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Search Results (1,968)

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16 pages, 528 KB  
Article
Raw Milk Cheeses as Reservoirs of Antimicrobial-Resistant Bacteria: A Comparative Study of Goat and Sheep Milk Products
by Kimia Dalvand, Katarzyna Ratajczak, Paweł Cyplik, Jakub Czarny and Agnieszka Piotrowska-Cyplik
Appl. Sci. 2026, 16(8), 3743; https://doi.org/10.3390/app16083743 - 10 Apr 2026
Abstract
This study investigated the microbiological composition and antimicrobial resistance (AMR) profiles of artisanal goat and sheep milk cheeses produced in Poland. Ten raw milk cheeses (five each from goat and sheep milk) were analyzed using a combined approach involving culture-dependent enumeration, 16S rRNA [...] Read more.
This study investigated the microbiological composition and antimicrobial resistance (AMR) profiles of artisanal goat and sheep milk cheeses produced in Poland. Ten raw milk cheeses (five each from goat and sheep milk) were analyzed using a combined approach involving culture-dependent enumeration, 16S rRNA gene sequencing, and antibiotic susceptibility testing. Microbial counts revealed substantial variability among the samples, with lactic acid bacteria (LAB) dominating the microbiota. Taxonomic analysis confirmed the predominance of Lactococcus, Streptococcus, and lactobacilli, although marked intra-group heterogeneity was observed. Multivariate analyses indicated that sample-specific factors had a greater influence on microbiome composition than milk origin. Among 170 isolates, 28.7% were classified as multidrug-resistant (MDR), being most prevalent in Enterobacterales (100%) and Enterococcus spp. (73%), whereas LAB exhibited low resistance levels (16.2%). Resistance was most frequently associated with aminoglycosides and β-lactams. The resistance results were interpreted according to CLSI guidelines. These findings demonstrate that artisanal cheeses harbor complex, dynamic microbial ecosystems that may serve as reservoirs of antimicrobial resistance. The results highlight that environmental and technological factors, rather than milk source alone, are key drivers of both microbiome structure and resistance distribution, underscoring the need for targeted AMR monitoring in traditional dairy products. Full article
18 pages, 3377 KB  
Article
Age-Specific Ex Vivo Modulation of Gut–Brain Axis-Associated Metabolites by Galacto-Oligosaccharides and Nutrient Blends in Early Childhood
by Laurent Ferrier, Shaillay Kumar Dogra, Lam Dai Vu, Alexandros K. Kanellopoulos, Jonas Poppe, Laurence Biehl, Aurélien Baudot and Pieter Van den Abbeele
Metabolites 2026, 16(4), 255; https://doi.org/10.3390/metabo16040255 - 10 Apr 2026
Abstract
Background: Gut microbiome-derived metabolites, particularly short-chain fatty acids (SCFA) and tryptophan derivatives, are central mediators of the gut–brain axis. This ex vivo study assessed how nutritional interventions impact such metabolites during early life, a critical period for neurodevelopment. Methods: The effects [...] Read more.
Background: Gut microbiome-derived metabolites, particularly short-chain fatty acids (SCFA) and tryptophan derivatives, are central mediators of the gut–brain axis. This ex vivo study assessed how nutritional interventions impact such metabolites during early life, a critical period for neurodevelopment. Methods: The effects of galacto-oligosaccharides (GOS), nutrient blends (vitamins, minerals and amino acids) and their combinations were evaluated in the gut microbiomes of infants (2–4 months, n = 6) and young children (2–3 years old, n = 6) using the ex vivo SIFR® technology. Results: Baseline microbiome composition was age-dependent, with infants displaying lower α-diversity and greater interpersonal variability. After ex vivo incubation, nutrient blends increased the propionate/butyrate ratio and branched-chain fatty acids in young children and elevated several B-vitamins and amino acid-derived metabolites, including indole-3-carboxaldehyde, imidazoleacetic acid and pipecolinic acid. Combining nutrient blends with GOS exhibited potential synergistic effects on propionate (infants) and 2-hydroxyisocaproic acid (HICA, both age groups). GOS strongly stimulated Bifidobacteriaceae and increased metabolites linked to bifidobacterial metabolism like acetate, HICA, N-acetylated amino acids, aromatic lactic acids and acetylagmatine; in young children, butyrate and γ-aminobutyric acid (GABA) also increased. Conclusions: Combinations of GOS with nutrient blends impacted microbiome-derived metabolites associated with the gut–brain axis, with potential synergistic increases of metabolites with emerging roles in neurodevelopment, including GABA, acetylagmatine and HICA. Despite shared bifidogenic effects, differences between age groups indicate that microbiome maturity may influence responses to nutritional intervention. Future clinical studies are needed to determine whether these metabolite changes translate into neurodevelopmental benefits in vivo. Full article
(This article belongs to the Special Issue Neuronutrition: Metabolomic Insights and Perspectives)
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31 pages, 1502 KB  
Review
Antimicrobial Consumption and Resistance Dynamics Across Healthcare Level: Global Evidence and Stewardship Implications
by Neha Raut, Anis A. Chaudhary, Harshad Patil, Supriya Shidhaye, Ruchi Khobragade, Milind Umekar, Mohamed A. M. Ali and Rashmi Trivedi
Pathogens 2026, 15(4), 414; https://doi.org/10.3390/pathogens15040414 - 10 Apr 2026
Abstract
Background/Objectives: Antimicrobial resistance (AMR) is a critical global public health challenge driven by inappropriate and excessive antimicrobial use (AMU) across human, animal, and environmental sectors. Method: This narrative review synthesizes recent evidence on antimicrobial utilization and resistance patterns. A structured search of PubMed, [...] Read more.
Background/Objectives: Antimicrobial resistance (AMR) is a critical global public health challenge driven by inappropriate and excessive antimicrobial use (AMU) across human, animal, and environmental sectors. Method: This narrative review synthesizes recent evidence on antimicrobial utilization and resistance patterns. A structured search of PubMed, Scopus, and Web of Science was conducted for studies published between 2015 and 2025. Eligible sources included surveillance reports, registry-based analyses, and clinical studies. Data were qualitatively analyzed to identify key trends and regional variations. Result: Marked geographical variation in AMR was observed. Carbapenem resistance in Escherichia coli remains low globally (2–3%) but is higher in Southeast Asia (17–18%) and India (~40%). Klebsiella pneumoniae shows consistently high resistance (>40% globally; ~54% in India), while Pseudomonas aeruginosa exhibits stable resistance levels (35–45%). Resistance prevalence increases from primary to tertiary care settings, reflecting greater antimicrobial exposure. Vulnerable populations—including pediatric, elderly, pregnant, and immunocompromised patients—face higher risks of antimicrobial exposure and adverse outcomes, including nephrotoxicity, hepatotoxicity, and microbiome disruption. WHO AWaRe data indicate a global shift toward increased use of Watch-category antibiotics. Stewardship interventions, such as audit and feedback, prescribing restrictions, rapid diagnostics, and decision support systems, effectively reduce inappropriate AMU. Conclusions: Integrated, data-driven antimicrobial stewardship and robust surveillance systems are essential to mitigate the global burden of AMR. Full article
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19 pages, 73201 KB  
Article
Deterministic Drivers of Microbial Community Succession in Nongxiang Daqu Fermentation: Fungi Exhibit Stronger Environmental Selection Imprints than Bacteria
by Dongmei Wang, Fei Wang, Ping Tang, Lei Wang, Yusheng Xie, Maosen Xiong, Qian Luo, Yanping Luo, Dan Huang and Lei Yang
Fermentation 2026, 12(4), 193; https://doi.org/10.3390/fermentation12040193 - 10 Apr 2026
Abstract
Microbial communities are the fundamental determinants of Nongxiang Daqu quality. In this study, we systematically investigated the assembly and succession mechanisms of microbial communities during Nongxiang Daqu fermentation. Our findings reveal that this ecological succession is primarily driven by deterministic processes, encompassing dynamic [...] Read more.
Microbial communities are the fundamental determinants of Nongxiang Daqu quality. In this study, we systematically investigated the assembly and succession mechanisms of microbial communities during Nongxiang Daqu fermentation. Our findings reveal that this ecological succession is primarily driven by deterministic processes, encompassing dynamic environmental variables and interspecific microbial interactions. Significant stage-specific temporal variations in the community structure were observed, and biomarkers identified via a random forest model further corroborated these dynamic successional patterns. Both the neutral community model and Modified Stochasticity Ratio (MST) tests demonstrated that community assembly is dominated by deterministic processes, the influence of which intensifies as fermentation progresses. Notably, the fungal community exhibited a more pronounced response to these deterministic environmental selections than the bacterial community. Furthermore, co-occurrence network analysis, Mantel tests, and redundancy analysis (RDA) collectively illustrated that microbial interactions and environmental factors—specifically temperature, humidity, oxygen, carbon dioxide, and acidity—synergistically regulate this succession. Crucially, the rates of change in these environmental parameters directly dictated the pace of microbial turnover. Among these, oxygen and acidity had the greatest influence: oxygen accounted for 17.32% and 29.05% of the effects on fungi and bacteria, respectively, while acidity accounted for 16.77% and 25.23%, respectively. Time-series forecasting indicated that community structural assembly and stabilization predominantly conclude within the initial 30 days of fermentation. Ultimately, this study uncovers the ecological driving forces shaping the Nongxiang Daqu microbiome, providing a vital theoretical foundation for the targeted regulation of Daqu microecology and the enhancement of product quality. Full article
(This article belongs to the Section Fermentation for Food and Beverages)
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26 pages, 1942 KB  
Systematic Review
Microbiota–Gut–Brain Axis in Alzheimer’s Disease: Linking Oxidative Stress, Mitochondrial Dysfunction and Amyloid Pathology—A Systematic Review
by Shah Rezlan Shajahan, Nurhidayah Hamid, Blaire Okunsai, Norshafarina Shari and Muhammad Danial Che Ramli
Biomedicines 2026, 14(4), 860; https://doi.org/10.3390/biomedicines14040860 - 9 Apr 2026
Abstract
Background: Alzheimer’s disease (AD) is a multifactorial neurodegenerative disorder characterized by amyloid-β aggregation, tau hyperphosphorylation, oxidative stress, and mitochondrial dysfunction. Emerging evidence indicates that the gut microbiota plays a critical role in modulating neuroinflammatory, and metabolic pathways involved in AD pathogenesis through the [...] Read more.
Background: Alzheimer’s disease (AD) is a multifactorial neurodegenerative disorder characterized by amyloid-β aggregation, tau hyperphosphorylation, oxidative stress, and mitochondrial dysfunction. Emerging evidence indicates that the gut microbiota plays a critical role in modulating neuroinflammatory, and metabolic pathways involved in AD pathogenesis through the microbiota-gut-brain axis. Objective: This systematic review aims to comprehensively evaluate the role of the microbiota-gut-brain axis in Alzheimer’s disease, with a particular focus on its mechanistic links to oxidative stress, mitochondrial dysfunction, and amyloid pathology, as well as its therapeutic potential. Methodology: A comprehensive literature search was conducted using PubMed, Scopus, and Web of Science databases, focusing on studies evaluating gut microbiota composition, metabolomic changes, oxidative stress markers, mitochondrial activity, and therapeutic interventions in AD models and patients. Results: Altered gut microbial composition in AD is associated with increased pro-inflammatory taxa (Escherichia-Shigella, Bacteroides) and depletion of short-chain fatty acid (SCFA) producing bacteria (Faecalibacterium, Roseburia). Dysbiosis contributes to systemic inflammation, disrupted intestinal permeability, and microglial activation, leading to oxidative damage and mitochondrial impairment in neurons. Preclinical and clinical studies indicate that probiotics, prebiotics, and fecal microbiota transplantation can restore redox balance, reduce neuroinflammation, and improve cognitive outcomes. Multi-omics and AI-based models are emerging as tools for identifying microbiome-derived biomarkers for early AD detection. Conclusion: The gut microbiota-mitochondria-oxidative stress axis represents a promising therapeutic target in Alzheimer’s disease. Future research should focus on longitudinal human studies, standardized microbial profiling, and personalized microbiome-based interventions to translate these mechanistic insights into clinical benefit. Full article
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19 pages, 5167 KB  
Article
Silicon Combined with Activated Carbon Enhances Salt Tolerance in Strawberry (Fragaria × ananassa) by Reinforcing Ion–Redox Homeostasis and Reshaping the Rhizosphere Microbiome
by Chendong Sun, Zhaoxin Ge, Xiaofang Yang, Xiaobo Xie, Xinyi Liang, Lan Shen, Jianjie Ren and Yuchao Zhang
Plants 2026, 15(8), 1154; https://doi.org/10.3390/plants15081154 - 9 Apr 2026
Abstract
Soil salinity severely constrains strawberry production by disrupting ion homeostasis and provoking oxidative injury. This study investigated whether soluble silicon (Si) and activated carbon (AC) act to enhance salt tolerance in strawberry (Fragaria × ananassa). Under NaCl stress, plants showed pronounced [...] Read more.
Soil salinity severely constrains strawberry production by disrupting ion homeostasis and provoking oxidative injury. This study investigated whether soluble silicon (Si) and activated carbon (AC) act to enhance salt tolerance in strawberry (Fragaria × ananassa). Under NaCl stress, plants showed pronounced growth inhibition, increased Na+ accumulation and a deteriorated K+/Na+ balance, accompanied by elevated reactive oxygen species (ROS) and lipid peroxidation. In contrast, combined AC + Si treatment consistently provided the strongest protection, improving seedling vigor and survival. Relative to NaCl alone, AC + Si increased shoot and root fresh weight by 67.5% and 78.5%, reduced shoot Na+ by 59.1%, and lowered shoot H2O2 and MDA by 62.6% and 66.5%, respectively, indicating marked improvement in ion–redox homeostasis. Beyond plant responses, AC-containing treatments alleviated salt-induced increases in soil electrical conductivity, coinciding with a clear restructuring of the rhizosphere bacterial community and enrichment of putatively beneficial taxa. Transcriptome profiling further supported coordinated reprogramming of ion transport, redox control and stress-responsive signaling pathways under the AC + Si regime. Collectively, the results indicated that Si and AC co-application enhances strawberry salt tolerance through an integrated soil–plant–microbiome mechanism that stabilizes ion homeostasis and reinforces redox homeostasis. Full article
(This article belongs to the Special Issue Nutrient Management on Soil Microbiome Dynamics and Plant Health)
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15 pages, 5207 KB  
Article
Ability of Different Bacteria from Grapevine to Colonize Arabidopsis thaliana Plants
by Olga A. Aleynova, Alexey A. Ananev, Nikolay N. Nityagovsky, Andrey R. Suprun, Alina A. Beresh, Alexandra S. Dubrovina and Konstantin V. Kiselev
Plants 2026, 15(8), 1151; https://doi.org/10.3390/plants15081151 - 9 Apr 2026
Abstract
This study investigates the impact of inoculating seeds with bacterial endophytes isolated from Vitis amurensis Rupr. on endophytic community composition in Arabidopsis thaliana (L.) Heynh. Ten bacterial isolates of the genera Agrobacterium, Bacillus, Curtobacterium, Erwinia, Frondihabitans, Gordonia, [...] Read more.
This study investigates the impact of inoculating seeds with bacterial endophytes isolated from Vitis amurensis Rupr. on endophytic community composition in Arabidopsis thaliana (L.) Heynh. Ten bacterial isolates of the genera Agrobacterium, Bacillus, Curtobacterium, Erwinia, Frondihabitans, Gordonia, Pantoea, Pseudomonas, Sphingomonas, and Xanthomonas were applied to seeds and some visible phenotypic effects were observed on plant growth after two weeks. High-throughput sequencing of 16S rRNA revealed that the native endophytic microbiome of A. thaliana was dominated by Gammaproteobacteria, Actinomycetes, Bacteroidia, and Alphaproteobacteria. The key families were Microscillaceae, Chitinophagaceae, Rhizobiaceae, Rhodanobacteraceae, Nocardioi-daceae, Nocardiaceae, Xanthomonadaceae, Devosiaceae, Microbacteriaceae, Crocinitomi-caceae, Pseudomonadaceae, Solimonadaceae, Comamonadaceae, Caulobacteraceae, and Micrococcaceae. Arabidopsis seed inoculation with Agrobacterium sp. R8SCh-B12, Curtobacterium sp. P7SA-B3, and Gordonia aichiensis P6PL2 significantly reduced alpha diversity (Shannon index) and altered beta diversity relative to controls, indicating strong community restructuring. These three isolates, along with Pseudomonas sp. R8SCh-B2, Sphingomonas sp. RA62c-B5, Xanthomonas sp. R7SCh-B6, and Bacillus velezensis AMR25, successfully colonized the plant tissues, as evidenced by significant increases in genus-specific amplicon sequence variants, ASVs (up to 17,820-fold for Curtobacterium sp. ASV33). In contrast, Pantoea sp. P7SCH-B5, Erwinia sp. R8SCh-B3, and Frondihabitans sp. RA62c-B2 failed to colonize A. thaliana, despite being applied to the seeds, suggesting the existence of mechanisms restraining colonization. These findings demonstrate that only a subset of grapevine-derived endophytes can effectively colonize A. thaliana, and that successful colonization correlates with significant shifts in the native microbiome, even in the absence of overt phenotypic changes. This emphasizes the importance of strain-specific compatibility in plant–endophyte interactions. Thus, we report the first descriptions of several novel endophytes that colonized Arabidopsis plants and establish a convenient model to investigate plant–bacterial interactions. Full article
(This article belongs to the Special Issue New Advancements in Plant–Microbes Interactions)
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21 pages, 1721 KB  
Review
Impact of Probiotics, Prebiotics and Synbiotics Supplementation in Chronic Kidney Disease: A Comprehensive Review of Clinical Trials
by Tiziana Di Renzo, Anna Reale, Stefania Nazzaro, Daniela Iovanna, Daniela Evangelista, Vasuk Gautam, Bruna Guida, Rosa Carrano and Mauro Cataldi
Nutrients 2026, 18(8), 1176; https://doi.org/10.3390/nu18081176 - 8 Apr 2026
Abstract
Chronic kidney disease (CKD) is a progressive condition associated with metabolic disturbances, systemic inflammation, and the accumulation of gut-derived uremic toxins. Increasing evidence highlights the role of gut microbiota dysbiosis in the progression of CKD through the gut–kidney axis. Consequently, microbiome-targeted nutritional strategies, [...] Read more.
Chronic kidney disease (CKD) is a progressive condition associated with metabolic disturbances, systemic inflammation, and the accumulation of gut-derived uremic toxins. Increasing evidence highlights the role of gut microbiota dysbiosis in the progression of CKD through the gut–kidney axis. Consequently, microbiome-targeted nutritional strategies, including probiotics, prebiotics, and synbiotics, have emerged as promising complementary approaches to modulate intestinal microbial composition and metabolic functions. This review summarizes and critically evaluates the current clinical evidence regarding the use of these interventions in CKD patients. Clinical studies indicate that supplementation with probiotics, prebiotics, and synbiotic formulations may promote beneficial shifts in the composition of the gut microbiota, enhance saccharolytic fermentation, and increase the production of short-chain fatty acids (SCFAs). These changes have been associated with reduced circulating levels of gut-derived uremic toxins such as indoxyl sulfate and p-cresyl sulfate, as well as with the attenuation of systemic inflammation and oxidative stress. However, available trials remain heterogeneous in terms of study design, probiotic strains, prebiotic substrates, dosing regimens, and patient populations, and are frequently limited by small sample sizes and short intervention durations. As a result, evidence for improvements in renal function and long-term clinical outcomes remains inconclusive. While synbiotics may offer theoretical advantages by combining microbial supplementation with targeted substrates that support microbial growth and metabolic activity, current evidence does not consistently demonstrate superior clinical efficacy. Overall, these interventions often improve surrogate biomarkers, but their effects on renal function and hard clinical outcomes remain uncertain. Larger, longer-duration multicenter randomized controlled trials with standardized formulations are needed to establish their clinical utility and to better elucidate microbiota–host interactions in CKD. Advancing this field may support the development of personalized microbiome-based therapeutic strategies aimed at modulating the gut–kidney axis and ultimately improving clinical outcomes in CKD patients. Full article
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18 pages, 2928 KB  
Article
Root-Zone Nitrogen Fertilization Increases Oilseed Rape Yield: Reprogramming Rhizosphere N-Cycling and Strengthening Soil–Plant Coupling
by Liang Cheng, Quanjie Shen and Yifan Wang
Plants 2026, 15(8), 1137; https://doi.org/10.3390/plants15081137 - 8 Apr 2026
Abstract
Root-zone nitrogen fertilization (RZF) can increase crop N uptake and yield, yet the underlying rhizosphere N-cycling functional mechanisms remain insufficiently resolved. In a field experiment with winter oilseed rape (Brassica napus L.), RZF was compared with conventional fertilization (CF) under the same [...] Read more.
Root-zone nitrogen fertilization (RZF) can increase crop N uptake and yield, yet the underlying rhizosphere N-cycling functional mechanisms remain insufficiently resolved. In a field experiment with winter oilseed rape (Brassica napus L.), RZF was compared with conventional fertilization (CF) under the same N input rates, alongside a zero-N control (N0). Compared with CF, RZF significantly increased seed yield (by 0.44 t ha−1) and aboveground N uptake (by 20.45 kg ha−1), while simultaneously enriching rhizosphere mineral N pools (NH4+–N and NO3–N by 54.50% and 56.02%, respectively). Shotgun metagenomics revealed that RZF reprogrammed rhizosphere N-cycling functional potential, characterized by enhanced nitrogen fixation, reduced nitrification and denitrification, and a tendency toward increased assimilatory nitrate reduction. These module-level shifts were supported by concordant changes in key functional genes, indicating greater genetic potential for N retention and assimilation (nifD, glnA, gltB, nasA, napB, nrfA) and reduced potential for nitrification- and denitrification-driven N losses (amoB/C, narI, nirK, norB). Taxonomic composition analysis showed enrichment of Bradyrhizobium and suppression of key nitrifier taxa (Nitrosospira and a Nitrososphaeraceae-affiliated taxon) under RZF. Rhizosphere pH exhibited the strongest Mantel correlation with multiple N-cycling modules, and rhizosphere available N (AN; sum of NH4+–N and NO3–N) was positively associated with plant N traits and yield. Structural equation modeling supported a pathway in which a functional balance index (retention/assimilation vs. loss/oxidation) increased AN (0.22), and AN strongly promoted yield (0.90). Collectively, these results elucidate a rhizosphere-centered mechanism whereby localized N placement strengthens soil–plant N coupling and enhances crop productivity through reprogramming microbial N-cycling functional potentials, positioning rhizosphere N processes as a key mechanistic bridge for microbiome-informed optimization of root-zone fertilization. Full article
(This article belongs to the Topic Recent Advances in Soil Health Management)
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20 pages, 1249 KB  
Review
Microbial Shifts After Sleeve Gastrectomy: The Gut–Oral Axis, Periodontal Outcomes, and Competing Oral Risks
by Felicia Gabriela Beresescu, Razvan Marius Ion, Adriana-Stela Crisan and Andrea Bors
Biomedicines 2026, 14(4), 838; https://doi.org/10.3390/biomedicines14040838 - 7 Apr 2026
Abstract
Background: Severe obesity is associated with chronic low-grade inflammation, dysglycemia, and higher periodontitis risk. Sleeve gastrectomy (SG) is now a dominant bariatric procedure and reliably improves weight and metabolic status yet reported oral and periodontal trajectories after surgery remain heterogeneous. Objective: [...] Read more.
Background: Severe obesity is associated with chronic low-grade inflammation, dysglycemia, and higher periodontitis risk. Sleeve gastrectomy (SG) is now a dominant bariatric procedure and reliably improves weight and metabolic status yet reported oral and periodontal trajectories after surgery remain heterogeneous. Objective: To synthesize SG-centered evidence on periodontal outcomes, oral and gut microbiome remodeling, and mechanistic pathways that may link postoperative physiology to the gut–oral axis. Methods: We conducted a structured narrative review guided by SANRA principles using targeted searches of PubMed/MEDLINE, Web of Science, Scopus, and Embase, complemented by citation chaining of key reviews and mechanistic anchor papers; evidence was organized into clinical, oral microbiome, gut microbiome, and mechanistic gut–oral axis streams and interpreted with a pragmatic evidence hierarchy. Results: Small prospective SG cohorts suggest bleeding on probing (BOP), gingival indices, and sometimes probing depth (PD) may improve in some patients, particularly alongside weight loss, improved glycemic control, and lower systemic inflammatory burden, whereas clinical attachment level (CAL) and longer-term structural trajectories remain mixed; mixed-procedure syntheses also report early deterioration in some settings. Oral microbiome findings after bariatric surgery are site- and time-dependent, and salivary signals do not necessarily mirror subgingival plaque, whereas gut microbiome remodeling and bile acid signaling changes are more consistently reported and provide plausible but indirect mediator candidates. At the same time, reflux, vomiting, salivary changes, diet patterning, medications, and periodontal care can modify or counteract potential periodontal benefits and may increase competing risks such as caries or erosive tooth wear. Conclusions: The SG–gut–oral axis-periodontal pathway is a biologically plausible working hypothesis rather than a proven causal pathway in humans. The present evidence for any periodontal benefit relies mainly on small observational cohorts and is most credibly demonstrated for inflammatory, not structural, endpoints. Full article
(This article belongs to the Special Issue Advances in Periodontal Disease and Systemic Disease)
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17 pages, 3228 KB  
Article
Diverse Manures Shape Heavy Metal Accumulation and Microbial Communities in Long-Term Continuous Maize Cropping
by Zhixi Geng, Huihong Zhang, Hongguang Cai, Yao Liang, Guolin Lin and Shiming Su
Agriculture 2026, 16(7), 814; https://doi.org/10.3390/agriculture16070814 - 7 Apr 2026
Viewed by 67
Abstract
Livestock manure amendment improves soil fertility and promotes carbon sequestration, but long-term application leads to heavy metal (HM) accumulation with unknown ecological consequences. Based on a 13-year field experiment in a continuous maize cropping system, we compared chemical fertilizer (NPK) with four organic [...] Read more.
Livestock manure amendment improves soil fertility and promotes carbon sequestration, but long-term application leads to heavy metal (HM) accumulation with unknown ecological consequences. Based on a 13-year field experiment in a continuous maize cropping system, we compared chemical fertilizer (NPK) with four organic amendments (cattle, pig, chicken manure, and compost) applied on an isocarbon basis. Organic amendments significantly increased total organic carbon (TOC) by 15.8–24.3% and available phosphorus (AP) by 1.9- to 6-fold relative to NPK. Compost achieved the highest maize yield. However, pig and chicken manure led to substantial accumulation of Cu and Zn due to high background levels. Despite this, grain HM concentrations remained below safety thresholds, indicating no immediate food chain risk. Metagenomic analysis revealed that HM stress acted as a deterministic filter on the soil microbiome. Cattle manure fostered the most complex co-occurrence network (average degree: 2.70), while pig manure reduced network complexity and increased modularity (>0.92), reflecting a shift toward fragmented, survival-oriented interactions. This structural reorganization was coupled with functional shifts, including enrichment of stress-tolerant taxa (Chitinophagales, Nitrosotalea) and detoxification pathways. We recommend prioritizing cattle manure or compost over raw pig and poultry manure to balance fertility, productivity, and ecological safety in black soil regions. Full article
(This article belongs to the Section Agricultural Soils)
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16 pages, 110154 KB  
Article
Nasopharyngeal Bacterial–Fungal Dysbiosis in Respiratory-Diseased Endangered Forest Musk Deer (Moschus berezovskii)
by Lijuan Suo, Kun Bian, Jie Tang, Feiran Li, Kuo Sun and Chao Yang
Biology 2026, 15(7), 587; https://doi.org/10.3390/biology15070587 - 6 Apr 2026
Viewed by 221
Abstract
Background: The nasopharyngeal microbiome is crucial for respiratory health in mammals, yet it remains poorly characterized in the endangered forest musk deer (Moschus berezovskii), particularly in the context of disease. Methods: We compared the bacterial (16S rRNA) and fungal (ITS2) communities [...] Read more.
Background: The nasopharyngeal microbiome is crucial for respiratory health in mammals, yet it remains poorly characterized in the endangered forest musk deer (Moschus berezovskii), particularly in the context of disease. Methods: We compared the bacterial (16S rRNA) and fungal (ITS2) communities in the nasopharynx of healthy (n = 6) and clinically diseased (n = 6) individuals. Results: Although alpha diversity did not differ significantly, beta diversity (PCoA) analysis revealed distinct bacterial (PERMANOVA, R2 = 0.165, p = 0.014) and fungal (R2 = 0.577, p = 0.003) community structures between groups. The diseased group exhibited a significant increase in the bacterial phylum Proteobacteria (70.97% vs. 46.27%), primarily driven by the genera Bibersteinia and Pseudomonas. Fungal communities in the diseased group were dominated by a higher relative abundance of Ascomycota and Basidiomycota, with significant enrichment of Wallemia and Aspergillus. LEfSe analysis identified Pseudomonas and multiple fungal taxa (e.g., Wallemia, Aspergillus) as biomarkers for the diseased group. PICRUSt2 prediction indicated enrichment of pathways related to carotenoid biosynthesis and sphingolipid metabolism in the diseased state, while FUNGuild analysis suggested a higher abundance of animal/plant pathogen-related fungi. Conclusions: Symptomatic respiratory infections in forest musk deer are associated with significant dysbiosis of the nasopharyngeal microbiome, characterized by the marked enrichment of potential bacterial opportunists (e.g., Pseudomonas) and specific fungal taxa (e.g., Wallemia, Aspergillus), alongside distinct functional shifts in the microbiome. These findings provide the first integrated bacterial–fungal profile of the nasopharyngeal microbiome in this endangered species, and highlight potential microbial biomarkers associated with respiratory disease. Full article
(This article belongs to the Special Issue Exploring the Biodiversity, Taxonomy, Ecology and Genomics of Fungi)
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17 pages, 470 KB  
Review
Investigation of the Impact of the Mediterranean Diet on Periodontal Health Status: A Narrative Review
by Filippos Fytros, Vasileios Zisis, Petros Papadopoulos, Thomas Chontos, Konstantinos Poulopoulos, Christina Charisi, Andreas Yiannouras, Vasiliki Arsoudi, Athanasios Poulopoulos and Smaragda Diamanti
Oral 2026, 6(2), 39; https://doi.org/10.3390/oral6020039 - 3 Apr 2026
Viewed by 179
Abstract
Background: The Mediterranean diet (MD) represents a nutritionally balanced eating pattern characterized by high consumption of fruits, vegetables, legumes, nuts, whole grains, olive oil, fish, and extra-virgin olive oil as the principal fat source and limited intake of red meat and refined sugars. [...] Read more.
Background: The Mediterranean diet (MD) represents a nutritionally balanced eating pattern characterized by high consumption of fruits, vegetables, legumes, nuts, whole grains, olive oil, fish, and extra-virgin olive oil as the principal fat source and limited intake of red meat and refined sugars. Emerging evidence indicates that the MD’s anti-inflammatory and antioxidant properties extend beyond systemic health, potentially reducing the risk and severity of periodontitis. This narrative review aimed to synthesize current evidence on the relationship between adherence to the MD and periodontal health outcomes. Methods: A comprehensive electronic literature search was conducted in PubMed without restrictions on publication date. Fourteen studies, ranging from 2019 to 2025, were included, encompassing human, clinical, experimental, and review designs that examined MD adherence and its effects on periodontal parameters. Eligible studies included cross-sectional, cohort, randomized controlled trials; systematic reviews; and animal models assessing clinical periodontal indices, inflammatory biomarkers, or microbial composition. Extracted data included study design, population characteristics, dietary assessment methods, and primary periodontal findings. Results: Most studies demonstrated that greater adherence to the MD was associated with improved periodontal parameters, including reduced probing pocket depth, clinical attachment loss, and bleeding on probing. Interventional trials showed significant reductions in systemic inflammatory markers such as IL-1β, TNF-α, and CRP, along with decreased counts of periodontopathogenic bacteria. Experimental studies further revealed the protective role of oleic acid and polyphenols in regulating macrophage activity, suppressing osteoclastogenesis, and enhancing IL-10 expression via epigenetic modulation. However, heterogeneity in dietary scoring systems, sample characteristics, and follow-up duration limited direct comparison, and not all associations reached statistical significance. Conclusions: Current evidence supports a beneficial association between MD adherence and periodontal health, mediated through anti-inflammatory, antioxidant, and microbiome-stabilizing mechanisms. Further standardized longitudinal and interventional studies are needed to confirm causality and refine nutritional strategies for periodontal disease prevention and management. Full article
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19 pages, 2150 KB  
Article
Norway Spruce and Scots Pine Fungal and Bacterial Microbiomes in a Boreal Forest Common Garden Experiment
by Tinkara Bizjak-Johansson, Marcus Larsson, Michael J. Gundale and Annika Nordin
Forests 2026, 17(4), 446; https://doi.org/10.3390/f17040446 - 2 Apr 2026
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Abstract
Soil- and plant-associated fungi and bacteria are an important part of many ecosystems as they can affect plant health, growth and stress tolerance. However, it remains poorly understood whether the microbiomes differ between conifer species growing in the same site conditions and between [...] Read more.
Soil- and plant-associated fungi and bacteria are an important part of many ecosystems as they can affect plant health, growth and stress tolerance. However, it remains poorly understood whether the microbiomes differ between conifer species growing in the same site conditions and between tree ecosystem compartments. The main aim of the study was to describe and compare the microbiomes of Scots pine (Pinus sylvestris L.) and Norway spruce (Picea abies (L.) H. Karst.), growing in a boreal forest common garden experiment on adjacent forest plots, to analyse the tree species effect on the composition of the needle and surface soil organic-mineral horizon microbiomes. The needle and surface soil organic-mineral horizon bacterial and fungal microbiomes were simultaneously analysed by full-length 16S and ITS sequencing on a long-read sequencing platform; however, the bacterial analysis was restricted to soil samples. The highly abundant bacterial phyla in both pine and spruce soil were Actinomycetota, Pseudomonadota, Planctomycetota and Acidobacteriota. The dominant fungal phyla in pine and spruce surface organic-mineral soil was Basidiomycota, while the needles were dominated by Ascomycota. The results showed an effect of tree species on the soil bacterial and fungal microbiomes and needle fungal microbiomes based on alpha diversity, which was higher for Norway spruce compared to Scots pine. The results indicated that Norway spruce might be able to support higher microbial diversity, which could potentially be due to differences in needle longevity, root exudates, litter input and its degradation, between pine and spruce. Furthermore, the results indicated distinct microbiomes between the soil and needle compartments. Full article
(This article belongs to the Section Forest Biodiversity)
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Article
Symbiotic Bacterial Diversity, Functional Profiling and Antibiotic Susceptibility of the Red Imported Fire Ant
by Yukang Xin, Lei Chen, Munazza Ijaz, Rui Chen, Natasha Manzoor, Alhassan Alrafaie, Xiao Wang, Jinyan Luo, Bin Li and Linfei Shou
Microorganisms 2026, 14(4), 808; https://doi.org/10.3390/microorganisms14040808 - 1 Apr 2026
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Abstract
The red imported fire ant (RIFA), Solenopsis invicta, is a globally invasive pest that causes substantial ecological, agricultural, and public health challenges. Conventional control strategies primarily depend on chemical insecticides, which present environmental risks and limited long-term efficacy. In this study, we [...] Read more.
The red imported fire ant (RIFA), Solenopsis invicta, is a globally invasive pest that causes substantial ecological, agricultural, and public health challenges. Conventional control strategies primarily depend on chemical insecticides, which present environmental risks and limited long-term efficacy. In this study, we comprehensively investigated the bacterial microbiota of S. invicta and compared it with a sympatric non-target ant species (Pheidole nodus) to explore the ecological significance and biocontrol potential of symbiotic bacteria. High-throughput 16S rRNA sequencing revealed that the symbiotic bacterial community of S. invicta exhibited markedly higher richness and diversity. A total of 1651 amplified sequence variants (ASVs) were identified, of which 1089 ASVs are unique to the RIFAs, and 460 are unique to non-target ants. Linear discriminant analysis effect size (LEfSe) highlighted 33 biomarker taxa (score > 6.5), with strong enrichment of Stenotrophomonas, Serratia, Pseudomonas, Luteibacter, Bradyrhizobium, Brucella, Smaragdicoccus, Gordonia, and Aeromonas. Functional predictions and enzymatic assays in vitro demonstrated that dominant cultivable genera, particularly Stenotrophomonas (SI-7, SI-17), Serratia (SI-1, SI-3, SI-6, SI-18), and Pseudomonas (SI-2, SI-8, SI-9, SI-11, SI-19), exhibit substantial proteolytic and lipolytic activity, suggesting key roles in nutrient metabolism and host ecological adaptability. Antibiotic susceptibility profiling further revealed that florfenicol shows broad-spectrum inhibitory activity against these dominant symbionts. These findings indicate that disrupting dominant symbiotic bacteria may impair host physiology and thus serve as a targeted control strategy. Overall, the study elucidates the diversity, functional potential, and biocontrol applicability of the S. invicta microbiome, providing a foundation for developing sustainable, microbiome-based pest management approaches. Full article
(This article belongs to the Section Veterinary Microbiology)
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