Search Results (74)

Parthenium hysterophorus L. is highly invasive across many countries, impacting agriculture, human and animal health and the environment. Despite a widespread invasive range, the persistence of P. hysterophorus seeds (achenes) in the soil profile has been identified as a gap in current knowledge. A long-term seed persistence field trial was under-taken, where packets of P. hysterophorus seeds were buried, retrieved periodically over 10 years and the viability assessed. Time, burial depth and soil type (clay or loam) significantly influenced seed viability. Overall viability was <5% after 5 years, and <0.2% of viable seed was recovered after 7 to 10 years. The decline was faster in seeds at 0 cm (on the soil surface) and buried at 20 cm and slower in seeds buried at 2.5 cm and 10 cm. At most retrieval times viability was higher in seeds retrieved from clay soil plots than from loam soil plots. Pasture cover (present or excluded) did not significantly influence the viability of seeds. Data from controlled ageing laboratory experiments indicated persistent seeds and complemented the field trial data. Based on the weight of 1000 seeds, less than 20 mm of rainfall could incorporate 50% of seeds into three soil types. Parthenium hysterophorus develops a persistent seed bank when incorporated into the soil and infestations will require longer-term control even if seed input is prevented. Full article

The sustainability, crop production, and food safety of agriculture are increasingly challenged by microplastic pollution, as agricultural soils are the largest reservoirs and may serve as points of contact for plastic particles in the food chain. This review provides a comprehensive overview of plant materials, fate and uptake pathways, detection techniques, and the possible risks of microplastics in agriculture. Agroecosystems are also a source of microplastics, such as plastic mulch films, sewage sludge, compost and manure additives, wastewater irrigation, polymer-coated fertilizers, greenhouse materials, atmospheric deposition, and decomposition of discarded agricultural plastics. Their distribution and mobility in soil are controlled by polymer composition, particle size, morphology, density, surface ageing, soil texture, organic matter content, tillage practices, runoff, leaching, and soil biota. Recent data show that microplastics, especially smaller microplastics and nanoplastics, can attach to root surfaces, penetrate plants via cracks in roots, areas of lateral root development, and apoplastic pathways, and eventually move to tissues aboveground. Plant tissue detection is often accomplished by digestion of the sample, density separation, visual and fluorescence microscopy, Fourier-transform infrared spectroscopy, Raman spectroscopy, pyrolysis–gas chromatography mass spectrometry, and electron microscopy, but standardization of these methods remains a significant challenge. Microplastics can disrupt seed germination, root structure, nutrient absorption, photosynthesis, oxidative homeostasis, biomass buildup, yield development, and quality. Further, their capacity to transport additives, plasticizers, heavy metals, and persistent organic pollutants raises concerns about the transfer of contaminants to edible plant parts and their potential transfer to human diets. Further studies are needed focusing on field-realistic exposure conditions, long-term crop–soil interactions, nanoplastics behaviour, standardised analysis procedures, uptake and translocation pathways, edible crop risk assessments, and sustainable mitigation approaches to reduce microplastics in agroecosystems. Full article

Plants in agricultural systems rarely face single stressors; instead, they encounter concurrent biotic (pathogen, pests) and abiotic (drought, salinity, heavy metals) stresses that causes severely reduce crop yields and endanger food security. The traditional methods of breeding, genetic engineering, and agrochemicals tend to target individual stresses and still do not suffice in the complex field conditions. Compared to these approaches, nanotechnology offers distinct advantages: nanoparticles (NPs) can be applied as foliar sprays or seed treatments without lengthy breeding cycles or regulatory hurdles associated with genetically modified organisms. However, nanotechnology is not inherently “better” but rather complementary to crop engineering; each approach has specific strengths. Breeding and genetic engineering provide heritable, long-term solutions, while nanotechnology offers immediate, season-specific, and reversible interventions. Cross-tolerance, the phenomenon whereby exposure to one stress enhances tolerance to another, offers a promising alternative. This review critically examines how NPs act as stress-priming agents that induce cross-tolerance by activating overlapping defense networks, including antioxidant systems (SOD, CAT, APX), phytohormonal crosstalk (ABA, SA, JA), osmolyte homeostasis, and stress-responsive gene expression. We synthesize current evidence on NP uptake, translocation, and cellular interactions, and evaluate their dual role in directly suppressing pathogens while simultaneously enhancing plant immune responses and physiological resilience. However, efficacy is highly dose-dependent: low, subtoxic doses prime defense through hermetic ROS signaling, whereas supraoptimal doses cause phytotoxicity. The current challenges in nano-mediated stress alleviation include: (i) a persistent laboratory-to-field translation gap, with field outcomes averaging only 60–70% of greenhouse efficacy; (ii) dose-dependent phytotoxicity; (iii) poor reproducibility across studies; (iv) scalability and formulation stability issues; and (v) insufficient understanding of long-term environmental fate, including soil accumulation, non-target organism effects, and food chain safety. Future research should consider field-validated formulations (e.g., SiNPs, ZnONPs, Fe₃O₄NPs) across major staple crops); integrating nanotechnology with precision agriculture through nanosensors, remote sensing, and artificial intelligence for site-specific, dose-optimized applications;developing smart, biodegradable nanoparticles with stimuli-responsive release; and establishing harmonized regulatory frameworks for nano-agrochemical approval. When deployed responsibly, nanoparticle-induced cross-tolerance represents a sustainable approach to improve crop resistance against multifactorial stress, with significant implications for climate-resilient agriculture and global food security. Full article

Range limits are often hypothesized to arise from reduced reproductive success at distributional margins, yet direct tests integrating pollination and post-pollination processes remain uncommon. Whether reproductive failure constrains the distylous Gelsemium sempervirens at its western range edge in eastern Texas was investigated by quantifying flowering phenology, floral visitation, pollinator effectiveness, and seed fate over two flowering seasons. Flowering timing differed markedly between years due to freeze events, but flowering effort and morph synchrony remained high. Although multiple floral visitors were recorded, fruit set was overwhelmingly associated with the southeastern blueberry bee (Habropoda laboriosa), which dominated visitation and remained active throughout the flowering period. No evidence of autonomous self-pollination or breakdown of functional distyly was detected. Seed set in unattacked fruits was high and comparable to values reported from central-range populations. In contrast, post-pollination seed loss due to cryptic fruit herbivory substantially reduced seed survival, though herbivory patterns did not differ qualitatively from those documented elsewhere in the species’ range. Together, these results indicate that reproductive failure does not explain the abrupt western range limit of G. sempervirens and instead suggest that ecological transitions associated with the forest–prairie ecotone, rather than pollination or early seed development, may play a more important role in shaping the species’ distribution. Full article

With the growing global population and the challenges posed by climate change on agriculture, improving seed germination quality has become an urgent task. Nanotechnology, particularly silver nanoparticles (AgNPs), offers a promising approach to this issue. However, their long-term environmental impact and health risks require further evaluation.This review first explores the physicochemical properties of AgNPs and their effects on plant growth and seed development. Next, the review discusses the mechanisms by which AgNPs enhance seed resistance to pathogens, regulate reactive oxygen species (ROS) balance, activate key metabolic enzymes, induce metabolite accumulation, and modulate plant hormone levels. Additionally, the review explores how AgNPs influence seed gene expression, proteomic networks, and the germination microenvironment. Given the lack of field data on long-term low-dose exposure and challenges in monitoring morphological transformation, the review also evaluates the potential risks of AgNPs in agriculture. These risks include their accumulation in the food chain, environmental transformation, and long-term effects.The review aims to summarize the mechanisms by which AgNPs impact seed germination and plant growth, providing a theoretical basis for their cautious use in agricultural and horticultural practices, while considering their environmental fate and health risks. Full article

Graphene oxide (GO) is a carbon-based nanomaterial explored for agricultural and forestry uses, but plant responses are strongly subject to both the dose and the route of exposure. We summarized recent studies with defined graphene oxide (GO) exposures by seed priming, foliar delivery, and root or soil exposure, while comparing annual crops with woody forest plants. Mechanistic progress points to a shared physicochemical basis: surface oxygen groups and sheet geometry reshape water and ion microenvironments at the soil–seed and soil–rhizosphere interfaces, and many reported shifts in antioxidant enzymes and hormone pathways likely represent downstream stress responses. In crops, low-to-moderate doses most consistently improve germination, root architecture, and tolerance to salinity or drought stress, whereas high doses or prolonged root exposure can cause root surface coating, oxidative injury, and photosynthetic inhibition. In forest plants, evidence remains limited and often relies on seedlings or tissue culture. For forest plants with long life cycles, processes such as soil persistence, aging, and multi-seasonal carry-over become key factors, especially in nurseries and restoration substrates. The available data indicate predominant root retention with generally limited root-to-shoot translocation, so residues in edible and medicinal organs remain insufficiently quantified under realistic-use patterns. This review provides a scenario-based framework for crop- and forestry-specific safe-dose windows and proposes standardized endpoints for long-term fate and ecological risk assessment. Full article

Unsymmetrical dimethylhydrazine (1,1-Dimethylhydrazine, UDMH) is widely used as a high-performance liquid rocket propellant for the space industry globally. The release and leakage of UDMH into the environment, especially the soil environment, pose serious threats to ecosystems and human beings. In order to reveal the hazards of UDMH to soil and facilitate subsequent remediation, the adsorption behavior of UDMH in typical soil (yellow-brown soil, red soil, and black soil) matrices was explored, the environmental fate and toxicity of UDMH were presented by simulation calculation, and the phytotoxicity was evaluated by germination assay in the present study. The results showed that the adsorption performance of red soil, yellow-brown soil, and black soil for UDMH increased sequentially by integrating the findings from kinetic and thermodynamic studies. A highly significant correlation between the physicochemical and adsorption parameters for various soil matrices indicated a considerable impact of soil physicochemical properties on the adsorption behavior of UDMH in soils. The environmental fate simulation calculation indicated that UDMH and its transformation products were prone to being dissolved in soil water and migrating; however, once these compounds were present in the surface layer of dry soil, severe ecological and environmental pollution would occur. Based on a thorough evaluation of the toxicity parameters, formaldehyde dimethylhydrazone has been identified as demonstrating the most pronounced environmental toxicity profile, thus warranting prioritized attention. The results of a germination assay demonstrated that more than 100 mg·kg⁻¹ of UDMH in the soil would lead to strong phytotoxicity to plants, and more than 200 mg·kg⁻¹ of UDMH would significantly affect the early germination of seeds. Hence, this research provided helpful insights and theoretical support for the environmental fate and remediation of UDMH. Full article

Environmental changes may affect animal hoarding behavior through changes to plant diversity. Food hoarding behavior in small mammals can affect the seed dispersal process and thus the regeneration of the plant population. However, little is known about how small mammals select seeds of different sizes under different forest types. Here, we tracked the fates of 3360 seeds in the field. We used a generalized linear mixed model to analyze the effects of small mammals on three fates (predation in situ, predation after dispersal, hoarding after dispersal) and two dispersal distances (predation distance after dispersal and hoarding distance after dispersal) of different seeds by size and forest type. The results showed that small mammals consume smaller seeds in situ and cache larger seeds after dispersal. The predation distance after dispersal and hoarding distance after dispersal of the large seeds were significantly higher than those of small seeds. Forest types with dense vegetation conditions exhibited lower hoarding rates after dispersal, while those with poor vegetation conditions had increased predation and hoarding distances after dispersal. Our results suggest that larger seeds are dispersed to further distances, potentially enhancing plant population regeneration. However, seeds are more often scatter-hoarded and dispersed over longer distances in forests with poor vegetation conditions, which may also benefit plant population regeneration. These results provide insights into how seed size and forest type influence seed predation and dispersal by small mammals. Full article

KNOX genes play crucial roles in cell-fate determination and body plan specification during early embryogenesis. However, the specific gene structure and functional differentiation of KNOXs in Brassica napus is still unclear. We investigated KNOX genes in Brassica rapa (B. rapa), Brassica oleracea (B. oleracea), and Brassica napus (B. napus), which are polyploidy models with genome triplication after Arabidopsis-Brassiceae divergence. In total, 15, 14, and 32 KNOX genes were identified in B. rapa, B. oleracea, and B. napus, respectively. Phylogenetic analysis classified BnKNOXs (B. napus) into three classes with conserved domain organization. Synteny analysis indicated that BnKNOXs family expansion during allopolyploidization was mainly due to whole-gene and segmental duplications. Cis-element, gene structure, and expression pattern analyses showed high conservation within the same group. RNA-seq and qRT-PCR results divided BnKNOXs into three classes with distinct expression patterns: Class I exhibited moderate and specific expression in buds and inflorescence tips; Class III showed specific low expression in seeds and stamens; while the second class showed expression in most tissues. Sub-cellular localization results showed that the three candidate genes from the three classes exhibited distinct subcellular localizations, with BnSTM-C and BnKNAT3a-A predominantly in the nucleus and BnKNATM1-A in the cytoplasm indicating different expression patterns. Collectively, these findings provide a foundation for further functional studies of BnKNOX genes in B. napus. Full article

Grape (Vitis vinifera L.) is one of the most extensively cultivated crops in temperate climates, with its primary fate being wine production, which is paired with a great generation of grape pomace (GP). GP contains a plethora of antioxidant phenolic compounds, being well-known for its high content of various tannins, liable for the astringency of this fruit. Winemaking produces a great mass of by-products that are rich in tannins. Grape seed (GSd) and pulp waste, as well as leaves and stems (GSt), are rich in condensed tannins (CTs), while its skin (GSk) contains more flavonols and phenolic acids. CTs are polymers of flavan-3-ols, and their antioxidant and anti-inflammatory properties are well-accounted for, being the subject of extensive research for various applications. CTs from the diverse fractions of grapefruit and grapevine share similar structures given their composition but diverge in their degree of polymerization, which can modulate their chemical interactions and may be present at around 30 to 80 mg/g, depending on the grape fraction. Thus, this prominent agroindustrial by-product, which is usually managed as raw animal feed or further fermented for liquor production, can be valorized as a source of tannins with high added value. The present review addresses current knowledge on tannin diversity in grapefruit and grapevine by-products, assessing the differences in composition, quantity, and degree of polymerization. Current knowledge of their reported bioactivities will be discussed, linking them to their current and potential applications in food and feed. Full article

This work underlines an analogy between urban and biological systems. The dialogic approach of systems biology showed us that parts constitute a whole and, in turn, the whole constitutes the parts. The development of a biological system such as an animal or a plant does not unfold by means of an autonomous internal program. Rather, it stems from the interaction of the organism’s internal response pattern and its external environment. The wide scientific literature on the genome–environment interaction confirms this. Nevertheless, the scientific community still tends to consider the environment as a mere external factor which simply modulates the organism’s program. On the contrary, the environment has a key role in development. For example, when a seed germinates after heavy rain, it does not simply react to an external signal indicating favorable conditions for germination. Rather, it interacts directly with rainwater, which becomes a developmental factor no less important than the seed coat proteins. Similar to what happens during the development of an organism, the interface between any complex system and its environment determines its structural and functional fate. We argue that large cities have blurred the interface with their natural environment and depend on delocalized global sources. They are like organisms kept alive by external devices. Hence, we propose to regenerate a vital interface between cities and their rural and natural environment as the main and promising path towards future urban civilization. Full article

In cell biology, the stem cell niche is the dynamic microenvironment in which stem cells reside and receive signals that determine their behavior and fate. The stem cell niche has largely been a theoretical construct due to the difficulty in identifying and manipulating individual stem cells and their surroundings. Recent technical advances have made it possible to characterize the niches that maintain and control stem cell activity in several organs, including the small intestine. Although the small intestine has a relatively simple architecture, it has an extraordinary capacity for fast self-renewal. Thus, the organ is a unique model for studying intestinal stem cells (ISCs) and their niche. The intestinal epithelium maintains the intestine, enabling it to perform its absorption, secretion, and barrier functions. ISCs reside at the base of crypts adjacent to Paneth cells. In vivo, ISCs are surrounded by the microenvironment that makes up the niche, which provides a variety of stimuli that determine the fate of the cells. Research on stem cell niches is beginning to deepen our understanding of ISC regulation at the cellular and molecular levels and is expected to provide insights that can be applied to ISC therapy. Intestinal organoids originate from a group of crypt base ISCs. These organoids possess a three-dimensional (3D) cell structure made up of the lumen facing inward. Therefore, 3D intestinal organoids are often digested and seeded in a two-dimensional (2D) manner to form confluent organoid monolayers. Here, we not only review our current understanding of ISC niches with a focus on systems that are well-characterized at the cellular and mechanistic levels, but we also summarize the current applications of intestinal organoids. Full article

Azadirachta indica (Neem tree) has become widely naturalised and invasive across many countries and regions including northern Australia. To aid management of A. indica where it has become a weed, a series of studies were undertaken to determine its potential soil seed bank persistence. In a field trial, packets of seeds were buried, retrieved periodically over two years and the seed viability assessed. Viability declined rapidly, with a single viable seed retrieved after 12 months burial and none thereafter. Burial depth, soil type, and pasture cover (present and excluded) significantly influenced viability (%) at 3- and 6-month retrievals. Similar data were obtained from repeated runs of a controlled ageing laboratory experiment, which categorized seeds as forming a ‘transient’ seed bank. In a third trial, fresh fruits were placed on the soil surface in replicated field enclosures over two consecutive years and seedling emergence monitored fortnightly. In both years there was no emergence from pasture excluded soil plots and emergence ceased after 2.3 and 8.4 months in plots with pasture present. A fourth (glasshouse) trial found most seeds will emerge from the soil when buried from 1 to 4 cm. However, more fatal germination than successful emergence was recorded for seeds buried at 8 cm. Seed desiccation and fatal germination are factors in A. indica developing a transient soil seed bank, and infestations require shorter-term control programs where seed input is prevented. Full article

Background: This study addresses a particular aspect of the biological behavior of the Spike subunit S1 of SARS-CoV-2. Researchers observed S1 acting freely in the human organism during and after COVID-19 and vaccination. One of its properties is that it interacts one-to-one with human proteins. S1 interacts with 12 specific human proteins in the liver. Methods: We used these proteins as seeds to extract their functional relationships from the human proteome through enrichment. The interactome representing the set of metabolic activities in which they are involved shows several molecular processes (KEGG), including some linked to HBV (hepatitis B) and HCC (hepatocellular carcinoma) with many genes/proteins involved. Reports show that, in some COVID patients, HBV reactivated or progressed to cancer. Results: We analyzed the interactome with several approaches to understand whether the two pathologies have independent progressions or a common progression. All our efforts consistently showed that the molecular processes involving both HBV and HCC are significantly present in all approaches we used, making it difficult to extract any useful information about their fate. Through BioGRID, we extracted experimental data in vivo but derived it from model cell systems. The lack of patient data in STRING results prevents diagnosis or prediction of real disease progression; therefore, we can consider them “aseptic” model data. Conclusion: The interactome tells us that genes involved in HCC and HVB-related pathways have the potential to activate disease processes. We can consider them as a gold standard. It is the comparison with similar molecular interactions found in individual human phenotypes that shows us whether the phenotype favors or hinders their progression. This also suggests how to use these features. These sets of proteins constitute a molecular “toolkit”. In fact, if we compare them with similar molecular sets of the patient, they will provide us with information on the level of the phenotypic state that is driving the disease. The information derived from the composition of an entire group of proteins is broader and more detailed than a single marker. Therefore, these protein compositions can serve as a reference system with which doctors can compare specific cases for personalized molecular medicine diagnoses. Full article

This work aims to develop and validate a framework for the multiscale simulation of the biological response to ionizing radiation in a population of cells forming a tissue. We present TOPAS-Tissue, a framework to allow coupling two Monte Carlo (MC) codes: TOPAS with the TOPAS-nBio extension, capable of handling the track-structure simulation and subsequent chemistry, and CompuCell3D, an agent-based model simulator for biological and environmental behavior of a population of cells. We verified the implementation by simulating the experimental conditions for a clonogenic survival assay of a 2-D PC-3 cell culture model (10 cells in 10,000 µm²) irradiated by MV X-rays at several absorbed dose values from 0–8 Gy. The simulation considered cell growth and division, irradiation, DSB induction, DNA repair, and cellular response. The survival was obtained by counting the number of colonies, defined as a surviving primary (or seeded) cell with progeny, at 2.7 simulated days after irradiation. DNA repair was simulated with an MC implementation of the two-lesion kinetic model and the cell response with a p53 protein-pulse model. The simulated survival curve followed the theoretical linear–quadratic response with dose. The fitted coefficients α = 0.280 ± 0.025/Gy and β = 0.042 ± 0.006/Gy² agreed with published experimental data within two standard deviations. TOPAS-Tissue extends previous works by simulating in an end-to-end way the effects of radiation in a cell population, from irradiation and DNA damage leading to the cell fate. In conclusion, TOPAS-Tissue offers an extensible all-in-one simulation framework that successfully couples Compucell3D and TOPAS for multiscale simulation of the biological response to radiation. Full article