Search Results (14,078)

Long-term simplification of cropping systems and crop protection practices promotes increased weed infestation and may lead to yield decline. The aim of this study was to assess the effect of crop sequence systems and levels of crop protection on weed infestation, weed community diversity, and grain yield of winter wheat under long-term field experiment conditions. The research was conducted in a static field experiment established in 1967 in Bałcyny, Poland. Two cropping systems were analyzed, monoculture and a six-course crop rotation, combined with three levels of protection: no protection, herbicide, and herbicide + fungicide. Weed density, biomass, and species composition were evaluated, as well as diversity indices (Shannon–Wiener and Simpson) and grain yield. Monoculture significantly increased weed density and biomass, promoting the dominance of competitive species such as Apera spica-venti and Centaurea cyanus. In the crop rotation system, lower weed infestation, higher species diversity, and a more even community structure were observed. The application of herbicide effectively reduced weed infestation; however, it led to a decline in species diversity and an increase in the dominance of tolerant species. Grain yield was strongly negatively correlated with the level of weed infestation. The highest yields were obtained in the crop rotation system with full chemical protection, whereas monoculture resulted in a significant yield reduction regardless of the level of protection. These results highlight the key role of crop rotation and integrated crop protection in reducing weed infestation and stabilizing winter wheat yields. Full article

The forest within the Ben En National Park has a diverse flora, which, although protected, remains subject to degradation. The analysis and management strategies for forest degradation within this park were conducted using a phytogeographical approach supplemented by satellite imagery and a SWOT analysis. As a result, the area is characterized by nine distinct vegetation types comprising 1417 vascular plant species (from 902 genera and 196 families). These species belong to endemics from Northern, Central, and all of Vietnam, as well as 16 other phytogeographical elements. Tropical Asian and South China elements dominate the community structure in evergreen broad-leaved closed forests on both limestone and non-limestone mountains. Forest degradation is evident in changes to both floristic composition and vegetation structure. Floristic composition shows a trend of decreasing native elements while simultaneously increasing non-native or introduced elements. This “anthropogenic tropicalization” leads to a declining chain of ecological function from palaeotropical to introduced elements, resulting in biological invasion. For instance, the invasive species, Mimosa pigra, currently occupies about 442 ha in the semi-submerged zone of the Song Muc reservoir, indicating a loss of ecological function and a likely hydrological pathway for further spread. As a consequence of “anthropogenic tropicalization”, the vegetation is fragmented and gradually altered from a natural system to an anthropogenic one through a regressive succession from primary forest to bare land/invaded area. Based on the SWOT analysis, four management actions were proposed: 1—Establish a “sustainable native forest” program and “invasive species control” in the Song Muc reservoir; 2—Launch a “green livelihoods for the buffer zone” initiative; 3—Implement a “Smart forest monitoring” system; and 4—Forge an “ecotourism-conservation-community” alliance. Full article

Background: Codon usage bias (CUB), which is shaped by mutation pressure, natural selection, and genetic drift, provides valuable insights into phylogenetic relationships and molecular evolution. This study investigated the patterns and determinants of mitochondrial genome codon usage in two Enicurus species (Enicurus scouleri and Enicurus schistaceus) and provided a foundation for understanding codon optimisation mechanisms and genetic relationships within this avian genus. Methods: Complete mitochondrial genome sequences were retrieved from GenBank, and ten protein-coding sequences were selected for CUB analysis. Evolutionary relationships across the studied species were investigated using phylogenetic trees and relative synonymous codon usage (RSCU) clustering diagrams. Results: GC1, GC2, and GC3 contents were below 50% in both species, with the third-position nucleotides exhibiting A3s > C3s > T3s > G3s composition. The average effective number of codons (ENC) value was >35, indicating a weak bias for codon usage. CUB reflects the combined effects of natural selection and mutational pressure, with the former exerting a stronger influence. Four shared optimal codons were identified with a strong bias towards A/C-ending triplets. Subsequent phylogenetic analysis validated the close kinship of the two Enicurus species, although RSCU-based clustering yielded results that diverged from the phylogenetic relationships. Conclusions: Comprehensive mechanistic analysis revealed natural selection as the dominant force shaping mitochondrial CUB in Enicurus species. The findings offered valuable insights for future research on the reproductive biology, environmental adaptation, and conservation of Enicurus birds while providing new perspectives on the molecular evolution and systematic development of Muscicapidae. Full article

Pasture plants can contribute to ruminant nutrition and may, depending on composition, influence rumen fermentation and methane production. This study evaluated the nutritional composition, bioactive compounds, and methane production potential of 32 terrestrial plant species commonly foraged by goats in Malta. Dried plant samples were analysed for proximate composition using near-infrared spectroscopy, total polyphenols using the Folin–Ciocalteu assay, antioxidant activity using the DPPH assay, and methane production using an in vitro rumen fermentation system incubated for 48 h, with rumen fluid pooled from three goats (analyses performed in triplicate). Crude protein ranged from 1.16 to 31.97% DM, neutral detergent fibre from 12.29 to 48.89%, and ash from 9.69 to 17.20% across species. Total polyphenolic content varied from 0.07 to 1.30% (w/w), while antioxidant activity (IC₅₀) ranged from 0.37 to 55.9 mg/mL. Methane production after 48 h ranged from 30.39 to 198.26 L CH₄ kg⁻¹, indicating variation in fermentation characteristics among species. These results indicate that Rumex bucephalophorus and Urtica pilulifera demonstrated relatively high protein or bioactive values and comparatively lower in vitro methane-related parameters under the conditions tested. Full article

Caviar extract is widely used in luxury cosmetics and is generally defined as a homogeneous ingredient derived exclusively from sturgeon eggs. However, its molecular composition remains inadequately characterised. In this study, proteomic analyses were performed on 14 commercial caviar samples from different sturgeon species and geographical origins, examined independently in two laboratories. Across three single-origin samples (Germany, Poland, China), 1437 protein groups and 3452 unique peptides were identified, with consistent overlaps with sturgeon ovarian fluid (≥25–38 proteins). Extending this analysis across multiple species confirmed the presence of ovarian fluid-associated proteins in all examined groups, including 69 in Acipenser baerii, 61 in A. gueldenstaedtii, 55 in A. schrenckii, and 49 in H. huso. The results showed that ovarian fluid is consistently co-extracted during standard roe harvesting processes due to its strong egg surface adhesion, making this co-extraction intrinsic rather than incidental. Proteomic profiling revealed a complex mixture of egg- and ovarian fluid-derived proteins, including zona pellucida glycoproteins, immunoglobulins, complement components, proteases, coagulation factors, and antioxidant enzymes. Many of these proteins influence skin biology, suggesting that the functional effects attributed to caviar extract may partially originate from ovarian fluid constituents rather than yolk-derived nutrients alone. At the same time, the presence of immune-active and enzymatic proteins raises important questions regarding safety assessment and regulatory oversight. Species-specific proteomic clustering also indicates considerable composition heterogeneity, challenging assumptions of ingredient standardisation. Together, these results highlight a discrepancy between current definitions and the molecular reality and underscore the need for improved molecular characterisation, updated regulatory definitions, and the consideration of alternative, cell-based production strategies for cosmetic applications. Full article

Natural antioxidants are essential for protecting the body against oxidative stress and exhibit a wide range of biological activities. In this context, forty extracts derived from ten submerged cultivated mushroom species were analyzed for their mycochemical composition, antioxidant capacity, and cytotoxic effects against MCF7 breast cancer cells. Qualitative and quantitative screening revealed that, among the detected classes of bioactive compounds, the extracts were predominantly enriched in flavonoids, terpenoids, and phenolic constituents. Considerable variation was observed in the levels of total phenolics, flavonoids, and ascorbic acid among different species and solvent extracts. The highest total phenolic contents were detected in ethanol and ethyl acetate extracts of G. frondosa (110.0 ± 6.4, 227.6 ± 14.2, and 160.5 ± 5.3 mg GAE/g), while the water extract of F. velutipes also exhibited elevated phenolic levels (119.2 ± 6.5 mg GAE/g). Flavonoid concentrations ranged from 102.5 ± 10.5 to 359.9 ± 2.5 mg QE/g in biomass and culture liquid extracts obtained with organic solvents. Ascorbic acid content was generally highest in ethyl acetate culture liquid extracts, suggesting solvent-dependent enrichment of antioxidant metabolites. Free radical scavenging activity increased in a concentration-dependent manner, reaching inhibition values more than 90% at 20 mg/mL in all tested mushrooms. Cytotoxicity assays demonstrated that extract type, solvent, and incubation time strongly influenced the inhibition of MCF7 cell viability. Ethyl acetate extracts from H. erinaceus, P. ostreatus, T. versicolor, and T. pubescens exhibited the strongest cytotoxic effects, reducing cell viability by up to 70% at higher concentrations. The results demonstrate that mushroom extracts, particularly ethyl acetate extracts, possess significant antioxidant and cytotoxic activities. These findings highlight their potential as promising natural sources of medicinal bioactive compounds for antioxidant and anticancer applications. Full article

The Cytisus striatus species is a biologically important plant recognised for its high flavonoid content. However, the chemical composition of this species has yet to be fully described. The purpose of this study was to identify flavonoids and related secondary metabolites using advanced analytical techniques, including gas chromatography, liquid chromatography, and NIR and Raman spectroscopy. Ethanolic extracts of flowers, fruits, and twigs/leaves contain highly beneficial flavonoids, with chrysin being the main compound detected in all plant parts. It was quantified by HPLC-DAD at levels ranging from 0.90 to 2.27 mg/g extract in samples collected from three different locations. NIR and FT-RAMAN analysis provided complementary information on the overall chemical fingerprint of the plant material. PCA of the spectroscopic data revealed minor site-related differences in global spectral profiles, with PC1 explaining 85% of the variability in flowers and fruits and 72% in twigs/leaves for FT-NIR, while FT-RAMAN analysis of fruit extracts showed a PC1 accounting for 97% of the variance. This study provides a basis for future research on the biological properties of Cytisus striatus and for further assessment of its potential relevance in pharmaceutical and/or food-related applications. Full article

Deposit-feeding sea cucumbers ingest sediment-like particles, making substrate-associated exposure pathways ecologically relevant in coastal aquaculture. In this study, a sea mud feed matrix was used to evaluate short-term dietborne/substrate-linked glyphosate exposure in Apostichopus japonicus over 72 h, with the aim of characterizing early residue formation, short-term sublethal biomarker responses, and gut microbiota shifts under a benthic feeding scenario. Analytical verification confirmed a clear glyphosate gradient in the prepared feed matrices, with no glyphosate detected in the control matrix and measured concentrations of 8.66 ± 1.59 mg/kg, 1330 ± 390 mg/kg, and 6960 ± 1710 mg/kg in the low-, medium-, and high-dose groups, respectively. No mortality or obvious external lesions were observed during the exposure period. Tissue analysis confirmed measurable internal glyphosate residues and compartment-specific distribution, indicating successful internal exposure under the matrix-linked route. Most digestive and immune/antioxidant biomarkers remained relatively stable within the 72 h window; however, amylase showed a marked response in the low-dose group, and superoxide dismutase showed dose-associated changes in the medium- and high-dose groups, indicating selective sensitivity among enzyme endpoints. Gut microbiota analysis revealed a dominance-structured community with limited alpha-diversity variation among groups, whereas community composition showed subtle treatment-related shifts that were more evident at finer taxonomic resolution. Predicted functional profiles remained broadly similar across treatments. Overall, the 72 h exposure design was effective for identifying early internal exposure and short-term biological responses under a sea mud-associated feeding route, while host physiological responses remained largely buffered over this time scale and the gut microbiota provided a more sensitive interface-level signal of exposure-associated change. These findings support the value of a route-specific, gut-centered framework for evaluating early herbicide exposure responses in benthic mariculture species and suggest that matrix-associated feeding conditions may modify the apparent magnitude of short-term responses. Full article

Background/Objectives: Colorectal cancer (CRC) is a leading cause of cancer-related mortality worldwide. Emerging evidence highlights the role of the gut microbiota in the development and progression of CRC. Microbial dysbiosis is hypothesized to contribute to chronic inflammation through a variety of mechanisms, such as the production of free radicals, which induce mutagenesis and immune dysregulation in the host, ultimately leading to diseases such as cancer. Methods: Tumor tissue samples or healthy mucosa tissue were collected for bacterial DNA extraction. The V3–V4 region of the 16S rRNA gene was amplified and sequenced using the Illumina MiSeq platform. Bioinformatics analysis was performed with QIIME2, including quality control, DADA2 denoising, alpha and beta diversity calculation, and taxonomic classification using the SILVA database. Results: Differences in microbial composition were observed between groups. The healthy controls exhibited high relative abundances of beneficial genera such as Faecalibacterium, Bacteroides, and Asteroleplasma, whereas the patients with CRC showed enrichment of atypical genera including Novosphingobium, Bradyrhizobium, and Undibacterium. Alpha diversity was lower in the CRC group, and clear clustering by group was observed in the beta diversity analysis. LEfSe analysis identified potential bacterial biomarkers associated with CRC at both the species and genus levels. Conclusions: The findings of this study support the hypothesis that colorectal cancer is associated with distinct alterations in gut microbiota composition, such as an increase in the Novosphingobium genus and a decrease in the Bacteroides genus. An exploratory description of these microbial profiles may aid in the development of microbiome-based diagnostic and therapeutic strategies and contribute to current knowledge of the role of the gut microbiota in CRC in southern Peru. Full article

The co-pyrolysis of Chlorella vulgaris (CV) and Eucalyptus branches (EP) offers a promising strategy to enhance bio-oil yield, improve resource utilization efficiency, and alleviate environmental pressures. In this study, the microwave-assisted co-pyrolysis of CV and EP at a mass ratio of 2:1 was investigated, focusing on the catalytic performance of Ni-X (X = Mg, Cu, Fe) bimetallic modified HZSM-5 zeolites. The effects of these catalysts on pyrolysis characteristics, product distribution, and bio-oil composition were systematically evaluated. Experimental results showed that the 15% Ni-Cu/HZSM-5 catalyst exhibited the best catalytic performance, achieving the highest bio-oil yield of 16.83%; it also elevated the R_m to 0.0687 wt.%/s and reduced T_s to 2084 s. Composition analysis revealed that Ni-Cu/HZSM-5 significantly promoted the formation of hydrocarbons, increasing their relative content from 11.59% (C2E1 Group) to 28.92%, while effectively suppressing the formation of nitrogen-containing compounds, reducing their content by 5.05%. Based on these results, a possible reaction pathway is proposed in which the Ni-Cu/HZSM-5 catalyst may enhance heteroatom removal through hydrodeoxygenation (HDO) at the Ni-Cu sites, followed by cracking and aromatization at the HZSM-5 acid sites. This effect may be complemented by preferential adsorption of oxygenated intermediates over nitrogen-containing species, which could help suppress the formation of nitrogenous heterocycles. This work provides theoretical guidance for the application of bimetallic zeolite catalysts in microalgae/lignocellulose co-pyrolysis, alongside a viable pathway for valorizing Eucalyptus by-products to produce high-quality bio-oil. Full article

In situ coagulation is regarded as the most effective measure in response to the frequent metal spills in China. Excessive coagulant is often used in pursuit of extremely high removal rates of contaminants. Yet the secondary ecological impact of the iron-containing coagulation flocs left on the river sediments after emergency response is still unclear. In the current study, we investigated the impact of flocs derived from three different iron-based coagulants, polymeric ferric sulfate (PFS), polymeric ferric chloride (PFC), and ferric chloride (FeCl₃), on microbial communities in sediment based on microcosm experiments. Metagenomics, quantitative PCR, and determination of ammonia oxidation potential were adopted to elucidate community shifts. The results indicate that the community structure and function of microorganisms in sediments have been affected, especially processes and species related to nitrogen cycling, and the effect was coagulant-specific. Flocs retrieved from FeCl₃ caused a more pronounced decline in diversity, shifts in community composition, and decreased potential ammonia oxidation. Ammonia-oxidizing archaea (AOA) was more sensitive to iron-containing flocs than ammonia-oxidizing bacteria (AOB), while PFS-flocs tended to reduce multiple genes involved in nitrate reduction. This indicates that the pre-polymerization of inorganic coagulants may be the primary factor leading to different microbial ecological effects. Sulfate, on the other hand, may affect specific biogeochemical processes due to its competition for electron donors. Our results confirmed that even without heavy metals as contaminants, coagulant flocs alone could present an effect on nitrogen cycling in sediments. The results will provide a scientific basis for environmental emergency decision-making: in emergency response to metal pollution incidents, the use of coagulants should be limited to only the necessary level. Full article

Propolis is a natural product of honey bees whose chemical composition is influenced by different plant species and environmental factors, resulting in diverse biological activities. A new propolis type, the greenish-brown propolis (GBPUP), was identified in the northeast of Brazil. This study aimed to evaluate the influence of seasonal variation in the chemical composition of GBPUP extracts over a 12-month period. LC–ESI–Orbitrap–FTMS and UFLC–DAD–UV–Vis revealed a chemical composition with some differences to that of Brazilian green propolis, with pinocembrin as the major compound, followed by galangin, pinostrobin, chrysin, artepillin C, and pinobanksin. The extracts exhibited high levels of total phenolic, flavonoid, and flavanone contents and moderate to high antioxidant activity. Circos plot analysis showed that specific metabolites were responsible for the high activity against S. aureus (artepillin C, kaempferol, and ferulic acid) and C. albicans (galangin, pinobanksin, chrysin, and pinocembrin) and for moderate antibacterial activity against E. faecalis (rutin) and E. coli (luteolin, rutin, quercetin, and caffeic acid). ANOVA simultaneous component analysis (ASCA) showed a strong correlation between the metabolites (p-coumaric acid, artepillin C, luteolin) and leishmanicidal activity. Thus, seasonal evaluation allowed the identification of bioactive molecules, the months with greater bioactivity of the GBPUP extracts representing the first comprehensive study of the seasonality of this new and promising propolis variety. Full article

Plant pathogens pose a severe threat to global agricultural production, and their pathogenicity is closely linked to the biosynthesis of secondary metabolites. Basidiomycete within the family Ustilaginaceae represent significant plant pathogens, among which Ustilago maydis, as a model species, has been extensively studied for its secondary metabolites. However, the biosynthetic potential of other species within this family remains poorly understood. In this study, we conducted whole-genome bioinformatic analyses of 16 Ustilaginaceae species, including U. maydis, to systematically identify the distribution of biosynthetic gene clusters (BGCs), core gene domain compositions, and interspecies similarities. A total of 181 predicted BGCs were identified, averaging approximately 11 per species. BGCs for mannosylerythritol lipids (MELs), siderophores, and itaconic acid, as well as the melanin-associated genes pks1 and pks2, were widely distributed across most species. Conversely, an additional melanin biosynthetic gene cluster was found exclusively in U. maydis strain 521, indicating species-specific occurrence. Furthermore, this study identified a novel class of polyketide synthase (PKS) gene clusters with uncharacterized functions across 15 species, exhibiting high sequence and structural conservation between species. These findings reveal the rich metabolic diversity and species-specific biosynthetic potential of Ustilaginaceae, and by using U. maydis as a reference model, we highlight several BGCs (e.g., for MELs, siderophores, itaconic acid, and melanin) that are known to contribute to virulence or pathogenicity in plant hosts. This provides new insights into their pathogenic mechanisms. Full article

Fermented dairy products with probiotic and functional properties are a promising matrix for modulation of the human microbiome. The functionality of such products will depend not only on the technological properties of the lactic acid bacteria included in the starter culture but also on the combined effects of metabolites, enzymatic activity, stress tolerance, and strain-specific adaptation mechanisms. The aim of this work was to conduct a comprehensive analysis of Lactobacillus strains to facilitate the design of microbial consortia for the development of fermented products with diverse functional properties. Twenty Lactobacillus strains from different species were investigated using microbiological, physicochemical, and biochemical methods to evaluate antagonistic activity against opportunistic microorganisms and to assess changes in amino acid and organic acid profiles, vitamin content, fatty acid composition, and enzymatic activity. Additionally, proteomic analysis was performed to create a matrix of functional complementarity of the studied strains, representing proteins associated with antimicrobial activity, bacteriocin transport, resistance to oxidative stress, surface structure formation, and adhesion. It was shown that the studied strains exhibit pronounced functional heterogeneity, demonstrating the feasibility of scientifically based selection of strains to create next-generation fermented dairy products with predictable properties. Full article

Efficient simulation of geochemical reactions is critical for predicting the long-term chemical evolution of geological disposal repositories for radioactive waste. In large-scale reactive transport simulations, geochemical equilibrium calculations often represent a major computational bottleneck because they must be repeatedly solved for many spatial cells and time steps. This study investigates the development of machine-learning-based surrogate models that are designed to approximate geochemical equilibrium calculations and thereby significantly accelerate reactive transport simulations while reducing computational resource requirements. Calcite dissolution induced by magnesium-rich fluid inflow is used as a representative test case to evaluate the feasibility and performance of such surrogate models. Training and validation datasets were generated using the IPhreeqc C++ API, enabling the automated execution of a large number of PHREEQC equilibrium simulations across a chemically relevant parameter space. The resulting dataset captures nonlinear relationships between initial aqueous composition and outputs of interest after chemical equilibration, including aqueous species concentrations and amounts of minerals. Fully connected feed-forward neural networks were designed and implemented in TensorFlow to reproduce PHREEQC results, and the influence of key hyperparameters—such as network depth, width, activation functions, learning rate, and batch size—was systematically investigated. The results demonstrate that surrogate model accuracy and training stability are sensitive to hyperparameter selection, even for a relatively simple chemical system. Properly configured neural network architectures reproduce equilibrium geochemical responses with high accuracy and provide a computationally efficient alternative to repeated PHREEQC calculations, highlighting their potential for accelerating large-scale reactive transport modelling workflows. Full article