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Search Results (382)

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Keywords = Lactobacillus genus

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20 pages, 598 KiB  
Review
Oral Microbiome as a Biomarker and Therapeutic Target in Head and Neck Cancer: Current Insights and Future Directions
by Saad Ahmad, Dasantha Jayamanne, Sarah Bergamin, Anna Lawless, Alexander Guminski, Adrian Lee, Alexander Yuile, Helen Wheeler, Thomas Eade, Michael Back, Mark Molloy and Byeongsang Oh
Cancers 2025, 17(16), 2667; https://doi.org/10.3390/cancers17162667 - 15 Aug 2025
Viewed by 354
Abstract
Background/Objectives: The oral microbiome has been implicated in the pathogenesis of head and neck squamous cell carcinoma (HNSCC). This review examines the association between specific oral bacterial taxa and HNSCC. Methods: A systematic review was conducted following the Preferred Reporting Items [...] Read more.
Background/Objectives: The oral microbiome has been implicated in the pathogenesis of head and neck squamous cell carcinoma (HNSCC). This review examines the association between specific oral bacterial taxa and HNSCC. Methods: A systematic review was conducted following the Preferred Reporting Items for Systematic Reviews and Meta-Analyses (PRISMA) guidelines to examine the relationship between the oral microbiome and HNSCC. A comprehensive literature search was conducted in databases including EMBASE, Cochrane Library, Web of Science, Medline, and PubMed. Results: Following the screening of 284 articles, 21 studies met the inclusion criteria, comprising 1023 HNSCC patients (male: n = 806, 79%; female: n = 217, 21%) and 837 healthy controls (male: n = 622, 74%; female: n = 215, 25.7%). Although findings on alpha diversity were inconsistent, a significant difference in beta diversity was consistently reported between HNSCC patients and healthy controls. HNSCC patients exhibited higher relative abundances of Firmicutes and Synergistetes at the phylum level; Fusobacterium, Prevotella, Porphyromonas, Parvimonas, and Peptostreptococcus at the genus level; and Fusobacterium nucleatum, Prevotella intermedia, Lactobacillus spp., and Porphyromonas gingivalis at the species level. In contrast, healthy controls showed higher abundances of Proteobacteria and Actinobacteria at the phylum level; Streptococcus, Actinomyces, Corynebacterium, Rothia, and Veillonella at the genus level; and Haemophilus influenzae, Rothia mucilaginosa, and Streptococcus mitis at the species level in most studies. Conclusions: The findings indicate distinct alterations in oral microbiome diversity and composition among HNSCC patients, highlighting the role of microbial dysbiosis in cancer progression. Standardized protocols for oral sample collection and microbiota analysis are essential to facilitate more robust, comparable, and clinically meaningful research outcomes. Full article
(This article belongs to the Special Issue Gut Microbiome, Diet and Cancer Risk)
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21 pages, 8865 KiB  
Article
Grape Pomace Polyphenol Extract Alleviates Obesity in Mice and Improves Gut Microbiota and Short Chain Fatty Acids
by Yulei Han, Chenlu Yang, Xuelin Tian, Xueqing Shi, Hua Wang and Hua Li
Foods 2025, 14(16), 2823; https://doi.org/10.3390/foods14162823 - 14 Aug 2025
Viewed by 249
Abstract
With the development of people’s diets and working patterns, obesity is an increasingly serious health threat faced globally. Grape pomace is an important by-product generated during the wine production process which is rich in polyphenols. Polyphenols show promising potential in anti-inflammatory, antioxidant, and [...] Read more.
With the development of people’s diets and working patterns, obesity is an increasingly serious health threat faced globally. Grape pomace is an important by-product generated during the wine production process which is rich in polyphenols. Polyphenols show promising potential in anti-inflammatory, antioxidant, and metabolic regulatory applications. Nevertheless, the effects of grape pomace polyphenols on obesity alleviation and their underlying mechanisms require further investigation. The results of this study indicate that grape pomace polyphenols exhibit a preventive effect against obesity caused by a high-fat diet (HFD), ameliorated gut microbiota dysbiosis, and improved gut short chain fatty acid (SCFA) levels. The present study employed comprehensive bioinformatics approaches to characterize gut microbial profiles in each experimental group, including: alpha and beta diversity analyses, phylum- and genus-level relative abundance analyses, Linear Discriminant Analysis Effect Size (LEfSe), and Pearson correlation analysis between gut microbiota and short chain fatty acids. Both grape seeds extract (GSE) and grape peel extract (GPE) reduced the elevated F/B ratio caused by HFD, raised the abundance of probiotics such as Lachnospiraceae_NK4A136_group, Bifidobacterium, and Blautia, and mitigated the increase of pathogenic bacteria Fusobacteria and Eschericha-Shigella caused by HFD. Moreover, Lactobacillus, Faecalibaculum, Clostridium-sensu-stricto-1, Bifidobacterium, Blautia, Alistipes, and Dubosiella may be regulated by GSE and GPE to produce SCFAs, alleviating obesity and metabolic disorders. In conclusion, our results suggest that GSE and GPE show remarkable efficacy in ameliorating obesity and modulating gut microbiota in mice, providing evidence to support the utilization of grape pomace as a metabolic regulator. Full article
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15 pages, 1774 KiB  
Article
Study on the Effect of pH Modulation on Lactic Acid Production by Electro-Fermentation of Food Waste
by Nuohan Wang, Jianguo Liu, Yongsheng Li, Yuanyuan Ren, Xiaona Wang, Tianlong Zheng and Qunhui Wang
Sustainability 2025, 17(15), 7160; https://doi.org/10.3390/su17157160 - 7 Aug 2025
Viewed by 390
Abstract
Lactic acid (LA) synthesis through fermentation of food waste (FW) is an emerging techniques for utilizing perishable organic wastes with high value. Using food waste collected from a cafeteria as the substrate for fermentation, the current study was conducted by applying a micro [...] Read more.
Lactic acid (LA) synthesis through fermentation of food waste (FW) is an emerging techniques for utilizing perishable organic wastes with high value. Using food waste collected from a cafeteria as the substrate for fermentation, the current study was conducted by applying a micro electric field to the conventional LA fermentation process and performing open-ended electro-fermentation (EF) without sterilization and lactobacilli inoculation. Furthermore, the effects of pH adjustment on LA production were examined. The findings demonstrated that electrical stimulation enhances the electron transfer rate within the system, accelerates REDOX reactions, and thereby intensifies the lactic acid production process. The pH-regulated group produced LA and dissolved organic materials at considerably higher rates than the control group, which did not receive any pH modification. The maximum LA concentration and organic matter dissolution in the experimental group, where the pH was set to 7 every 12 h of fermentation, were 33.9 and 38.4 g/L, respectively. These values were 208 and 203% higher than those in the control group, indicating that the pH adjustment greatly aided the solubilization and hydrolysis of macromolecules. Among the several hydrolyzing bacteria (Actinobacteriota) that were enriched, Lactobacillus predominated, but Bifidobacterium also became a major genus in the neutral-acidic environment, and its abundance grew dramatically. This study provides a scientific basis for optimizing the LA process of FW. Full article
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20 pages, 3604 KiB  
Article
Analysis of the Differences in Rhizosphere Microbial Communities and Pathogen Adaptability in Chili Root Rot Disease Between Continuous Cropping and Rotation Cropping Systems
by Qiuyue Zhao, Xiaolei Cao, Lu Zhang, Xin Hu, Xiaojian Zeng, Yingming Wei, Dongbin Zhang, Xin Xiao, Hui Xi and Sifeng Zhao
Microorganisms 2025, 13(8), 1806; https://doi.org/10.3390/microorganisms13081806 - 1 Aug 2025
Viewed by 365
Abstract
In chili cultivation, obstacles to continuous cropping significantly compromise crop yield and soil health, whereas crop rotation can enhance the microbial environment of the soil and reduce disease incidence. However, its effects on the diversity of rhizosphere soil microbial communities are not clear. [...] Read more.
In chili cultivation, obstacles to continuous cropping significantly compromise crop yield and soil health, whereas crop rotation can enhance the microbial environment of the soil and reduce disease incidence. However, its effects on the diversity of rhizosphere soil microbial communities are not clear. In this study, we analyzed the composition and characteristics of rhizosphere soil microbial communities under chili continuous cropping (CC) and chili–cotton crop rotation (CR) using high-throughput sequencing technology. CR treatment reduced the alpha diversity indices (including Chao1, Observed_species, and Shannon index) of bacterial communities and had less of an effect on fungal community diversity. Principal component analysis (PCA) revealed distinct compositional differences in bacterial and fungal communities between the treatments. Compared with CC, CR treatment has altered the structure of the soil microbial community. In terms of bacterial communities, the relative abundance of Firmicutes increased from 12.89% to 17.97%, while the Proteobacteria increased by 6.8%. At the genus level, CR treatment significantly enriched beneficial genera such as RB41 (8.19%), Lactobacillus (4.56%), and Bacillus (1.50%) (p < 0.05). In contrast, the relative abundances of Alternaria and Fusarium in the fungal community decreased by 6.62% and 5.34%, respectively (p < 0.05). Venn diagrams and linear discriminant effect size analysis (LEfSe) further indicated that CR facilitated the enrichment of beneficial bacteria, such as Bacillus, whereas CC favored enrichment of pathogens, such as Firmicutes. Fusarium solani MG6 and F. oxysporum LG2 are the primary chili root-rot pathogens. Optimal growth occurs at 25 °C, pH 6: after 5 days, MG6 colonies reach 6.42 ± 0.04 cm, and LG2 5.33 ± 0.02 cm, peaking in sporulation (p < 0.05). In addition, there are significant differences in the utilization spectra of carbon and nitrogen sources between the two strains of fungi, suggesting their different ecological adaptability. Integrated analyses revealed that CR enhanced soil health and reduced the root rot incidence by optimizing the structure of soil microbial communities, increasing the proportion of beneficial bacteria, and suppressing pathogens, providing a scientific basis for microbial-based soil management strategies in chili cultivation. Full article
(This article belongs to the Section Microbiomes)
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22 pages, 3360 KiB  
Article
Effect of Atmospheric Cold Plasma Treatment on the Microorganism Growth, Diversity, and Quality of Coconut Water During Refrigerator Storage
by Lixian Zeng, Wenyue Gu, Yuanyuan Wang, Wentao Deng, Jiamei Wang and Liming Zhang
Foods 2025, 14(15), 2709; https://doi.org/10.3390/foods14152709 - 1 Aug 2025
Viewed by 394
Abstract
To study the effect of cold plasma (CP) on the refrigerator shelf life of coconut water, microorganism growth and diversity and physicochemical properties were investigated. Results indicated that CP treatment did not cause significant color changes in coconut water, with turbidity remaining lower [...] Read more.
To study the effect of cold plasma (CP) on the refrigerator shelf life of coconut water, microorganism growth and diversity and physicochemical properties were investigated. Results indicated that CP treatment did not cause significant color changes in coconut water, with turbidity remaining lower than the control even after 6 days of storage. Enzymatic activity analysis revealed reduced polyphenol oxidase (PPO) and peroxidase (POD) levels in treated samples. Specifically, the 12 s CP treatment resulted in the lowest antioxidant capacity values: 15.77 Fe2+/g for ferric reducing antioxidant power (FRAP), 37.15% for DPPH radical scavenging, and 39.51% for ABTS+ radical scavenging. Microbial enumeration showed that extended CP treatment effectively inhibited the growth of total viable counts, psychrophilic bacteria, lactic acid bacteria, and yeast. High-throughput sequencing identified Leuconostoc, Carnobacterium, and Lactobacillus as the dominant bacterial genera. During storage, Carnobacterium was the primary genus in the early stage, while Leuconostoc emerged as the dominant genus by the end of the storage period. In summary, CP as an effective non-thermal technology was able to maintain quality and antioxidant capacity, inhibit microbial growth, and delay the spoilage in coconut water to help extend the refrigerated shelf life of the product. Full article
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17 pages, 1908 KiB  
Article
BDE-47 Disrupts Gut Microbiota and Exacerbates Prediabetic Conditions in Mice: Therapeutic Potential of Grape Exosomes and Antioxidants
by Zaoling Liu, Fang Cao, Aerna Qiayimaerdan, Nilupaer Aisikaer, Zulipiya Zunong, Xiaodie Ma and Yale Yu
Toxics 2025, 13(8), 640; https://doi.org/10.3390/toxics13080640 - 29 Jul 2025
Viewed by 339
Abstract
Background: BDE-47, a pervasive environmental pollutant detected in >90% of human serum samples, is increasingly linked to metabolic disorders. This study investigates the specific impact of BDE-47 exposure on the gut microbiota in prediabetic mice and evaluates the efficacy of therapeutic interventions [...] Read more.
Background: BDE-47, a pervasive environmental pollutant detected in >90% of human serum samples, is increasingly linked to metabolic disorders. This study investigates the specific impact of BDE-47 exposure on the gut microbiota in prediabetic mice and evaluates the efficacy of therapeutic interventions in mitigating these effects. Objectives: To determine whether BDE-47 exposure induces diabetogenic dysbiosis in prediabetic mice and to assess whether dietary interventions, such as grape exosomes and an antioxidant cocktail, can restore a healthy microbiota composition and mitigate diabetes risk. Methods: In this study, a prediabetic mouse model was established in 54 male SPF-grade C57BL/6J mice through a combination of high-sugar and high-fat diet feeding with streptozotocin injection. Oral glucose tolerance tests (OGTT) were conducted on day 7 and day 21 post-modeling to assess the establishment of the model. The criteria for successful model induction were defined as fasting blood glucose levels below 7.8 mmol/L and 2 h postprandial glucose levels between 7.8 and 11.1 mmol/L. Following confirmation of model success, a 3 × 3 factorial design was applied to allocate the experimental animals into groups based on two independent factors: BDE-47 exposure and exosome intervention. The BDE-47 exposure factor consisted of three dose levels—none, high-dose, and medium-dose—while the exosome intervention factor included three modalities—none, Antioxidant Nutrients Intervention, and Grape Exosomes Intervention. Fresh fecal samples were collected from mice two days prior to sacrifice. Cecal contents and segments of the small intestine were collected and transferred into 1.5 mL cryotubes. All sequences were clustered into operational taxonomic units (OTUs) based on defined similarity thresholds. To compare means across multiple groups, a two-way analysis of variance (ANOVA) was employed. The significance level was predefined at α = 0.05, and p-values < 0.05 were considered statistically significant. Bar charts and line graphs were generated using GraphPad Prism version 9.0 software, while statistical analyses were performed using SPSS version 20.0 software. Results: The results of 16S rDNA sequencing analysis of the microbiome showed that there was no difference in the α diversity of the intestinal microbiota in each group of mice (p > 0.05), but there was a difference in the Beta diversity (p < 0.05). At the gate level, the abundances of Proteobacteria, Campylobacterota, Desulfobacterota, and Fusobacteriota in the medium-dose BDE-7 group were higher than those in the model control group (p < 0.05). The abundance of Patellar bacteria was lower than that of the model control group (p < 0.05). The abundances of Proteobacteria and Campylobacterota in the high-dose BDE-7 group were higher than those in the model control group (p < 0.05). The abundance of Planctomycetota and Patescibacteria was lower than that of the model control group (p < 0.05), while the abundance of Campylobacterota in the grape exosome group was higher than that of the model control group (p < 0.05). The abundance of Patescibacteria was lower than that of the model control group (p < 0.05), while the abundance of Firmicutes and Fusobacteriota in the antioxidant nutrient group was higher than that of the model control group (p < 0.05). However, the abundance of Verrucomicrobiota and Patescibacteria was lower than that of the model control group (p < 0.05). At the genus level, the abundances of Bacteroides and unclassified Lachnospiraceae in the high-dose BDE-7 group were higher than those in the model control group (p < 0.05). The abundance of Lachnospiraceae NK4A136_group and Lactobacillus was lower than that of the model control group (p < 0.05). The abundance of Veillonella and Helicobacter in the medium-dose BDE-7 group was higher than that in the model control group (p < 0.05), while the abundance of Lactobacillus was lower (p < 0.05). The abundance of genera such as Lentilactobacillus and Faecalibacterium in the grape exosome group was higher than that in the model control group (p < 0.05). The abundance of Alloprevotella and Bacteroides was lower than that of the model control group (p < 0.05). In the antioxidant nutrient group, the abundance of Lachnospiraceae and Hydrogenophaga was higher than that in the model control group (p < 0.05). However, the abundance of Akkermansia and Coriobacteriaceae UCG-002 was significantly lower than that of the model control group (p < 0.05). Conclusions: BDE-47 induces diabetogenic dysbiosis in prediabetic mice, which is reversible by dietary interventions. These findings suggest that microbiota-targeted strategies may effectively mitigate the diabetes risk associated with environmental pollutant exposure. Future studies should further explore the mechanisms underlying these microbiota changes and the long-term health benefits of such interventions. Full article
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15 pages, 5270 KiB  
Article
Dynamic Changes in Microorganisms and Metabolites During Silage Fermentation of Whole Winter Wheat
by Li Zhang, Yu Zeng, Lin Fu, Yan Zhou, Juncai Chen, Gaofu Wang, Qifan Ran, Liang Hu, Rui Hu, Jia Zhou and Xianwen Dong
Vet. Sci. 2025, 12(8), 708; https://doi.org/10.3390/vetsci12080708 - 28 Jul 2025
Viewed by 342
Abstract
Winter wheat (Triticum aestivum L.) silage has high feeding value and has become an important roughage resource in China. To recognize the optimal fermentation time of the silage product, this study systematically evaluated the temporal dynamics of microbial communities and metabolic profiles [...] Read more.
Winter wheat (Triticum aestivum L.) silage has high feeding value and has become an important roughage resource in China. To recognize the optimal fermentation time of the silage product, this study systematically evaluated the temporal dynamics of microbial communities and metabolic profiles in whole winter wheat silage at days 7, 14, 30, 50, and 70. The dry matter (DM) content slightly fluctuated with the extension of fermentation time, with 28.14% at 70 days of ensiling. The organic matter and neutral detergent fiber content gradually decreased with the extension of fermentation time. A significant decrease in pH was observed at days 30, 50, and 70 compared to days 7 and 14 (p < 0.05), with the lowest pH value of 4.4 recorded at day 70. The contents of lactic acid, acetic acid, butyric acid, and total volatile fatty acids gradually increased with the extension of fermentation time, reaching a maximum at 70 days of ensiling. The dominant bacteria were Proteobacteria and Firmicutes at the phylum level, and the predominant bacteria were Hafnia-Obesumbacterium, Enterobacter, and Lactobacillus at the genus level. The relative abundance of Hafnia-Obesumbacterium and Lactobacillus fluctuated slightly with the duration of fermentation, reaching a minimum for the former and a maximum for Lactobacillus at 50 days of ensiling. By day 70, Sporolactobacillus emerged as a distinct silage biomarker. The dominant fungi was Ascomycota at the phylum level, and the predominant fungi were Fusarium and an unidentified fungus at the genus level. The correlation analysis revealed significant pH–organic acid–microbe interactions, with pH negatively correlating with organic acids but positively with specific bacteria, while organic acids showed complex microbial associations. Collectively, under natural fermentation conditions, the optimal fermentation period for wheat silage exceeds 70 days, and Sporolactobacillus shows potential as a microbial inoculant for whole winter wheat silage. These findings provide a theoretical foundation for optimizing whole winter wheat silage utilization and enhancing fermentation quality. Full article
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19 pages, 4928 KiB  
Article
Microbial and Metabolomic Insights into Lactic Acid Bacteria Co-Inoculation for Dough-Stage Triticale Fermentation
by Yujie Niu, Xiaoling Ma, Chuying Wang, Peng Zhang, Qicheng Lu, Rui Long, Yanyan Wu and Wenju Zhang
Microorganisms 2025, 13(8), 1723; https://doi.org/10.3390/microorganisms13081723 - 23 Jul 2025
Viewed by 304
Abstract
Triticale (Triticosecale Wittmack) is a versatile forage crop valued for its high yield, balanced nutrition, and environmental adaptability. However, the dough-stage triricale has higher dry matter and starch content but lower water-soluble carbohydrate levels than earlier stages, posing fermentation challenges that [...] Read more.
Triticale (Triticosecale Wittmack) is a versatile forage crop valued for its high yield, balanced nutrition, and environmental adaptability. However, the dough-stage triricale has higher dry matter and starch content but lower water-soluble carbohydrate levels than earlier stages, posing fermentation challenges that may impair silage quality. This study aimed to investigate the effects of lactic acid bacteria inoculation on the fermentation quality, bacterial community, and metabolome of whole-plant triticale silage at the dough stage. Fresh triticale was ensiled for 30 days without or with an inoculant containing Lactiplantibacillus plantarum and Streptococcus bovis. Fermentation quality, bacterial succession, and metabolic profiles were analyzed at multiple time points. Inoculation significantly improved fermentation quality, characterized by a rapid pH drop, increased lactic acid production, and better preservation of fiber components. Microbial analysis revealed that inoculation successfully established Lactobacillus as the dominant genus while suppressing spoilage bacteria like Enterobacter and Clostridium. Metabolomic analysis on day 30 identified numerous differential metabolites, indicating that inoculation primarily altered pathways related to amino acid and purine metabolism. In conclusion, inoculating dough-stage triticale with this LAB combination effectively directs the fermentation trajectory. It enhances silage quality not only by optimizing organic acid profiles and microbial succession but also by modulating key metabolic pathways, ultimately leading to improved nutrient preservation. Full article
(This article belongs to the Special Issue Beneficial Microorganisms and Antimicrobials: 2nd Edition)
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23 pages, 3343 KiB  
Article
Dietary Fermentation with Lactobacillus sp. and Bacillus sp. Modulates Rumen Transcriptomic and Microbiota Profiles in Bos taurus
by Jeong Sung Jung, Dahye Kim, Anand Singaravelu, Ilavenil Soundharrajan and Ki Choon Choi
Int. J. Mol. Sci. 2025, 26(14), 6816; https://doi.org/10.3390/ijms26146816 - 16 Jul 2025
Viewed by 274
Abstract
Animal feed made from fermented agricultural residues using Lactobacillus sp. and Bacillus sp. has received significant attention. However, interactions between differentially expressed genes (DEGs) in adipose, liver, and muscle tissues and bacteria or fungi in the rumen remain largely unknown. This study determined [...] Read more.
Animal feed made from fermented agricultural residues using Lactobacillus sp. and Bacillus sp. has received significant attention. However, interactions between differentially expressed genes (DEGs) in adipose, liver, and muscle tissues and bacteria or fungi in the rumen remain largely unknown. This study determined effects of normal diet feed (NF) and alternative diet feed made by Lactobacillus sp. and Bacillus sp. (AF) on gene expression in major metabolic organs and on microbial populations in the rumen of Bos-Taurus using high-throughput sequencing methods. Rumen bacteria/fungi interaction with DEGs in key metabolic organs was also investigated. According to our findings, 34, 36, and 28 genes were differentially expressed in adipose, liver, and muscle tissues, respectively. Most DEGs were associated with osteoclast differentiation and immune functions. Microbial dynamics analysis showed that the AF diet significantly (p < 0.05) increased Firmicutes but reduced Bacterioidetes abundances. At the genus level, Faecalicatena, Intestinimonas, Lachnoclostridium, Faecalicatena, and Intestinimonas were significantly higher (p < 0.05) in animals fed with the AF diet. Regarding fungal populations, Neocallimastigomycota accounted for 98.2% in the NF diet and 86.88% in the AF diet. AF feeding increased Orpinomyces and Piromyces but decreased Neocallimastix abundances. These findings highlight the potential of fermented feeds to improve metabolic responses and rumen microbial balance, contributing to enhanced animal performance. Full article
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25 pages, 18172 KiB  
Article
Sea Cucumber Egg Oligopeptides Ameliorate Cognitive Impairments and Pathology of Alzheimer’s Disease Through Regulating HDAC3 and BDNF/NT3 via the Microbiota–Gut–Brain Axis
by Guifeng Zhang, Yanjie Dou, Huiwen Xie, Dan Pu, Longxing Wang, Renjun Wang and Xiaofei Han
Nutrients 2025, 17(14), 2312; https://doi.org/10.3390/nu17142312 - 14 Jul 2025
Viewed by 731
Abstract
Background: Oligopeptides from sea cucumber eggs (SCEPs) are rarely studied for their neuroprotective effects. Methods: Therefore, we prepared SCEPs via simulated gastrointestinal digestion and then administered them to an Alzheimer’s disease (AD) mouse model via gavage. Behavior tests, gut–brain histopathology and fecal microbiota [...] Read more.
Background: Oligopeptides from sea cucumber eggs (SCEPs) are rarely studied for their neuroprotective effects. Methods: Therefore, we prepared SCEPs via simulated gastrointestinal digestion and then administered them to an Alzheimer’s disease (AD) mouse model via gavage. Behavior tests, gut–brain histopathology and fecal microbiota transplantation (FMT) experiments were conducted, and gut microbiota and metabolite short-chain fatty acids (SCFAs) were evaluated via 16sRNA gene sequencing and LC-MS. Results: The results showed that both the SCEP and FMT groups experienced improvements in the cognitive impairments of AD and showed reduced levels of Aβ, P-Tau, GFAP, and NFL in the brain, especially in the hippocampus. SCEP remodeled the gut microbiota, increasing the relative abundances of Turicibacter and Lactobacillus by 2.7- and 4.8-fold compared with the model at the genus level. In the SCEP and FMT treatments, four SCFA-producing bacteria obtained from gut microbiota profiling showed consistent trends, indicating that they may be involved in mediating the neuroprotective effects of SCEP. Mechanically, SCEP regulated the SCFA distribution in feces, blood, and the brain, greatly increased the content of SCFAs in the brain up to 2000 μg/mg, eased gut–brain barrier dysfunction, inhibited HDAC3 overexpression, and upregulated BDNF/NT3 levels. Conclusions: This study provides a promising candidate for preventing AD and a reference for applying SCEP. Full article
(This article belongs to the Section Lipids)
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20 pages, 10628 KiB  
Article
Temporal and Spatial Dynamics of Tumor–Host Microbiota in Breast Cancer Progression
by Qi Xu, Aikun Fu, Nan Wang and Zhizhen Zhang
Microorganisms 2025, 13(7), 1632; https://doi.org/10.3390/microorganisms13071632 - 10 Jul 2025
Viewed by 664
Abstract
Deciphering the spatiotemporal distribution of bacteria during breast cancer progression may provide critical insights for developing bacterial-based therapeutic strategies. Using a murine breast cancer model, we longitudinally profiled the microbiota in breast tumor tissue, mammary gland, spleen, and cecal contents at 3-, 5-, [...] Read more.
Deciphering the spatiotemporal distribution of bacteria during breast cancer progression may provide critical insights for developing bacterial-based therapeutic strategies. Using a murine breast cancer model, we longitudinally profiled the microbiota in breast tumor tissue, mammary gland, spleen, and cecal contents at 3-, 5-, and 7- weeks post-tumor implantation through 16S rRNA gene sequencing. Breast tumor progression was associated with lung metastasis and splenomegaly, accompanied by distinct tissue-specific microbial dynamics. While alpha diversity remained stable in tumors, mammary tissue, and cecal contents, it significantly increased in the spleen (p < 0.05). Longitudinal analysis revealed a progressive rise in Firmicutes and a decline in Proteobacteria abundance within tumors, mammary tissue, and cecum, whereas the spleen microbiota displayed unique phylum-level compositional shifts. Tissue- and time-dependent microbial signatures were identified at phylum, genus, and species levels during breast tumor progression. Strikingly, the spleen microbiota integrated nearly all genera enriched in other sites, suggesting its potential role as a microbial reservoir. Gut-associated genera (Lactobacillus, Desulfovibrio, Helicobacter) colonized both cecal contents and the spleen, with Lactobacillus consistently detected across all tissues, suggesting microbial translocation. The spleen exhibited uniquely elevated diversity and compositional shifts, potentially driving splenomegaly. These results delineated the trajectory of microbiota translocation and colonization, and demonstrated tissue-specific microbial redistribution during breast tumorigenesis, offering valuable implications for advancing microbiome-targeted cancer therapies. Full article
(This article belongs to the Special Issue Host–Microbiome Cross-Talk in Cancer Development and Progression)
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17 pages, 1758 KiB  
Article
Bioactive Polysaccharides from Fermented Dendrobium officinale: Structural Insights and Their Role in Skin Barrier Repair
by Wanshuai Wang, Anqi Zou, Qingtao Yu, Zhe Wang, Daotong Tan, Kaiye Yang, Chao Cai and Guangli Yu
Molecules 2025, 30(13), 2875; https://doi.org/10.3390/molecules30132875 - 6 Jul 2025
Viewed by 772
Abstract
Dendrobium, a prominent genus in the Orchidaceae family, has generated significant research attention due to its demonstrated biological potential, particularly its notable anti-inflammatory and antioxidant activities. In this study, two fractions of fermented Dendrobium officinale polysaccharides (FDOPs) were successfully isolated through a [...] Read more.
Dendrobium, a prominent genus in the Orchidaceae family, has generated significant research attention due to its demonstrated biological potential, particularly its notable anti-inflammatory and antioxidant activities. In this study, two fractions of fermented Dendrobium officinale polysaccharides (FDOPs) were successfully isolated through a multi-stage purification strategy including gradient ethanol precipitation, gel column chromatography, and ion exchange chromatography with Lactobacillus reuteri CCFM863. Structural characterization revealed that both Dendrobium officinale polysaccharide fractions consisted of (1→4)-β-D-Manp, (1→4)-β-D-Glcp, and (1→4)-α-D-Glcp residues. The anti-inflammatory efficacy and keratinocyte-protective potential of FDOPs (FDOP-1A and FDOP-2A) were investigated by using lipopolysaccharide (LPS)-induced RAW264.7 and HaCaT cells models, which showed significant inhibitions on the inflammatory factors of monocyte chemoattractant protein-1 (MCP-1), tumor necrosis factor-alpha (TNF-α), nitric oxide (NO), and interleukin-1 beta (IL-1β); recovered levels of filaggrin (FLG), aquaporin 3 (AQP3), transient receptor potential vanilloid 4 (TRPV4), cathelicidin antimicrobial peptide (CAMP)/LL-37, and adiponectin (ADIPOQ); and the reduced protein expression of the TLR4/IκB-α/NF-κB/NLRP3 pathway. Notably, the FDOPs exhibited a remarkable reactive oxygen species (ROS) scavenging capacity, demonstrating superior antioxidant activity. Therefore, FDOPs show dual anti-inflammatory and antioxidant properties, making them suitable as active ingredients for modulating epidermal inflammation and promoting skin barrier repair. Full article
(This article belongs to the Special Issue Biotechnology and Biomass Valorization)
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15 pages, 2248 KiB  
Article
The Oral Microbiome in Queensland Free-Ranging Koalas (Phascolarctos cinereus) and Its Association with Age and Periodontal Disease
by Lyndall Pettett, Esmaeil Ebrahimie, Teerapol Chinkangsadarn, Manijeh Mohammadi Dehcheshmeh, Darren J. Trott and Philip S. Bird
Animals 2025, 15(13), 1834; https://doi.org/10.3390/ani15131834 - 20 Jun 2025
Viewed by 373
Abstract
This study was developed to profile the oral microbiome of free-ranging Queensland koalas and its association with age, gingivitis and periodontitis. Using next-generation sequencing of 16S rRNA genes, the microbiota of oral plaque samples from eight koalas across different age groups (joey, juvenile, [...] Read more.
This study was developed to profile the oral microbiome of free-ranging Queensland koalas and its association with age, gingivitis and periodontitis. Using next-generation sequencing of 16S rRNA genes, the microbiota of oral plaque samples from eight koalas across different age groups (joey, juvenile, adult and old) were compared. The findings revealed significant shifts in microbiota composition with age and disease presence. At the phylum level, Proteobacteria were the most dominant phylum, especially in younger koalas. Proteobacteria abundance decreased with age, while Bacteroidetes, Fusobacteria and Actinobacteria increased. At the genus level, Acinetobacter declined with age. Fusobacterium and Porphyromonas became more prominent genera in older koalas and those with periodontal disease. The beneficial genus Lactobacillus was detected only in the joey, suggesting a potential loss of protective microbes with age. Alpha diversity analysis showed high variability within individuals based on age. Alpha diversity was remarkably lower in younger koalas and increased with periodontal disease. Beta diversity suggested distinct microbiota composition differences between younger (joey and juvenile) and older (adult and old) koalas, although statistical significance was limited by sample size. This is the first detailed characterization of the oral microbiome in Queensland’s free-ranging koalas and highlights its association with age and oral health status. Findings may contribute to better understanding of oral disease progression in koalas and support conservation and health management efforts. Full article
(This article belongs to the Special Issue Koalas Management: Ecology and Conservation)
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14 pages, 2548 KiB  
Article
Differences in Intestinal Microbiota Between White and Common Cranes in the Yellow River Delta During Winter
by Xiaodong Gao, Yunpeng Liu, Zhicheng Yao, Yuelong Chen, Lei Li and Shuai Shang
Biology 2025, 14(6), 704; https://doi.org/10.3390/biology14060704 - 16 Jun 2025
Viewed by 414
Abstract
The avian intestinal microbiota is a vital interface for host/environment interactions, playing a pivotal role in nutrient metabolism, immune regulation, and ecological adaptation. In the Yellow River Delta region, common cranes and white cranes coexist in mixed flocks. During the winter, when food [...] Read more.
The avian intestinal microbiota is a vital interface for host/environment interactions, playing a pivotal role in nutrient metabolism, immune regulation, and ecological adaptation. In the Yellow River Delta region, common cranes and white cranes coexist in mixed flocks. During the winter, when food resources are scarce, studying their gut microbiota can effectively reveal the feeding patterns of these two crane species, thereby providing valuable data for crane conservation efforts. This study systematically investigated and compared the intestinal microbiota structures of white cranes (Grus leucogeranus) and common cranes (Grus grus) inhabiting the Yellow River Delta region. The results demonstrated that the predominant phyla of the intestinal microbiota in white and common cranes are Firmicutes and Proteobacteria at the phylum level; Catellicoccus and Lactobacillus were the predominant genera in the crane species. LEfse was used to analyze the differential flora of the intestinal bacterial communities of white cranes and common cranes and to detect the marker species with significant differences between the groups. Based on the COG database, a preliminary functional prediction of the intestinal microbiota was conducted, and 16 metabolic pathways relating to the COG pathway were obtained. In general, although both types of cranes belong to the Grus genus and are distributed in the same area, there are significant differences in the composition and functional characteristics of their intestinal microbiota due to the differences in their feeding composition. Full article
(This article belongs to the Section Microbiology)
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14 pages, 1400 KiB  
Article
From Farm to Slaughter: Tracing Antimicrobial Resistance in a Poultry Short Food Chain
by Andrea Laconi, Roberta Tolosi, Claudia Chirollo, Cristiana Penon, Giacomo Berto, Francesco Galuppo and Alessandra Piccirillo
Antibiotics 2025, 14(6), 604; https://doi.org/10.3390/antibiotics14060604 - 13 Jun 2025
Viewed by 790
Abstract
Background: Short food supply chains are commonly perceived as more sustainable and safer alternatives to conventional production systems, often linked to organic, free-range livestock practices. Materials and methods: This study investigates, for the first time, the distribution of antimicrobial resistance genes [...] Read more.
Background: Short food supply chains are commonly perceived as more sustainable and safer alternatives to conventional production systems, often linked to organic, free-range livestock practices. Materials and methods: This study investigates, for the first time, the distribution of antimicrobial resistance genes (ARGs) and characterizes the microbial communities’ composition, using 16S rRNA sequencing and real-time PCR, respectively. Eleven fecal, 76 slaughterhouse surface, 11 cecal, and 11 carcass samples, from 11 poultry farms belonging to the same short food chain, were analyzed in the study. Results: While cleaning and disinfection procedures appeared to reduce the bacterial load on slaughterhouse surfaces, diverse and potentially resistant bacteria, including genera such as Staphylococcus and Streptococcus, persisted both before and after slaughter. ARGs conferring resistance to high-priority critically important antimicrobials (HPCIAs), such as fluoroquinolones and third-generation cephalosporins, were frequently detected on carcasses, with qnrS (76.15%, 95%CI 68.02-84.28%) and blaCMY2 (57.8%, 95%CI 48.38-67.22%) being the most prevalent. The slaughtering process emerged as a critical step for ARG dissemination via intestinal bacteria, such as genus Lactobacillus. Additionally, the detection of mcr genes and blaNDM on carcasses but not in the bird gut samples suggests possible anthropogenic contamination. Discussion: These findings highlight that the evisceration process, slaughterhouse environment, and personnel are all contributing factors in ARG spread and underscore the need for enhanced hygiene protocols and reduced gut ARG carriage in domestic birds to mitigate the risk for the consumer. Full article
(This article belongs to the Special Issue Livestock Antibiotic Use and Resistance)
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