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21 papers

Pulse‑level characterization of low monitor unit deliveries on a modern linear accelerator using a plastic scintillation detector.

White AJ et al. · Jul 1, 2026

Background Variability in low monitor unit (MU) deliveries has been previously documented, but the underlying pulse‑level behavior has not been fully described due to the integrating nature of most conventional detectors. A plastic scintillation detector (PSD) enables direct visualization of MU microstructure by isolating individual linac pulses. Purpose To use a high temporal resolution PSD to characterize pulse‑level MU substructure on a modern linac and quantify how variation in integral pulse magnitude and pulse count influence the reproducibility of low MU and fractional MU deliveries. Methods A Blue Physics Model 11 PSD was used to measure response from individual linac pulses of a Varian TrueBeam operating at energies of 6 MV, 6 MV FFF, 10 MV, and 10 MV FFF. Initial measurements benchmarked reproducibility in pulse count and dose per pulse by delivering 100 MU at a constant dose rate of 400 MU/min. Subsequent measurements focused on low MU cases, delivering 1-3 MU at dose rates of 5-2400 MU/min. Results The dose per pulse is variable during a single pulse train with a measured coefficient of variation (COV) of up to 13.3%. However, the average dose per pulse across multiple deliveries is stable ( Conclusions Time-resolved analysis shows that dose per pulse fluctuations and the limited number of pulses comprising low MU FFF deliveries lead to measurable variability in delivered MU. These findings characterize the pulsed MU substructure on a modern linac, in which each MU is composed of a finite number of discrete radiation pulses, and quantify the achievable precision of fractional MU delivery, which is fundamentally limited by the dose per pulse (∼0.1 MU for TrueBeam FFF beams).

Agricultural and Biological Sciences

Integrative SAXS and AFM analysis of engineered carbohydrate-active enzyme assemblies with tunable spatial organization.

Pardo Larrabeiti I et al. · Jul 1, 2026

Cellulosomes are multi-enzyme assemblies whose catalytic efficiency depends on the spatial organization of their components. However, their pronounced conformational flexibility has precluded quantitative characterization of inter-enzyme distances and overall topology. Here, we present a methodological framework to tailor and analyze the architecture of constrained multi-enzyme complexes composed of two endoglucanases AtCel8A and AtCel9R and one xylanase AtXyn11A by fixing enzyme positions using the Jo-In scaffold. This approach enables generation of defined assemblies structurally characterized by small-angle X-ray scattering (SAXS) and/or atomic force microscopy (AFM). SAXS analysis of the two-glucanase complexes reveals distinct scattering profiles corresponding to different degrees of compaction depending on the enzyme spatial arrangement. Complementary AFM imaging of bifunctional assemblies supports SAXS derived models at the single-particle level, reinforcing the robustness of the proposed workflow. The three-enzyme assemblies' SAXS measurements distinguish different constructions while showing relatively homogeneous radii of gyration (53 ± 2 Å) and maximum dimensions of 180 to 200 Å. Atomistic modeling using two independent approaches, DADIMODO and BILBO-MD, converges toward consistent average spatial organizations with constrained interdomain distance ranges, and consistent quantitative parameters validating the structural models. Altogether, the results establish a quantitative framework for designing tailored multi-enzyme assemblies. Jo-In scaffold provides a versatile tool for structural analysis of modular, dynamic protein complexes, advancing our understanding of structure-function relationship in multi-enzyme systems.

Agricultural and Biological Sciences

Ionomic Screening of BRRI dhan84 Mutagenized Population Identifies Candidate Genes Underlying High Arsenic and Low Zinc/Cadmium Accumulation.

Uddin S et al. · Jul 1, 2026

Mutagenesis combined with ionomic profiling offers a powerful approach to explore the genetic basis of essential and toxic element accumulation in rice grain and to generate materials for marker-assisted breeding. However, large-scale ionomic screening has not previously been conducted in Bangladeshi rice germplasm. To isolate mutants with altered grain concentrations of iron, zinc (Zn), arsenic (As), and cadmium (Cd), we mutagenized BRRI dhan84 using ethyl methanesulfonate (EMS; 0.5% and 1%) and gamma rays (250, 300, 350, and 400 Gy). A total of 8503 M 2 plants were screened for brown rice ionome using inductively coupled plasma mass spectrometry (ICP-MS). Candidate mutants were selected based on robust Z-scores (|Z-scores| > 2) of the elements for individual plants, resulting in the isolation of 38 mutants. To validate the screening process, two mutants were characterized in detail: high grain As (osabcc1-3) and low grain Zn and Cd (oshma2-4). Whole genome sequencing of the mutants and the correlation between phenotype and genotype in the F 2 population indicated that OsABCC1 and OsHMA2 are likely the causal genes. The osabcc1-3 mutant carries a splice-site mutation at the exon-intron junction of OsABCC1, whereas oshma2-4 harbors a 3.3 kb insertion in OsHMA2. Notably, oshma2-4 exhibited similar growth and yield to BRRI dhan84 in a paddy field, suggesting its potential for breeding low-Cd rice. Together, these results demonstrate the effectiveness of ionomic screening in Bangladeshi rice for uncovering allelic variation controlling metal homeostasis and provide valuable genetic resources and physiological insights relevant to rice improvement.

Agricultural and Biological Sciences

Comparative Effects of Laparotomy and Laparoscopy-Assisted Embryo Transfer on Oxidative Stress and Thiol-Disulphide Homeostasis in Tuj Ewes.

Demir MC et al. · Jul 1, 2026

Objectives In this study, it was aimed to compare the effects of embryo transfer performed via laparotomy and laparoscopy on thiol-disulphide homeostasis and some oxidative stress markers in Tuj ewes. Methods In the study, 10 Tuj ewes were randomly divided into two groups (laparotomy, n = 5; laparoscopy, n = 5). A progesterone-based synchronization protocol was applied to all animals. Blood samples were collected immediately before surgery, immediately after surgery, and at 24 and 48 h postoperatively. Serum levels of glutathione (GSH), malondialdehyde (MDA), total thiol (TT), native thiol (NT), disulphide (Ds) and thiol-disulphide ratios were determined. Results Group, time, and group × time interactions were found to be statistically significant for GSH, MDA, TT, and NT parameters (p 0.05), time-dependent changes in these parameters were statistically significant (p Conclusions As a result, it was concluded that the surgical approach used in embryo transfer affects the systemic oxidative stress response and that thiol-disulphide homeostasis can be considered a sensitive biomarker for revealing these differences. It was determined that the laparoscopic embryo transfer method disrupts redox balance to a lesser extent and better preserves the antioxidant defence system compared with laparotomy.

Agricultural and Biological Sciences

Cow Milk Risk Factors Associated With Bacterial Contaminations Along Dairy Value Chain in Lushoto and Handeni Districts, Tanzania.

Shija F et al. · Jul 1, 2026

Background Milk and milk products are of high nutritional value but mishandling of any kind along the value chain leads to contaminations that shorten shelf life and pose public health threats. Objectives To assess the milk handling practices, bacterial contaminations and determine selected milk-borne zoonotic pathogens along the dairy value chain in 14 villages. Methods A cross-sectional study was conducted in Lushoto and Handeni districts whereby 93 randomly selected respondents constituting farmers, vendors and restaurants/kiosks were interviewed and subsequently 166 milk samples were collected for microbiological enumeration and ascertain contaminations by Escherichia coli O157:H7 and Brucella abortus using standard protocols. Chi-square (χ 2 ) and confidence intervals were used to compare proportions of risk factors for milk microbial contaminations; a probability of p Results It was established that milking and milk storage was done under unhygienic conditions. Up to 92.1% of farmers had no training on livestock husbandry and milk handling practices. Mean bacterial counts in milk ranged between 3.3 and 5.8 log 10 , which is in line with the East African Standards (5.3 log10 cfu/mL). However, 87% and 93% of milk from farmers and vendors, respectively, had bacteria count above the recommended EAC standards of 2.0 × 10 5 cfu/mL implying poor microbiological quality. All milk samples had coliform plate count above EAC standards of 4.5 log CFU/mL. The mean bacterial count of 5.3 log10 cfu/mL was recorded with more counts in milk from vendors (4.6 to 6.1 log10 cfu/mL). Average levels of contamination in raw and pasteurised milk were not significantly different (p > 0.05). Factors related to hygienic practices of farmers along the milk production chain had no significant differences (p > 0.05) in microbial contamination. There was no E. coli O157:H7 contamination in milk, nonetheless B. abortus was detected in 37 out of 87 samples tested (42.5%) mostly from farmers. Conclusions Limited extension services, unhygienic practices along milk value chain contributed to high microbial contamination. Detection of B. abortus in milk is of public health significance due to its zoonotic potential. Therefore, the government and milk stakeholders should strengthen public and private livestock extension services for proper animal husbandry practices, improved milk value chain and control of zoonotic diseases.

Agricultural and Biological Sciences

Validation of a Pregnancy-Associated Glycoprotein-Based Lateral Flow Assay for Early Pregnancy Detection in Goats.

Kara MC et al. · Jul 1, 2026

Background The significant cross-reactivity between bovine, ovine, and caprine pregnancy-associated glycoproteins (PAGs) enables the adaptation of bovine-specific diagnostics for use in other ruminants; consequently, the Alertys OnFarm Pregnancy Test (AOFPT)-a blood-based lateral flow assay-provides a rapid and practical solution for pregnancy detection directly at the animal's head under field conditions. Objectives This study evaluated to assess and validate the performance of AOFPT in goats at days 21 and 28 post-mating, by comparing the results with serum progesterone (P4) analysis and using transabdominal ultrasonography (TAUS) as the gold standard. Methods The study involved 85 Kilis goats, five months post-partum. Estrus was synchronized using an 11-day progestagen device, d-cloprostenol, and PMSG. Whole blood and serum samples were collected on Days 21 and 28 post-mating. AOFPT was performed on-farm immediately after collection. For validation, serum progesterone concentrations were measured via electrochemiluminescence immunoassay, and TAUS was performed on Days 35 and 42, with Day 42 findings serving as the gold standard. Results Results indicated that on Day 21, AOFPT sensitivity, specificity, positive predictive value, and negative predictive value were 79.4%, 93.8%, 98.2%, and 51.7%, respectively. By Day 28, these metrics reached 100%, 81.3%, 95.8%, and 100%. Statistical agreement between AOFPT and the reference method was K = 0.55 (82.14%) on Day 21 and K = 0.87 (96.43%) on Day 28 (p Conclusions AOFPT demonstrated accuracy and reliability closely matching P4 measurements and the reference method. This test provides a practical tool for early on-farm pregnancy diagnosis in goats, potentially enhancing reproductive management and productivity in dairy goat farms and large herds.

Agricultural and Biological Sciences

Anatomical and Histological Characterization of the Intestine of Artibeus lituratus.

de Oliveira Magalhães M et al. · Jul 1, 2026

The order Chiroptera is highly diverse and is the second richest among mammals. Approximately 181 species are known in Brazil, with varied feeding habits that make them essential for ecological functions such as seed dispersal and plant regeneration. Despite the importance of their ecosystem services, the anatomical and histological aspects of the digestive system of these animals are still little explored. The aim of this study was to describe the anatomical and histomorphological aspects of the intestines of A. lituratus. Six individuals were captured in peri-urban areas of Rio Branco, Acre. After euthanasia, the intestines were removed, fixed in 10% formaldehyde and processed for macroscopic and histological analysis using Haematoxylin-Eosin staining. Macroscopically, it was not possible to accurately distinguish the small and large intestine portions. Microscopically, all the typical intestinal layers were present, with cells, glands and structures compatible with a frugivorous diet. The findings contribute to the knowledge of the species' digestive morphology and provide subsidies for future investigations into physiological adaptations related to its diet and ecology.

Agricultural and Biological Sciences

Fragmentation of Long Reads Enables Reliable Mitogenome Assembly From Whole-Genome Amplification Data With Pervasive Palindromic Reads.

Vecchi M et al. · Jul 1, 2026

Whole genome amplification (WGA), and in particular multiple displacement amplification (MDA), has become a key technique for genomic sequencing of microscopic organisms, yet it introduces artefacts such as palindromic (inverted chimeric) reads that may compromise downstream analyses. We assessed how pervasive palindromic reads generated by MDA impact the assembly of tardigrade (Acutuncus giovanniniae and A. mecnuffi) mitogenomes sequenced with Oxford Nanopore technology. We show that the MDA produces a high proportion of palindromic reads, often exceeding one-third of mitochondrial reads and frequently exhibiting complex multi-inversion structures. These artefacts severely impair long-read assembly, leading to low success rates and inconsistent genome reconstruction. To solve this issue, a strategy based on in silico fragmentation of long reads into short, high-quality fragments, followed by short-read assembly, consistently produced complete and accurate circularised mitochondrial genomes. Our results demonstrate that palindromic read formation can be, in some cases, a limitation of MDA coupled with long-read sequencing, but this issue can be mitigated through read fragmentation. This approach provides a simple, robust and scalable solution for mitogenome assembly from data heavily affected by amplification artefacts, particularly in microscopic taxa where whole genome amplification is often unavoidable.

Agricultural and Biological Sciences

Quantitative Microbial Risk Assessment of Human H5N1 Infection From Consumption of Fluid Cow's Milk.

Koebel KJ et al. · Jul 1, 2026

The spillover of H5N1 clade 2.3.4.4b into dairy cattle has raised concerns over the safety of fluid milk. While no foodborne infection has been reported in humans, this strain has infected at least 70 people, and milk from infected cows is known to be infected by ingestion of multiple other species. Investigation into the public health threat of this outbreak is warranted. This farm-to-table quantitative microbial risk assessment (QMRA) uses stochastic models to assess the risk of human infection from consumption of raw and pasteurized fluid cow's milk from the United States supply chains. These models were parameterized with literature emerging from this outbreak and then employed to estimate the H5N1 infection risk and evaluate multiple potential interventions aimed at reducing this risk. The median (5th and 95th percentiles) probabilities of infection per 240-mL serving of pasteurized, farmstore-purchased raw, or retail-purchased raw milk were 7.66E-19 (2.39E-20, 4.02E-17), 1.56E-7 (6.67E-10, 1.28E-5), and 1.40E-7 (6.65E-10, 1.13E-05), respectively. Our results confirm that pasteurization is highly effective at reducing H5N1 infection risk. Scenario analysis revealed quantitative real-time reverse transcriptase-polymerase chain reaction (qrRT-PCR) testing of bulk tank milk to be an effective method for numerically reducing risk from raw milk. In addition, we identify knowledge gaps related to the human H5N1 dose‒response by ingestion and raw milk consumption patterns. These findings emphasize the importance of mechanistic epidemiologic models for informing public health responses amidst outbreaks with foodborne potential and highlight the need for additional research into raw milk consumption patterns to better understand this exposure pathway.

Agricultural and Biological Sciences

Status of On-Farm Artificial Insemination Services and Effectiveness of Oestrus Synchronization in Dairy Cattle Under Small-Scale Dairy Farming System.

Milkias T et al. · Jul 1, 2026

Background Hormonal synchronization of oestrous has been an available technology to improve the efficiency of field artificial insemination (AI) in the dairy sector. Objective This study was aimed at investigating the breeding practices, status of AI and effectiveness of oestrus synchronization (ES) on small-scale dairy farming in selected districts of the Wolaita Zone. Methods Cross-sectional survey and retrospective data on the oestrus synchronization were collected and analysed. Descriptive statistics, chi-square tests, and indexed ranking procedures were applied to summarize the study data. Results The predominant mating system practiced by dairy farmers was AI (55.6%), and 73.5% of farmers apply controlled mating. The highest response rate to PGF 2 α administration was obtained for cattle of Sodo town (89.5%), followed by Boloso Sore (78.8%). A 30%-45.2% pregnancy rate was obtained across the study districts. Crossbred cattle have shown significantly (p > 0.001) higher response (87.1%) and pregnancy rates (47.9%) than the local animals. Likewise, 9.6%-18.5% of the birth rate was obtained from this study. Farmers' overall perceptions and desire to continue using oestrus synchronization were improving as a result of their application experiences over time. Moreover, shortage of AI inputs and AI technicians, heat detection skills, and inconsistency of the AI service during festivals, holidays, and weekends were reported as the major challenges prevailing in the study districts. Conclusions The study provided insights on improving input supply, accurate heat detection and intensified cattle management are necessities to enhance field AI services and increase pregnancy rates in synchronized animals.

Agricultural and Biological Sciences