The rapid growth of e-commerce has intensified operational and sustainability challenges in urban last-mile delivery, necessitating routing methods that perform reliably under realistic traffic and spatial conditions. This study evaluates three routing algorithms, Nearest Neighbor (NN), Clarke–WrightSavings (CWS), and Ant Colony Optimization (ACO), [...] Read more.
The rapid growth of e-commerce has intensified operational and sustainability challenges in urban last-mile delivery, necessitating routing methods that perform reliably under realistic traffic and spatial conditions. This study evaluates three routing algorithms, Nearest Neighbor (NN), Clarke–WrightSavings (CWS), and Ant Colony Optimization (ACO), using 1764 real-world Amazon delivery stops grouped into ten operational clusters in the Nashville metropolitan area. Travel distances and times were obtained through the Google Maps Distance Matrix API in driving mode to reflect actual road network structure and typical traffic conditions. Substantial performance differences were observed across algorithms and cluster configurations. NN achieved a strong performance in compact clusters (18.43 miles and 58.48 min in Cluster 4) but performed poorly in dispersed clusters (82.44 miles and 196.48 min in Cluster 9), reflecting high sensitivity to spatial dispersion. In contrast, CWS consistently reduced travel distance and time across clusters, achieving the shortest observed route (18.50 miles and 47.82 min in Cluster 10). Relative to ACO, CWS reduced travel distance by up to 42% (Cluster 9) and reduced travel time by over 45% in high-dispersion clusters. ACO exhibited the highest variability, with distances reaching 98.77 miles and travel times exceeding 218 min. Multi-criteria evaluation using efficiency ratios, distributional analysis, performance quadrant visualization, and a Composite Performance Index (CPI) confirmed the dominance of CWS. CPI scores of 1.00 (CWS), 0.78 (NN), and 0.00 (ACO) reflected balanced spatial and temporal efficiency under identical traffic-informed inputs. The results demonstrate that deterministic savings-based routing provides superior stability, efficiency, and scalability in semi-static urban delivery systems. However, the present study did not benchmark the evaluated algorithms against state-of-the-art exact TSP solvers (e.g., Concorde, LKH) or more recent metaheuristics such as Genetic Algorithms or Variable Neighborhood Search. The objective was to provide a controlled empirical comparison under consistent traffic-informed cost matrices rather than to establish global optimality bounds. Consequently, while the findings strongly support the relative superiority of the Clarke–Wright Savings approach within the evaluated framework, future research incorporating advanced exact and hybrid optimization methods would further contextualize algorithmic performance. Full article
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23 pages, 6070 KB  
Article
Test–Retest Reliability and Validity of a Sums-of-Gaussians-Based Markerless Motion Capture System for Human Lower-Limb Gait Kinematics
by Yifei Shou, Chuang Gao, Chenbin Xi, Junqi Jia, Jiaojiao Lü, Yufei Fang, Chengte Lin and Zhiqiang Liang
Bioengineering 2026, 13(3), 271; https://doi.org/10.3390/bioengineering13030271 - 26 Feb 2026
Viewed by 469
Abstract
Background and aim: Traditional marker-based optical motion capture systems are costly, time-consuming to operate, and constrained by laboratory environments, limiting their broader adoption in clinical practice and naturalistic settings. Markerless motion capture based on a sums-of-Gaussians (SoG) body model is a potential alternative; [...] Read more.
Background and aim: Traditional marker-based optical motion capture systems are costly, time-consuming to operate, and constrained by laboratory environments, limiting their broader adoption in clinical practice and naturalistic settings. Markerless motion capture based on a sums-of-Gaussians (SoG) body model is a potential alternative; however, its metrological properties for kinematic assessment during walking and slow running remain insufficiently validated. Using a conventional marker-based Vicon system as the reference, this study evaluated the reliability and concurrent validity of an SoG-based markerless system (MocapGS) for bilateral lower-limb joint range of motion (ROM) during gait. Methods: Thirty-six healthy adults completed self-selected-pace speed walking and slow running tasks while both systems synchronously acquired bilateral lower-limb kinematics. The intraclass correlation coefficient (ICC), standard error of measurement (SEM), SEM percentage (SEM%), minimal detectable change (MDC), MDC percentage (MDC%), and root mean square error (RMSE) were used to assess reliability. Concurrent validity was evaluated using the Pearson correlation coefficient, paired-sample t-tests, and the concordance correlation coefficient (CCC) to compare the ROM. Results: Vicon showed moderate-to-high reliability for ROM in most joints across both tasks. By contrast, the MocapGS achieved acceptable ICC values mainly for the sagittal-plane ROM at the hip and knee. The CCC analysis showed no significant agreement between the two systems. Bland–Altman plots showed systematic biases with spatially heterogeneous random errors. During walking, MocapGS systematically overestimated ROM relative to Vicon at several joint axes; the widest limits of agreement (LOA) occurred at the left knee X-axis and right hip Z-axis. During running, overestimation was consistent across all bilateral joints at the X-axis and the right hip at the Y-axis, while the widest LOA were found at the bilateral hip X-axes. These specific discrepancies highlighted the joint–axis combinations with the greatest measurement variance. In walking, the test–retest reliability of the knee flexion–extension ROM measured by the MocapGS approached that of Vicon; however, the SEM% and MDC% were generally larger for MocapGS than for Vicon. The RMSE exceeded 5 degrees for ROM in most joint planes, especially in the frontal and transverse planes and at distal joints; errors increased further during slow running. Conclusions: MocapGS may be used for coarse monitoring of large-magnitude changes in sagittal-plane kinematics during gait; however, it is currently unlikely to replace Vicon for clinical decision-making or detecting subtle gait changes, and its outputs should be interpreted with caution, particularly for ankle kinematics and non-sagittal-plane motion. Full article
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13 pages, 1659 KB  
Article
Image Feature Fusion of Hyperspectral Imaging and MRI for Automated Subtype Classification and Grading of Adult Diffuse Gliomas According to the 2021 WHO Criteria
by Ya Su, Jiazheng Sun, Rongxin Fu, Xiaoran Li, Jie Bai, Fengqi Li, Hongwei Yang, Ye Cheng and Jie Lu
Diagnostics 2026, 16(3), 458; https://doi.org/10.3390/diagnostics16030458 - 1 Feb 2026
Viewed by 668
Abstract
Background: Current histopathology- and molecular-based gold standards for diagnosing adult diffuse gliomas (ADGs) have inherent limitations in reproducibility and interobserver concordance, while being time-intensive and resource-demanding. Although hyperspectral imaging (HSI)-based computer-aided pathology shows potential for automated diagnosis, it often yields suboptimal accuracy due [...] Read more.
Background: Current histopathology- and molecular-based gold standards for diagnosing adult diffuse gliomas (ADGs) have inherent limitations in reproducibility and interobserver concordance, while being time-intensive and resource-demanding. Although hyperspectral imaging (HSI)-based computer-aided pathology shows potential for automated diagnosis, it often yields suboptimal accuracy due to the lack of complementary spatial and structural tumor information. This study introduces a multimodal fusion framework integrating HSI with routinely acquired preoperative magnetic resonance imaging (MRI) to enable automated, high-precision ADG diagnosis. Methods: We developed the Hyperspectral Attention Fusion Network (HAFNet), incorporating residual learning and channel attention to jointly capture HSI patterns and MRI-derived radiomic features. The dataset comprised 1931 HSI cubes (400–1000 nm, 300 spectral bands) from histopathological patches of six major World Health Organization (WHO)-defined glioma subtypes in 30 patients, together with their routinely acquired preoperative MRI sequences. Informative wavelengths were selected using mutual information. Radiomic features were extracted with the PyRadiomics package. Model performance was assessed via stratified 5-fold cross-validation, with accuracy and area under the curve (AUC) as primary endpoints. Results: The multimodal HAFNet achieved a macro-averaged AUC of 0.9886 and a classification accuracy of 98.66%, markedly outperforming the HSI-only baseline (AUC 0.9267, accuracy 87.25%; p < 0.001), highlighting the complementary value of MRI-derived radiomic features in enhancing discrimination beyond spectral information. Conclusions: Integrating HSI biochemical and microstructural insights with MRI radiomics of morphology and context, HAFNet provides a robust, reproducible, and efficient framework for accurately predicting 2021 WHO types and grades of ADGs, demonstrating the significant added value of multimodal integration for precise glioma diagnosis. Full article
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19 pages, 2272 KB  
Article
Enhancing PRRT Outcome Prediction in Neuroendocrine Tumors: Aggregated Multi-Lesion PET Radiomics Incorporating Inter-Tumor Heterogeneity
by Maziar Sabouri, Ghasem Hajianfar, Omid Gharibi, Alireza Rafiei Sardouei, Yusuf Menda, Ayca Dundar, Camila Gadens Zamboni, Sanchay Jain, Marc Kruzer, Habib Zaidi, Fereshteh Yousefirizi, Arman Rahmim and Ahmad Shariftabrizi
Cancers 2025, 17(23), 3887; https://doi.org/10.3390/cancers17233887 - 4 Dec 2025
Viewed by 990
Abstract
Introduction: Peptide Receptor Radionuclide Therapy (PRRT) with [177Lu]Lu-DOTA-TATE is effective in treating advanced Neuroendocrine Tumors (NETs), yet predicting individual response in this treatment remains a challenge due to inter-lesion heterogeneity. There is a lack of standardized, effective methods for using multi-lesion [...] Read more.
Introduction: Peptide Receptor Radionuclide Therapy (PRRT) with [177Lu]Lu-DOTA-TATE is effective in treating advanced Neuroendocrine Tumors (NETs), yet predicting individual response in this treatment remains a challenge due to inter-lesion heterogeneity. There is a lack of standardized, effective methods for using multi-lesion radiomics to predict progression and Time to Progression (TTP) in PRRT-treated patients. This study evaluated how aggregating radiomic features from multiple PET-identified lesions can be used to predict disease progression (event [progression and death] vs. event-free) and TTP. Methods: Eighty-one NETs patients with multiple lesions underwent pre-treatment PET/CT imaging. Lesions were segmented and ranked by minimum Standard Uptake Value (SUVmin) (both descending and ascending), SUVmean, SUVmax, and volume (descending). From each sorting, the top one, three, and five lesions were selected. For the selected lesions, radiomic features were extracted (using the Pyradiomics library) and lesion aggregation was performed using stacked vs. statistical methods. Eight classification models along with three feature selection methods were used to predict progression, and five survival models and three feature selection methods were used to predict TTP under a nested cross-validation framework. Results: The overall appraisal showed that sorting lesions based on SUVmin (descending) yields better classification performance in progression prediction. This is in addition to the fact that aggregating features extracted from all the lesions, as well as the top five lesions sorted by SUVmean, lead to the highest overall performance in TTP prediction. The individual appraisal in progression prediction models trained on the single top lesion sorted by SUVmin (descending) showed the highest recall and specificity despite data imbalance. The best-performing model was the Logistic Regression (LR) classifier with Recursive Feature Elimination (RFE) (recall: 0.75, specificity: 0.77). In TTP prediction, the highest concordance index was obtained using a Random Survival Forest (RSF) trained on statistically aggregated features from the top five lesions ranked by SUVmean, selected via Univariate C-Index (UCI) (C-index = 0.68). Across both tasks, features from the Gray Level Size Zone Matrix (GLSZM) family were consistently among the most predictive, highlighting the importance of spatial heterogeneity in treatment response. Conclusions: This study demonstrates that informed lesion selection and tailored aggregation strategies significantly impact the predictive performance of radiomics-based models for progression and TTP prediction in PRRT-treated NET patients. These approaches can potentially enhance model accuracy and better capture tumor heterogeneity, supporting more personalized and practical PRRT implementation. Full article
(This article belongs to the Section Methods and Technologies Development)
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19 pages, 6351 KB  
Article
Spatio-Temporal Variations in Soil Organic Carbon Stocks in Different Erosion Zones of Cultivated Land in Northeast China Under Future Climate Change Conditions
by Shuai Wang, Xinyu Zhang, Qianlai Zhuang, Zijiao Yang, Zicheng Wang, Chen Li and Xinxin Jin
Agronomy 2025, 15(11), 2459; https://doi.org/10.3390/agronomy15112459 - 22 Oct 2025
Cited by 2 | Viewed by 1258
Abstract
Soil organic carbon (SOC) plays a critical role in the global carbon cycle and serves as a sensitive indicator of climate change impacts, with its dynamics significantly influencing regional ecological security and sustainable development. This study focuses on the Songnen Plain in Northeast [...] Read more.
Soil organic carbon (SOC) plays a critical role in the global carbon cycle and serves as a sensitive indicator of climate change impacts, with its dynamics significantly influencing regional ecological security and sustainable development. This study focuses on the Songnen Plain in Northeast China—a key black soil agricultural region increasingly affected by water erosion, primarily through surface runoff and rill formation on gently sloping cultivated land. We aim to investigate the spatiotemporal dynamics of SOC stocks across different cultivated land erosion zones under projected future climate change scenarios. To quantify current and future SOC stocks, we applied a boosted regression tree (BRT) model based on 130 topsoil samples (0–30 cm) and eight environmental variables representing topographic and climatic conditions. The model demonstrated strong predictive performance through 10-fold cross-validation, yielding high R2 and Lin’s concordance correlation coefficient (LCCC) values, as well as low mean absolute error (MAE) and root mean square error (RMSE). Key drivers of SOC stock spatial variation were identified as mean annual temperature, elevation, and slope aspect. Using a space-for-time substitution approach, we projected SOC stocks under the SSP245 and SSP585 climate scenarios for the 2050s and 2090s. Results indicate a decline of 177.66 Tg C (SSP245) and 186.44 Tg C (SSP585) by the 2050s relative to 2023 levels. By the 2090s, SOC losses under SSP245 and SSP585 are projected to reach 2.84% and 1.41%, respectively, highlighting divergent carbon dynamics under varying emission pathways. Spatially, SOC stocks were predominantly located in areas of slight (67%) and light (22%) water erosion, underscoring the linkage between erosion intensity and carbon distribution. This study underscores the importance of incorporating both climate and anthropogenic influences in SOC assessments. The resulting high-resolution SOC distribution map provides a scientific basis for targeted ecological restoration, black soil conservation, and sustainable land management in the Songnen Plain, thereby supporting regional climate resilience and China’s “dual carbon” goals. These insights also contribute to global efforts in enhancing soil carbon sequestration and achieving carbon neutrality goals. Full article
(This article belongs to the Section Agroecology Innovation: Achieving System Resilience)
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30 pages, 5380 KB  
Article
Phytoindication Is a Useful Tool for Assessing the Response of Plant Communities to Environmental Factors
by Hanna Tutova, Olena Lisovets, Olha Kunakh and Olexander Zhukov
Diversity 2025, 17(10), 738; https://doi.org/10.3390/d17100738 - 21 Oct 2025
Cited by 3 | Viewed by 872
Abstract
Phytoindication represents a long-established ecological approach; however, its conceptual basis remains contested, particularly concerning whether it is merely a surrogate for measuring environmental factors or a distinct method for assessing biotic system responses. In this study, we analysed vegetation communities of the sandy [...] Read more.
Phytoindication represents a long-established ecological approach; however, its conceptual basis remains contested, particularly concerning whether it is merely a surrogate for measuring environmental factors or a distinct method for assessing biotic system responses. In this study, we analysed vegetation communities of the sandy terrace in the Dnipro-Oril Nature Reserve (Ukraine) using ecological indicator values, naturalness, and hemeroby indices. The Dnipro-Oril Nature Reserve provides an ideal setting for this study, as it integrates strong natural gradients of soil moisture, nutrient availability, and topography with pronounced anthropogenic influences from the surrounding industrial landscape. This allows the assessment of both natural and human-driven components of ecological variability within a single system. A dataset of 1079 relevés was collected and classified into 24 associations. Multivariate analyses were applied to reveal different aspects of vegetation–environment relationships: MANOVA was used to assess whether plant associations differed significantly in their ecological indicator profiles, CCA to identify the main gradients of species composition constrained by environmental factors, and partial CCA to isolate the specific patterns of vegetation response attributable to individual predictors while controlling for covariates. We found that the indicator values were not independent but strongly intercorrelated, reflecting integrated biotic responses rather than methodological artefacts. This was confirmed by consistent ecological interpretation of the principal component structure and the concordance between ordination patterns and vegetation classification results. Two primary gradients were identified: a natural gradient, which combines soil moisture and nutrient availability with decreasing light, temperature, continentality, and soil pH; and an anthropogenic gradient, represented by the hemeroby–naturalness axis. The interplay of these gradients offers a comprehensive explanation for vegetation structure across various spatial scales, with natural factors shaping community types and anthropogenic influences exerting broader, less specific effects due to their diffuse impact across multiple plant associations. Our findings reveal a novel conceptual perspective, supporting the view that phytoindication is a unique ecological tool for assessing the integrated response of plant communities to environmental drivers, including both natural and anthropogenic gradients, rather than a simplified or less precise substitute for instrumental measurements. Nevertheless, the use of phytoindication does not eliminate the need for instrumental measurements in situations requiring precise quantification of specific physical or chemical environmental parameters. The correlated structure of indicator values revealed in this study demonstrates that phytoindication patterns are specific to each landscape. Therefore, comparative assessments across regions or time periods should be based on the correlation patterns of indicator values rather than their absolute scores. Full article
(This article belongs to the Section Plant Diversity)
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16 pages, 2323 KB  
Article
Real-Time Intraoperative Decision-Making in Head and Neck Tumor Surgery: A Histopathologically Grounded Hyperspectral Imaging and Deep Learning Approach
by Ayman Bali, Saskia Wolter, Daniela Pelzel, Ulrike Weyer, Tiago Azevedo, Pietro Lio, Mussab Kouka, Katharina Geißler, Thomas Bitter, Günther Ernst, Anna Xylander, Nadja Ziller, Anna Mühlig, Ferdinand von Eggeling, Orlando Guntinas-Lichius and David Pertzborn
Cancers 2025, 17(10), 1617; https://doi.org/10.3390/cancers17101617 - 10 May 2025
Cited by 7 | Viewed by 3355
Abstract
Background: Accurate and rapid intraoperative tumor margin assessment remains a major challenge in surgical oncology. Current gold-standard methods, such as frozen section histology, are time-consuming, operator-dependent, and prone to misclassification, which limits their clinical utility. Objective: To develop and evaluate a novel hyperspectral [...] Read more.
Background: Accurate and rapid intraoperative tumor margin assessment remains a major challenge in surgical oncology. Current gold-standard methods, such as frozen section histology, are time-consuming, operator-dependent, and prone to misclassification, which limits their clinical utility. Objective: To develop and evaluate a novel hyperspectral imaging (HSI) workflow that integrates deep learning with three-dimensional (3D) tumor modeling for real-time, label-free tumor margin delineation in head and neck squamous cell carcinoma (HNSCC). Methods: Freshly resected HNSCC samples were snap-frozen and imaged ex vivo from multiple perspectives using a standardized HSI protocol, resulting in a 3D model derived from HSI. Each sample was serially sectioned, stained, and annotated by pathologists to create high-resolution 3D histological reconstructions. The volumetric histological models were co-registered with the HSI data (n = 712 Datacubes), enabling voxel-wise projection of tumor segmentation maps from the HSI-derived 3D model onto the corresponding histological ground truth. Three deep learning models were trained and validated on these datasets to differentiate tumor from non-tumor regions with high spatial precision. Results: This work demonstrates strong potential for the proposed HSI system, with an overall classification accuracy of 0.98 and a tumor sensitivity of 0.93, underscoring the system’s ability to reliably detect tumor regions and showing high concordance with histopathological findings. Conclusion: The integration of HSI with deep learning and 3D tumor modeling offers a promising approach for precise, real-time intraoperative tumor margin assessment in HNSCC. This novel workflow has the potential to improve surgical precision and patient outcomes by providing rapid, label-free tissue differentiation. Full article
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17 pages, 6024 KB  
Article
Spatial Estimation of Soil Organic Matter and Total Nitrogen by Fusing Field Vis–NIR Spectroscopy and Multispectral Remote Sensing Data
by Dongyun Xu, Songchao Chen, Yin Zhou, Wenjun Ji and Zhou Shi
Remote Sens. 2025, 17(4), 729; https://doi.org/10.3390/rs17040729 - 19 Feb 2025
Cited by 8 | Viewed by 3017
Abstract
Accurate and timely acquisition of soil information is crucial for precision agriculture, food security, and environmental protection. Proximal visible near-infrared reflectance (vis–NIR) spectroscopy has been widely employed for rapid and accurate soil measurement, but its point measurement nature limits its direct applicability for [...] Read more.
Accurate and timely acquisition of soil information is crucial for precision agriculture, food security, and environmental protection. Proximal visible near-infrared reflectance (vis–NIR) spectroscopy has been widely employed for rapid and accurate soil measurement, but its point measurement nature limits its direct applicability for large-scale soil surveys. On the other hand, remote sensing techniques can provide soil information at a larger scale, but their resolution is relatively coarse. While both techniques have been used independently for soil analyses, integrating vis–NIR spectroscopy with remote sensing remains a challenge and is underexplored, especially at the field scale. This study addresses this gap by combining field vis–NIR spectra with Gaofen-1 remote sensing data to spatially analyze soil organic matter and total nitrogen at the field scale. Unlike previous work, we first applied Gaofen-1 data and 10 derived spectral indices to estimate soil organic matter and total nitrogen using partial least squares regression and random forest, identifying the optimal combination of spectral indices. Then, we integrated the proximal vis–NIR spectra with this optimal spectral index combination for improved soil property estimation. This integration advanced existing methodologies by leveraging the high spatial resolution of Gaofen-1 data and the detailed spectral information from vis–NIR spectroscopy. The results showed the following: (1) the coefficient of variation across different crop growth stages of Gaofen-1 data was more crucial for modeling these two properties compared to bare soil Gaofen-1 data; (2) integrating proximal vis–NIR spectra with Gaofen-1 data improved model performance, yielding Lin’s concordance correlation coefficient (ρc) values of 0.63 and 0.72 and ratios of performance to interquartile distance (RPIQ) of 1.99 and 1.59 for soil organic matter and total nitrogen, respectively; and (3) the combined use of vis–NIR spectra and Gaofen-1 data provided higher spatial estimation accuracy (R2 of 0.68 and 0.57 for soil organic matter and total nitrogen) compared to ordinary kriging (R2 of 0.63 and 0.31 for soil organic matter and total nitrogen). These results demonstrate that the synergistic use of remote sensing and proximal soil sensing is a practical approach for spatially estimating soil organic matter and total nitrogen at the field scale. Full article
(This article belongs to the Section Remote Sensing in Agriculture and Vegetation)
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24 pages, 9559 KB  
Article
Exploring the Effect of Sampling Density on Spatial Prediction with Spatial Interpolation of Multiple Soil Nutrients at a Regional Scale
by Prava Kiran Dash, Bradley A. Miller, Niranjan Panigrahi and Antaryami Mishra
Land 2024, 13(10), 1615; https://doi.org/10.3390/land13101615 - 4 Oct 2024
Cited by 9 | Viewed by 3387
Abstract
Essential soil nutrients are dynamic in nature and require timely management in farmers’ fields. Accurate prediction of the spatial distribution of soil nutrients using a suitable sampling density is a prerequisite for improving the practical utility of spatial soil fertility maps. However, practical [...] Read more.
Essential soil nutrients are dynamic in nature and require timely management in farmers’ fields. Accurate prediction of the spatial distribution of soil nutrients using a suitable sampling density is a prerequisite for improving the practical utility of spatial soil fertility maps. However, practical research is required to address the challenge of selecting an optimal sampling density that is both cost-effective and accurate for preparing digital soil nutrient maps across regional extents. This study examines the impact of sampling density on spatial prediction accuracy for a range of soil fertility parameters over a regional extent of 8303 km2 located in eastern India. Surface soil samples were collected from 1024 sample points. The performance of six levels of sampling densities for spatial prediction of 14 soil properties was compared using ordinary kriging. From the sample points, randomization was used to select 224 points for validation and the remaining 800 for calibration. Goodness-of-fit for the semi-variograms was evaluated by R2 of model fit. Lin’s concordance correlation coefficient (CCC) and root mean square error (RMSE) were evaluated through independent validation as spatial prediction accuracy parameters. Results show that the impact of sampling density on prediction accuracy was unique for each soil property. As a common trend, R2 of model fit and CCC scores improved, and RMSE values declined with the increasing sampling density for all soil properties. On the other hand, the rate of gain in the accuracy metrics with each increment in the sampling density gradually decreased and ultimately plateaued. This indicates that there exists a sampling density threshold beyond which the extra effort on additional sampling adds less to the spatial prediction accuracy. The findings of this study provide a valuable reference for optimizing soil nutrient mapping across regional extents. Full article
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15 pages, 3098 KB  
Article
Magnetoencephalography Atlas Viewer for Dipole Localization and Viewing
by N.C.d. Fonseca, Jason Bowerman, Pegah Askari, Amy L. Proskovec, Fabricio Stewan Feltrin, Daniel Veltkamp, Heather Early, Ben C. Wagner, Elizabeth M. Davenport and Joseph A. Maldjian
J. Imaging 2024, 10(4), 80; https://doi.org/10.3390/jimaging10040080 - 28 Mar 2024
Cited by 1 | Viewed by 3215
Abstract
Magnetoencephalography (MEG) is a noninvasive neuroimaging technique widely recognized for epilepsy and tumor mapping. MEG clinical reporting requires a multidisciplinary team, including expert input regarding each dipole’s anatomic localization. Here, we introduce a novel tool, the “Magnetoencephalography Atlas Viewer” (MAV), which streamlines this [...] Read more.
Magnetoencephalography (MEG) is a noninvasive neuroimaging technique widely recognized for epilepsy and tumor mapping. MEG clinical reporting requires a multidisciplinary team, including expert input regarding each dipole’s anatomic localization. Here, we introduce a novel tool, the “Magnetoencephalography Atlas Viewer” (MAV), which streamlines this anatomical analysis. The MAV normalizes the patient’s Magnetic Resonance Imaging (MRI) to the Montreal Neurological Institute (MNI) space, reverse-normalizes MNI atlases to the native MRI, identifies MEG dipole files, and matches dipoles’ coordinates to their spatial location in atlas files. It offers a user-friendly and interactive graphical user interface (GUI) for displaying individual dipoles, groups, coordinates, anatomical labels, and a tri-planar MRI view of the patient with dipole overlays. It evaluated over 273 dipoles obtained in clinical epilepsy subjects. Consensus-based ground truth was established by three neuroradiologists, with a minimum agreement threshold of two. The concordance between the ground truth and MAV labeling ranged from 79% to 84%, depending on the normalization method. Higher concordance rates were observed in subjects with minimal or no structural abnormalities on the MRI, ranging from 80% to 90%. The MAV provides a straightforward MEG dipole anatomic localization method, allowing a nonspecialist to prepopulate a report, thereby facilitating and reducing the time of clinical reporting. Full article
(This article belongs to the Section Neuroimaging and Neuroinformatics)
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23 pages, 6423 KB  
Article
Soil Organic Carbon Stock Prediction: Fate under 2050 Climate Scenarios, the Case of Eastern Ethiopia
by Martha Kidemu Negassa, Mitiku Haile, Gudina Legese Feyisa, Lemma Wogi and Feyera Merga Liben
Sustainability 2023, 15(8), 6495; https://doi.org/10.3390/su15086495 - 11 Apr 2023
Cited by 6 | Viewed by 3824
Abstract
Soil Organic carbon (SOC) is vital to the soil’s ecosystem functioning as well as improving soil fertility. Slight variation in C in the soil has significant potential to be either a source of CO2 in the atmosphere or a sink to be [...] Read more.
Soil Organic carbon (SOC) is vital to the soil’s ecosystem functioning as well as improving soil fertility. Slight variation in C in the soil has significant potential to be either a source of CO2 in the atmosphere or a sink to be stored in the form of soil organic matter. However, modeling SOC spatiotemporal changes was challenging due to lack of data to represent the high spatial heterogeneity in soil properties. Less expensive techniques, digital soil mapping (DSM) combined with space-for-time substitution (SFTS), were applied to predict the present and projected SOC stock for temperature and rainfall projections under different climate scenarios represented by the four Representative Concentration Pathways (RCPs): RCP2.6, RCP4.5, RCP6, and RCP8.5). The relationship between environmental covariates (n = 16) and measured SOC stock (148 samples) was developed using a random forest model. Then, the temporal changes in SOC stock over the baseline were developed for the top 30 cm soil depth of the selected districts (Chiro Zuria, Kuni, Gemechis and Mieso) of West Hararghe Zone at 30 m resolution. The model validation using the random sample of 20% of the data showed that the model explained 44% of the variance (R2) with a root mean square error (RMSE) of 8.96, a mean error (ME) of 0.16, and a Lin’s concordance correlation coefficient (CCC) of 0.88. Temperature was the most important predictor factor influencing the spatial distribution of SOC stock. An overall net gain of SOC stock over the present C stock was expected in the study area by 2050. The gain in areas with the lower baseline SOC stock counterbalanced the loss in areas with the higher baseline stock. The changes in the SOC stock depended on land use land cover (LULC), soil type, and agro-ecological zones. By 2050, cropland is supposed to lose its SOC stock under all RCPs; therefore, appropriate decisions are crucial to compensate for the loss of C. Full article
(This article belongs to the Section Sustainable Agriculture)
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16 pages, 1605 KB  
Article
Simulating and Forecasting the COVID-19 Spread in a U.S. Metropolitan Region with a Spatial SEIR Model
by Faizeh Hatami, Shi Chen, Rajib Paul and Jean-Claude Thill
Int. J. Environ. Res. Public Health 2022, 19(23), 15771; https://doi.org/10.3390/ijerph192315771 - 27 Nov 2022
Cited by 12 | Viewed by 3225
Abstract
The global COVID-19 pandemic has taken a heavy toll on health, social, and economic costs since the end of 2019. Predicting the spread of a pandemic is essential to developing effective intervention policies. Since the beginning of this pandemic, many models have been [...] Read more.
The global COVID-19 pandemic has taken a heavy toll on health, social, and economic costs since the end of 2019. Predicting the spread of a pandemic is essential to developing effective intervention policies. Since the beginning of this pandemic, many models have been developed to predict its pathways. However, the majority of these models assume homogeneous dynamics over the geographic space, while the pandemic exhibits substantial spatial heterogeneity. In addition, spatial interaction among territorial entities and variations in their magnitude impact the pandemic dynamics. In this study, we used a spatial extension of the SEIR-type epidemiological model to simulate and predict the 4-week number of COVID-19 cases in the Charlotte–Concord–Gastonia Metropolitan Statistical Area (MSA), USA. We incorporated a variety of covariates, including mobility, pharmaceutical, and non-pharmaceutical interventions, demographics, and weather data to improve the model’s predictive performance. We predicted the number of COVID-19 cases for up to four weeks in the 10 counties of the studied MSA simultaneously over the time period 29 March 2020 to 13 March 2021, and compared the results with the reported number of cases using the root-mean-squared error (RMSE) metric. Our results highlight the importance of spatial heterogeneity and spatial interactions among locations in COVID-19 pandemic modeling. Full article
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