Search Results (57,854)

Burkholderia pseudomallei, the causative agent of melioidosis, presents significant challenges in both treatment and environmental decontamination. Bacteriophages, or phages, are increasingly being explored as potential diagnostic, therapeutic, and biocontrol agents against this bacterial pathogen. Our recent investigation has shown that most B. pseudomallei genomes contained prophage(s) associated with specific tRNA gene loci, prompting us to explore these detectable prophages as sources of temperate phages for further applications. Transcriptomic profiling of B. pseudomallei Bp82, a model strain that possesses three different prophages, revealed high expression levels of the integrase and certain transcriptional regulatory genes within its prophages during normal exponential growth. Using one of its temperate phages, namely φBP82.2, a P2-like phage, as a model, we investigated the lysogenic–lytic control mechanisms. Mutagenesis of the integrase gene, phiBP82.2_gp51, did not improve killing activity compared to the wildtype phage. In contrast, deletion of phiBP82.2_gp38, a putative transcriptional regulatory gene, and two downstream hypothetical protein genes, phiBP82.2_gp36 and phiBP82.2_gp37, resulted in significant lytic improvement. We conclude that these genes play a crucial role in the lysogenic–lytic switch of φBP82.2, suggesting a new avenue for engineering temperate phages for future applications. Full article

Aging is associated with a high prevalence of insomnia, which is linked to somatic and neuropsychiatric diseases, as well as metabolic and immunological dysfunction. This study aims to identify alterations in the transcriptome profiles and functional metabolic pathways in older adults with different types of sleep disorders. This cross-sectional study included 1002 participants (60–90 years) who were screened for sleep disorders using the Pittsburgh Sleep Quality Index (PSQI) questionnaire. Two types of sleep disorders were identified in the study cohort, i.e., sleep onset insomnia and sleep maintenance insomnia. Both types of insomnia were further analyzed for associations with clinical characteristics, laboratory testing results, and socioeconomic backgrounds. The transcriptomic profiles of peripheral blood samples were examined in 236 individuals, supplemented with differential gene and dsRNA expression analyses (DESeq2). Both sleep onset insomnia and middle insomnia were associated with depression, chronic pain syndrome, and osteoarthritis, while only middle insomnia was associated with cardiometabolic diseases. No associations were observed between sleep onset insomnia or reduced sleep duration and transcriptomic profiles. In contrast, 244 genes were differentially expressed in patients with middle insomnia, indicating the activation of pathways related to viral infection response and inhibition of protein synthesis. Additionally, differential expression analysis of double-stranded RNA (dsRNA) identified 2139 significant changes. Middle insomnia in older adults is associated with transcriptomic changes indicative of an activated antiviral immune response, likely resulting from changes in dsRNA expression levels. The chronic inflammation arising from these transcriptomic alterations may underlie the observed association between middle insomnia and cardiometabolic conditions. Full article

Traumatic brain injury (TBI) initiates a cascade of molecular and cellular reactions leading to long-term disturbances of neuronal and glial homeostasis. One of the key mechanisms of secondary injury is a pathological increase in intracellular Ca²⁺ concentration. Parvalbumin (PV) plays an important role in the regulation of Ca²⁺ homeostasis in neurons. In turn, connexin 43 (Cx43) is the principal protein of astrocytic gap junctions (GJs), which ensure neuroglial communication. The spatiotemporal changes in these proteins and the mechanisms of their interaction after TBI remain insufficiently studied. In the present study, a comprehensive analysis of the expression, localization, and spatial organization of PV and Cx43 in the cerebral cortex following TBI was performed. In intact tissue, PV was localized predominantly in neurons, whereas Cx43 formed typical punctate structures of astrocytic GJs. Twenty-four hours after TBI, a sharp activation of PV with pronounced nuclear translocation was observed against the background of a catastrophic decrease in Cx43 expression, accompanied by a reduction in the number of NeuN⁺ neurons and signs of apoptosis. However, after 7 days, a mirror-opposite effect was detected, characterized by decreased PV expression and increased Cx43 levels with its aggregation into cluster-like structures, as well as partial restoration of NeuN immunoreactivity. In addition, molecular dynamics simulations demonstrated that the stability of the PV–Cx43 complex is determined by the presence of Ca²⁺ and physiological pH, whereas acidosis and Ca²⁺ overload destabilize their interaction. Taken together, these results reveal a phase-dependent mirror-opposite pattern of PV and Cx43 expression and localization and emphasize the key role of Ca²⁺- and pH-dependent neuroglial interactions in TBI. Full article

Background: Chenopodium formosanum Koidz. (djulis) is an indigenous cereal crop native to Taiwan, and its effects on patients with inflammatory bowel disease (IBD) warrant exploration. The present study investigated whether the consumption of djulis can alleviate chronic colitis induced by dextran sulfate sodium (DSS) in mice. Methods: Forty mice were randomly divided into five groups: blank group (B), control group (C), low-dose group (L), medium-dose group (M), and high-dose group (H). Body weight and disease activity index (DAI) were recorded throughout this study. Groups C, L, M, and H were administered 2% DSS water on days 1–5 and 10–15 to induce chronic colitis. Groups L, M, and H were administered 5%, 10%, and 15% djulis, respectively. Serum and colon samples were collected for further analysis. Results: The DAI scores of groups L, M, and H were significantly lower than those of group C (p < 0.05), and the DAI scores of group H on day 18 were significantly lower than those of group L (p < 0.05). Colon length analysis revealed that DSS intervention significantly shortened colon length in group C (p < 0.05), whereas mice consuming djulis (groups L, M, and H) exhibited a restoration of colon length, with the effect being most pronounced in group H. DSS significantly increased the secretion of certain pro-inflammatory cytokines in the serum, such as interleukin (IL)-1β (p < 0.05), and the expression of some pro-inflammatory proteins in the colon, such as the nuclear factor kappa-light-chain-enhancer of activated B cells (NF-κB) (p < 0.05); however, djulis reversed these effects (especially in group H). In addition, mice in group H exhibited beneficial gut microbiota. Conclusions: Djulis alleviated chronic colitis in mice by reducing inflammation and modulating the gut microbiota. Further research is required to confirm these potential benefits in humans and elucidate the mechanisms involved. Full article

Ferulic acid is a bioactive phenolic compound with potential benefits for skeletal muscle health. In this study, Mongolian horses were used as experimental subjects and were orally administered ferulic acid at doses of 5, 10, or 15 g per horse per day for 40 consecutive days. Muscle biopsy samples were analyzed using proteomics to assess fiber type composition and regulatory protein expression. Ferulic acid supplementation increased the proportion of fast-twitch fibers and upregulated key differentiation factors such as MUSTN1, while modulating glycolysis, ECM remodeling, and calcium signaling pathways. Although ferulic acid induced moderate oxidative stress, it did not trigger classical ferroptosis. Collectively, these findings demonstrate that ferulic acid promotes fast-twitch fiber transformation in horses through coordinated metabolic and signaling mechanisms, highlighting its potential as a nutritional strategy to enhance skeletal muscle adaptability and athletic performance in horses. Full article

Interferon-induced transmembrane proteins (IFITMs) are broad-spectrum antiviral factors that restrict the entry of many enveloped viruses, including HIV-1, by modifying host membrane properties and trapping fusion at the hemifusion stage. Beyond blocking entry in target cells, IFITMs also reduce the infectivity of virions produced from IFITM-expressing cells, a phenomenon termed “negative imprinting”. Conserved motifs, such as the amphipathic helix and oligomerization motifs, have been reported to be essential for IFITM-mediated protection of target cells from viral infection. Yet, the impact of IFITM incorporation on progeny virion infectivity remains poorly defined. Here, we show that IFITM3 mutants defective in target cell protection activity still markedly impair HIV-1 fusion/infection upon incorporating into virions, without affecting viral maturation or Env incorporation. Immunofluorescence studies suggest mislocalization of the IFITM3 mutants as the reason for the lack of antiviral activity in target cells. Testing the antiviral activity of chimeras between antiviral and non-antiviral IFITM orthologs failed to clearly identify a domain responsible for reduction of HIV-1 infectivity, suggesting that multiple domains may be required for negative imprinting. Interestingly, co-incorporation of non-antiviral dog IFITM1 with human IFITM3 did not interfere with IFITM3’s negative imprinting activity, despite forming mixed hetero-oligomers. This finding implies a dominant, oligomerization-independent antiviral phenotype of IFITM3 in virions. Our findings suggest that IFITMs may protect target cells and negatively imprint progeny virions through distinct mechanisms, underscoring the need to further characterize the molecular basis for the reduced fusion competence of IFITM-containing HIV-1 particles. Full article

Transcription-associated cyclin-dependent kinases (tCDKs) precisely control the gene transcription process (initiation, elongation, and termination) by mediating RNA polymerase II phosphorylation. In several cancers, disrupted transcriptional control is emerging as a hallmark. In this review we summarize research studies of tCDKs’ role in gastrointestinal (GI) tumors, particularly, in the biology of esophageal, gastric, pancreatic, and hepatobiliary cancers. Across these tumor types, tCDKs are implicated as activators of super enhancer (SE) regions and contribute to the “transcriptional addiction” that not only drives cancer cell growth but is also attributed to therapeutic vulnerabilities. Overall, expression of tCDKs is increased in GI tumor tissues, indicating a rational target for therapeutics. We further describe emerging approaches, including genetic manipulation, small-molecule inhibitors or targeted protein degradation that disrupt tCDK functions in GI malignancies. We conclude by describing key challenges in targeting tCDKs and future treatment directions. Full article

Hepatocellular carcinoma (HCC) is a highly malignant tumour with a poor prognosis and few effective treatment options. Development of resistance to conventional therapies and occurrence of severe side effects highlight the urgent need for novel, low-toxicity interventions. Natural products are promising candidates for HCC drug development thanks to their multi-target activity and favourable safety profiles. Previous studies reported that Lingonberry extract, a bioactive natural product, inhibits proliferation of HepG₂ cells. However, the key molecular targets and underlying anticancer mechanisms remain unclear. In this study, we analysed gene chip data from Lingonberry extract-treated HepG₂ tumour-bearing mice using bioinformatics tools, employing a cross-species, multi-level screening strategy to identify PSMB8 as the core regulatory gene. In vitro functional validations (Western blotting, RT-PCR, CCK-8 assay, colony formation assay, flow cytometry and TUNEL staining) confirmed these findings. Downregulating PSMB8 was found to effectively induce late apoptosis in HepG₂ cells, and Lingonberry extract was found to significantly reduce PSMB8 protein expression. This study identifies PSMB8 as a key mediator of the anticancer effect of Lingonberry extract in HepG₂ cells. It provides a reliable methodological reference for screening anticancer targets of natural products and supports further exploration of Lingonberry extract as a potential adjuvant/lead compound for HCC. Full article

TFF1 is a secretory polypeptide that is typical of mucous epithelia belonging to the trefoil factor family (TFF) of lectins. Originally, TFF1 was discovered as an estrogen-responsive gene in breast cancer cell lines. However, its major physiological expression site is the stomach where it exists mainly in a monomeric form, with minor amounts of homodimeric as well as heterodimeric forms, such as a high-molecular-mass complex with IgG Fc binding protein (FCGBP). For the first time, we characterized different low-molecular-mass forms of TFF1 in human post-menopausal vaginal specimens, i.e., monomeric and dimeric forms. Attempts to identify high-molecular-mass forms of TFF1, such as TFF1-FCGBP, failed. Based on its known anti-inflammatory effects, TFF1 could play an important role in the homeostasis of vaginal microbiota, which is normally predominated by Lactobacillus spp. Due to its lectin activity, TFF1 might also be capable of binding to members of the vaginal microbiota or to vaginal fungal pathogens. This points to a potential role for TFF1 in the vagina’s innate immune defence and could be of clinical relevance particularly after menopause, e.g., for the treatment of bacterial vaginosis or vulvovaginal candidiasis, as here vaginal dysbiosis is often observed as a consequence of estrogen deficiency. Full article

The bioconversion of propionate, a well-known intermediate of anaerobic digestion (AD), to methane is energetically unfavorable under standard conditions, which typically occurs in the syntrophy of bacteria and methanogens via methylmalonyl-CoA (MMC) and the dismutation pathway. Since the latter, which is reported only in Smithella, possessed a thermodynamic advantage over the former, enriching Smithella and promoting the syntrophic interaction and metabolism of the microbiota are important for improving AD efficiency. In this study, lysine-modified Fe₃O₄ (Lys@Fe₃O₄) significantly enhanced the bioconversion of propionate to methane. The methane yield and the maximum methane production rate (R_max) in a Lys@Fe₃O₄ reactor were 278.7% and 271.7% of Blank, and the corresponding values were 201.9% and 201.6% of bare Fe₃O₄, respectively. The metaproteomic results indicated that Lys@Fe₃O₄ increased not only the abundance of Smithella but also the expression of cell surface and adhesion proteins, thereby promoting syntrophic interaction between Smithella and methanogens and facilitating electron and acetate transfer from Smithella to methanogens. Moreover, the expression of quorum-sensing proteins was enhanced, benefiting the cooperation of Smithella and its associated bacterium (Syntrophomonas). Furthermore, the expressions of key enzymes related to metabolism and electron transfer in propionate oxidation, butyrate oxidation, CO₂-reductive methanogenesis and acetoclastic methanogenesis were all significantly upregulated. The results are of great significance for maintaining low propionate concentration and stability of AD. Full article

Aging is associated with changes in intramuscular collagen structure and metabolism, which may impair mechanical adaptability and regenerative capacity. We investigated the effects of aging and repeated passive stretching on intramuscular collagen remodeling in the tibialis anterior muscles of mice. The tibialis anterior muscles of young and aged mice were exposed to repeated passive stretching, and the localization of collagen and collagen-related factors was evaluated. Baseline gene expression of collagens I and IV was significantly reduced in aged muscles and was not restored by stretching. Repeated passive stretching increased the area and intensity of collagen I immunoreactivity in both young and aged mice but produced little change in collagen IV. Stretch-induced dynamic changes in lysyl oxidase-positive cells in the extracellular matrix (ECM) were evident in young mice but were markedly attenuated in aged mice. In addition, matrix metalloproteinases (MMP2 and MMP9) mRNA and protein expressions did not differ between groups. No significant age- or stretch-dependent changes were observed in the localization of advanced glycation end products. These findings suggest that although the increase in fibrillar collagen in response to stretching is maintained with aging, the regulatory mechanisms controlling ECM stabilization, particularly those related to cross-linking dynamics, may be impaired. Full article

Non-specific Lipid Transfer Proteins (nsLTPs) constitute a ubiquitous family of plant proteins that play a critical role in mediating plant adaptation and tolerance to abiotic stress. While their functions have been extensively characterized in model plants such as Arabidopsis thaliana and rice (Oryza sativa L.), they remain largely unexplored in Cucurbitaceae crops. We identified 31 CmnsLTP genes in the melon (Cucumis melo L.) genome, these genes were unevenly distributed across 11 chromosomes and classified into 8 subfamilies. Members of the same subfamily have similar gene structures and conserved domains, with all family members having motif 1 and motif 3. The promoter region contains cis elements that respond to light, hormones (ABA and MeJA response elements), and abiotic stress, suggesting that this gene is involved in melon growth, development, and stress response. Previous studies have identified copper resistant candidate MELO3C031073.2 through forward genetics, which belongs to the nsLTP family and was named CmnsLTPY.9 in this study. The RT qPCR results showed that the CmnsLTPY.9 exhibited specific expression in different tissues, The expression levels of CmnsLTPY.9 in leaves ranged from 0.3 to 3.2. Under copper stress, the ‘M625’ (copper-sensitive) showed a 3.2-fold increase, indicating marked upregulation. Additionally, CmnsLTPY.9 was localized to the endoplasmic reticulum, and the position remains unchanged after copper stress. This study provides the first systematic analysis of the CmnsLTP gene family in melon; these findings provide fundamental insights into their specific functions in plant development and stress response, as well as valuable genetic resources for future research on copper-tolerant molecular breeding. Full article

Red clover (Trifolium pratense L.) is a crop used as a forage that possesses an exceptional nutritional profile and digestibility. Unfortunately, this crop has low seed yield. Within the framework of the “Legume Generation” EC-funded project, our team aimed to investigate the role of foliar boron application on pollen viability and pollen tube development, and to assess its overall effect on red clover cultivation. Plants of six commercial diploid red clover cultivars, Nika 11, Sofia 52, AberClaret, Milvus, Global, and S123, were field-grown and boron-treated by spraying with the commercial product “Lebasol”, 11% active water-soluble boron. To reach our purpose, the transcript levels of genes related to flower, pollen, and pollen tube development and boron transport were measured by qRT-PCR; pollen grain viability and count were assessed microscopically. For this research, eight genes were selected: Auxin Response factor (TprARF17); TprAPETALA3; Walls are thin (TprWAT1 and TprWAT2); NIPs genes (Nodulin Intrinsic Protein) TprNIP4;2, TprNIP7;1, TprNIP5;1, and TprNIP6;1. Additionally, total nitrogen content in leaves detached from field-grown boron-treated and untreated plants was assessed and compared with the expression levels of two TprNIP5;1 and TprNIP6;1 transporters. The fresh and dry biomass weight from the first and second cuts was evaluated, as well as the seed collected from the red clover plants. Seed germination percentage and vigor of seedlings were examined in vitro for both boron-treated and untreated groups of two specific cultivars. Collected data confirm that foliar application of boron affects pollen viability and plant development of red clover in the cultivation conditions of South East Europe. Full article

Background/Objectives: Ferritins are key iron-sequestering proteins that maintain cellular homeostasis by storing iron in a bioavailable and nontoxic form. They also contribute to innate immunity, cellular proliferation and differentiation, shell formation, and protection against oxidative stress. In this study, we identified and characterized the M-type subunit of ferritin (Mbi-Fer) from the Indian backwater oyster, Magallana bilineata (Röding, 1798). Methods: A full-length cDNA of Mbi-Fer was sequenced and analyzed, and its gene expression was quantified in oysters collected from their natural habitat. Additionally, the coding region of Mbi-Fer was transformed and expressed in Escherichia coli, and the recombinant protein was purified and analyzed. Results: Mbi-Fer exhibited all the typical features of M-type ferritins, including the ferroxidation site of the H subunit and the nucleation core of the L subunit. The amino acid sequence alignment and phylogenetic analysis showed high similarity to the M-type ferritin subunits of Magallana gigas (Thunberg, 1793). A putative iron-responsive element was identified in the 5′ UTR, indicating potential post-transcriptional regulation. Mbi-Fer expression in wild oysters was increased by more than fourfold, relative to laboratory-maintained control oysters. The recombinant expression result revealed a unique protein band that was specific to a ferritin M-like subunit, with an approximately molecular weight of 20 kDa. Conclusions: Our findings suggest that Mbi-Fer may play a role in both the iron storage and shell formation of backwater oysters and may serve as a valuable molecular marker of oxidative and environmental stress responses in estuarine bivalves. Full article

Programmed Death-Ligand 1 (PD-L1) promotes tumor progression through several mechanisms, including its intrinsic effect on breast cancer cell proliferation via the S-Phase Kinase-Associated Protein 2 (SKP2)–p21^Cip1/p27^Kip1 (SKP2-p21/p27) axis. However, the specific regulatory signaling through which PD-L1 influences the SKP2–p21/p27 axis to drive cell proliferation remains unclear. To investigate how PD-L1 mediates SKP2-dependent proliferation, proteomic analyses, gene-expression manipulation via knockdown or overexpression, Western blotting, quantitative immunofluorescence, colony-forming assays, real-time cell analysis, and Xenograft-derived cells were used. Proteomic data analysis identified several PD-L1 downstream targets as potential candidate regulators of the SKP2–p21/p27 axis and activators of the PI3K/AKT pathway. Candidate screening by gene knockdown, followed by analyses of SKP2, p21, and p27 protein expression, revealed Livin and Galectin-1 as upstream regulators of the SKP2–p21/p27 axis. Moreover, Western blotting and quantitative immunofluorescence in three breast cancer cell lines confirmed that PD-L1 is an upstream regulator of Livin, Galectin-1, and SKP2 protein expression. Mechanistically, Livin and Galectin-1 enhanced AKT phosphorylation (Ser473) to sustain PI3K/AKT pathway activation in a positive feedback loop to upregulate SKP2 expression. Functional assays, including colony-forming assays and real-time cell analyzer, demonstrated that Livin and Galectin-1 are critical for PD-L1-mediated, SKP2-dependent proliferation. These findings were corroborated in vivo using xenograft-derived cells. Overall, these findings delineate a tumor-intrinsic signaling axis in which PD-L1 upregulates Livin and Galectin-1 to sustain PI3K/AKT activity and drive SKP2-dependent cell proliferation. Targeting Livin and/or Galectin-1 may provide a rational strategy to disrupt PD-L1-associated proliferative signaling and improve combinatorial therapeutic approaches in breast cancer. Full article