Search Results (87,282)

Pathogenesis-related protein 1 (PR1) plays important roles in plant responses to both biotic and abiotic stresses; however, its role in mediating defense against pine wood nematode in Pinus massoniana remains unclear. In this study, a total of 63 PR1 family members were identified in P. massoniana using bioinformatics approaches and were named PmPR1-1 to PmPR1-63 based on their phylogenetic relationships. Phylogenetic analysis showed that these members were distributed among four of the six subfamilies. Most of the encoded proteins were hydrophilic, with lengths ranging from 131 to 406 amino acids. Their promoter regions contained multiple cis-acting elements associated with phytohormone signaling and stress responses, and some members formed gene clusters on chromosomes 2, 5, and 9. qRT-PCR (quantitative reverse transcription polymerase chain reaction) analysis showed that the clustered genes PmPR1-46, PmPR1-55, PmPR1-56, and PmPR1-61 were significantly upregulated in the early stage of pine wood nematode inoculation in both resistant and susceptible P. massoniana plants, with higher expression levels in resistant plants. Transient overexpression of PmPR1-61 increased SOD and PPO activities as well as proline content while decreasing CAT activity. These results suggest that the PmPR1 family may be involved in the defense response of P. massoniana against pine wood nematode. Among them, PmPR1-55, PmPR1-56, and PmPR1-61 represent candidate resistance genes worthy of further investigation and provide valuable gene resources for elucidating resistance mechanisms and supporting molecular breeding in P. massoniana. Full article

Leucine-rich repeat extensins (LRXs) are essential regulators of plant development, cell wall integrity, and stress responses. However, genome-wide LRX studies in cotton are limited. Analysis of four Gossypium species identified 29, 28, 16, and 16 LRX genes in G. hirsutum, G. barbadense, G. arboreum, and G. raimondii, respectively. Phylogenetic analysis resolved these 89 genes into four subfamilies (I–IV). Structural annotation revealed that cotton LRX family members exhibit conserved domain architectures. This finding was corroborated by motif analysis, which revealed notable conservation in the motif compositions of most cotton LRX proteins, suggesting functional conservation across evolutionary lineages. Distinct spatiotemporal expression patterns were uncovered between G. hirsutum and G. barbadense. Prolonged exposure to extreme temperatures induced widespread down-regulation of most GhLRX genes, whereas genes in subgroup IV were significantly up-regulated under salt and drought stress conditions, respectively. Notably, GhLRX7 showed a more proactive responding profile to Verticillium wilt (VW) infection, which was therefore selected for functional validation employing virus-induced gene silencing in the cotton cultivars MBI9626 and CCRI36. Phenotypic analysis of silenced plants revealed exacerbated disease symptoms compared to wild-type controls, providing direct evidence implicating GhLRX7 as a key contributor to defense against VW. Full article

Tiankeng ecosystems are characterized by strong microenvironmental gradients that influence plant adaptation; however, the molecular mechanisms underlying plant responses to altitudinal variation remain poorly understood. In this study, transcriptome sequencing and bioinformatic analyses were conducted to investigate the environmental adaptation mechanisms of three representative plant species (Hydrangea strigosa Rehder, Pilea martini, and Pilea sinofasciata) distributed along the vertical gradient of the Hanzhong Tiankeng in Shaanxi Province, China. Differential gene expression and functional enrichment analyses were performed to explore transcriptional responses under different altitude conditions. The results showed that flower coloration in Hydrangea strigosa Rehder was associated with the activation of sugar metabolism and triterpenoid biosynthesis pathways, suggesting potential indirect roles in modulating cellular metabolism and physiological conditions linked to flower coloration, while poor growth at the tiankeng bottom was associated with enhanced cellular respiration under low-light conditions, suggesting a potential link between energy metabolism and growth performance. In contrast, Pilea martini and Pilea sinofasciata exhibited better growth in the pit-bottom environment. Pilea martini promoted growth through enhanced carbohydrate metabolism and tricarboxylic acid cycle activity, whereas Pilea sinofasciata responded to environmental stress through hormone signaling, triterpenoid biosynthesis, and light signaling pathways. These findings reveal species-specific molecular strategies for plant adaptation to altitude-related environmental gradients in tiankeng ecosystems and provide insights into plant survival mechanisms in karst habitats. Full article

Non-alcoholic fatty liver disease (NAFLD) is the most common liver disease worldwide. Its main contributors are obesity, insulin resistance, diabetes and metabolic syndrome. Liver pathogenesis exacerbates when oxidative stress, inflammation, lipid accumulation, and attenuated autophagy signals coexist together with the main determinants of the liver disease. These findings may indicate that the suppression of the disease requires multi-targeting compounds to alleviate more than one factor, resulting in improved histopathological outcomes. This review studies natural compounds, given as supplements, with antioxidant and anti-inflammatory properties. The compounds included are vitamins, carotenoids, low-molecular-weight thiol-containing compounds, fatty acids and others that have been investigated for their pleiotropic activity alone or in combination. They act at different pathways and signals, and at gene expression control, modulating oxidative stress and inflammation, such as collagen, TNF-α, NF-κB, Nrf2 and PPARs genes. Their mechanism of action and characteristics may be encouraging treatment options as multi-targeting compounds for NAFLD and other diseases whose pathophysiology is closely related to metabolic syndrome. However, extensive study on their safety, toxicity, mechanisms of action and dosage regimen is needed before their final establishment as potential treatment options. Full article

Environmental contaminants pose threats to exposed organisms and negatively impact the nervous, cardiovascular, immune, and reproductive systems. Per- and polyfluoroalkyl substances (PFAS) are synthetic chemicals that are ubiquitous in the environment. Given that mixtures of environmental contaminants have the potential to exacerbate toxicity, we reviewed the current literature on pesticides, microplastics, or metal exposure in combination with PFAS on aquatic vertebrates and invertebrates. The objectives were to evaluate the toxicological effects of mixtures of the selected contaminants with PFAS on aquatic organisms to better understand biological responses in animals. Based on our review, data suggest that PFAS can modify the toxicity of co-occurring pollutants. For example, synergistic effects on toxicity include chlorpyrifos + perfluorohexanoic acid (PFHxA), which increased reactive oxygen species (ROS) and upregulated neurotoxicity-related genes in zebrafish, and perfluorooctanoic acid (PFOA) + atrazine, which increased the presence of malformations and oxidative stress. However, antagonistic interactions were also observed, for example, reduced herbicide toxicity in PFOA + 2,4-dichlorophenoxyacetic acid (2,4-D) mixtures. PFAS combined with microplastics often intensified oxidative stress and developmental or reproductive effects, though polyethylene microplastics attenuated perfluorooctane sulfonic acid (PFOS)-induced immunotoxicity in fish like seabass. Interactions with metals also varied, with copper and cadmium enhancing oxidative stress while mercury mixtures with PFAS showed antagonism, underscoring the complexity of mixture effects in real environments. A computational approach demonstrated that PFOS can engage in intermolecular interactions with pesticides, microplastic monomers, and metals, suggesting chemical-level effects that could modify toxicity or bioavailability. Future studies should focus on elucidating the mechanisms underlying these complex interactions, investigating effects at different trophic levels and in a broader range of species, and should consider environmentally relevant mixtures. Full article

Background/Objectives: Eleocharis ussuriensis Zinserl. is a perennial riparian sedge widely distributed in Northeast Asia and a dominant component of freshwater vegetation in South Korea. However, the intraspecific genetic structure of this species across contrasting hydrological habitats remains insufficiently understood. This study aimed to develop novel SSR markers from whole-genome data and investigate genetic variation and population structure among E. ussuriensis populations in South Korea. Methods: Twenty-one novel simple sequence repeat (SSR) markers were developed from whole-genome sequence data and applied to analyze genetic variation in 120 individuals from 6 populations. Genetic diversity, differentiation, and gene flow were estimated using allele-frequency-based metrics, and population genetic structure was further evaluated using spatial information derived from geographic coordinates. Results: A total of 201 alleles were detected, with a mean polymorphism information content (PIC) of 0.759, indicating high marker informativeness. Mean genetic diversity across populations showed observed heterozygosity (Ho = 0.360) and expected heterozygosity (He = 0.281), while multilocus genotype ratios (G/N) ranged from 0.30 to 1.00 among populations. Genetic differentiation was substantial (F_ST = 0.373–0.669; Jost’s D = 0.540–0.997). Mantel tests revealed that genetic differentiation was significantly correlated with geographic distance (r = 0.67, p < 0.001). Both allele-frequency-based and spatially explicit approaches suggested genetic structuring among populations. Conclusions: The results suggest spatial tendencies in genetic structure among populations, reflecting patterns of allele distribution across regions. These findings provide baseline information on genetic variation in E. ussuriensis and may contribute to a better understanding of its ecological dynamics. Full article

The retromer is a highly conserved complex that mediates the trafficking of cargo proteins to the plasma membrane or the trans-Golgi network. In pathogenic microorganisms, retromer-dependent transport contributes to the delivery of virulence factors and promotes infection. The retromer consists of a sorting nexin dimer (SNX) and a cargo-selection complex (CSC), formed by Vps26, Vps35, and Vps29. In Entamoeba histolytica, the parasite that causes human amoebiasis, the retromer functions as a Rab7A GTPase effector and participates in phagocytosis and cytotoxicity. Although we previously characterized the roles of EhVps26 and EhVps35, the function of EhVps29 remained unclear. In this study, we analyzed the subcellular localization and functional role of EhVps29 in adhesion, phagocytosis, and cytopathic effect. EhVps29 localized to the plasma membrane, cytosol, vesicles, tubules, Golgi-like structures, MVBs and, for the first time, the nucleus. Immunofluorescence and Western blot assays demonstrated that EhVps29 modulates the localization of EhVps26, EhADH adhesin, and EhCP112 cysteine protease. Ehvps29 gene silencing and overexpression confirmed its involvement in virulence-associated processes. Immunoprecipitation and confocal microscopy results showed the interaction among EhVps29 and the ESCRT machinery members EhVps36 and EhADH. Our results indicate that EhVps29 is involved in parasite virulence and protein trafficking through recycling or degradation pathways. Full article

Acute myeloid leukemia (AML) is a complex blood cancer that primarily affects relapsing or refractory patients receiving conventional chemotherapy. Nonsteroidal anti-inflammatory drugs (NSAIDs) have anticancer properties with restricted clinical efficacy attributable to cyclooxygenase (COX)-induced toxicities. To address this issue, a group of benzylamide analogs of the classical NSAIDs (NSI-1–NSI-9) were developed and synthesized to mask the carboxylic acid moiety and minimize COX-induced adverse effects while maintaining anticancer activity. The cytotoxic effect of such substances has been demonstrated in some leukemia cell lines (HL-60, MV4-11, KG1a, and K562). NSI-5 exerted the highest anti-leukemic activity among these sulindac analogs, as determined at a sub-micromolar level in all cell lines studied, by IC50. This mechanistic data also demonstrated that NSI-5 induced apoptosis that was dose-dependent, especially in HL-60 cell lines, and increased the sub-G1 cell fraction. This apoptotic process was also accompanied by a significant decrease in mitochondrial membrane potential, which is characteristic of the induction of the intrinsic apoptotic process. Interestingly, NSI-5 decreased the intracellular reactive oxygen species (ROS) and the expression of most antioxidants (catalase and glutathione synthetase), as well as the redox balance. Gene characterization in vitro also suggested activation of apoptotic pathways, where expression of Bax, Bak1, and Caspase-3 increased, suggesting a potential p53-independent apoptotic pathway, in contrast to control for Bcl-2 expression. Collectively, these findings indicate that NSI-5 is a promising in vitro anti-leukemic lead compound, with activity associated with mitochondrial dysfunction and altered redox regulation. The observed effects are consistent with previously reported COX-independent activity of structurally related NSAID derivatives, and support further investigation of NSI-5 in preclinical models. Full article

Teat number is an important economic trait in pigs because it affects sow reproductive performance and piglet nursing ability, yet its genetic basis and molecular regulatory mechanisms remain incompletely understood. In this study, a combined-population genome-wide association study was performed in Canadian and French Large White pigs to identify loci associated with teat number traits. A total of 4217 pigs were genotyped, and 2,244,684 autosomal single-nucleotide polymorphisms were retained after quality control and genotype imputation. Multiple association signals for total teat number were detected, with major peaks located on chromosomes 7 and 10. Among the positional candidate genes, PROX2 was prioritized for further validation, and genotype–phenotype association analysis showed that pigs with the CC genotype at the PROX2 polymorphic locus had significantly lower total teat number than those with the CT and TT genotypes. To investigate its biological role, PROX2 was silenced in porcine mammary epithelial cells. Transcriptome analysis identified 887 differentially expressed genes after PROX2 knockdown, and functional assays showed that PROX2 silencing inhibited cell proliferation, altered cell cycle progression, and affected the expression of proliferation- and development-related genes. These findings indicate that PROX2 is an important candidate gene associated with teat number variation in pigs. Full article

(1) Background: Soil fertility in organic systems depends on interactions between physicochemical properties and biological processes that regulate nutrient availability along the soil profile. However, information on their vertical distribution remains limited, particularly for root crops such as sugar beet. This study evaluated depth-related patterns in soils from three organic farms growing sugar beet. (2) Methods: Soil profiles (0–120 cm) were sampled and analyzed for physicochemical properties, mineral nitrogen (N) forms, and biological indicators, including the QBS-ar index, microbial abundance, and functional genes involved in N and carbon cycling. (3) Results: Nitrate-N and total mineral N were mainly concentrated in the 0–40 cm layer and declined markedly with depth. Microbial abundance and most N-cycling functional genes were similarly enriched in the topsoil, showing clear vertical stratification. Statistical analyses suggested that functional gene composition was associated with mineral N gradients after accounting for soil depth. (4) Conclusions: These findings provide an exploratory indication of relationships between mineral N forms and microbial indicators in an organically managed sugar beet system. Given the limited number of sampling units, results should be interpreted cautiously. However, these results highlight the value of soil profile approaches for understanding N redistribution and improving nutrient management strategies. Full article

Although numerous studies have focused on the potential application of heterotrophic nitrification–aerobic denitrification (HNAD) bacteria in wastewater treatment, research exploring their potential in aquaculture biofloc systems remains limited. In this study, a promising HNAD strain, identified as Stutzerimonas stutzeri MJ20, was isolated from mature biofloc. This strain efficiently utilized low-cost carbon sources (e.g., glucose) and small-molecule carbon sources (e.g., sodium acetate and sodium succinate). Under conditions with glucose as the carbon source, a carbon-to-nitrogen (C/N) ratio of 15, pH 6–9, temperature 25–35 °C, salinity 0–35‰, and shaker speed of 0–150 rpm, it achieved removal rates of 95–100% for NH₄⁺-N, NO₂⁻-N, and NO₃⁻-N at initial concentrations of 100 mg/L each. Even at higher concentrations (up to 200 mg/L NH₄⁺-N and 500 mg/L for both NO₂⁻-N and NO₃⁻-N), removal rates exceeded 99%. Under mixed nitrogen sources, strain MJ20 demonstrated efficient nitrogen removal, preferentially utilizing NH₄⁺-N, with only minimal and transient accumulation of nitrite and nitrate. Genomic analysis revealed that MJ20 carries key denitrification genes, including napA, nirS, norB and nosZ, and possesses complete pathways for nitrate reduction to nitrogen gas and ammonia assimilation, although typical autotrophic nitrification genes were not detected. Combined genomic data and autotrophic culture experiments indicated that, in addition to utilizing various organic carbon sources, the strain also exhibited certain autotrophic growth capabilities. Furthermore, MJ20 showed strong flocculation ability (flocculation rate > 96% within 16 h), sensitivity to multiple common antibiotics, and no toxicity to zebrafish, demonstrating favorable biosafety. In simulated seawater aquaculture wastewater with a C/N ratio of 5, it achieved a total nitrogen removal rate exceeding 94% within 72 h. These results indicate that strain MJ20 possesses comprehensive advantages, including efficient nitrogen removal, broad carbon source adaptability, strong environmental resilience, minimal accumulation of intermediate nitrogen products, excellent flocculation ability, and high biosafety. These traits highlight its potential for application in biofloc systems and in treating aquaculture tail water with a low C/N ratio. This study provides theoretical insights and practical guidance for screening HNAD bacteria suitable for biofloc systems. Full article

In this study, we report the draft genome sequence of Pseudomonas aeruginosa strain ASK-80, a multidrug-resistant bacterium isolated from municipal wastewater in Baddi, district Solan, Himachal Pradesh, India. The whole genome was sequenced through Illumina MiSeq sequencing (150 bp paired-end). The size of the assembled genome was 6,261,345 bp, and the genome annotation revealed 5834 genes, including 5778 CDSs, 5748 protein-coding genes, 56 RNA genes and 30 pseudo genes. Genomic characterization revealed the occurrence of multiple antibiotic resistance genes (bla_OXA-396, bla_OXA-486, bla_OXA-494, bla_PAO, bla_PDC-8, aph(3′)-IIb, catB7, fosA and others), virulence genes (algB, chpA, clpV1, exsA, flgA, pilB, pvcA, toxA, tse1, and waaA), insertion sequences, transposable elements and phage sequences. This genome data may serve as a valuable resource for comparative genomics of P. aeruginosa and research on the antibiotic resistance surveillance of wastewater. Full article

Background:Pinellia ternata is a major medicinal herb widely utilized in traditional medicine, but is sensitive to high temperature, which often triggers a severe “sprout tumble” phenomenon. Methods: To elucidate the molecular mechanisms of heat tolerance in P. ternata, we screened two contrasting germplasms: the heat-tolerant JBX1 and the heat-sensitive XBX4. In the present study, a combined analysis of physiology, transcriptome, and metabolome was performed on JBX1 and XBX4 under heat stress at 40 °C. Results: JBX1 exhibited significantly greater leaf thickness, higher basal chlorophyll content, more stable antioxidant enzyme activities, and lower oxidative damage than XBX4 under heat stress. Transcriptomically, JBX1 maintained elevated basal expression of genes encoding key enzymes in carbon fixation, amino acid metabolism, and phenylpropanoid biosynthesis, as well as those encoding heat shock transcription factors (HSFs), heat shock proteins (HSPs), and the thermosensor Thermo-With ABA-Response 1 (TWA1). Metabolomically, JBX1 accumulated higher levels of key primary metabolites, antioxidants, and protective phenylpropanoids under both control and heat conditions. Notably, a “polarity reversal” emerged in nitrogen metabolism, where core amino acids accumulated in JBX1 but were depleted in XBX4. Integrated analysis revealed a more coordinated gene–metabolite network in JBX1 involving the phenylpropanoid, ATP-binding cassette (ABC) transporter, and glutathione pathways. Conclusions: Our findings demonstrate that JBX1 possessed stronger basal thermotolerance, which is derived from coordinated establishment of higher constitutive metabolic reserves and efficient dynamic metabolic reprogramming. This study provides insights into the molecular mechanisms of heat stress in P. ternata. Full article

Background: Epimedium is a natural herb with immunomodulatory potential, but its vaccine adjuvant properties remain poorly understood. Objective: The aim of this study was to elucidate the adjuvant effects of Epimedium and the underlying molecular mechanisms. Methods: Network pharmacology was used to identify bioactive compounds and targets of Epimedium from the TCMSP database, and immunomodulation-related targets from GeneCards and OMIM. PPI networks, KEGG/GO enrichment, molecular docking, and molecular dynamics (MD) simulations were performed. In vivo, female BALB/c mice were immunized with the Staphylococcus aureus (S. aureus) vaccine subunit HI antigen, either alone or with low- or high-dose icariin (ICA). Serum antibody responses (IgG, IgG1, IgG2a, IgG2b) were measured by ELISA. Survival against lethal S. aureus USA300 challenge was monitored. Results: Network pharmacology predicted 488 targets and 13 pathways. Core targets included IL6, TP53, EGFR, CTNNB1, HIF1A, HSP90AA1, JUN, MTOR, SRC, and AKT1. KEGG/GO analysis indicated involvement of T cell receptor and NOD-like receptor signaling pathways in inflammatory responses. Molecular docking and MD simulations confirmed stable ligand-target binding. Experimental validation showed that ICA significantly enhanced HI-specific antibody responses and induced a Th2-biased humoral immune response (IgG1/IgG2a ratio > 1), which is particularly relevant for vaccines targeting extracellular pathogens such as S. aureus. ICA also improved survival after lethal bacterial challenge. Conclusions: This study identifies potential bioactive compounds, core targets, and key pathways of Epimedium as a vaccine adjuvant. Experimentally, ICA, as a representative component, enhanced HI-specific antibody responses and conferred protection against lethal S. aureus challenge. Together, these findings offer a computational–experimental basis that may guide further mechanistic investigation. Full article

The toxicity of radioactive metals arises from both chemical toxicity and radiotoxicity. ²¹⁰Pb(II) is a long-lived radionuclide in the decay chain of natural uranium series ²³⁸U and exhibits extremely high toxicity. Both ²¹⁰Pb(II) and Pb(II) are widely present in natural water bodies. However, their combined toxicity remains unclear. Based on this, this study used zebrafish embryos as model organisms to investigate developmental toxicity, behavioral toxicity, and thyroid disruption effects, through single and combined exposure to Pb(II) (0, 1, 10, 100 μg/L) and ²¹⁰Pb(II) (0, 100, 1000 Bq/L) for 120 h by comparing the radiotoxicity of ²¹⁰Pb(II) with the chemical toxicity of Pb(II) and further exploring their combined effects. The results showed that following exposure to different environmental concentrations of Pb(II) and environmental activity levels of ²¹⁰Pb(II), exposure to Pb(II) alone caused an increase in the malformation rate of zebrafish embryos, a decrease in locomotor activity, and significant upregulation of thyroid-related genes, including thyroid hormone receptor beta (TRβ) and corticotropin-releasing hormone (CRH) in the larvae. Exposure to ²¹⁰Pb(II) alone had no significant effects on zebrafish embryos. Notably, compared with the individual exposure groups, the toxic effects in the combined exposure group of Pb(II) and ²¹⁰Pb(II) were further significantly enhanced. Furthermore, correlation analysis indicated a positive correlation between malformations in zebrafish embryos and the expression of key genes in the hypothalamic–pituitary–thyroid (HPT) axis. These findings suggest that under combined exposure, the chemical toxicity of Pb(II) plays a dominant role, while the radioactive component ²¹⁰Pb(II) exerts a synergistic amplification effect. This study provides important scientific evidence for improving the environmental risk assessment of radioactive metals. Full article