Search Results (13,005)

The vaginal microbiome (VM), a complex and dynamic microbial ecosystem, is now recognized as a central determinant of female reproductive and gynecologic health. Under homeostatic conditions, a Lactobacillus-dominant ecosystem maintains vaginal acidity, provides colonization resistance, and modulates mucosal immunity. Conversely, vaginal dysbiosis—characterized by Lactobacillus depletion and anaerobic or aerobic overgrowth—is associated with infectious vaginitis, increased susceptibility to sexually transmitted infections, and non-infectious conditions such as genitourinary syndrome of menopause. This review provides an integrated overview of the composition, functional characteristics, and host interactions of the VM across health and disease. We highlight major mechanisms by which microbial dysbiosis contributes to disease pathogenesis, including biofilm formation, altered microbial metabolism, and immune dysregulation. In addition, we discuss the translational potential of the VM as a source of diagnostic and prognostic biomarkers and as a target for emerging microbiome-dependent therapeutic strategies. Collectively, current evidence supports the view that vaginal dysbiosis is a heterogeneous and context-dependent state driven by distinct pathogen- and host-related mechanisms, underscoring the importance of prioritizing microbiome restoration rather than pathogen eradication alone. Full article

This study investigated the effects of inoculating peanuts with two Aspergillus flavus strains (Aspergillus flavus CGMCC 3.4408 and A. flavus LNZW 23) on plant growth and the rhizosphere bacterial community. Infection significantly inhibited peanut growth. By 60 days post-inoculation (dpi), plant height in inoculated groups (CGMCC 3.4408, 26.4 cm; LNZW 23, 25.5 cm) was significantly lower than in the non-inoculated control (CK, 32.3 cm), with concomitant significant reductions in shoot and root biomass. Analysis of rhizosphere microbiota revealed that early infection (7 dpi) reduced bacterial species richness and phylogenetic diversity. Beta diversity analysis (PCoA) confirmed a significant divergence in microbial community structure between inoculated and control groups over time, with a statistically significant difference also observed between the two inoculated strains (p = 0.016). In terms of community composition, Proteobacteria, Acidobacteriota, and Actinobacteria were the three dominant phyla. At the genus level, infection altered the relative abundance of key taxa; genera such as KD4-96, Vicinamibacteraceae, and RB41 decreased at 7 dpi, while Sphingomonas remained relatively stable. By 60 dpi, community dominance increased, marked by rising abundances of Actinobacteria and Proteobacteria. In conclusion, A. flavus infection not only suppresses peanut growth but also persistently alters its rhizosphere microbial community, with effects demonstrating both time-dependency and strain-specificity. Full article

The valorization of protein-rich meat and bone meal (MBM) via composting is hampered by significant nitrogen loss. Genomic analysis of Aeribacillus pallidus (A. pallidus) strain 60 revealed a genetic repertoire encoding potent proteolysis and nitrogen assimilation. We hypothesized that this strain could function as a microbial catalyst to redirect nitrogen flux during MBM composting. In a laboratory-scale trial, inoculation with A. pallidus triggered a rapid thermal surge (reaching 70 °C) and proteolytic cascade, significantly accelerating maturation. Crucially, this process enhanced relative nitrogen retention, increasing final total Kjeldahl nitrogen (TKN) concentration by 10.87–13.33% and nitrate by 13.75–18.65% compared to controls. Physicochemical and microbial profiling revealed that these improvements were driven by an inoculant-induced environmental modification rather than sustained inoculant dominance. The created thermal niche facilitated a distinct two-stage succession: an initial enrichment of proteolytic genera (Thermoactinomyces, Ammoniibacillus) followed by the establishment of a putative nitrifying community dominated by Pseudoxanthomonas. This study illustrates how a pioneer inoculant can drive functional microbiome assembly through niche modulation, providing a targeted strategy for optimizing nitrogen recovery in protein-dense waste valorization. Full article

Background/Objectives: Dietary composition and physical activity are major determinants of gut microbiome structure, and dysbiosis is strongly associated with metabolic disorders. While both diet and exercise independently influence the gut microbiome, their interactive effects—particularly across different exercise modalities—remain incompletely understood. This study investigated the combined effects of diet type (normal chow [NC] vs. high-fat diet [HFD]) and exercise modality (control [C], voluntary [V], and forced [F]) on gut microbiota composition in rats. Methods: Sixty-three Wistar rats were randomized into six groups according to diet and exercise status. Fecal samples were collected and analyzed using full-length 16S rRNA gene sequencing (Oxford Nanopore Technologies). Alpha and beta diversity metrics were calculated, and taxonomic composition was assessed at phylum and genus levels. Results: HFD groups exhibited significantly higher alpha diversity than NC groups (Shannon index: 3.47–3.63 vs. 2.76–2.94, p < 0.001), with forced exercise associated with a greater diversity than voluntary exercise. Beta-diversity analysis confirmed diet as the dominant factor influencing microbial structure (PERMANOVA p = 0.001), with exercise providing an additional modulatory effect. Firmicutes, Bacteroidota, Deferribacterota, and Proteobacteria predominated, with Firmicutes decreasing under HFD. Forced exercise significantly enriched beneficial genera, including Akkermansia (detected exclusively in exercised HFD groups; p = 0.03), Blautia, Coprococcus, and Roseburia. Akkermansia abundance correlated positively with exercise distance (p < 0.001) and negatively with body weight (p < 0.01). Conclusions: Structured exercise, particularly forced treadmill training, attenuates HFD-associated dysbiosis and promotes the beneficial gut bacteria that is associated with metabolic health. These findings highlight exercise modality as a critical factor in dietary strategies targeting gut microbiome modulations. Full article

As consumer attitudes shift, non-alcoholic and low-alcohol beers (NABLABs) have grown rapidly in popularity. This has driven interest in biological production methods that avoid the cost and flavor damage associated with post-fermentation dealcoholization. This review focuses on how barley wort composition and process conditions shape the metabolism of maltose- and maltotriose-negative non-Saccharomyces yeasts (NSYs), and how this, in turn, affects ethanol yield, flavor, and aroma in NABLABs. Key sections examine differences in carbohydrate utilization between Saccharomyces and NSYs, the influence of oxygen and Crabtree/Kluyver effects on carbon flux, and the roles of glycerol and organic acid formation as alternate carbon sinks that also contribute to mouthfeel, sweetness perception, and acidity. Particular attention is given to mashing strategies and enzyme additions used to redesign wort sugar profiles for NSYs, including high-temperature, low-gravity mashes and exogenous amyloglucosidase to increase glucose while limiting maltose and ethanol formation. The review also summarizes how the NSY-driven production of esters, higher alcohols, and the biotransformation of hop-derived precursors can offset excessive sweetness and “worty” off-flavors that commonly affect NABLABs. The use of NSYs opens an exciting array of opportunities for brewers to make NABLABs; however, challenges remain. Saccharomyces yeasts have centuries of brewing experience behind them and the adaptations needed for effective use of NSYs are still in development. Fundamentally, the challenge for NABLAB brewers using biological methods is to balance the desirable effects of fermentation while maintaining ethanol levels below the target threshold. This review outlines those challenges in detail and examines some of the approaches that are being used to solve them. Full article

Long-read sequencing (LRS) has transformed life science research by introducing third-generation sequencing (TGS) platforms applicable across various research fields, including environmental sciences. In the past decade, LRS platforms have been utilized to extensively study algal systems by improving genomic approaches such as metabarcoding, chromosome-level genome and pangenome assemblies, as well as providing new insights into algae-associated microbiomes and host–symbiont interactions. This review aims to discuss recent advancements in LRS in algal research. To achieve this aim, a systematic review was conducted according to the PRISMA 2020 guidelines and across three electronic databases (Web of Science, Scopus, and Google Scholar), with additional citation searching for relevant studies in four key algal research areas: metabarcoding, genomics, pangenomics, and host–symbionts interactions. Following the inclusion and exclusion criteria, only 51 studies were selected for this review. Throughout the review, we summarize the challenges of short-read sequencing (SRS) and discuss how LRS platforms address these challenges in algal studies. Furthermore, we discuss the future of LRS and explore how artificial intelligence (AI) can advance research on algal biology and ecology. Full article

Background: Osteoporosis is a complex disorder involving bone loss and muscle degeneration. Multi-omics technologies provide novel insights into its molecular mechanisms and may support biomarker discovery, patient stratification, and therapeutic development. Objective: This scoping review aimed to synthesize current evidence on the application of multi-omics approaches in osteoporosis, focusing on molecular insights, methodological diversity, and translational potential. Methods: A literature search of PubMed, Embase, and Scopus retrieved 433 records using the keywords “osteoporosis,” “osteosarcopenia,” and “omics.” After removing duplicates and screening titles, abstracts, and full texts, 30 studies met the inclusion criteria. Data on study populations, biological samples, multi-omics techniques, and integration methods were extracted. Results: Studies employed transcriptomics, proteomics, metabolomics, lipidomics, epigenomics, and metagenomics, often combined in multi-omics analyses with computational modeling. Key pathways included osteoclast differentiation, immune regulation, ferroptosis, and microbiome–metabolite interactions. Multi-omics integration enabled the identification of molecular subtypes, candidate biomarkers, and potential therapeutic targets. Limitations included small or single-center cohorts, heterogeneous designs, and limited validation, restricting generalizability and clinical translation. Conclusions: Multi-omics approaches offer a powerful framework to uncover the molecular mechanisms underlying bone and muscle degeneration and to guide precision diagnostics and interventions. Future studies should prioritize large, multicenter, longitudinal designs integrating multi-omics data with clinical and functional validation to facilitate clinical application. Full article

Periodontal disease affects 10–50% of the global population and is associated with various systemic conditions, including diabetes, cardiovascular disease and adverse pregnancy outcomes. Emerging evidence highlights diet as a critical, modifiable factor that influences the composition of the oral microbiome and periodontal health. This narrative review explores the molecular mechanisms through which traditional foods modulate the oral microbiome and contribute to oral and systemic health. A comprehensive literature search was conducted in PubMed/MEDLINE, the Cochrane Library, LILACS and Epistemonikos, prioritizing systematic reviews, meta-analyses and randomized controlled trials. The oral microbiome harbors over 700 bacterial species, and dysbiosis, characterized by pathogen enrichment, drives periodontal inflammation. Anti-inflammatory dietary patterns, including the Mediterranean diet, demonstrate protective effects. Omega-3 fatty acids, vitamins C and D, polyphenols and dietary fiber support periodontal health, whereas refined carbohydrates, saturated fats and pro-inflammatory nutrients can exacerbate disease. Probiotics show promise as an adjunctive therapy. However, the translation to clinical guidelines is impeded by methodological challenges, including the limited number of randomized controlled trials with oral endpoints, confounding by hygiene practices, and the lack of standardized multi-omics approaches. Nutritional counselling should be integrated into periodontal care as a modifiable risk factor. Future research priorities include precision nutrition approaches, the validation of salivary biomarkers, and interprofessional collaboration between dental and nutrition professionals. Full article

Postbiotics produced by beneficial bacteria are emerging as safe dietary approaches to intestinal inflammation. We evaluated intestinal bacterial metabolites (IBM), a cell-free fermented soybean extract generated by co-culturing 31 Lactobacillus/Bifidobacterium-related strains, for prophylactic protection in 3% dextran sulfate sodium (DSS)-induced colitis. Male C57BL/6NJ mice received oral IBM (0.4 or 2 mL/kg/day) or vehicle for 7 days before and during 7 days of DSS. Disease activity index (DAI), colon length, and histopathology were assessed, and endpoint serum cytokines were quantified by a multiplex bead assay. DSS-independent responses were examined in healthy mice after 7 days of IBM by rectal RNA sequencing and cecal 16S rDNA profiling, and direct epithelial effects were tested in HCT-116 and DLD-1 cells treated with 2% IBM. IBM attenuated colitis, improving DAI, preventing colon shortening, and ameliorating histopathology, with decreased IL-23 and IL-17A and increased IFN-β and GM-CSF. Rectal transcriptomics showed modulation of circadian programs, upregulation of mucosal/barrier genes, and reduced extracellular-matrix remodeling signatures. IBM increased junctional proteins and barrier-related transcripts in vitro and shifted the microbiota, increasing Lactobacillus and Roseburia while decreasing Streptococcus and Staphylococcus. These coordinated clinical, immunological, transcriptomic, epithelial, and microbiome changes support prophylactic protection by IBM against DSS colitis. Full article

The plant holobiont comprises the host plant and its associated microbial communities functioning together as a single ecological and evolutionary unit that influences plant health, productivity, and environmental adaptability. Endophytes, formerly classified primarily as plant growth-promoting agents, are currently gaining traction as integral components of plant-associated microbiomes such as the rhizobiome and phytobiome. They can alter host-mediated root exudation patterns, microbial community structure, and nutrient dynamics within the rhizosphere. Endophytes play an important role in modulating host signaling pathways, thus influencing plant growth. Various mechanisms by which endophytes contribute to improved plant performance include soil microbiome dynamics, carbon sequestration, and strengthening the host’s ability to tolerate abiotic stressors. Multi-omics, single-cell, and systems-level approaches integrated with CRISPR, metabolic engineering, and AI, together with systems biology, guided by in vitro and field studies, support predictive modeling and provide evidence for the evolution of system-driven strategies for developing effective bioinoculants. This review highlights the potential of endophytes to serve as a scalable and sustainable component of climate-resilient and regenerative agricultural systems, while acknowledging ecological variability and field-level constraints. Full article

In recent years, the gut microbiome has been increasingly recognized as an important factor in regulating treatment responses and disease progression in prostate cancer (PCa). We synthesized literature published over the past five years, focusing on preclinical and clinical studies linking the microbiome to PCa treatment outcomes. There is accumulating evidence that gut microbiota dysbiosis and its associated metabolites can modulate key biological processes, such as androgen metabolism, inflammatory signaling pathways, and antitumor immune responses. These processes affect the sensitivity of PCa patients to androgen deprivation therapy (ADT) and other systemic treatments. The available evidence suggests that the gut microbiome has the potential to serve as a predictive biomarker for treatment response and could represent a novel target for interventional precision therapy in PCa. This narrative review summarizes the latest research on the “gut–prostate axis”, focusing on the role of the gut microbiome in regulating therapeutic responses in PCa and the underlying mechanisms. Finally, we address current limitations, including the predominance of preclinical evidence, methodological heterogeneity, and the critical need for longitudinal clinical validation to distinguish causality from association. Full article

Climate change has emerged as a major global concern and has substantially intensified the occurrence of abiotic stresses in plants. Among the abiotic constraints limiting crop production, drought stress is regarded as one of the most severe and pervasive challenges. To this end, developing efficient and sustainable strategies to mitigate drought has become an urgent priority in agricultural research. Current approaches to improving drought tolerance mainly include optimizing irrigation management, applying chemical regulators, and breeding drought-resistant cultivars. However, these strategies often suffer from high input costs, limited durability of effects, potential environmental risks, or restricted regional applicability, making it difficult to achieve long-term and stable drought mitigation. In recent years, a growing body of evidence has indicated that rhizosphere microorganisms play pivotal regulatory roles in plant drought adaptation, with beneficial fungi being particularly important. Nonetheless, the key processes and mechanisms by which microbiomes mediate crop adaptation to drought need to be elucidated systematically. In this review, we synthesize recent advances in the field and, against the backdrop of increasingly severe global drought, summarize the major impacts of drought stress on crop growth and physiological processes. We further systematically synthesize the key mechanisms by which beneficial fungi alleviate drought stress in crops. Finally, we outline future research directions to deepen our understanding of rhizosphere–crop–microbe interaction networks and to provide a theoretical basis for developing beneficial fungus-centered microbial biofertilizers and microbiome-mediated strategies to enhance crop drought resilience. Full article

Melatonin, a multifunctional hormone with antioxidant, anti-inflammatory, and chronobiotic effects, is essential for a healthy pregnancy and fetal development. In the context of the Developmental Origins of Health and Disease (DOHaD), excessive oxidative stress acts as a key driver of maladaptive fetal programming, increasing lifelong susceptibility to cardiovascular, kidney, and metabolic (CKM) disorders. Importantly, most evidence derives from rodent models, and the protective effects of maternal melatonin supplementation appear partial and model-dependent rather than universal. Experimental studies indicate that maternal melatonin supplementation can prevent programmed hypertension, renal dysfunction, and metabolic derangements by restoring redox homeostasis, influencing epigenetic and nutrient-sensing pathways, and modulating the gut microbiome. Early clinical investigations in pregnancies complicated by preeclampsia or intrauterine growth restriction suggest that melatonin is well tolerated, improves placental function, and benefits neonatal outcomes. However, optimal dosing and long-term safety for offspring remain to be established. This review synthesizes mechanistic and translational evidence, framing melatonin as an integrative biological mediator with potential to guide preventive strategies and mitigate the intergenerational risk of CKM syndrome. Full article

Rheumatoid arthritis is a chronic systemic autoimmune disease that arises from complex interactions among genetic susceptibility, environmental factors, and immune dysregulation. Growing evidence indicates that microorganisms residing in the oral cavity and gastrointestinal tract, together with dietary factors, play a central role in shaping inflammatory and autoimmune responses in rheumatoid arthritis, forming an interconnected microbiome–immune–nutrition axis. Alterations in the composition and function of oral and intestinal microbial communities are associated with disruption of mucosal barrier integrity, activation of innate and adaptive immune pathways, increased differentiation of proinflammatory T lymphocyte subsets, and loss of immune tolerance that promotes autoantibody production. In addition, microbially derived metabolites, particularly short-chain fatty acids, provide a mechanistic link between microbial ecology, immune regulation, and bone metabolism. Diet represents a key upstream modulator of this axis. Dietary patterns rich in anti-inflammatory nutrients support microbial diversity and immunoregulatory metabolite production, whereas diets high in processed foods and saturated fats favor proinflammatory microbial profiles. Accumulating clinical evidence suggests that nutritional strategies and microbiome-targeted dietary interventions may reduce systemic inflammation and disease-related comorbidities when used alongside standard pharmacological treatments. Taken together, the microbiome–immune–nutrition axis represents a modifiable and clinically meaningful target in rheumatoid arthritis, emphasizing the need for interdisciplinary research and well-designed clinical trials to translate these insights into personalized approaches for disease management. The aim of this review is to integrate current mechanistic and clinical evidence on the interactions between the microbiome, immune system, and nutrition in rheumatoid arthritis, with a focus on their pathogenic relevance, therapeutic potential, and implications for personalized, diet-based interventions. Full article

The decline of honey bee health has intensified interest in microbiome-based strategies to support colony resilience and reduce reliance on chemical interventions. In this study, we performed an in vitro probiotic screening of five lactic acid bacteria (LAB) strains of honey bee origin and two multi-strain consortia for prospective application in apiculture. Two formulations were evaluated: LAB Mix 1 (Apilactobacillus kunkeei and Lactobacillus apis) and LAB Mix 2 (Lactiplantibacillus plantarum, Fructobacillus fructosus, and A. kunkeei). Functional and safety-related traits were investigated, including auto-aggregation, cell-surface hydrophobicity, inter-strain compatibility, organic acid production, oxidative detoxification capacity, antibiotic susceptibility, haemolytic activity, and growth dynamics in sugar-based feeding syrups. All strains exhibited time-dependent increases in aggregation and hydrophobicity, with A. kunkeei and F. fructosus showing particularly strong surface-associated properties. No mutual antagonism or haemolytic activity was observed. Organic acid profiling revealed strain-specific metabolic signatures, with high lactic and citric acid production by L. plantarum and LAB consortia. Several strains displayed peroxidase activity, suggesting a role in oxidative stress mitigation. Growth assays demonstrated that high sugar concentrations severely limited bacterial growth, whereas moderate dilution significantly improved growth. Under osmotic stress conditions, mixed cultures generally achieved higher optical density values than individual strains. Collectively, these findings support bee-associated LAB and multi-strain formulations as promising candidates for further probiotic development. Full article