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Search Results (2,069)

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Keywords = intestinal microbiota composition

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15 pages, 1080 KB  
Opinion
Intermittent Fasting and Probiotics for Gut Microbiota Modulation in Type 2 Diabetes Mellitus: A Narrative Review
by Zhiwen Zhang, Shaokang Wang, Guiju Sun and Da Pan
Nutrients 2026, 18(1), 119; https://doi.org/10.3390/nu18010119 (registering DOI) - 30 Dec 2025
Abstract
Background: Type 2 diabetes mellitus (T2DM) is a global epidemic in which gut microbiota dysbiosis contributes to impaired glucose homeostasis and chronic inflammation. Intermittent fasting (IF) and probiotic supplementation have independently demonstrated glycemic benefits in T2DM, largely through microbiota remodeling. This narrative [...] Read more.
Background: Type 2 diabetes mellitus (T2DM) is a global epidemic in which gut microbiota dysbiosis contributes to impaired glucose homeostasis and chronic inflammation. Intermittent fasting (IF) and probiotic supplementation have independently demonstrated glycemic benefits in T2DM, largely through microbiota remodeling. This narrative review synthesizes evidence up to October 2025 to clarify the microbiota-dependent mechanisms of IF and probiotics, and to evaluate the biological plausibility and preliminary clinical data for their combined application in T2DM management. Methods: We conducted a comprehensive literature review of preclinical and clinical studies (PubMed, Embase, Web of Science, and Cochrane Library) examining IF regimens (primarily time-restricted feeding and 5:2 protocols) and multi-strain probiotics containing Lactobacillus and Bifidobacterium species in T2DM or relevant models. Mechanistic pathways, microbial compositional shifts, and metabolic outcomes were qualitatively synthesized, with emphasis on overlapping signaling (short-chain fatty acids, bile acids, GLP-1, and barrier function). Results: IF consistently increases Akkermansia muciniphila and, variably, Faecalibacterium prausnitzii abundance, restores microbial circadian rhythmicity, and enhances SCFA and secondary bile acid production. Multi-strain probiotics modestly reduce HbA1c (–0.3% to –0.6%) and fasting glucose, outperforming single-strain preparations. Both interventions converge on reduced endotoxaemia and improved intestinal integrity. Preclinical models indicate potential synergy, whereas the only direct human trial to date showed neutral results. Conclusions: IF and probiotics engage overlapping microbiota-mediated pathways, supporting their combined use as an adjunctive strategy in T2DM. Adequately powered randomized trials incorporating deep metagenomics, metabolomics, and hard clinical endpoints are now required to confirm additive or synergistic efficacy. Full article
(This article belongs to the Special Issue Intermittent Fasting: Health Impacts and Therapeutic Potential)
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25 pages, 11098 KB  
Article
A Hypothesis of Gut–Liver Mediated Heterosis: Multi-Omics Insights into Hybrid Taimen Immunometabolism (Hucho taimen ♀ × Brachymystax lenok ♂)
by Mingliang Wei, Shuqi Wang, Feng Lin, Shicheng Han, Tingting Zhang, Youyi Kuang and Guangxiang Tong
Animals 2026, 16(1), 74; https://doi.org/10.3390/ani16010074 - 26 Dec 2025
Viewed by 185
Abstract
This study investigated the molecular and microbial factors behind the higher disease resistance of hybrid taimen by combining gut microbiome profiling with host transcriptomic analysis of intestinal and liver tissues. Both hybrid taimen and H. taimen were raised under the same recirculating aquaculture [...] Read more.
This study investigated the molecular and microbial factors behind the higher disease resistance of hybrid taimen by combining gut microbiome profiling with host transcriptomic analysis of intestinal and liver tissues. Both hybrid taimen and H. taimen were raised under the same recirculating aquaculture system (RAS) conditions. After recording survival rates following three enteritis outbreaks, samples of intestinal contents and tissues were collected from both groups. The gut microbiota was analyzed using full-length 16S rRNA sequencing in PacBio, and host gene expression was assessed with Illumina RNA-seq. Functional predictions were made using PICRUSt2 and Gene Set Enrichment Analysis (GSEA). Results showed that hybrids had significantly higher survival rates after enteritis (p < 0.05). Although microbial alpha diversity was similar, beta diversity revealed slight compositional differences. Hybrids showed higher levels of Hapalosiphon and Tepidimicrobium, microbes associated with antimicrobial compounds and the metabolism of short-chain fatty acids (SCFAs). Functional predictions indicated enrichment in selenocompound metabolism and ansamycin biosynthesis in hybrids. Transcriptomic analysis identified 4233 differentially expressed genes (DEGs) in the intestine and 3980 in the liver. In hybrids, intestinal tissues exhibited increased expression of immune pathways, including complement activation, lysosomal activity, and the transforming growth factor-beta (TGF-β) signaling pathway. Liver tissues demonstrated higher expression of genes related to cholesterol synthesis, fatty acid degradation, and the peroxisome proliferator-activated receptor (PPAR) signaling pathway. qRT-PCR validated the expression patterns of 20 selected DEGs. These findings tentatively suggest that the elevated disease resistance of hybrid taimen may be linked, at least in part, to a combination of microbial taxa inferred to produce antimicrobial metabolites and short-chain fatty acids, as well as an apparent intensification of intestinal immune and barrier-related gene expression, and hepatic pathways that possibly support energy supply and steroid-based immunity. However, this multi-omics data set is only correlational. We still do not know whether a single strain or a few host genes are enough to produce the resistant phenotype. Gnotobiotic trials, microbiota transplants, and targeted metabolomics will be necessary to turn these interesting associations into solid evidence. Full article
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27 pages, 3257 KB  
Article
Combined Prebiotic Extract of Mung Bean, Red Bean, and Fennel Improves Intestinal Barrier Integrity in HT-29 Cells and DSS-Induced Colitis via Gut Microbiota Alteration
by Chul Sang Lee, Woo-Young Jang, Ju-Yeon Kim, Myung-Hyun Lee, Sung-Joon Mo, Yong-Tae Kim, Jae-Jung Shim and Jae-Hwan Lee
Curr. Issues Mol. Biol. 2026, 48(1), 32; https://doi.org/10.3390/cimb48010032 - 26 Dec 2025
Viewed by 73
Abstract
Inflammatory bowel disease (IBD) involves chronic inflammation and disruption of the intestinal barrier, often accompanied by alterations in gut microbiota composition. This study examined the protective potential of a prebiotic mixture extract (PME) prepared from Vigna radiata (mung bean), Vigna angularis (red bean), [...] Read more.
Inflammatory bowel disease (IBD) involves chronic inflammation and disruption of the intestinal barrier, often accompanied by alterations in gut microbiota composition. This study examined the protective potential of a prebiotic mixture extract (PME) prepared from Vigna radiata (mung bean), Vigna angularis (red bean), and Foeniculum vulgare (fennel) using the HT-29 cell and colitis animal model. PME exhibited concentration-dependent antioxidant activity, with greater radical-scavenging capacity in the ABTS assay than in the DPPH assay. In LPS-stimulated HT-29 epithelial cells, PME reduced the mRNA expression of inflammation-associated genes (TNF-α, IL-1β, NF-κB) and upregulated tight junction markers (CLDN1 and OCLN), demonstrating its anti-inflammatory and supportive effects on the intestinal barrier. Vitexin, a C-glycosylated flavonoid, was detected in PME and is expected to mediate these protective effects. In a DSS-induced colitis mouse model, PME administration alleviated disease severity by increasing colon length, reducing serum levels of inflammatory cytokines and COX-2/PGE2, and restoring intestinal permeability. Furthermore, PME modulated the gut microbiota by enhancing beneficial bacteria such as Bifidobacterium and Faecalibaculum while suppressing inflammation-associated taxa, including Escherichia, Bacteroides, and Mucispirillum. These improvements collectively suggest that PME reinforces epithelial barrier integrity and promotes intestinal homeostasis through both anti-inflammatory and microbiota-regulating actions. Full article
(This article belongs to the Special Issue The Role of Bioactives in Inflammation, 2nd Edition)
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20 pages, 4596 KB  
Article
Comparative Impacts of Oral Amoxicillin, Azithromycin, and Clindamycin on Gut Microbiota and Intestinal Homeostasis
by Shanshan Li, Jing Sun, Yanfang Ren and Songlin Wang
Antibiotics 2026, 15(1), 24; https://doi.org/10.3390/antibiotics15010024 - 25 Dec 2025
Viewed by 132
Abstract
Background: Amoxicillin, clindamycin and azithromycin are the most frequently prescribed antibiotics for odontogenic infections, but their comparative effects on gut microbiota and intestinal homeostasis remain insufficiently understood. Disruption of gut microbiota, short-chain fatty acid (SCFA) production, and mucosal barrier integrity may contribute [...] Read more.
Background: Amoxicillin, clindamycin and azithromycin are the most frequently prescribed antibiotics for odontogenic infections, but their comparative effects on gut microbiota and intestinal homeostasis remain insufficiently understood. Disruption of gut microbiota, short-chain fatty acid (SCFA) production, and mucosal barrier integrity may contribute to gastrointestinal symptoms. We aimed to compare the impacts of these antibiotics on gut microbiota, SCFA levels, and colonic goblet cells. Methods: C57BL/6N mice were treated with oral amoxicillin, clindamycin, or azithromycin at clinically relevant dosages. Cecal index, fecal water content, and diarrhea index were assessed during treatment and recovery. Gut microbiota composition and absolute bacterial abundance were determined using 16S rRNA amplicon absolute quantification sequencing. SCFAs in cecal contents were quantified by gas chromatography–mass spectrometry. Goblet cell abundance and Muc2 mRNA expression in colon tissues were evaluated using Alcian blue staining and RT-PCR. Results: Amoxicillin caused moderate increases in cecal index, reduced Ligilactobacillus abundance, increased Escherichia-Shigella, lowered SCFA levels, and decreased goblet cells and Muc2 expression, with partial recovery after two weeks. Clindamycin induced more severe dysbiosis, including sustained Proteobacteria expansion, persistent loss of beneficial taxa, 86–90% reduction in SCFA production, and lasting decreases in goblet cells and Muc2 expression without recovery during the observation period. Azithromycin caused mild and reversible changes across all parameters. Conclusions: Among the three antibiotics, azithromycin had the least detrimental effects on gut microbiota, SCFA production, and mucosal barrier function, whereas clindamycin caused profound and persistent intestinal disruption. These findings provide comparative evidence to inform antibiotic selection in clinical practices. Full article
(This article belongs to the Section Antibiotics Use and Antimicrobial Stewardship)
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29 pages, 1902 KB  
Review
Therapeutic Agents Targeting the Nrf2 Signaling Pathway to Combat Oxidative Stress and Intestinal Inflammation in Veterinary and Translational Medicine
by Muhammad Zahoor Khan, Shuhuan Li, Abd Ullah, Yan Li, Mohammed Abohashrh, Fuad M. Alzahrani, Khalid J. Alzahrani, Khalaf F. Alsharif, Changfa Wang and Qingshan Ma
Vet. Sci. 2026, 13(1), 25; https://doi.org/10.3390/vetsci13010025 - 25 Dec 2025
Viewed by 86
Abstract
This review synthesizes research on nuclear factor erythroid 2-related factor 2 (Nrf2) in intestinal health across human, livestock, and mouse models. The Nrf2 signaling pathway serves as a master regulator of cellular antioxidant defenses and a key therapeutic target for intestinal inflammatory disorders, [...] Read more.
This review synthesizes research on nuclear factor erythroid 2-related factor 2 (Nrf2) in intestinal health across human, livestock, and mouse models. The Nrf2 signaling pathway serves as a master regulator of cellular antioxidant defenses and a key therapeutic target for intestinal inflammatory disorders, including ulcerative colitis and Crohn’s disease. The interplay between oxidative stress, Nrf2 signaling, and NF-κB inflammatory cascades represents a critical axis in the pathogenesis and resolution of intestinal inflammation. Under normal physiological conditions, Nrf2 remains sequestered in the cytoplasm by Kelch-like ECH-associated protein 1 (Keap1), which facilitates its ubiquitination and proteasomal degradation. However, during oxidative stress, reactive oxygen species (ROS) and electrophilic compounds modify critical cysteine residues on Keap1, disrupting the Keap1-Nrf2 interaction and enabling Nrf2 nuclear translocation. Once in the nucleus, Nrf2 binds to antioxidant response elements (ARE) in the promoter regions of genes encoding phase II detoxifying enzymes and antioxidant proteins, including heme oxygenase-1 (HO-1), NAD(P)H quinone oxidoreductase 1 (NQO1), and glutamate-cysteine ligase. This comprehensive review synthesizes current evidence demonstrating that activation of Nrf2 signaling confers protection against intestinal inflammation through multiple interconnected mechanisms: suppression of NF-κB-mediated pro-inflammatory cascades, enhancement of cellular antioxidant capacity, restoration of intestinal barrier integrity, modulation of immune cell function, and favorable alteration of gut microbiota composition. We systematically examine a diverse array of therapeutic agents targeting Nrf2 signaling, including bioactive peptides, natural polyphenols, flavonoids, terpenoids, alkaloids, polysaccharides, probiotics, and synthetic compounds. The mechanistic insights and therapeutic evidence presented underscore the translational potential of Nrf2 pathway modulation as a multi-targeted strategy for managing intestinal inflammatory conditions and restoring mucosal homeostasis. Full article
(This article belongs to the Section Anatomy, Histology and Pathology)
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19 pages, 4222 KB  
Article
Exploring the Effects of High Protein and High Inulin Composite Shrimp Surimi Gels on Constipated Mice by Modulating Gastrointestinal Function and Gut Microbiota
by Yuting Tan, Peizi Sun, Chen Tao, Yajie Qin, Huimin Liu and Dongmei Li
Foods 2026, 15(1), 59; https://doi.org/10.3390/foods15010059 - 24 Dec 2025
Viewed by 286
Abstract
This study aimed to develop a dietary fiber-rich Antarctic krill composite shrimp surimi gel (AKSG) and to investigate the improvement effects of high protein (HP), high protein and dietary fiber (HPDF), and high dietary fiber (HDF) diet interventions on constipation behaviors and gut [...] Read more.
This study aimed to develop a dietary fiber-rich Antarctic krill composite shrimp surimi gel (AKSG) and to investigate the improvement effects of high protein (HP), high protein and dietary fiber (HPDF), and high dietary fiber (HDF) diet interventions on constipation behaviors and gut microbiota of mice. The results showed that the HPDF group significantly improved defecation in constipated mice, enhanced gastrointestinal peristalsis, and exhibited the most obvious effect on improving the colonic structure. The gut microbial analysis showed that the HPDF group increased the relative abundance of beneficial bacteria and improved the intestinal microbial environment of constipated mice. In addition, all groups effectively regulated the secretion of intestinal neurotransmitters. Inulin significantly increased the fecal water content by binding to water molecules, thus softening feces. Meanwhile, the addition of an appropriate amount of protein could further absorb water in the intestinal tract and relieve constipation. In conclusion, dietary fiber-rich AKSG might be a promising nutritious functional food for constipation relief. Full article
(This article belongs to the Section Food Nutrition)
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22 pages, 1586 KB  
Article
Comparative Analysis of Gut Microbiota Between Fast-Growing and Slow-Growing Short-Finned Eels, Anguilla bicolor pacifica, and the Application of Bacillus tropicus FG2 as a Probiotic to Enhance Growth Performance of Eels
by Yi-Yuan Liang, Shao-Yang Hu and Chun-Hung Liu
Animals 2026, 16(1), 54; https://doi.org/10.3390/ani16010054 - 24 Dec 2025
Viewed by 89
Abstract
This study aims to investigate the differences in microbial community structure between fast-growing (FG) and slow-growing (SG) short-finned eels, Anguilla bicolor pacifica, using high-throughput 16S rDNA sequencing, and to evaluate the potential probiotic properties of Bacillus tropicus isolated from eel intestinal microbiota [...] Read more.
This study aims to investigate the differences in microbial community structure between fast-growing (FG) and slow-growing (SG) short-finned eels, Anguilla bicolor pacifica, using high-throughput 16S rDNA sequencing, and to evaluate the potential probiotic properties of Bacillus tropicus isolated from eel intestinal microbiota to enhance growth performance. High-throughput 16S rDNA sequencing revealed no significant differences in the α-diversity between FG and SG eels. Bacterial genera such as Cetobacterium, Clostridium, and Bacteroides were predominant in both groups, with Edwardsiella, Aeromonas, and Fusobacterium being more abundant in SG eels, suggesting a higher presence of potential pathogens. The analysis of the relative abundance of gut microorganisms revealed that SG eels harbored higher levels of potentially pathogenic bacteria, including Edwardsiella tarda and Aeromonas jandaei. In contrast, FG eels exhibited a greater abundance of the potential probiotic B. tropicus. Six strains of bacteria with relative abundance were isolated from the FG group, displaying superior digestive enzyme activity, including protease, lipase, amylase, cellulase, xylanase, and phytase, particularly strain FG2. Phylogenetic analysis confirmed that FG2 was closely related to B. tropicus. A virulence assessment confirmed the non-pathogenic nature of B. tropicus FG2, supporting its probiotic potential. Furthermore, feeding eels a diet supplemented with B. tropicus FG2 significantly enhanced growth performance, as evidenced by increased final weight percentages of weight gain and total production per tank (p < 0.05), while the proximate composition of the dorsal muscle showed an increase in lipid content (p < 0.05). These findings highlight B. tropicus FG2 as a promising probiotic for aquaculture applications. Full article
(This article belongs to the Section Animal Nutrition)
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23 pages, 931 KB  
Review
Exercise-Induced Modulation of the Gut Microbiota: Mechanisms, Evidence, and Implications for Athlete Health
by Jan Finderle, Valentin Silvano Schleicher, Lou Marie Salome Schleicher, Antea Krsek, Tamara Braut and Lara Baticic
Gastrointest. Disord. 2026, 8(1), 1; https://doi.org/10.3390/gidisord8010001 - 24 Dec 2025
Viewed by 252
Abstract
The gut microbiota plays a fundamental role in human physiology by influencing metabolism, immunity, and neuroendocrine communication. Growing evidence suggests that physical exercise modulates gut microbial composition; however, study findings remain inconsistent due to variations in design, training type, and population characteristics. This [...] Read more.
The gut microbiota plays a fundamental role in human physiology by influencing metabolism, immunity, and neuroendocrine communication. Growing evidence suggests that physical exercise modulates gut microbial composition; however, study findings remain inconsistent due to variations in design, training type, and population characteristics. This review summarizes current research on how different forms, intensities, and frequencies of exercise shape the gut microbiota and discusses their implications for athlete health and performance. Moderate and sustained physical activity generally promotes higher microbial diversity, increases short-chain fatty acid (SCFA)-producing bacteria, and enhances gut barrier integrity. Endurance training, particularly long-term, is most consistently associated with beneficial microbial shifts, including increases in Prevotella, Akkermansia, and Faecalibacterium. In contrast, excessive or high-intensity endurance exercise was shown to cause dysbiosis, inflammation, and greater intestinal permeability. Resistance training appears to induce milder changes but was shown to improve mucin synthesis and butyrate production, especially in older adults. Exercise frequency also plays a role, with regular daily training enriching metabolic pathways linked to gut and systemic health. Overall, the impact of exercise on the gut microbiota depends on the type, intensity, and duration of activity. Balanced, moderate exercise combined with a healthy diet emerges as the most effective strategy to enhance microbial diversity, reduce inflammation, and support overall performance and well-being in athletes. Full article
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23 pages, 89938 KB  
Article
Bile Derivative T3K Ameliorates Colitis by Regulating the Intestinal Microbiota-Bile Acid Axis
by Yu Zhou, Yixiang Zhang, Ying Li, Yu Chen, Xiaoqian Chi, Zhongyu You, Haijing Zhang, Yong Li and Lianqiu Wu
Pharmaceutics 2026, 18(1), 20; https://doi.org/10.3390/pharmaceutics18010020 - 23 Dec 2025
Viewed by 285
Abstract
Background/Objectives: The pathogenesis of ulcerative colitis (UC) is complex, and there is an urgent need for effective therapeutic agents with low side effects. Recent studies highlight the critical roles of abnormal bile acid (BA) metabolism and gut microbiota dysbiosis in UC progression. [...] Read more.
Background/Objectives: The pathogenesis of ulcerative colitis (UC) is complex, and there is an urgent need for effective therapeutic agents with low side effects. Recent studies highlight the critical roles of abnormal bile acid (BA) metabolism and gut microbiota dysbiosis in UC progression. However, there is a significant knowledge gap about the relation between BA and gut microbiota. The BA derivative T3K exerts good anti-UC effect, and its mechanism is still unknown. In this study, we investigate how its anti-UC mechanism is involved in the modulation of the gut microbiota-BA axis and BA metabolism. Methods: Gene expression microarray GSE92415 of UC from the Gene Expression Omnibus was used to analyze BA metabolism. DSS-induced colitis mouse model, Caco-2 and IEC6 cells were used to confirm the anti-UC of T3K using intestinal permeability assay with FITC, Western-blot, immunohistochemical staining, immunofluorescenc and so on in vitro and in vivo. The changes in bile acid and microbiota were measured by 16S rRNA sequencing and bile acid analysis combined with pseudo-germ-free (PGF) models and fecal microbiota transplantation (FMT). Results: T3K demonstrated strong therapeutic effects, including reduced weight loss, lower disease activity index (DAI), and increased colon length. T3K also enhanced the expression of Occludin and Mucin2, and restored gut barrier integrity. Furthermore, T3K improved intestinal dysbiosis and abnormal BA metabolism in colitis mice. Through PGF models and FMT, we confirmed that T3K modulates BA metabolism via the gut microbiota. T3K specifically promotes the growth of beneficial bacteria, such as Akkermansia muciniphila, increases levels of hydrophilic BAs like muricholic acid (MCA), lithocholic acid (LCA) and its derivatives isoLCA and then repairs damaged intestinal mucosa. Conclusions: Bile acid derivative T3K, as a potential anti-UC candidate, effectively restores gut barrier integrity and then ameliorates colitis by improving gut microbiota composition and regulating BA metabolism, including increasing hydrophilic BAs. Full article
(This article belongs to the Special Issue Natural Pharmaceuticals Focused on Anti-inflammatory Activities)
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17 pages, 6458 KB  
Article
Effects of Different Feed Types on Intestinal Microbial Community Diversity and Intestinal Development of Newborn Siamese Crocodiles
by Xinxin Zhang, Jie Wu, Chong Wang, Fuyong You, Peng Liu, Yuan Zhang, Shaofan Li, Yongkang Zhou, Yingchao Wang, Xiaobing Wu and Haitao Nie
J. Zool. Bot. Gard. 2026, 7(1), 1; https://doi.org/10.3390/jzbg7010001 - 23 Dec 2025
Viewed by 137
Abstract
Conventional alligator farming, characterized by reliance on chilled fish meat, faces significant challenges, including risks of bacterial contamination and nutritional imbalances. These issues heighten increasing disease susceptibility and threaten industry sustainability, underscoring the critical need for developing nutrient-dense, low-pathogenicity compound feeds. This study [...] Read more.
Conventional alligator farming, characterized by reliance on chilled fish meat, faces significant challenges, including risks of bacterial contamination and nutritional imbalances. These issues heighten increasing disease susceptibility and threaten industry sustainability, underscoring the critical need for developing nutrient-dense, low-pathogenicity compound feeds. This study conducted a comparative analysis of newborn Siamese crocodiles fed either chilled fish meat or compound feed formulation. Intestinal microbial samples from both cohorts underwent 16S rRNA gene high-throughput sequencing to evaluate differences in microbial composition, diversity, and predicted functionality. The compound feed, specifically formulated for this investigation, possessed the following nutritional composition: crude protein 52.42%; digestible crude protein/digestible energy 16 mg/kcal; crude fat 12.31%; ash 17.42%; crude fiber 0.45%; starch 7.69%; digestible energy 3450 kcal/kg; lysine 3.66%; threonine 1.92%; methionine 1.27%; arginine 3.07%; total essential amino acids 22.97%; calcium 2.51%; total phosphorus 1.8%; available phosphorus 0.98%. Bioinformatics analysis revealed that the compound feed group exhibited numerically higher richness and alpha diversity indices within the intestinal microbiota compared to the chilled fish group. The microbial communities in both groups were dominated by the phyla Proteobacteria, Bacteroidetes, Fusobacteriota, and Firmicutes, collectively representing over 50% of the relative abundance. Functional prediction indicated that the compound feed group possessed the highest relative abundance in metabolic pathways associated with cofactor and vitamin metabolism, carbohydrate metabolism, amino acid metabolism, terpenoid and polyketide metabolism, lipid metabolism, and replication and repair. In contrast, the chilled fish group exhibited significant functional alterations in glycan biosynthesis and metabolism, translation, nucleotide metabolism, transcription, and biosynthesis of other secondary metabolites. Histomorphological analysis demonstrated greater villus height and crypt depth in the compound diet group compared to chilled fish group, although no significant differences were observed in crypt depth or the villus-to-crypt depth ratio. Collectively, these findings indicate that the compound feed enhances intestinal microbial diversity and optimizes its functional structure. Furthermore, while no statistically significant difference in small intestinal villus height was detected, the results suggest a potential positive influence on intestinal development. This investigation provides a scientific foundation for compound feed development, supporting sustainable breeding practices for Siamese crocodiles. Full article
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22 pages, 1748 KB  
Review
Artificial Intelligence-Driven Food Safety: Decoding Gut Microbiota-Mediated Health Effects of Non-Microbial Contaminants
by Ruizhe Xue, Xinyue Zong, Xiaoyu Jiang, Guanghui You, Yongping Wei and Bingbing Guo
Foods 2026, 15(1), 22; https://doi.org/10.3390/foods15010022 - 22 Dec 2025
Viewed by 302
Abstract
A wide range of non-microbial contaminants—such as heavy metals, pesticide residues, antibiotics, as well emerging foodborne contaminants like micro- and nanoplastics and persistent organic pollutants—can enter the human body through daily diet and exert subtle yet chronic effects that are increasingly recognized to [...] Read more.
A wide range of non-microbial contaminants—such as heavy metals, pesticide residues, antibiotics, as well emerging foodborne contaminants like micro- and nanoplastics and persistent organic pollutants—can enter the human body through daily diet and exert subtle yet chronic effects that are increasingly recognized to be gut microbiota-dependent. However, the relationships among multi-contaminant exposure profiles, dynamic microbial community structures, microbial metabolites, and diverse clinical or subclinical phenotypes are highly non-linear and multidimensional, posing major challenges to traditional analytical approaches. Artificial intelligence (AI) is emerging as a powerful tool to untangle the complex interactions between foodborne non-microbial contaminants, the gut microbiota, and host health. This review synthesizes current knowledge on how key classes of non-microbial food contaminants modulate gut microbial composition and function, and how these alterations, in turn, influence intestinal barrier integrity, immune homeostasis, metabolic regulation, and systemic disease risk. We then highlight recent advances in the application of AI techniques, including machine learning (ML), deep learning (DL), and network-based methods, to integrate multi-omics and exposure data, identify microbiota and metabolite signatures of specific contaminants, and infer potential causal pathways within “contaminant–microbiota–host” axes. Finally, we discuss current limitations, such as data heterogeneity, small-sample bias, and interpretability gaps, and propose future directions for building standardized datasets, explainable AI frameworks, and human-relevant experimental validation pipelines. Overall, AI-enabled analysis offers a promising avenue to refine food safety risk assessment, support precision nutrition strategies, and develop microbiota-targeted interventions against non-microbial food contaminants. Full article
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22 pages, 1405 KB  
Article
The Role of CP Level and Interaction with Antibiotics in the Post-Weaning Piglets’ Diet: Growth Performance, Body Composition, Nutrient Digestion, and Intestinal Health
by Rui Wang, Lei Hou, Qiwen Wu, Xiaolu Wen, Yunxia Xiong, Xuefen Yang, Kaiguo Gao, Zongyong Jiang, Shuting Cao and Li Wang
Animals 2026, 16(1), 24; https://doi.org/10.3390/ani16010024 - 21 Dec 2025
Viewed by 321
Abstract
The objective of this study is to evaluate the effects of crude protein (CP) levels and antibiotics in feed on the growth performance, body composition, nutrient digestion and absorption, gut health, and microbiota of weaned piglets. A total of 100 piglets (Duroc × [...] Read more.
The objective of this study is to evaluate the effects of crude protein (CP) levels and antibiotics in feed on the growth performance, body composition, nutrient digestion and absorption, gut health, and microbiota of weaned piglets. A total of 100 piglets (Duroc × Landrace × Yorkshire, weaned at day 21) with an initial weight of 6.39 ± 0.03 kg were randomly assigned to four treatments and fed with 18% CP antibiotic-free diets, 18% CP with antibiotics diets, 24% CP antibiotic-free diets, and 24% CP with antibiotics diets for 0–14 d (S1). Furthermore, the piglets were fed with an identical diet (19% CP and without antibiotics) starting day 15 until they reached 25 kg (S2). Results indicated that the average daily gain (ADG) and gain feed ratio (G:F) during the S1 phase as well as BW at day 14, were significantly decreased (p < 0.05) in the 18% CP group compared with the 24% CP group. Similarly, piglets in the 18% CP group showed a significantly decreased body protein content and body water, protein deposition rates at the S1 phase, and significantly improved the body lipid content and deposition rate but not (p > 0.05) at the S2 phase. The 18% CP group demonstrated significantly increased (p < 0.05) serum concentrations of Threonine, Valine, Isoleucine, and Lysine in weaned piglets during the S1 phase, while Glycine concentration significantly decreased, and no significant (p > 0.05) effects were observed in the S2 phase. Furthermore, dietary antibiotic supplementation had no effect on (p > 0.05) piglet growth performance, body composition, nutrient digestion, and metabolism throughout the entire trial period. In the absence of antibiotics, compared to the 24% CP diet group, the piglets fed with an 18% CP diet significantly increased the relative abundance of Lactobacillus in the colon of weaned piglets upon reaching 25 kg BW (p < 0.05). Compared to the diet without added antibiotics, the addition of antibiotics to the diet significantly decreased the relative abundance of Pseudoramibacter in the colon of weaned piglets on day 14. No significant (p > 0.05) difference was observed in intestinal morphology or gastrointestinal pH among the groups. In conclusion, lower dietary protein levels in the early post-weaning period reduced growth performance and promoted gut microbiota balance, and compensatory growth occurred after returning to higher protein levels two weeks after weaning. Full article
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20 pages, 4006 KB  
Article
Melatonin Enhances Muscle Development and Suppresses Fat Deposition in Cashmere Goats by Implicating Gut Microbiota and Ameliorating Systemic Antioxidant Status
by Zhenyu Su, Zibin Zheng, Mulong Lu, Di Han, Jiaxin Qin, Tianzhu Yin, Zhiguo Quan, Shiwei Ding, Liwen He and Wei Zhang
Antioxidants 2026, 15(1), 11; https://doi.org/10.3390/antiox15010011 - 21 Dec 2025
Viewed by 278
Abstract
Goat meat is widely valued as a healthy option due to its lean nature, yet strategies to further optimize its intrinsic nutritional composition remain a key objective. This study examined the influence of melatonin on muscle development and visceral fat deposition in cashmere [...] Read more.
Goat meat is widely valued as a healthy option due to its lean nature, yet strategies to further optimize its intrinsic nutritional composition remain a key objective. This study examined the influence of melatonin on muscle development and visceral fat deposition in cashmere goats, focusing on its role in augmenting systemic antioxidant capacity and modifying gut microbiota. Thirty goat kids were randomly assigned to a control or a melatonin-treated (2 mg/kg body weight) group. Melatonin implantation induced a metabolic shift characterized by reduced visceral fat deposition (perirenal, omental, and mesenteric fat; p < 0.05) without impacting intramuscular fat. Concurrently, it promoted muscle accretion, as demonstrated by an increase in crude protein content and hypertrophy of muscle fibers in the Longissimus thoracis et lumborum, Gluteus medius, and Biceps femoris muscles (p < 0.05). These effects were underpinned by an enhanced systemic antioxidant capacity (elevated CAT, GSH-Px, T-AOC, and reduced MDA; p < 0.05), changes in gut microbiota, and a concomitant improvement in gastrointestinal morphology, evidenced by increased rumen papilla length and intestinal villus height. Melatonin enriched beneficial genera (e.g., Succiniclasticum, Butyrivibrio, Akkermansia), which were significantly correlated with reduced adiposity and improved protein deposition. These improvements resulted from the concerted actions of an enhanced systemic antioxidant defense system and a beneficially modulated gut microbial community. This trial observed no effect on intramuscular fat deposition, suggesting that improving intramuscular fat may require a systematic fattening regimen. This study provides a scientific foundation for employing melatonin as a nutritional strategy in goat production to improve meat quality. Full article
(This article belongs to the Special Issue Natural Antioxidants in Animal Nutrition)
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21 pages, 1730 KB  
Article
Dietary Pediocin Supplementation Restores Intestinal Barrier Function and Microbiota Balance in Salmonella-Infected Specific-Pathogen-Free Chickens
by Chenxin Zhou, Hui Liu, Bowen Yang, Zefeng Zhang, Mingrong Zhang, Siyue Zhang, Zhihua Feng and Dongyan Zhang
Microorganisms 2026, 14(1), 18; https://doi.org/10.3390/microorganisms14010018 - 20 Dec 2025
Viewed by 187
Abstract
In this study, the effects of pediocin (PP) on intestinal barrier function, renal injury, and immune regulation were evaluated in Salmonella pullorum-infected chickens. Forty-five 7-day-old specific-pathogen-free (SPF) chickens were randomly assigned to three groups: control (CON), S. pullorum infection (SP), and S. [...] Read more.
In this study, the effects of pediocin (PP) on intestinal barrier function, renal injury, and immune regulation were evaluated in Salmonella pullorum-infected chickens. Forty-five 7-day-old specific-pathogen-free (SPF) chickens were randomly assigned to three groups: control (CON), S. pullorum infection (SP), and S. pullorum infection + PP treatment (SPA). The results showed that S. pullorum infection significantly elevated (p < 0.05) the renal (CREA, UREA), hepatic (ALT, AST), immunological (IgG, IgM), and inflammatory (TNF-α, IL-6, SAA, CRP) parameters, as well as the expression of trefoil factor 3, Toll-like receptor 2, TNF-α, IL-1β, and IL-6. In contrast, the jejunal villus height and the villus-to-crypt ratio, and the expression of intestinal tight junction proteins (occludin, claudin-1, and Zonula occludens-1), mucin-2, and transforming growth factor-β1 were significantly decreased in both the SP and SPA groups. In the SP group, the parameter alterations observed at 6 DPI compared to the CON group persisted until 12 DPI. In contrast, in the SPA group, these parameters returned to levels comparable to those of the CON group after 6 days of PP treatment. Moreover, S. pullorum infection markedly reduced the α-diversity of the gut microbiota, and this reduction could be partially restored following PP treatment. At the phylum level, S. pullorum infection significantly reduced the relative abundances of Proteobacteria and Verrucomicrobia. PP treatment increased the abundances of Firmicutes and Actinobacteria, while also restoring the abundances of Proteobacteria and Verrucomicrobia to some extent. At the genus level, PP treatment significantly increased the abundance of Faecalibacterium and Lactobacillus. Additionally, Faecalibacterium and Butyricicoccus were significantly more abundant in the SPA group. Thus, PP could alleviate S. pullorum infection induced intestinal barrier damage, reduce immune stress responses, and exert a protective effect by modulating the composition of the intestinal microbiota of chickens. Full article
(This article belongs to the Section Veterinary Microbiology)
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21 pages, 694 KB  
Review
Sodium Butyrate in Pig Nutrition: Applications and Benefits
by Katerina P. Burlakova and Kiril K. Dimitrov
Agriculture 2026, 16(1), 18; https://doi.org/10.3390/agriculture16010018 - 20 Dec 2025
Viewed by 212
Abstract
Efficient, cost-effective and sustainable pork production remains a primary objective in modern pig farming. However, the extensive use of antibiotics in animal nutrition has raised significant concerns regarding food safety and the emergence of antibiotic-resistant bacteria. These challenges have prompted the search for [...] Read more.
Efficient, cost-effective and sustainable pork production remains a primary objective in modern pig farming. However, the extensive use of antibiotics in animal nutrition has raised significant concerns regarding food safety and the emergence of antibiotic-resistant bacteria. These challenges have prompted the search for safe and effective alternatives to antibiotic growth promoters. Sodium butyrate (SB), the sodium salt of butyric acid, has gained considerable attention as a functional feed additive in swine production. Its supplementation has been shown to improve intestinal morphology, regulate gut microbiota composition and enhance immune competence, resulting in better nutrient utilization and growth performance. Moreover, SB supplementation may support environmental sustainability in livestock production by mitigating the emission of harmful gases in swine housing facilities. Although current evidence is limited, in vitro studies have reported promising reductions in NH3, H2S and total gas production by 17.96%, 12.26% and 30.30%, respectively. Comparable effects have also been observed in laying hens, where NH3 emissions were reduced by 26.22%. This review summarizes current knowledge on the application of SB in pig nutrition, focusing on its mechanisms of action, effects on health and productivity, and potential environmental benefits. The findings indicate that SB represents a promising and safe alternative to antibiotics, supporting both animal welfare and sustainable pork production within modern livestock systems. Full article
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