Search Results (3,744)

Background/Objectives: Female infertility represents a significant public health issue. Available evidence supports the hypothesis that the gut microbiota may play an essential role in women’s reproductive health and may serve as a diagnostic or prognostic biomarker in specific gynecological disorders. A substantial part of current research concerns disturbed communication between the hypothalamic–pituitary–ovarian axis and the gut microbiota, providing the basis for analyzing this phenomenon as the gut–ovary axis or the gut–vagina–ovary axis. The primary aim of this scoping review was to map the available evidence on the relationship between gut microbiota composition and female infertility, with particular emphasis on polycystic ovary syndrome (PCOS, currently polyendocrine metabolic ovarian syndrome, PMOS) endometriosis, and uterine fibroids. Methods: The review was conducted in accordance with the PRISMA Extension for Scoping Reviews (PRISMA-ScR). PubMed, Scopus, and Google Scholar were searched using terms related to gut microbiota, female infertility, PCOS, endometriosis, and uterine leiomyomas. Peer-reviewed publications in English published between 2015 and 2025 were considered. The included studies were descriptively synthesized to identify recurring microbiota patterns and research gaps. Results: The reviewed evidence indicates that gut dysbiosis may be associated with selected gynecological disorders affecting fertility, including PCOS, endometriosis, and uterine fibroids. The gut microbiome may have potential value as a biomarker supporting diagnosis, treatment selection, and prognosis. Conclusions: The gut microbiome represents a promising but still insufficiently validated area in the management of gynecological diseases associated with female infertility. Further high-quality clinical studies are needed to verify the effectiveness of microbiome-based therapies and to develop evidence-based guidelines for managing infertility associated with gut dysbiosis. Full article

The beneficial effects of dietary fiber (DF) and high-dietary-fiber diets (high-DF diets) on body weight (BW) regulation and lipid metabolism have been extensively investigated in the general population. However, due to the unique metabolic adaptations of athletes, exercise-specific nutritional requirements, and enhanced gastrointestinal sensitivity caused by intensive training and competition, the evidence for their application and in-depth mechanism remains limited. This review synthesizes current evidence on the effects of DF and high-DF diets on BW regulation and lipid metabolism in athletic populations. Emerging data indicate that athletes exhibit unique lipid metabolic phenotypes and gut microbial compositions relative to non-athletic individuals—factors that may modulate their physiological responses to DF interventions. Studies conducted specifically in athletes suggest that DF supplementation and high-DF diets—including the vegetarian diet and the Mediterranean diet—may support favorable changes in body composition and lipid-related biomarkers. Nevertheless, these benefits appear to be moderated by sport discipline, biological sex, and interindividual variability in metabolic and gastrointestinal physiology. Critically, excessive or poorly timed DF intake—particularly during intense training blocks or immediately before or during competition—may exacerbate gastrointestinal discomfort and impair energy availability, thereby potentially compromising performance. Consequently, the integration of DF into athletic nutrition strategies necessitates individualized consideration of fiber type, dosage, timing of ingestion, fermentability, and gastrointestinal tolerance. Future research should prioritize rigorously designed longitudinal studies and randomized controlled trials employing standardized DF interventions and outcome assessments. Comprehensive evaluation—including metabolic parameters, markers of energy availability, gastrointestinal symptomatology, and microbiome profiling—will be essential to inform evidence-based, personalized DF recommendations aligned with athletes’ training phases and metabolic profiles. Full article

Background/Objectives: Despite increasing interest in the human gut microbiome, particularly in Bifidobacterium, studies focusing on traditionally living populations with high habitual dairy consumption remain limited. This study investigated species-level diversity, abundance, and regional variation of Bifidobacterium among healthy Mongolian adults and contextualized these findings within a global comparative framework. Methods: A total of 100 healthy adults were recruited from four Mongolian regions. Fecal samples were analyzed using species-resolved shotgun metagenomics, and dietary intake was assessed through a standardized food frequency questionnaire. Alpha- and beta-diversity metrics, differential abundance tests, and diet–microbe correlations were performed on members of the Bifidobacterium species. To assess the broader significance of the Mongolian Bifidobacterium profile, Shannon diversity was further compared against a curated global dataset comprising 1286 healthy adults from 29 countries using harmonized bioinformatic and statistical pipelines. Results: Shannon diversity within the Bifidobacterium genus was significantly higher in nomadic Mongolians, particularly those from Khuvsgul and Dundgobi, and strong geographic structuring was observed in beta-diversity analyses (PERMANOVA, p < 0.001). Nomadic populations showed higher relative abundances of B. adolescentis and B. angulatum, whereas B. pseudocatenulatum predominated in Ulaanbaatar. Although overall Bifidobacterium abundance was lowest in Bulgan, B. longum remained the dominant species in this region. Spearman correlation analysis with false discovery rate correction identified significant associations between dairy intake and specific Bifidobacterium species. Homemade yogurt and traditional dairy intake were positively associated with B. angulatum. B. catenulatum was positively associated with homemade yogurt, traditional dairy, and total fermented dairy intake, whereas factory milk intake was negatively associated with B. angulatum but positively associated with B. pseudocatenulatum. Mongolia ranked among the top eight of 30 countries for Bifidobacterium Shannon diversity though total Bifidobacterium abundance showed substantial inter-individual and regional variation. Conclusions: Mongolian adults exhibit relatively high Bifidobacterium diversity at both national and global scales. Traditional dairy consumption was associated with species-specific variation in Bifidobacterium composition, supporting the contribution of dietary practices to regional gut microbiota patterns. Full article

Chronic ulcers require prolonged care and carry an increased risk of infection and limb loss. Sequencing studies of diabetic foot ulcers, venous leg ulcers, and pressure ulcers have revealed dynamic, patient-specific microbial communities whose composition varies with local tissue conditions and treatment exposure. This review examines changes in microbial burden and community structure during wound-bed and antimicrobial interventions and their relationships with healing. Observed shifts may contribute to therapeutic effects, reflect direct perturbation of the community, or follow tissue recovery. However, most studies are small, heterogeneous, and uncontrolled, limiting causal inference. No published randomized trial has shown that treatment selection informed by sequencing-based microbial profiling improves wound healing. A central translational challenge is to determine whether baseline microbial features reproducibly predict responses to defined interventions. Progress will therefore require prospective longitudinal studies integrating sequencing with quantitative culture, isolate phenotyping, antimicrobial susceptibility testing, biofilm assays, and standardized clinical data. Such studies should establish whether microbiome profiling adds clinically useful information to conventional wound assessment and microbiological testing. Full article

The withdrawal of antibiotic growth promoters has fundamentally changed the priorities of poultry nutrition, shifting attention from growth promotion towards maintenance of intestinal homeostasis and physiological resilience, defined here as the capacity of the organism to maintain or restore functional homeostasis when exposed to biological, nutritional, or environmental challenges. Although plant-derived feed additives have attracted considerable interest as natural alternatives, their biological activity is still commonly interpreted as a collection of independent antimicrobial, antioxidant, or immunomodulatory effects. This fragmented perspective may not fully capture the interconnected and context-dependent nature of their effects across experimental models. This review develops an integrated conceptual framework in which phytogenic feed additives are considered as potential systems-level modulators of the microbiota–gut–immune axis rather than as isolated sources of bioactive compounds. We synthesise experimental evidence from 155 broiler chickens identified through searches of PubMed, Web of Science, Scopus, and Google Scholar from database inception to June 2026, covering microbial ecology, intestinal morphology and barrier function, microbial metabolites, redox balance, inflammatory signalling, and innate and adaptive immunity across infectious, nutritional, and environmental challenge models. Particular attention is given to the different levels of evidence provided by culture-based and targeted analyses, microbiome profiling, integrated host–microbiome studies, and multi-omics approaches. The available evidence suggests that structurally diverse phytochemicals can influence overlapping regulatory networks linking microbial ecology, epithelial barrier integrity, redox balance, inflammatory signalling, and immune function. However, the magnitude and direction of these responses vary substantially according to botanical source, phytochemical composition, dose, formulation, duration of supplementation, animal genotype, basal diet, and experimental challenge. Collectively, the available evidence supports a paradigm shift from compound-centred interpretation towards network-based regulation of host homeostasis. Within this context, physiological resilience refers to the capacity to maintain or restore functional homeostasis in response to biological, nutritional, or environmental challenges. It may emerge from coordinated interactions among the intestinal microbiota, the epithelial barrier, and the immune system. Phytogenic supplementation may contribute to resilience by simultaneously modulating several components of this network, although causal relationships remain incompletely established for many proposed mechanisms. This systems-level perspective provides a framework for integrating heterogeneous evidence and for identifying priorities for future research, including dose–response relationships, phytochemical combinations, longitudinal multi-omics approaches, and validation under commercially relevant production conditions, with implications for precision poultry nutrition. Full article

Organic fertilizer and season are established sources of variation in tea plantation soil microbiomes. A repeated-measure field experiment was conducted in Yunnan, China, comprising an unfertilized control (CK), sheep manure (SM), pig manure (PM), rapeseed cake manure (RM), and commercial organic fertilizer (OF). The same 15 mature tea trees were sampled in spring, summer, and autumn, yielding 45 composite soil samples. Soil properties, as well as 16S rRNA gene and ITS amplicon profiles, were evaluated using mixed-effect models, restricted-permutation PERMANOVA, and design-adjusted partial redundancy analysis (pRDA). Fertilization regime, season, and their interaction showed property-specific associations, most clearly for alkali-hydrolyzable nitrogen, available phosphorus, and available potassium. Bacterial alpha diversity was more responsive than fungal alpha diversity. Both factors were significantly associated with bacterial and fungal community structures. Season accounted for most bacterial variation (68.70%), whereas fungal variation was associated more evenly with season (27.33%) and fertilization regime (18.61%); no significant interaction was detected for either group. Nine fungal genera retained significant treatment-associated differences after FDR correction, whereas the bacterial genus-level patterns remained exploratory. After conditioning for fertilization regime and season, measured soil variables collectively explained 6.51% and 13.56% of bacterial and fungal variation, respectively, but no individual variable remained significant after FDR correction. Because fertilizer inputs were not nutrient-standardized, treatment contrasts represent integrated material-and-dose regimes rather than isolated fertilizer-type effects. These context-specific results illustrate the value of repeated seasonal sampling with design-adjusted analyses for evaluating practical fertilization regimes. Full article

Camel meat is an important red meat source, but culture-independent evidence of its bacterial community during refrigerated storage remains limited. No prior study has applied 16S rRNA sequencing to camel meat under aerobic chilled storage. Samples from three butcher shops were evaluated at Day 0 and Day 7 of aerobic storage at 5 °C. Thirty-eight samples were retained for diversity, compositional, and differential abundance analyses using Breakaway, DivNet, Bayesian hierarchical modeling, permutational multivariate analysis of variance (PERMANOVA), and Microbiome Multivariable Associations with Linear Models 2. Richness and Shannon diversity decreased from Day 0 to Day 7, while the Simpson index increased, indicating higher dominance. Storage duration was associated with Bray–Curtis community variation (PERMANOVA: R² = 0.107, p = 0.001), whereas anatomical cut showed no significant effect; butcher source differed in multivariate dispersion. Differential abundance analysis identified 59 storage-associated amplicon sequence variants, including Pseudomonas enrichment and depletion of Kocuria, Rothia, and Carnobacterium at Day 7. These are relative-abundance findings from 16S rRNA, not culture-based microbial counts. Storage duration was the principal driver of camel meat microbiota composition, providing a compositional baseline that may inform hygiene and storage practices aimed at limiting Pseudomonas-associated spoilage; microbial load and spoilage were not directly assessed. Full article

With immune checkpoint inhibitors becoming the mainstay of systemic therapy in both metastatic and early-stage settings across many cancer types, the management of immune-related adverse events has emerged as a central priority of modern oncological supportive care. These toxicities can substantially impair the quality of life of cancer patients, including those who achieve long-term survival. Consequently, there is a pressing need to develop reliable predictive biomarkers to better tailor immune checkpoint inhibitor treatment and optimize patient selection. This review summarizes several of the most promising predictive biomarkers currently under investigation, including genetic factors; peripheral blood parameters and their ratios; autoantibodies; cytokines and chemokines; cytomegalovirus serostatus; gut microbiome characteristics; body composition metrics; molecular imaging features; and tumour- and patient-related factors such as cancer type, gender, and physical activity. Because single biomarkers have limited predictive value, multi-omics prediction models and composite immune-cell scores are increasingly demonstrating greater potential. However, none of these candidate biomarkers have yet undergone sufficient validation to support their incorporation into routine clinical practice. Full article

Background: Early-life microbial exposures shape immune maturation and can influence later susceptibility to allergic airway disease. While probiotics can modulate host immunity, determining whether maternal probiotic supplementation alone promotes changes in offspring microbiomes and the immune functions that reduce allergic disease remains incompletely defined. Methods: Female mice were gavaged with Lactobacillus johnsonii (Lj) daily for 7 days prior to mating, and then twice weekly until delivery. Offspring were sensitized and challenged with cockroach allergen (CRA), beginning at 5 weeks of age, for 3 weeks to initiate asthmatic-type responses. Airway physiology (methacholine-induced airway hyperreactivity; AHR), lung-mucus-related gene expression (Muc5ac, Gob5), and lymph node restimulation responses were assessed. Results: Offspring from Lj-supplemented dams exhibited reduced AHR and decreased induction of Muc5ac and Gob5 following the final CRA challenge, accompanied by diminished Th cell cytokine production upon lymph node restimulation. Maternal Lj supplementation produced a significant shift in offspring cecal microbiome structure at 5 weeks, including altered phylum-level composition and a discrete set of significantly changed OTUs, including Akkermansia. PICRUSt2 analyses predicted coordinated differences in microbial metabolic potential across multiple pathways, consistent with functional reprogramming of the gut microbiome. Bone marrow dendritic cells (BMDC) derived from adult offspring of Lj-supplemented dams showed attenuated inflammatory programming after RSV or TLR7 stimulation, with reduced expression of innate immune cytokines compared to PBS-supplemented dams. Conclusions: The relatively long-term effects were associated with reduced allergic airway disease severity, supporting maternal probiotic supplementation as a potential strategy to lower offsprings’ risk of allergic airway pathology. Full article

This study aimed to evaluate rice yield attributes, loach Paramisgurnus dabryanus muscle quality, and soil biochemical composition under rice monoculture (RM), rice–loach coculture (RLC), and loach monoculture (LM). This trial was conducted for 90 days, and then rice, fish muscle and soil were obtained for analyses. The results showed that there were no significant differences in rice yield attributes between the rice–loach coculture (RLC) and rice monoculture (RM) groups. However, rice–loach coculture (RLC) improved muscle quality-related parameters, including increased hardness and springiness of loach muscle. Meanwhile, muscle metabolomic analysis showed that all the differentially expressed metabolites (DEMs) in the significantly enriched pathways of lysine degradation and lysine biosynthesis were up-regulated in the rice–loach coculture (RLC) group compared with the loach monoculture (LM) group. Furthermore, the rice–loach coculture (RLC) improved soil physicochemical properties, including an increase in microbial biomass nitrogen (MBN) content and activities of soil N-acquiring enzymes (NAG and LAP). Moreover, soil microbiome analysis showed that the abundance of Candidatus Koribacter versatilis, Acidobacteria bacterium WX27 and Pseudolabrys taiwanensis was significantly increased in the rice monoculture (RM) and rice–loach coculture (RLC) groups compared with the loach monoculture (LM) group. Pairwise Spearman’s correlation analysis of the top 30 soil microbial species and soil physicochemical properties indicated that Terrimonas sp. H1YJ31 showed a highly significant positive correlation with the soil N-acquiring enzymes (N-acetylglucosaminidase, NAG; leucine aminopeptidase, LAP) and a soil C-acquiring enzyme (exo-β-1,4-glucanase C1), whereas Gaiella occulta, Methyloceanibacter marginalis and Anaerohalosphaera lusitana had a highly significant negative correlation with S-NAG, S-LAP and S-C1. In short, the improved fish muscle quality and soil biochemical composition were ascribed to the increased hardness and springiness of loach muscle and the abundance of soil Terrimonas sp. H1YJ31. Full article

Hepatocellular carcinoma (HCC) remains a major global health challenge and one of the leading causes of cancer-related mortality, with advanced disease continuing to be associated with limited therapeutic options and substantial heterogeneity in response to systemic treatment. Recent evidence has established the gut microbiota, through the gut–liver axis, as a critical determinant of immunotherapy efficacy, while also influencing antitumor immunity and liver carcinogenesis. Microbial dysbiosis may promote chronic inflammation, intestinal barrier disruption, bacterial translocation, and immune dysfunction, thereby contributing to hepatocarcinogenesis. Moreover, gut microbial composition and microbial-derived metabolites, including bile acids, short-chain fatty acids (SCFAs), and inosine, have been associated with modulation of antitumor immune responses and differential outcomes to immune checkpoint inhibitors (ICIs). Emerging clinical evidence in HCC has identified distinct gut microbial signatures associated with response to nivolumab, pembrolizumab, and atezolizumab-based regimens, including enrichment of Akkermansia muciniphila and SCFA-producing taxa such as Ruminococcaceae, Roseburia, and Prevotella in responders. However, these findings remain inconsistent across studies, with no reproducible microbial signature identified because of small cohort sizes, heterogeneous patient populations, geographic variation, cirrhosis-related confounding factors, and methodological differences in microbiome analysis. This review summarizes the current understanding of microbiome–immune interactions in HCC, examines mechanistic pathways linking the microbiota to immunotherapy response, critically evaluates available clinical evidence, and discusses current limitations and future therapeutic strategies, including fecal microbiota transplantation, probiotics, dietary modulation, and engineered bacterial platforms. Collectively, microbiome-based approaches may contribute to the development of personalized immunotherapeutic strategies in HCC, although larger standardized prospective studies are required before microbiome-derived biomarkers can be implemented in routine clinical practice. Full article

Sustainable poultry nutrition is increasingly challenged by feed variability, environmental constraints, resource competition, and the growing demand for precision feeding strategies. Conventional feed evaluation systems based on proximate analysis, static nutrient tables, and empirical formulation are often insufficient to predict the biological and functional value of modern sustainable feed resources. This critical integrative review examines emerging approaches for evaluating and optimizing sustainable feeds in poultry nutrition through the integration of advanced analytical technologies, biological validation systems, omics sciences, and artificial intelligence (AI). This review was developed as a structured narrative review following a Preferred Reporting Items for Systematic Reviews and Meta-Analyses (PRISMA)-inspired workflow and organized around an integrated AI–omics–feed evaluation framework. Recent advances in spectroscopy-based analytical techniques, in vitro digestibility systems, microbiomics, metabolomics, nutrigenomics, machine learning, and predictive modeling are discussed in relation to feed characterization, nutrient utilization, host–microbiota interactions, and precision nutrition, with emphasis on the transition from static compositional assessment toward dynamic, system-oriented feed evaluation. Explainability, biological validation, and generalizability of AI-based models across heterogeneous production systems are highlighted as key challenges for practical implementation, alongside emerging frontiers in AI-driven nutritional decision-support. Integrating analytical, biological, molecular, and computational approaches may support adaptive precision nutrition systems capable of improving nutrient efficiency, reducing environmental emissions, and optimizing sustainable poultry production. Full article

Exercise alters gut microbiome composition, but the temporal dynamics and diet-dependent metabolic interactions remain unclear. We investigated longitudinal changes in gut microbiota, functional pathways, and metabolite profiles during and after an exercise intervention. Twenty-four healthy adults completed a sequential three-phase protocol: an 8-week self-directed exercise intervention, an 8-week washout, and an 8-week no-exercise control period. Fecal samples were collected at T1 (baseline), T2 (post-exercise), T3 (post-washout), and T4 (post-control). Microbiota composition was assessed by 16S rRNA sequencing, functional pathways predicted using PICRUSt2, metabolites predicted using COBRA Toolbox, and fecal SCFAs and bile acids quantified by GC and HPLC. Temporal causal relationships were examined using Tigramite analysis with dietary pattern stratification, and microbiota-environment associations were assessed by redundancy analysis (RDA). Alpha diversity was significantly higher at T2 than at T4 (p < 0.05). Beta diversity differed significantly between T2 and both T3 and T4, with no difference between T1 and T4, indicating reversibility. Ruminococcus gnavus was significantly higher at T2 than at T4 (p < 0.001), with several additional taxa higher at T2 at a less stringent threshold. Propionate and butyrate were elevated at T2, while total bile acids were lower. Bacteroides thetaiotaomicron was positively associated with body weight in the total cohort and specifically under a balanced dietary pattern (BD), with no significant time-lagged associations detected under a Western-style diet (WSD). In RDA, taxa associated with body weight substantially overlapped with taxa found to increase during exercise, whereas physical performance measures showed no direct temporal association with microbiota composition in causal analysis. In conclusion, exercise-induced changes in the gut microbiome were not sustained after structured exercise ended, suggesting that continuous exercise may be required. Diet further shaped whether microbiota–host associations were detectable, underscoring dietary pattern as a factor for future microbiome-targeted exercise interventions. Full article

Non-IgE-mediated food allergy is characterized by delayed gastrointestinal manifestations and the absence of reliable non-invasive biomarkers. Increasing evidence suggests that gut microbiota may contribute to this disease pathogenesis. The aim of this study was to characterize the gut microbiome composition in thirty pediatric patients diagnosed with non-IgE-mediated food allergy, in comparison to fifteen healthy controls children, and to investigate its association with fecal calprotectin, eosinophil-derived neurotoxin (EDN) and IgA. Gut microbiota profiling was performed by 16S rRNA gene sequencing targeting the V3–V4 region. Compared with healthy controls, higher mean relative abundances of Bacteroides, Faecalibacterium, Alistipes, Parabacteroides, and Sutterella were observed in patients. Conversely, healthy children showed higher mean relative abundances of Pseudobutyrivibrio, Roseburia, Bifidobacterium, Collinsella, Clostridium, Eubacterium, Streptococcus, and Barnesiella. Several genera (Escherichia–Shigella, Agathobacter, and Enterococcus/Streptococcus) were detected only in the allergy cohort. Shannon diversity was higher in patients compared to controls and in the subgroups of patients with elevated fecal calprotectin (p = 0.028), previous antibiotic exposure (p = 0.015), and atopic dermatitis (p = 0.021). Stratification according to inflammatory biomarkers identified a distinct inflammatory microbiome endotype characterized by increased fecal calprotectin and EDN together with enrichment of Veillonellaceae and depletion of Bifidobacteriaceae and Lachnospiraceae. Correlation analyses further revealed positive associations between Veillonella abundance and both fecal calprotectin and EDN. These findings suggest that pediatric non-IgE-mediated food allergy is characterized by distinct microbiome–inflammation relationships rather than a single dysbiotic signature. Full article

Scarab beetles depend on gut microbes for digestive enzymes. Some species’ microbiomes show taxonomic conservation regardless of diet, while others have conserved functional profiles. We compared the hindgut microbiomes of two Cetoniinae beetle larvae: the obligately saproxylophagous Mecynorrhinella poggei and the omnivorous/predatory Goliathus goliatus, which requires protein supplementation when reared artificially. Two diets with and without supplementation were used. If diet drives the microbiome, then gut microbes in protein-supplemented hosts should produce fewer lignocellulolytic enzymes and more proteinases regardless of species. If microbiome composition is conserved within a species, then Mecynorrhinella is expected to have more lignocellulolytic microbes while Goliathus should have more proteinolytic microbes regardless of diet. In this study, low-protein diets reduced G. goliatus growth, but gut microbiome composition and predicted function remained largely stable, dominated by Bacteroidales including Dysgonomonas, Proteiniphilum, and Alistipes. Mecynorrhinella’s gut microbiome showed some reduced Proteiniphilum and increased Dysgonomonas relative abundance, but otherwise the microbiome composition was statistically stable with no effect of diet on growth or predicted microbiome function. These results highlight that microbiomes of closely related insects can markedly differ even if diet does not and that microbiome functional conservation tied to host physiology may occur even if greater plasticity could theoretically reduce malnutrition. Full article