{"status":"ok","message-type":"work","message-version":"1.0.0","message":{"indexed":{"date-parts":[[2026,10,4]],"date-time":"2026-10-04T03:27:54Z","timestamp":1791084474786,"version":"4.1.0"},"reference-count":237,"publisher":"MDPI AG","issue":"6","license":[{"start":{"date-parts":[[2026,3,11]],"date-time":"2026-03-11T00:00:00Z","timestamp":1773187200000},"content-version":"vor","delay-in-days":0,"URL":"https:\/\/creativecommons.org\/licenses\/by\/4.0\/"}],"funder":[{"name":"Agriculture Science and Technology Development, RDA, Republic of Korea","award":["RS-2025-02223124"],"award-info":[{"award-number":["RS-2025-02223124"]}]}],"content-domain":{"domain":[],"crossmark-restriction":false},"short-container-title":["Nutrients"],"abstract":"<jats:p>Background\/Objectives: An imbalance in gut microbiota, known as gut dysbiosis, results in reactive oxygen species overproduction, which can cause inflammatory conditions, damage DNA, trigger immunity, and induce epigenetic modifications of crucial genes that regulate metabolic pathways. Such a condition can also weaken the resilience of the protective gut wall and elevate colon permeability, allowing toxins from the gut to reach the liver and bloodstream, contributing to oxidative damage, autoimmune diseases, and epigenetic changes linked to metabolic disorders. Methods: The Scopus database was exclusively searched for the literature. Relevant articles were identified using predefined keywords, including gut dysbiosis, microbiota, microbiome, oxidative stress, metabolic disorders, inflammation, and epigenetics or combinations. Gut microbiota- and diet-induced metabolic disorders, particularly obesity, insulin resistance, dyslipidemia, and hypertension, may be inherited through epigenetic pathways. Results: The evidence analyzed suggests that the gut microbiota serves as a diverse metabolic and immunological organ. Its disruption affects the production of short-chain fatty acids, bile acid metabolism, immune signaling, and the redox balance, which contributes to the development of obesity, insulin resistance, and metabolic syndrome. Conclusions: This review highlights key epigenetic mechanisms underlying metabolic disorders and oxidative stress in the context of gut dysbiosis. Furthermore, therapeutic strategies targeting the gut microbiota, such as dietary interventions, prebiotics, probiotics, postbiotics, and fecal microbiota transplantation, hold promise for mitigating oxidative stress and inflammation associated with metabolic syndrome.<\/jats:p>","DOI":"10.3390\/nu18060888","type":"journal-article","created":{"date-parts":[[2026,3,11]],"date-time":"2026-03-11T10:43:27Z","timestamp":1773225807000},"page":"888","update-policy":"https:\/\/doi.org\/10.3390\/mdpi_crossmark_policy","source":"Crossref","is-referenced-by-count":5,"title":["The Gut Gambit: A Review of How Microbial Imbalance Fuels Metabolic Mayhem"],"prefix":"10.3390","volume":"18","author":[{"given":"Lakshmayya","family":"Nunna Sai Venkata","sequence":"first","affiliation":[{"name":"Department of Biotechnology, Chaitanya Bharathi Institute of Technology, Gandipet, Hyderabad 500075, Telangana, India"}],"role":[{"vocabulary":"crossref","role":"author"}]},{"ORCID":"https:\/\/orcid.org\/0000-0002-3312-3264","authenticated-orcid":false,"given":"Awdhesh Kumar","family":"Mishra","sequence":"additional","affiliation":[{"name":"Department of Biotechnology, Yeungnam University, Gyeongsan 38541, Republic of Korea"}],"role":[{"vocabulary":"crossref","role":"author"}]},{"ORCID":"https:\/\/orcid.org\/0000-0002-6547-7227","authenticated-orcid":false,"given":"Yugal Kishore","family":"Mohanta","sequence":"additional","affiliation":[{"name":"Nano-Biotechnology and Translational Knowledge Laboratory, Department of Applied Biology, University of Science and Technology Meghalaya, Baridua, Ri-Bhoi 793101, Meghalaya, India"},{"name":"Centre for Herbal Pharmacology and Environmental Sustainability, Chettinad Hospital and Research Institute, Chettinad Academy of Research and Education, Kelambakkam 603103, Tamil Nadu, India"}],"role":[{"vocabulary":"crossref","role":"author"}]},{"given":"Sarvesh","family":"Rustagi","sequence":"additional","affiliation":[{"name":"Department of Food Technology, School of Agriculture, Dev Bhoomi Uttarakhand University, Dehradun 248007, Uttarakhand, India"}],"role":[{"vocabulary":"crossref","role":"author"}]},{"given":"Ashutosh","family":"Bahuguna","sequence":"additional","affiliation":[{"name":"Department of Food Science and Technology, Yeungnam University, Gyeongsan 38541, Republic of Korea"}],"role":[{"vocabulary":"crossref","role":"author"}]},{"given":"Anjali","family":"Tomar","sequence":"additional","affiliation":[{"name":"School of Agricultural Sciences, K.R. Mangalam University, Gurugram 122103, Haryana, India"}],"role":[{"vocabulary":"crossref","role":"author"}]},{"ORCID":"https:\/\/orcid.org\/0000-0002-6719-9187","authenticated-orcid":false,"given":"Kwang-Hyun","family":"Baek","sequence":"additional","affiliation":[{"name":"Department of Biotechnology, Yeungnam University, Gyeongsan 38541, Republic of Korea"}],"role":[{"vocabulary":"crossref","role":"author"}]},{"given":"Bishwambhar","family":"Mishra","sequence":"additional","affiliation":[{"name":"Department of Biotechnology, Chaitanya Bharathi Institute of Technology, Gandipet, Hyderabad 500075, Telangana, India"}],"role":[{"vocabulary":"crossref","role":"author"}]}],"member":"1968","published-online":{"date-parts":[[2026,3,11]]},"reference":[{"key":"ref_1","first-page":"51","article-title":"From the Intestinal Flora to the Microbiome","volume":"110","year":"2017","journal-title":"Rev. Espa\u00f1ola Enfermedades Dig."},{"key":"ref_2","doi-asserted-by":"crossref","first-page":"41","DOI":"10.1038\/s41392-019-0074-5","article-title":"Demystifying the Manipulation of Host Immunity, Metabolism, and Extraintestinal Tumors by the Gut Microbiome","volume":"4","author":"Zhang","year":"2019","journal-title":"Signal Transduct. Target. Ther."},{"key":"ref_3","doi-asserted-by":"crossref","first-page":"583","DOI":"10.1038\/s41586-018-0617-x","article-title":"Temporal Development of the Gut Microbiome in Early Childhood from the TEDDY Study","volume":"562","author":"Stewart","year":"2018","journal-title":"Nature"},{"key":"ref_4","doi-asserted-by":"crossref","first-page":"k2179","DOI":"10.1136\/bmj.k2179","article-title":"Role of the Gut Microbiota in Nutrition and Health","volume":"361","author":"Valdes","year":"2018","journal-title":"BMJ"},{"key":"ref_5","doi-asserted-by":"crossref","first-page":"709","DOI":"10.1093\/advances\/nmz127","article-title":"Tryptophan Metabolism: A Link Between the Gut Microbiota and Brain","volume":"11","author":"Gao","year":"2020","journal-title":"Adv. Nutr."},{"key":"ref_6","doi-asserted-by":"crossref","first-page":"177","DOI":"10.1017\/S0029665118002719","article-title":"Gut Microbiota and Health: Connecting Actors across the Metabolic System","volume":"78","author":"Fava","year":"2019","journal-title":"Proc. Nutr. Soc."},{"key":"ref_7","doi-asserted-by":"crossref","first-page":"1110","DOI":"10.1128\/mSystems.00815-20","article-title":"Traditional Human Populations and Nonhuman Primates Show Parallel Gut Microbiome Adaptations to Analogous Ecological Conditions","volume":"5","author":"Sharma","year":"2020","journal-title":"mSystems"},{"key":"ref_8","doi-asserted-by":"crossref","first-page":"955","DOI":"10.1038\/s41559-022-01773-4","article-title":"Synchrony and Idiosyncrasy in the Gut Microbiome of Wild Baboons","volume":"6","author":"Dasari","year":"2022","journal-title":"Nat. Ecol. Evol."},{"key":"ref_9","doi-asserted-by":"crossref","first-page":"299","DOI":"10.1186\/s13059-019-1923-9","article-title":"Microbial Genomes from Non-Human Primate Gut Metagenomes Expand the Primate-Associated Bacterial Tree of Life with over 1000 Novel Species","volume":"20","author":"Manara","year":"2019","journal-title":"Genome Biol."},{"key":"ref_10","doi-asserted-by":"crossref","first-page":"639","DOI":"10.1038\/s41579-021-00562-3","article-title":"Host Specificity of the Gut Microbiome","volume":"19","author":"Mallott","year":"2021","journal-title":"Nat. Rev. Microbiol."},{"key":"ref_11","doi-asserted-by":"crossref","first-page":"1328","DOI":"10.1126\/science.abm7759","article-title":"Codiversification of Gut Microbiota with Humans","volume":"377","author":"Suzuki","year":"2022","journal-title":"Science"},{"key":"ref_12","doi-asserted-by":"crossref","first-page":"970","DOI":"10.1016\/j.tim.2024.02.013","article-title":"Small Intestinal Microbiota: From Taxonomic Composition to Metabolism","volume":"32","author":"Yersin","year":"2024","journal-title":"Trends Microbiol."},{"key":"ref_13","doi-asserted-by":"crossref","first-page":"570","DOI":"10.1126\/science.aam9949","article-title":"Microbiota-Activated PPAR-\u03b3 Signaling Inhibits Dysbiotic Enterobacteriaceae Expansion","volume":"357","author":"Byndloss","year":"2017","journal-title":"Science"},{"key":"ref_14","doi-asserted-by":"crossref","first-page":"101","DOI":"10.1038\/icb.1966.11","article-title":"The Sift of Absorption of Taurocholate in Chicks, Using Polyethylene Glycol as a Reference Substance","volume":"44","author":"Webling","year":"1966","journal-title":"Aust. J. Exp. Biol. Med. Sci."},{"key":"ref_15","doi-asserted-by":"crossref","first-page":"80","DOI":"10.1186\/s13073-022-01092-0","article-title":"Metabolic Control by the Microbiome","volume":"14","author":"Cox","year":"2022","journal-title":"Genome Med."},{"key":"ref_16","doi-asserted-by":"crossref","unstructured":"Su, X., Gao, Y., and Yang, R. (2022). Gut Microbiota-Derived Tryptophan Metabolites Maintain Gut and Systemic Homeostasis. Cells, 11.","DOI":"10.3390\/cells11152296"},{"key":"ref_17","doi-asserted-by":"crossref","first-page":"103","DOI":"10.1186\/s40168-020-00875-0","article-title":"Microbiome Definition Re-Visited: Old Concepts and New Challenges","volume":"8","author":"Berg","year":"2020","journal-title":"Microbiome"},{"key":"ref_18","doi-asserted-by":"crossref","first-page":"963","DOI":"10.2147\/CIA.S414714","article-title":"Gut Microbiota and Aging: Traditional Chinese Medicine and Modern Medicine","volume":"18","author":"Li","year":"2023","journal-title":"Clin. Interv. Aging"},{"key":"ref_19","doi-asserted-by":"crossref","first-page":"601","DOI":"10.1186\/s40001-025-02824-9","article-title":"The Role of the Gut Microbiota and Its Metabolites: A New Predictor in Diabetes and Its Complications","volume":"30","author":"Wu","year":"2025","journal-title":"Eur. J. Med. Res."},{"key":"ref_20","doi-asserted-by":"crossref","unstructured":"Borrego-Ruiz, A., and Borrego, J.J. (2025). The Gut Microbiome in Human Obesity: A Comprehensive Review. Biomedicines, 13.","DOI":"10.3390\/biomedicines13092173"},{"key":"ref_21","doi-asserted-by":"crossref","first-page":"5851","DOI":"10.1097\/MS9.0000000000003656","article-title":"Role of Gut Microbiota in the Pathogenesis of Metabolic Syndrome: An Updated Comprehensive Review from Mechanisms to Clinical Implications","volume":"87","author":"Singh","year":"2025","journal-title":"Ann. Med. Surg."},{"key":"ref_22","doi-asserted-by":"crossref","unstructured":"Parkin, K., Christophersen, C.T., Verhasselt, V., Cooper, M.N., and Martino, D. (2021). Risk Factors for Gut Dysbiosis in Early Life. Microorganisms, 9.","DOI":"10.3390\/microorganisms9102066"},{"key":"ref_23","doi-asserted-by":"crossref","first-page":"1427","DOI":"10.1080\/10408398.2020.1843396","article-title":"Antibiotic-Induced Gut Dysbiosis and Barrier Disruption and the Potential Protective Strategies","volume":"62","author":"Duan","year":"2022","journal-title":"Crit. Rev. Food Sci. Nutr."},{"key":"ref_24","doi-asserted-by":"crossref","unstructured":"Chen, Y., Zhou, J., and Wang, L. (2021). Role and Mechanism of Gut Microbiota in Human Disease. Front. Cell. Infect. Microbiol., 11.","DOI":"10.3389\/fcimb.2021.625913"},{"key":"ref_25","doi-asserted-by":"crossref","first-page":"39","DOI":"10.1186\/s40168-020-00991-x","article-title":"Antibiotic-Associated Dysbiosis Affects the Ability of the Gut Microbiota to Control Intestinal Inflammation upon Fecal Microbiota Transplantation in Experimental Colitis Models","volume":"9","author":"Strati","year":"2021","journal-title":"Microbiome"},{"key":"ref_26","doi-asserted-by":"crossref","first-page":"5633403","DOI":"10.1155\/2022\/5633403","article-title":"Next-Generation Probiotics: Microflora Intervention to Human Diseases","volume":"2022","author":"Zhang","year":"2022","journal-title":"BioMed Res. Int."},{"key":"ref_27","doi-asserted-by":"crossref","first-page":"1239","DOI":"10.1093\/advances\/nmaa181","article-title":"Diet and the Microbiota\u2013Gut\u2013Brain Axis: Sowing the Seeds of Good Mental Health","volume":"12","author":"Berding","year":"2021","journal-title":"Adv. Nutr."},{"key":"ref_28","doi-asserted-by":"crossref","unstructured":"Do, M.H., Lee, E., Oh, M.-J., Kim, Y., and Park, H.-Y. (2018). High-Glucose or -Fructose Diet Cause Changes of the Gut Microbiota and Metabolic Disorders in Mice without Body Weight Change. Nutrients, 10.","DOI":"10.3390\/nu10060761"},{"key":"ref_29","doi-asserted-by":"crossref","first-page":"2709","DOI":"10.1007\/s00394-019-02117-y","article-title":"Anti-Obesity Effect of Lactobacillus Rhamnosus LS-8 and Lactobacillus Crustorum MN047 on High-Fat and High-Fructose Diet Mice Base on Inflammatory Response Alleviation and Gut Microbiota Regulation","volume":"59","author":"Wang","year":"2020","journal-title":"Eur. J. Nutr."},{"key":"ref_30","doi-asserted-by":"crossref","unstructured":"Zhang, X., Monnoye, M., Mariadassou, M., Beguet-Crespel, F., Lapaque, N., Heberden, C., and Douard, V. (2021). Glucose but Not Fructose Alters the Intestinal Paracellular Permeability in Association With Gut Inflammation and Dysbiosis in Mice. Front. Immunol., 12.","DOI":"10.3389\/fimmu.2021.742584"},{"key":"ref_31","doi-asserted-by":"crossref","first-page":"2387794","DOI":"10.1080\/19490976.2024.2387794","article-title":"Game of Microbes: The Battle within\u2014Gut Microbiota and Multiple Sclerosis","volume":"16","author":"Turner","year":"2024","journal-title":"Gut Microbes"},{"key":"ref_32","doi-asserted-by":"crossref","unstructured":"Dentice Maidana, S., Elean, M., Fukuyama, K., Imamura, Y., Albarrac\u00edn, L., Saha, S., Suda, Y., Kurata, S., Jure, M.\u00c1., and Kitazawa, H. (2023). Hypermucoviscous Carbapenem-Resistant Klebsiella Pneumoniae ST25 Infect Human Intestinal Epithelial Cells and Induce Moderate Inflammation. Int. J. Mol. Sci., 24.","DOI":"10.3390\/ijms24108804"},{"key":"ref_33","doi-asserted-by":"crossref","first-page":"1526","DOI":"10.1038\/s41591-018-0160-1","article-title":"Depicting the Composition of Gut Microbiota in a Population with Varied Ethnic Origins but Shared Geography","volume":"24","author":"Deschasaux","year":"2018","journal-title":"Nat. Med."},{"key":"ref_34","doi-asserted-by":"crossref","first-page":"210","DOI":"10.1038\/nature25973","article-title":"Environment Dominates over Host Genetics in Shaping Human Gut Microbiota","volume":"555","author":"Rothschild","year":"2018","journal-title":"Nature"},{"key":"ref_35","doi-asserted-by":"crossref","unstructured":"Kates, A.E., Jarrett, O., Skarlupka, J.H., Sethi, A., Duster, M., Watson, L., Suen, G., Poulsen, K., and Safdar, N. (2020). Household Pet Ownership and the Microbial Diversity of the Human Gut Microbiota. Front. Cell. Infect. Microbiol., 10.","DOI":"10.3389\/fcimb.2020.00073"},{"key":"ref_36","doi-asserted-by":"crossref","first-page":"40","DOI":"10.1186\/s40168-017-0254-x","article-title":"Exposure to Household Furry Pets Influences the Gut Microbiota of Infants at 3\u20134 Months Following Various Birth Scenarios","volume":"5","author":"Tun","year":"2017","journal-title":"Microbiome"},{"key":"ref_37","doi-asserted-by":"crossref","first-page":"260","DOI":"10.2174\/1389200221666200303113830","article-title":"Chemical Metabolism of Xenobiotics by Gut Microbiota","volume":"21","author":"Nakov","year":"2020","journal-title":"Curr. Drug Metab."},{"key":"ref_38","doi-asserted-by":"crossref","first-page":"e22350","DOI":"10.1096\/fj.202101986R","article-title":"Pharmacomicrobiomics: Influence of Gut Microbiota on Drug and Xenobiotic Metabolism","volume":"36","author":"Dikeocha","year":"2022","journal-title":"FASEB J."},{"key":"ref_39","doi-asserted-by":"crossref","first-page":"75","DOI":"10.1249\/JES.0000000000000183","article-title":"Exercise and the Gut Microbiome: A Review of the Evidence, Potential Mechanisms, and Implications for Human Health","volume":"47","author":"Mailing","year":"2019","journal-title":"Exerc. Sport Sci. Rev."},{"key":"ref_40","doi-asserted-by":"crossref","unstructured":"Resende, A.S., Leite, G.S.F., and Lancha Junior, A.H. (2021). Changes in the Gut Bacteria Composition of Healthy Men with the Same Nutritional Profile Undergoing 10-Week Aerobic Exercise Training: A Randomized Controlled Trial. Nutrients, 13.","DOI":"10.3390\/nu13082839"},{"key":"ref_41","doi-asserted-by":"crossref","first-page":"555","DOI":"10.1080\/19490976.2018.1562268","article-title":"Exercise Influence on the Microbiome\u2013Gut\u2013Brain Axis","volume":"10","author":"Dalton","year":"2019","journal-title":"Gut Microbes"},{"key":"ref_42","doi-asserted-by":"crossref","first-page":"2709","DOI":"10.1210\/clinem\/dgae499","article-title":"Exploring the Gut Microbiota: Key Insights Into Its Role in Obesity, Metabolic Syndrome, and Type 2 Diabetes","volume":"109","author":"Gagnon","year":"2024","journal-title":"J. Clin. Endocrinol. Metab."},{"key":"ref_43","doi-asserted-by":"crossref","first-page":"15718","DOI":"10.1073\/pnas.0407076101","article-title":"The Gut Microbiota as an Environmental Factor That Regulates Fat Storage","volume":"101","author":"Ding","year":"2004","journal-title":"Proc. Natl. Acad. Sci. USA"},{"key":"ref_44","doi-asserted-by":"crossref","first-page":"228","DOI":"10.1126\/science.1179721","article-title":"Metabolic Syndrome and Altered Gut Microbiota in Mice Lacking Toll-like Receptor 5","volume":"328","author":"Aitken","year":"2010","journal-title":"Science"},{"key":"ref_45","doi-asserted-by":"crossref","first-page":"1761","DOI":"10.2337\/db06-1491","article-title":"Metabolic Endotoxemia Initiates Obesity and Insulin Resistance","volume":"56","author":"Cani","year":"2007","journal-title":"Diabetes"},{"key":"ref_46","doi-asserted-by":"crossref","first-page":"261","DOI":"10.1038\/s41574-019-0156-z","article-title":"Gut Microbial Metabolites in Obesity, NAFLD and T2DM","volume":"15","author":"Canfora","year":"2019","journal-title":"Nat. Rev. Endocrinol."},{"key":"ref_47","doi-asserted-by":"crossref","unstructured":"Zhao, H., Chen, R., Zheng, D., Xiong, F., Jia, F., Liu, J., Zhang, L., Zhang, N., Zhu, S., and Liu, Y. (2022). Modified Banxia Xiexin Decoction Ameliorates Polycystic Ovarian Syndrome With Insulin Resistance by Regulating Intestinal Microbiota. Front. Cell. Infect. Microbiol., 12.","DOI":"10.3389\/fcimb.2022.854796"},{"key":"ref_48","doi-asserted-by":"crossref","first-page":"100310","DOI":"10.1016\/j.metop.2024.100310","article-title":"Diet Patterns, Gut Microbiota and Metabolic Disorders: Perspectives and Challenges","volume":"23","author":"Dalamaga","year":"2024","journal-title":"Metabol. Open"},{"key":"ref_49","doi-asserted-by":"crossref","first-page":"99","DOI":"10.1038\/nature12198","article-title":"Gut Metagenome in European Women with Normal, Impaired and Diabetic Glucose Control","volume":"498","author":"Karlsson","year":"2013","journal-title":"Nature"},{"key":"ref_50","doi-asserted-by":"crossref","first-page":"140","DOI":"10.1186\/s40168-021-01101-1","article-title":"Review: Microbial Transformations of Human Bile Acids","volume":"9","author":"Guzior","year":"2021","journal-title":"Microbiome"},{"key":"ref_51","doi-asserted-by":"crossref","first-page":"156","DOI":"10.1038\/s41588-020-00763-1","article-title":"Large-Scale Association Analyses Identify Host Factors Influencing Human Gut Microbiome Composition","volume":"53","author":"Kurilshikov","year":"2021","journal-title":"Nat. Genet."},{"key":"ref_52","doi-asserted-by":"crossref","unstructured":"Xia, G.-H., You, C., Gao, X.-X., Zeng, X.-L., Zhu, J.-J., Xu, K.-Y., Tan, C.-H., Xu, R.-T., Wu, Q.-H., and Zhou, H.-W. (2019). Stroke Dysbiosis Index (SDI) in Gut Microbiome Are Associated With Brain Injury and Prognosis of Stroke. Front. Neurol., 10.","DOI":"10.3389\/fneur.2019.00397"},{"key":"ref_53","doi-asserted-by":"crossref","first-page":"108657","DOI":"10.1016\/j.isci.2023.108657","article-title":"Microbial Dysbiosis Index for Assessing Colitis Status in Mouse Models: A Systematic Review and Meta-Analysis","volume":"27","author":"Kim","year":"2024","journal-title":"iScience"},{"key":"ref_54","doi-asserted-by":"crossref","first-page":"4219","DOI":"10.7150\/ijbs.70644","article-title":"Commensal Microbe-Derived SCFA Alleviates Atrial Fibrillation via GPR43\/NLRP3 Signaling","volume":"18","author":"Zuo","year":"2022","journal-title":"Int. J. Biol. Sci."},{"key":"ref_55","doi-asserted-by":"crossref","first-page":"2094","DOI":"10.1093\/ajcn\/32.10.2094","article-title":"The Effect of Meat Protein and Dietary Fiber on Colonic Function and Metabolism II. Bacterial Metabolites in Feces and Urine","volume":"32","author":"Cummings","year":"1979","journal-title":"Am. J. Clin. Nutr."},{"key":"ref_56","doi-asserted-by":"crossref","unstructured":"Parada Venegas, D., De la Fuente, M.K., Landskron, G., Gonz\u00e1lez, M.J., Quera, R., Dijkstra, G., Harmsen, H.J.M., Faber, K.N., and Hermoso, M.A. (2019). Short Chain Fatty Acids (SCFAs)-Mediated Gut Epithelial and Immune Regulation and Its Relevance for Inflammatory Bowel Diseases. Front. Immunol., 10.","DOI":"10.3389\/fimmu.2019.00277"},{"key":"ref_57","doi-asserted-by":"crossref","first-page":"566","DOI":"10.4049\/jimmunol.127.2.566","article-title":"In Vitro Growth of Murine T Cells. VI. Accelerated Skin Graft Rejection Caused by Adoptively Transferred Cells Expanded in T Cell Growth Factor","volume":"127","author":"Rosenstein","year":"1981","journal-title":"J. Immunol."},{"key":"ref_58","doi-asserted-by":"crossref","first-page":"245","DOI":"10.1111\/j.1753-4887.2011.00388.x","article-title":"Propionate as a Health-Promoting Microbial Metabolite in the Human Gut","volume":"69","author":"Hosseini","year":"2011","journal-title":"Nutr. Rev."},{"key":"ref_59","doi-asserted-by":"crossref","first-page":"236","DOI":"10.1016\/j.cca.2020.04.037","article-title":"Butyrate-Producing Bacteria and the Gut-Heart Axis in Atherosclerosis","volume":"507","author":"Chen","year":"2020","journal-title":"Clin. Chim. Acta"},{"key":"ref_60","doi-asserted-by":"crossref","unstructured":"Hafidi, M.E., Buelna-Chontal, M., S\u00e1nchez-Mu\u00f1oz, F., and Carb\u00f3, R. (2019). Adipogenesis: A Necessary but Harmful Strategy. Int. J. Mol. Sci., 20.","DOI":"10.3390\/ijms20153657"},{"key":"ref_61","doi-asserted-by":"crossref","first-page":"e13732","DOI":"10.14814\/phy2.13732","article-title":"Butyrate Regulates Inflammatory Cytokine Expression without Affecting Oxidative Respiration in Primary Astrocytes from Spontaneously Hypertensive Rats","volume":"6","author":"Yang","year":"2018","journal-title":"Physiol. Rep."},{"key":"ref_62","doi-asserted-by":"crossref","first-page":"1829","DOI":"10.1038\/ncomms2852","article-title":"The Gut Microbiota Suppresses Insulin-Mediated Fat Accumulation via the Short-Chain Fatty Acid Receptor GPR43","volume":"4","author":"Kimura","year":"2013","journal-title":"Nat. Commun."},{"key":"ref_63","doi-asserted-by":"crossref","first-page":"1332","DOI":"10.1016\/j.cell.2016.05.041","article-title":"From Dietary Fiber to Host Physiology: Short-Chain Fatty Acids as Key Bacterial Metabolites","volume":"165","author":"Koh","year":"2016","journal-title":"Cell"},{"key":"ref_64","doi-asserted-by":"crossref","first-page":"3294","DOI":"10.1038\/s41467-018-05470-4","article-title":"Microbial Tryptophan Catabolites in Health and Disease","volume":"9","author":"Roager","year":"2018","journal-title":"Nat. Commun."},{"key":"ref_65","doi-asserted-by":"crossref","first-page":"737","DOI":"10.1016\/j.cmet.2018.07.001","article-title":"Impaired Aryl Hydrocarbon Receptor Ligand Production by the Gut Microbiota Is a Key Factor in Metabolic Syndrome","volume":"28","author":"Natividad","year":"2018","journal-title":"Cell Metab."},{"key":"ref_66","doi-asserted-by":"crossref","first-page":"426","DOI":"10.1111\/j.1574-6976.2009.00204.x","article-title":"Indole as an Intercellular Signal in Microbial Communities","volume":"34","author":"Lee","year":"2010","journal-title":"FEMS Microbiol. Rev."},{"key":"ref_67","doi-asserted-by":"crossref","first-page":"806","DOI":"10.1126\/science.aah5825","article-title":"Lactobacillus reuteri Induces Gut Intraepithelial CD4+ CD8\u03b1\u03b1+ T Cells","volume":"357","author":"Chai","year":"2017","journal-title":"Science"},{"key":"ref_68","doi-asserted-by":"crossref","first-page":"311","DOI":"10.1016\/j.cmet.2009.02.002","article-title":"A Branched-Chain Amino Acid-Related Metabolic Signature That Differentiates Obese and Lean Humans and Contributes to Insulin Resistance","volume":"9","author":"Newgard","year":"2009","journal-title":"Cell Metab."},{"key":"ref_69","doi-asserted-by":"crossref","unstructured":"Dai, Z.-L. (2011). Amino Acid Metabolism in Intestinal Bacteria: Links between Gut Ecology and Host Health. Front. Biosci., 16.","DOI":"10.2741\/3820"},{"key":"ref_70","doi-asserted-by":"crossref","first-page":"70","DOI":"10.1186\/s13059-017-1194-2","article-title":"Relationships between Gut Microbiota, Plasma Metabolites, and Metabolic Syndrome Traits in the METSIM Cohort","volume":"18","author":"Org","year":"2017","journal-title":"Genome Biol."},{"key":"ref_71","doi-asserted-by":"crossref","unstructured":"Gojda, J., and Cahova, M. (2021). Gut Microbiota as the Link between Elevated BCAA Serum Levels and Insulin Resistance. Biomolecules, 11.","DOI":"10.3390\/biom11101414"},{"key":"ref_72","doi-asserted-by":"crossref","first-page":"102827","DOI":"10.1016\/j.autrev.2021.102827","article-title":"Gut Microbiota\u2013MicroRNA Interactions in Ankylosing Spondylitis","volume":"20","author":"Tavasolian","year":"2021","journal-title":"Autoimmun. Rev."},{"key":"ref_73","doi-asserted-by":"crossref","first-page":"489","DOI":"10.1038\/s41586-019-1411-0","article-title":"Advances in Epigenetics Link Genetics to the Environment and Disease","volume":"571","author":"Cavalli","year":"2019","journal-title":"Nature"},{"key":"ref_74","doi-asserted-by":"crossref","first-page":"205","DOI":"10.1080\/15592294.2016.1155011","article-title":"Epigenome-Microbiome Crosstalk: A Potential New Paradigm Influencing Neonatal Susceptibility to Disease","volume":"11","author":"Cortese","year":"2016","journal-title":"Epigenetics"},{"key":"ref_75","doi-asserted-by":"crossref","first-page":"610","DOI":"10.1038\/s41564-019-0659-3","article-title":"The Microbiota Programs DNA Methylation to Control Intestinal Homeostasis and Inflammation","volume":"5","author":"Ansari","year":"2020","journal-title":"Nat. Microbiol."},{"key":"ref_76","doi-asserted-by":"crossref","first-page":"3961","DOI":"10.1080\/10408398.2022.2137776","article-title":"Beneficial Effects of Butyrate on Brain Functions: A View of Epigenetic","volume":"64","author":"Alpino","year":"2024","journal-title":"Crit. Rev. Food Sci. Nutr."},{"key":"ref_77","first-page":"1","article-title":"A Role for Folate in Microbiome-Linked Control of Autoimmunity","volume":"2021","author":"Wilson","year":"2021","journal-title":"J. Immunol. Res."},{"key":"ref_78","doi-asserted-by":"crossref","first-page":"7","DOI":"10.1016\/j.cca.2020.11.013","article-title":"Epigenetic Factors in Atherosclerosis: DNA Methylation, Folic Acid Metabolism, and Intestinal Microbiota","volume":"512","author":"Hou","year":"2021","journal-title":"Clin. Chim. Acta"},{"key":"ref_79","doi-asserted-by":"crossref","first-page":"4792","DOI":"10.1038\/s41467-024-48794-0","article-title":"Microbiota Regulates the TET1-Mediated DNA Hydroxymethylation Program in Innate Lymphoid Cell Differentiation","volume":"15","author":"Zhang","year":"2024","journal-title":"Nat. Commun."},{"key":"ref_80","doi-asserted-by":"crossref","first-page":"97","DOI":"10.1016\/j.mib.2020.08.005","article-title":"Epigenome-Metabolome-Microbiome Axis in Health and IBD","volume":"56","author":"Amatullah","year":"2020","journal-title":"Curr. Opin. Microbiol."},{"key":"ref_81","doi-asserted-by":"crossref","first-page":"111809","DOI":"10.1016\/j.celrep.2022.111809","article-title":"Stable Isotope Tracing in Vivo Reveals a Metabolic Bridge Linking the Microbiota to Host Histone Acetylation","volume":"41","author":"Lund","year":"2022","journal-title":"Cell Rep."},{"key":"ref_82","doi-asserted-by":"crossref","first-page":"319","DOI":"10.1016\/j.immuni.2024.01.002","article-title":"Microbiota-Derived Butyrate Restricts Tuft Cell Differentiation via Histone Deacetylase 3 to Modulate Intestinal Type 2 Immunity","volume":"57","author":"Eshleman","year":"2024","journal-title":"Immunity"},{"key":"ref_83","doi-asserted-by":"crossref","first-page":"582","DOI":"10.1038\/s41419-021-03880-9","article-title":"Effects of Short-Chain Fatty Acids in Inhibiting HDAC and Activating P38 MAPK Are Critical for Promoting B10 Cell Generation and Function","volume":"12","author":"Zou","year":"2021","journal-title":"Cell Death Dis."},{"key":"ref_84","doi-asserted-by":"crossref","first-page":"77","DOI":"10.1016\/j.cell.2014.03.008","article-title":"The Noncoding RNA Revolution\u2014Trashing Old Rules to Forge New Ones","volume":"157","author":"Cech","year":"2014","journal-title":"Cell"},{"key":"ref_85","doi-asserted-by":"crossref","unstructured":"Dalmasso, G., Nguyen, H.T.T., Yan, Y., Laroui, H., Charania, M.A., Ayyadurai, S., Sitaraman, S.V., and Merlin, D. (2011). Microbiota Modulate Host Gene Expression via MicroRNAs. PLoS ONE, 6.","DOI":"10.1371\/journal.pone.0019293"},{"key":"ref_86","doi-asserted-by":"crossref","first-page":"25","DOI":"10.1016\/j.tem.2019.08.013","article-title":"Intersection of the Gut Microbiome and Circadian Rhythms in Metabolism","volume":"31","author":"Frazier","year":"2020","journal-title":"Trends Endocrinol. Metab."},{"key":"ref_87","doi-asserted-by":"crossref","unstructured":"Zhen, Y., Ge, L., Xu, Q., Hu, L., Wei, W., Huang, J., Loor, J.J., Yang, Q., Wang, M., and Zhou, P. (2022). Normal Light-Dark and Short-Light Cycles Regulate Intestinal Inflammation, Circulating Short-Chain Fatty Acids and Gut Microbiota in Period2 Gene Knockout Mice. Front. Immunol., 13.","DOI":"10.3389\/fimmu.2022.848248"},{"key":"ref_88","doi-asserted-by":"crossref","first-page":"514","DOI":"10.1016\/j.cell.2014.09.048","article-title":"Transkingdom Control of Microbiota Diurnal Oscillations Promotes Metabolic Homeostasis","volume":"159","author":"Thaiss","year":"2014","journal-title":"Cell"},{"key":"ref_89","doi-asserted-by":"crossref","first-page":"448","DOI":"10.1016\/j.cmet.2020.02.008","article-title":"When Rhythms Meet the Blues: Circadian Interactions with the Microbiota-Gut-Brain Axis","volume":"31","author":"Teichman","year":"2020","journal-title":"Cell Metab."},{"key":"ref_90","doi-asserted-by":"crossref","first-page":"254","DOI":"10.1056\/NEJMra1514009","article-title":"Mechanisms, Pathophysiology, and Management of Obesity","volume":"376","author":"Heymsfield","year":"2017","journal-title":"N. Engl. J. Med."},{"key":"ref_91","doi-asserted-by":"crossref","first-page":"11070","DOI":"10.1073\/pnas.0504978102","article-title":"Obesity Alters Gut Microbial Ecology","volume":"102","author":"Ley","year":"2005","journal-title":"Proc. Natl. Acad. Sci. USA"},{"key":"ref_92","doi-asserted-by":"crossref","first-page":"2361","DOI":"10.1021\/pr8009885","article-title":"Top-Down Systems Biology Modeling of Host Metabotype\u2212Microbiome Associations in Obese Rodents","volume":"8","author":"Waldram","year":"2009","journal-title":"J. Proteome Res."},{"key":"ref_93","doi-asserted-by":"crossref","first-page":"1251","DOI":"10.1038\/s41430-020-0607-6","article-title":"Profile of the Gut Microbiota of Adults with Obesity: A Systematic Review","volume":"74","author":"Crovesy","year":"2020","journal-title":"Eur. J. Clin. Nutr."},{"key":"ref_94","doi-asserted-by":"crossref","unstructured":"Stojanov, S., Berlec, A., and \u0160trukelj, B. (2020). The Influence of Probiotics on the Firmicutes\/Bacteroidetes Ratio in the Treatment of Obesity and Inflammatory Bowel Disease. Microorganisms, 8.","DOI":"10.3390\/microorganisms8111715"},{"key":"ref_95","doi-asserted-by":"crossref","first-page":"3462092","DOI":"10.1155\/2018\/3462092","article-title":"Obesity-Linked Gut Microbiome Dysbiosis Associated with Derangements in Gut Permeability and Intestinal Cellular Homeostasis Independent of Diet","volume":"2018","author":"Nagpal","year":"2018","journal-title":"J. Diabetes Res."},{"key":"ref_96","doi-asserted-by":"crossref","first-page":"252","DOI":"10.1016\/j.chom.2019.07.004","article-title":"Obese Individuals with and without Type 2 Diabetes Show Different Gut Microbial Functional Capacity and Composition","volume":"26","author":"Thingholm","year":"2019","journal-title":"Cell Host Microbe"},{"key":"ref_97","doi-asserted-by":"crossref","first-page":"e2118811","DOI":"10.1001\/jamanetworkopen.2021.18811","article-title":"Association of Insulin Resistance and Type 2 Diabetes With Gut Microbial Diversity","volume":"4","author":"Chen","year":"2021","journal-title":"JAMA Netw. Open"},{"key":"ref_98","doi-asserted-by":"crossref","first-page":"379","DOI":"10.1016\/j.cmet.2020.06.011","article-title":"The Gut Microbiota in Prediabetes and Diabetes: A Population-Based Cross-Sectional Study","volume":"32","author":"Wu","year":"2020","journal-title":"Cell Metab."},{"key":"ref_99","doi-asserted-by":"crossref","first-page":"2265","DOI":"10.1038\/s41591-024-03067-7","article-title":"Strain-Specific Gut Microbial Signatures in Type 2 Diabetes Identified in a Cross-Cohort Analysis of 8117 Metagenomes","volume":"30","author":"Mei","year":"2024","journal-title":"Nat. Med."},{"key":"ref_100","doi-asserted-by":"crossref","unstructured":"Wu, X., and Park, S. (2022). Fecal Bacterial Community and Metagenome Function in Asians with Type 2 Diabetes, According to Enterotypes. Biomedicines, 10.","DOI":"10.3390\/biomedicines10112998"},{"key":"ref_101","doi-asserted-by":"crossref","unstructured":"Park, S., Zhang, T., and Kang, S. (2023). Fecal Microbiota Composition, Their Interactions, and Metagenome Function in US Adults with Type 2 Diabetes According to Enterotypes. Int. J. Mol. Sci., 24.","DOI":"10.3390\/ijms24119533"},{"key":"ref_102","doi-asserted-by":"crossref","unstructured":"Barone, M., Garelli, S., Rampelli, S., Agostini, A., Matysik, S., D\u2019Amico, F., Krautbauer, S., Mazza, R., Salituro, N., and Fanelli, F. (2022). Multi-Omics Gut Microbiome Signatures in Obese Women: Role of Diet and Uncontrolled Eating Behavior. BMC Med., 20.","DOI":"10.1186\/s12916-022-02689-3"},{"key":"ref_103","doi-asserted-by":"crossref","first-page":"210","DOI":"10.14715\/cmb\/2021.67.5.29","article-title":"Effects of Endoplasmic Reticulum Stress, Liver Function, Insulin Resistance and Vascular Endothelial Function in Patients with Nonalcoholic Fatty Liver Disease","volume":"67","author":"Zheng","year":"2022","journal-title":"Cell. Mol. Biol."},{"key":"ref_104","first-page":"1","article-title":"Sodium Butyrate Reduces High-Fat Diet-Induced Non-Alcoholic Steatohepatitis through Upregulation of Hepatic GLP-1R Expression","volume":"50","author":"Zhou","year":"2018","journal-title":"Exp. Mol. Med."},{"key":"ref_105","doi-asserted-by":"crossref","unstructured":"Park, J., Kotani, T., Konno, T., Setiawan, J., Kitamura, Y., Imada, S., Usui, Y., Hatano, N., Shinohara, M., and Saito, Y. (2016). Promotion of Intestinal Epithelial Cell Turnover by Commensal Bacteria: Role of Short-Chain Fatty Acids. PLoS ONE, 11.","DOI":"10.1371\/journal.pone.0156334"},{"key":"ref_106","doi-asserted-by":"crossref","first-page":"2360","DOI":"10.1038\/s41598-017-02546-x","article-title":"Colonic Infusions of Short-Chain Fatty Acid Mixtures Promote Energy Metabolism in Overweight\/Obese Men: A Randomized Crossover Trial","volume":"7","author":"Canfora","year":"2017","journal-title":"Sci. Rep."},{"key":"ref_107","doi-asserted-by":"crossref","first-page":"2317","DOI":"10.1007\/s00394-020-02431-w","article-title":"A Bridge for Short-Chain Fatty Acids to Affect Inflammatory Bowel Disease, Type 1 Diabetes, and Non-Alcoholic Fatty Liver Disease Positively: By Changing Gut Barrier","volume":"60","author":"Liu","year":"2021","journal-title":"Eur. J. Nutr."},{"key":"ref_108","doi-asserted-by":"crossref","first-page":"1","DOI":"10.1016\/j.bbrc.2022.01.060","article-title":"Changes of Flavin-Containing Monooxygenases and Trimethylamine-N-Oxide May Be Involved in the Promotion of Non-Alcoholic Fatty Liver Disease by Intestinal Microbiota Metabolite Trimethylamine","volume":"594","author":"Shi","year":"2022","journal-title":"Biochem. Biophys. Res. Commun."},{"key":"ref_109","doi-asserted-by":"crossref","first-page":"112094","DOI":"10.1016\/j.biopha.2021.112094","article-title":"Gut Microbiota as the Critical Correlation of Polycystic Ovary Syndrome and Type 2 Diabetes Mellitus","volume":"142","author":"Duan","year":"2021","journal-title":"Biomed. Pharmacother."},{"key":"ref_110","doi-asserted-by":"crossref","unstructured":"Lin, W., Wen, L., Wen, J., and Xiang, G. (2021). Effects of Sleeve Gastrectomy on Fecal Gut Microbiota and Short-Chain Fatty Acid Content in a Rat Model of Polycystic Ovary Syndrome. Front. Endocrinol., 12.","DOI":"10.3389\/fendo.2021.747888"},{"key":"ref_111","doi-asserted-by":"crossref","unstructured":"Lindheim, L., Bashir, M., M\u00fcnzker, J., Trummer, C., Zachhuber, V., Leber, B., Horvath, A., Pieber, T.R., Gorkiewicz, G., and Stadlbauer, V. (2017). Alterations in Gut Microbiome Composition and Barrier Function Are Associated with Reproductive and Metabolic Defects in Women with Polycystic Ovary Syndrome (PCOS): A Pilot Study. PLoS ONE, 12.","DOI":"10.1371\/journal.pone.0168390"},{"key":"ref_112","doi-asserted-by":"crossref","first-page":"63","DOI":"10.1530\/EC-19-0522","article-title":"Characteristic Gut Microbiota and Predicted Metabolic Functions in Women with PCOS","volume":"9","author":"Zhou","year":"2020","journal-title":"Endocr. Connect."},{"key":"ref_113","doi-asserted-by":"crossref","first-page":"43","DOI":"10.1016\/j.resmic.2018.09.002","article-title":"Structural and Functional Profiles of the Gut Microbial Community in Polycystic Ovary Syndrome with Insulin Resistance (IR-PCOS): A Pilot Study","volume":"170","author":"Zeng","year":"2019","journal-title":"Res. Microbiol."},{"key":"ref_114","doi-asserted-by":"crossref","unstructured":"Szukiewicz, D., Trojanowski, S., Kociszewska, A., and Szewczyk, G. (2022). Modulation of the Inflammatory Response in Polycystic Ovary Syndrome (PCOS)\u2014Searching for Epigenetic Factors. Int. J. Mol. Sci., 23.","DOI":"10.3390\/ijms232314663"},{"key":"ref_115","doi-asserted-by":"crossref","first-page":"216","DOI":"10.1038\/s41392-022-01073-0","article-title":"Trends in Insulin Resistance: Insights into Mechanisms and Therapeutic Strategy","volume":"7","author":"Li","year":"2022","journal-title":"Signal Transduct. Target. Ther."},{"key":"ref_116","doi-asserted-by":"crossref","first-page":"1727","DOI":"10.1007\/s40618-020-01481-5","article-title":"Gut Microbiota Alterations Reveal Potential Gut\u2013Brain Axis Changes in Polycystic Ovary Syndrome","volume":"44","author":"Liang","year":"2021","journal-title":"J. Endocrinol. Investig."},{"key":"ref_117","doi-asserted-by":"crossref","first-page":"59","DOI":"10.1111\/cns.14077","article-title":"The Gut Microbiota-astrocyte Axis: Implications for Type 2 Diabetic Cognitive Dysfunction","volume":"29","author":"Li","year":"2023","journal-title":"CNS Neurosci. Ther."},{"key":"ref_118","doi-asserted-by":"crossref","first-page":"161","DOI":"10.1055\/a-1081-2036","article-title":"Exploration of the Relationship Between Gut Microbiota and Polycystic Ovary Syndrome (PCOS): A Review","volume":"80","author":"Zhao","year":"2020","journal-title":"Geburtshilfe Frauenheilkd."},{"key":"ref_119","doi-asserted-by":"crossref","first-page":"e2151","DOI":"10.1210\/clinem\/dgab028","article-title":"Changes in Ghrelin and Glucagon Following a Low Glycemic Load Diet in Women with PCOS","volume":"106","author":"Hoover","year":"2021","journal-title":"J. Clin. Endocrinol. Metab."},{"key":"ref_120","doi-asserted-by":"crossref","first-page":"12","DOI":"10.1007\/s11906-018-0812-z","article-title":"The Global Epidemic of the Metabolic Syndrome","volume":"20","author":"Saklayen","year":"2018","journal-title":"Curr. Hypertens. Rep."},{"key":"ref_121","doi-asserted-by":"crossref","first-page":"997","DOI":"10.1016\/j.tim.2019.08.001","article-title":"The Gut Microbiota in the First Decade of Life","volume":"27","author":"Derrien","year":"2019","journal-title":"Trends Microbiol."},{"key":"ref_122","doi-asserted-by":"crossref","first-page":"e20171603","DOI":"10.1542\/peds.2017-1603","article-title":"The Metabolic Syndrome in Children and Adolescents: Shifting the Focus to Cardiometabolic Risk Factor Clustering","volume":"140","author":"Magge","year":"2017","journal-title":"Pediatrics"},{"key":"ref_123","doi-asserted-by":"crossref","unstructured":"Liu, Y., Qin, S., Song, Y., Feng, Y., Lv, N., Xue, Y., Liu, F., Wang, S., Zhu, B., and Ma, J. (2019). The Perturbation of Infant Gut Microbiota Caused by Cesarean Delivery Is Partially Restored by Exclusive Breastfeeding. Front. Microbiol., 10.","DOI":"10.3389\/fmicb.2019.00598"},{"key":"ref_124","doi-asserted-by":"crossref","first-page":"2","DOI":"10.1186\/s40168-018-0608-z","article-title":"Impact of Early Events and Lifestyle on the Gut Microbiota and Metabolic Phenotypes in Young School-Age Children","volume":"7","author":"Zhong","year":"2019","journal-title":"Microbiome"},{"key":"ref_125","doi-asserted-by":"crossref","first-page":"36","DOI":"10.1186\/s40168-015-0101-x","article-title":"Structure and Function of the Healthy Pre-Adolescent Pediatric Gut Microbiome","volume":"3","author":"Hollister","year":"2015","journal-title":"Microbiome"},{"key":"ref_126","doi-asserted-by":"crossref","unstructured":"Hug, H., Mohajeri, M., and La Fata, G. (2018). Toll-Like Receptors: Regulators of the Immune Response in the Human Gut. Nutrients, 10.","DOI":"10.3390\/nu10020203"},{"key":"ref_127","doi-asserted-by":"crossref","unstructured":"Gazouli, M., and Theodoropoulos, G. (2021). Gut Microbiome-Related Diseases and Therapies, Springer International Publishing.","DOI":"10.1007\/978-3-030-59642-2"},{"key":"ref_128","doi-asserted-by":"crossref","unstructured":"Han, Z., Min, Y., Pang, K., and Wu, D. (2023). Therapeutic Approach Targeting Gut Microbiome in Gastrointestinal Infectious Diseases. Int. J. Mol. Sci., 24.","DOI":"10.3390\/ijms242115654"},{"key":"ref_129","doi-asserted-by":"crossref","unstructured":"Bakhti, S.Z., and Latifi-Navid, S. (2021). Interplay and Cooperation of Helicobacter pylori and Gut Microbiota in Gastric Carcinogenesis. BMC Microbiol., 21.","DOI":"10.1186\/s12866-021-02315-x"},{"key":"ref_130","doi-asserted-by":"crossref","first-page":"41","DOI":"10.1186\/s13027-021-00381-4","article-title":"Association between Colorectal Cancer and Fusobacterium Nucleatum and Bacteroides Fragilis Bacteria in Iranian Patients: A Preliminary Study","volume":"16","author":"Shariati","year":"2021","journal-title":"Infect. Agent. Cancer"},{"key":"ref_131","doi-asserted-by":"crossref","unstructured":"Xu, Y., Wang, N., Tan, H.-Y., Li, S., Zhang, C., and Feng, Y. (2020). Function of Akkermansia Muciniphila in Obesity: Interactions With Lipid Metabolism, Immune Response and Gut Systems. Front. Microbiol., 11.","DOI":"10.3389\/fmicb.2020.00219"},{"key":"ref_132","doi-asserted-by":"crossref","first-page":"3369","DOI":"10.1007\/s00394-020-02324-y","article-title":"Role of the Gut Microbiota in the Pathogenesis of Coeliac Disease and Potential Therapeutic Implications","volume":"59","author":"Akobeng","year":"2020","journal-title":"Eur. J. Nutr."},{"key":"ref_133","doi-asserted-by":"crossref","first-page":"6","DOI":"10.1186\/s13099-020-0346-1","article-title":"Gut Microbiota Changes in Children with Autism Spectrum Disorder: A Systematic Review","volume":"12","author":"Ho","year":"2020","journal-title":"Gut Pathog."},{"key":"ref_134","doi-asserted-by":"crossref","first-page":"36","DOI":"10.1186\/s40168-020-00821-0","article-title":"Gut Microbiota and Cardiovascular Disease: Opportunities and Challenges","volume":"8","author":"Kazemian","year":"2020","journal-title":"Microbiome"},{"key":"ref_135","doi-asserted-by":"crossref","unstructured":"Guo, M., Wu, F., Hao, G., Qi, Q., Li, R., Li, N., Wei, L., and Chai, T. (2017). Bacillus Subtilis Improves Immunity and Disease Resistance in Rabbits. Front. Immunol., 8.","DOI":"10.3389\/fimmu.2017.00354"},{"key":"ref_136","doi-asserted-by":"crossref","first-page":"798","DOI":"10.1039\/C8BM01572D","article-title":"Engineering Release Kinetics with Polyelectrolyte Multilayers to Modulate TLR Signaling and Promote Immune Tolerance","volume":"7","author":"Tostanoski","year":"2019","journal-title":"Biomater. Sci."},{"key":"ref_137","doi-asserted-by":"crossref","first-page":"121","DOI":"10.1146\/annurev-immunol-032713-120216","article-title":"\u03b3\u03b4T Cells: First Line of Defense and Beyond","volume":"32","author":"Chien","year":"2014","journal-title":"Annu. Rev. Immunol."},{"key":"ref_138","doi-asserted-by":"crossref","first-page":"492","DOI":"10.1038\/s41422-020-0332-7","article-title":"Interaction between Microbiota and Immunity in Health and Disease","volume":"30","author":"Zheng","year":"2020","journal-title":"Cell Res."},{"key":"ref_139","doi-asserted-by":"crossref","first-page":"821","DOI":"10.1080\/17474124.2017.1343143","article-title":"The Intestinal Barrier: A Fundamental Role in Health and Disease","volume":"11","author":"Vancamelbeke","year":"2017","journal-title":"Expert Rev. Gastroenterol. Hepatol."},{"key":"ref_140","doi-asserted-by":"crossref","first-page":"31","DOI":"10.1038\/mi.2007.9","article-title":"Terminology: Nomenclature of Mucosa-Associated Lymphoid Tissue","volume":"1","author":"Brandtzaeg","year":"2008","journal-title":"Mucosal Immunol."},{"key":"ref_141","doi-asserted-by":"crossref","first-page":"17729","DOI":"10.1073\/pnas.0509006102","article-title":"Endocrine Self and Gut Non-Self Intersect in the Pancreatic Lymph Nodes","volume":"102","author":"Turley","year":"2005","journal-title":"Proc. Natl. Acad. Sci. USA"},{"key":"ref_142","doi-asserted-by":"crossref","first-page":"574","DOI":"10.1016\/j.celrep.2014.12.053","article-title":"Cross-Differentiation from the CD8 Lineage to CD4 T Cells in the Gut-Associated Microenvironment with a Nonessential Role of Microbiota","volume":"10","author":"Lui","year":"2015","journal-title":"Cell Rep."},{"key":"ref_143","doi-asserted-by":"crossref","first-page":"1178","DOI":"10.7150\/ijbs.79430","article-title":"The Role of Gut Microbiota in T Cell Immunity and Immune Mediated Disorders","volume":"19","author":"Shim","year":"2023","journal-title":"Int. J. Biol. Sci."},{"key":"ref_144","doi-asserted-by":"crossref","first-page":"928","DOI":"10.1016\/j.cell.2017.01.022","article-title":"Mining the Human Gut Microbiota for Immunomodulatory Organisms","volume":"168","author":"Sefik","year":"2017","journal-title":"Cell"},{"key":"ref_145","doi-asserted-by":"crossref","first-page":"413","DOI":"10.1038\/s41586-021-03531-1","article-title":"Thymic Development of Gut-Microbiota-Specific T Cells","volume":"594","author":"Kim","year":"2021","journal-title":"Nature"},{"key":"ref_146","doi-asserted-by":"crossref","first-page":"161","DOI":"10.1016\/j.immuni.2011.07.010","article-title":"CD8+ T Cells: Foot Soldiers of the Immune System","volume":"35","author":"Zhang","year":"2011","journal-title":"Immunity"},{"key":"ref_147","doi-asserted-by":"crossref","first-page":"14516","DOI":"10.1038\/s41598-017-15099-w","article-title":"Butyrate and Propionate Inhibit Antigen-Specific CD8+ T Cell Activation by Suppressing IL-12 Production by Antigen-Presenting Cells","volume":"7","author":"Nastasi","year":"2017","journal-title":"Sci. Rep."},{"key":"ref_148","doi-asserted-by":"crossref","first-page":"4077","DOI":"10.1038\/s41467-021-24331-1","article-title":"Microbial Short-Chain Fatty Acids Modulate CD8+ T Cell Responses and Improve Adoptive Immunotherapy for Cancer","volume":"12","author":"Luu","year":"2021","journal-title":"Nat. Commun."},{"key":"ref_149","first-page":"471","article-title":"The Response of the Lymphatic Tissue to the Microbial Flora. Studies on Germfree Mice","volume":"42","author":"Bauer","year":"1963","journal-title":"Am. J. Pathol."},{"key":"ref_150","first-page":"32","article-title":"Expansion of Axf T-Cell Receptor-Bearing Intestinal Intraepithelial Lymphocytes after Microbial Colonization in Germ-Free Mice and Its Independence from Thymus","volume":"79","author":"Umesaki","year":"1993","journal-title":"Immunology"},{"key":"ref_151","doi-asserted-by":"crossref","first-page":"1705","DOI":"10.1126\/science.1188454","article-title":"Reversible Microbial Colonization of Germ-Free Mice Reveals the Dynamics of IgA Immune Responses","volume":"328","author":"Hapfelmeier","year":"2010","journal-title":"Science"},{"key":"ref_152","doi-asserted-by":"crossref","first-page":"527","DOI":"10.1038\/s41590-019-0368-3","article-title":"Innate Immunity to Intracellular LPS","volume":"20","author":"Rathinam","year":"2019","journal-title":"Nat. Immunol."},{"key":"ref_153","doi-asserted-by":"crossref","first-page":"19","DOI":"10.1186\/s13020-021-00562-8","article-title":"Combination of Pseudoephedrine and Emodin Ameliorates LPS-Induced Acute Lung Injury by Regulating Macrophage M1\/M2 Polarization through the VIP\/CAMP\/PKA Pathway","volume":"17","author":"Wang","year":"2022","journal-title":"Chin. Med."},{"key":"ref_154","doi-asserted-by":"crossref","first-page":"147","DOI":"10.1002\/JLB.3MIR1218-483RR","article-title":"Below the Surface: The Inner Lives of TLR4 and TLR9","volume":"106","author":"Marongiu","year":"2019","journal-title":"J. Leukoc. Biol."},{"key":"ref_155","doi-asserted-by":"crossref","first-page":"177","DOI":"10.1038\/nature21363","article-title":"Inflammation, Metaflammation and Immunometabolic Disorders","volume":"542","author":"Hotamisligil","year":"2017","journal-title":"Nature"},{"key":"ref_156","doi-asserted-by":"crossref","first-page":"100","DOI":"10.1016\/j.cyto.2016.06.028","article-title":"Adiponectin, TNF-\u03b1 and Inflammatory Cytokines and Risk of Type 2 Diabetes: A Systematic Review and Meta-Analysis","volume":"86","author":"Liu","year":"2016","journal-title":"Cytokine"},{"key":"ref_157","doi-asserted-by":"crossref","first-page":"663","DOI":"10.1038\/s41586-019-1236-x","article-title":"Longitudinal Multi-Omics of Host\u2013Microbe Dynamics in Prediabetes","volume":"569","author":"Zhou","year":"2019","journal-title":"Nature"},{"key":"ref_158","doi-asserted-by":"crossref","first-page":"5711","DOI":"10.1038\/s41467-019-13751-9","article-title":"Obesity and Disease Severity Magnify Disturbed Microbiome-Immune Interactions in Asthma Patients","volume":"10","author":"Michalovich","year":"2019","journal-title":"Nat. Commun."},{"key":"ref_159","doi-asserted-by":"crossref","first-page":"69","DOI":"10.1038\/s41574-018-0143-9","article-title":"Microbiota and Metabolites in Metabolic Diseases","volume":"15","author":"Cani","year":"2019","journal-title":"Nat. Rev. Endocrinol."},{"key":"ref_160","doi-asserted-by":"crossref","first-page":"947","DOI":"10.1016\/j.cell.2018.09.055","article-title":"Microbially Produced Imidazole Propionate Impairs Insulin Signaling through MTORC1","volume":"175","author":"Koh","year":"2018","journal-title":"Cell"},{"key":"ref_161","doi-asserted-by":"crossref","unstructured":"Salas-Jara, M., Ilabaca, A., Vega, M., and Garc\u00eda, A. (2016). Biofilm Forming Lactobacillus: New Challenges for the Development of Probiotics. Microorganisms, 4.","DOI":"10.3390\/microorganisms4030035"},{"key":"ref_162","doi-asserted-by":"crossref","first-page":"479","DOI":"10.1080\/1040841X.2021.1902940","article-title":"Next-Generation Probiotics: A Promising Approach towards Designing Personalized Medicine","volume":"47","author":"Singh","year":"2021","journal-title":"Crit. Rev. Microbiol."},{"key":"ref_163","doi-asserted-by":"crossref","unstructured":"Mart\u00edn, R., and Langella, P. (2019). Emerging Health Concepts in the Probiotics Field: Streamlining the Definitions. Front. Microbiol., 10.","DOI":"10.3389\/fmicb.2019.01047"},{"key":"ref_164","doi-asserted-by":"crossref","first-page":"535","DOI":"10.1080\/01635581.2016.1158300","article-title":"The Potential Role of Probiotics in Cancer Prevention and Treatment","volume":"68","author":"Yu","year":"2016","journal-title":"Nutr. Cancer"},{"key":"ref_165","doi-asserted-by":"crossref","unstructured":"Drago, L. (2019). Probiotics and Colon Cancer. Microorganisms, 7.","DOI":"10.3390\/microorganisms7030066"},{"key":"ref_166","doi-asserted-by":"crossref","first-page":"2323","DOI":"10.1016\/j.ajpath.2017.06.011","article-title":"Gut Microbe\u2013Mediated Suppression of Inflammation-Associated Colon Carcinogenesis by Luminal Histamine Production","volume":"187","author":"Gao","year":"2017","journal-title":"Am. J. Pathol."},{"key":"ref_167","doi-asserted-by":"crossref","first-page":"361","DOI":"10.1099\/jmm.0.035154-0","article-title":"Effect of Lactobacillus Acidophilus KFRI342 on the Development of Chemically Induced Precancerous Growths in the Rat Colon","volume":"61","author":"Chang","year":"2012","journal-title":"J. Med. Microbiol."},{"key":"ref_168","doi-asserted-by":"crossref","unstructured":"Torres-Maravilla, E., Boucard, A.-S., Mohseni, A.H., Taghinezhad-S, S., Cortes-Perez, N.G., and Berm\u00fadez-Humar\u00e1n, L.G. (2021). Role of Gut Microbiota and Probiotics in Colorectal Cancer: Onset and Progression. Microorganisms, 9.","DOI":"10.3390\/microorganisms9051021"},{"key":"ref_169","doi-asserted-by":"crossref","unstructured":"Mazziotta, C., Tognon, M., Martini, F., Torreggiani, E., and Rotondo, J.C. (2023). Probiotics Mechanism of Action on Immune Cells and Beneficial Effects on Human Health. Cells, 12.","DOI":"10.3390\/cells12010184"},{"key":"ref_170","doi-asserted-by":"crossref","unstructured":"Mart\u00edn, R., Miquel, S., Chain, F., Natividad, J.M., Jury, J., Lu, J., Sokol, H., Theodorou, V., Bercik, P., and Verdu, E.F. (2015). Faecalibacterium Prausnitzii Prevents Physiological Damages in a Chronic Low-Grade Inflammation Murine Model. BMC Microbiol., 15.","DOI":"10.1186\/s12866-015-0400-1"},{"key":"ref_171","first-page":"1073","article-title":"Probiotics","volume":"78","author":"Kligler","year":"2008","journal-title":"Am. Fam. Physician"},{"key":"ref_172","doi-asserted-by":"crossref","unstructured":"Hijov\u00e1, E. (2023). Benefits of Biotics for Cardiovascular Diseases. Int. J. Mol. Sci., 24.","DOI":"10.3390\/ijms24076292"},{"key":"ref_173","doi-asserted-by":"crossref","first-page":"615","DOI":"10.1016\/j.jfda.2018.12.011","article-title":"Next Generation Probiotics in Disease Amelioration","volume":"27","author":"Chang","year":"2019","journal-title":"J. Food Drug Anal."},{"key":"ref_174","doi-asserted-by":"crossref","first-page":"7903","DOI":"10.1038\/s41467-022-35580-z","article-title":"Design of a Self-Driven Probiotic-CRISPR\/Cas9 Nanosystem for Sono-Immunometabolic Cancer Therapy","volume":"13","author":"Yu","year":"2022","journal-title":"Nat. Commun."},{"key":"ref_175","doi-asserted-by":"crossref","first-page":"144","DOI":"10.1111\/hel.12105","article-title":"Anti-inflammatory Properties of Gastric-derived Lactobacillus plantarum XB7 in the Context of Helicobacter pylori Infection","volume":"19","author":"Thiraworawong","year":"2014","journal-title":"Helicobacter"},{"key":"ref_176","doi-asserted-by":"crossref","unstructured":"Palade, C.-M., Vulpoi, G.-A., Vulpoi, R.-A., Drug, V.L., Barboi, O.-B., and Ciocoiu, M. (2022). The Biotics Family: Current Knowledge and Future Perspectives in Metabolic Diseases. Life, 12.","DOI":"10.3390\/life12081263"},{"key":"ref_177","doi-asserted-by":"crossref","unstructured":"Mao, K., Gao, J., Wang, X., Li, X., Geng, S., Zhang, T., Sadiq, F.A., and Sang, Y. (2022). Bifidobacterium animalis Subsp. Lactis BB-12 Has Effect Against Obesity by Regulating Gut Microbiota in Two Phases in Human Microbiota-Associated Rats. Front. Nutr., 8.","DOI":"10.3389\/fnut.2021.811619"},{"key":"ref_178","doi-asserted-by":"crossref","unstructured":"Jiang, T., Li, Y., Li, L., Liang, T., Du, M., Yang, L., Yang, J., Yang, R., Zhao, H., and Chen, M. (2022). Bifidobacterium Longum 070103 Fermented Milk Improve Glucose and Lipid Metabolism Disorders by Regulating Gut Microbiota in Mice. Nutrients, 14.","DOI":"10.3390\/nu14194050"},{"key":"ref_179","doi-asserted-by":"crossref","first-page":"188","DOI":"10.1186\/s40168-022-01374-0","article-title":"Bifidobacterial Carbohydrate\/Nucleoside Metabolism Enhances Oxidative Phosphorylation in White Adipose Tissue to Protect against Diet-Induced Obesity","volume":"10","author":"Kim","year":"2022","journal-title":"Microbiome"},{"key":"ref_180","first-page":"100304","article-title":"Multi-Omic Analyses Identify Mucosa Bacteria and Fecal Metabolites Associated with Weight Loss after Fecal Microbiota Transplantation","volume":"3","author":"Zhang","year":"2022","journal-title":"Innovation"},{"key":"ref_181","doi-asserted-by":"crossref","first-page":"122","DOI":"10.1186\/s40168-024-01833-w","article-title":"Fecal Microbiota Transplantation Alters Gut Phage Communities in a Clinical Trial for Obesity","volume":"12","author":"Zuppi","year":"2024","journal-title":"Microbiome"},{"key":"ref_182","doi-asserted-by":"crossref","first-page":"1272","DOI":"10.1038\/s41591-021-01399-2","article-title":"Fecal Microbial Transplantation and Fiber Supplementation in Patients with Severe Obesity and Metabolic Syndrome: A Randomized Double-Blind, Placebo-Controlled Phase 2 Trial","volume":"27","author":"Mocanu","year":"2021","journal-title":"Nat. Med."},{"key":"ref_183","doi-asserted-by":"crossref","first-page":"611","DOI":"10.1016\/j.cmet.2017.09.008","article-title":"Improvement of Insulin Sensitivity after Lean Donor Feces in Metabolic Syndrome Is Driven by Baseline Intestinal Microbiota Composition","volume":"26","author":"Kootte","year":"2017","journal-title":"Cell Metab."},{"key":"ref_184","doi-asserted-by":"crossref","unstructured":"Piqu\u00e9, N., Berlanga, M., and Mi\u00f1ana-Galbis, D. (2019). Health Benefits of Heat-Killed (Tyndallized) Probiotics: An Overview. Int. J. Mol. Sci., 20.","DOI":"10.3390\/ijms20102534"},{"key":"ref_185","doi-asserted-by":"crossref","first-page":"649","DOI":"10.1038\/s41575-021-00440-6","article-title":"The International Scientific Association of Probiotics and Prebiotics (ISAPP) Consensus Statement on the Definition and Scope of Postbiotics","volume":"18","author":"Salminen","year":"2021","journal-title":"Nat. Rev. Gastroenterol. Hepatol."},{"key":"ref_186","doi-asserted-by":"crossref","unstructured":"Wegh, C.A.M., Geerlings, S.Y., Knol, J., Roeselers, G., and Belzer, C. (2019). Postbiotics and Their Potential Applications in Early Life Nutrition and Beyond. Int. J. Mol. Sci., 20.","DOI":"10.3390\/ijms20194673"},{"key":"ref_187","doi-asserted-by":"crossref","first-page":"155631","DOI":"10.1016\/j.cyto.2021.155631","article-title":"Lactobacillus Rhamnosus Postbiotic-Induced Immunomodulation as Safer Alternative to the Use of Live Bacteria","volume":"146","author":"Salva","year":"2021","journal-title":"Cytokine"},{"key":"ref_188","doi-asserted-by":"crossref","first-page":"805","DOI":"10.1111\/1751-7915.13769","article-title":"Lipoteichoic Acid from Bifidobacterium animalis Subsp. Lactis BPL1: A Novel Postbiotic That Reduces Fat Deposition via IGF-1 Pathway","volume":"15","author":"Balaguer","year":"2022","journal-title":"Microb. Biotechnol."},{"key":"ref_189","doi-asserted-by":"crossref","first-page":"1756308","DOI":"10.1155\/2018\/1756308","article-title":"Probiotic Cell-Free Supernatants Exhibited Anti-Inflammatory and Antioxidant Activity on Human Gut Epithelial Cells and Macrophages Stimulated with LPS","volume":"2018","author":"Sichetti","year":"2018","journal-title":"Evid.-Based Complement. Altern. Med."},{"key":"ref_190","doi-asserted-by":"crossref","first-page":"5243","DOI":"10.1007\/s00253-019-09844-6","article-title":"Lactic Acid Bacteria Isolated from Dairy Products as Potential Producers of Lipolytic, Proteolytic and Antibacterial Proteins","volume":"103","author":"Wang","year":"2019","journal-title":"Appl. Microbiol. Biotechnol."},{"key":"ref_191","doi-asserted-by":"crossref","first-page":"287","DOI":"10.1016\/j.jbiotec.2010.11.008","article-title":"Use of Superoxide Dismutase and Catalase Producing Lactic Acid Bacteria in TNBS Induced Crohn\u2019s Disease in Mice","volume":"151","author":"LeBlanc","year":"2011","journal-title":"J. Biotechnol."},{"key":"ref_192","doi-asserted-by":"crossref","first-page":"3221","DOI":"10.2147\/DDDT.S164559","article-title":"Lactobacilli with Superoxide Dismutase-like or Catalase Activity Are More Effective in Alleviating Inflammation in an Inflammatory Bowel Disease Mouse Model","volume":"12","author":"Heczko","year":"2018","journal-title":"Drug Des. Devel. Ther."},{"key":"ref_193","doi-asserted-by":"crossref","first-page":"76","DOI":"10.2174\/1568026615666150703121009","article-title":"Non-Membrane Permeabilizing Modes of Action of Antimicrobial Peptides on Bacteria","volume":"16","author":"Scocchi","year":"2015","journal-title":"Curr. Top. Med. Chem."},{"key":"ref_194","doi-asserted-by":"crossref","first-page":"1449","DOI":"10.1111\/jam.13033","article-title":"Biomedical Applications of Nisin","volume":"120","author":"Shin","year":"2016","journal-title":"J. Appl. Microbiol."},{"key":"ref_195","doi-asserted-by":"crossref","first-page":"333","DOI":"10.3920\/BM2017.0096","article-title":"Bacteriocin Biosynthesis Contributes to the Anti-Inflammatory Capacities of Probiotic Lactobacillus plantarum","volume":"9","author":"Yin","year":"2018","journal-title":"Benef. Microbes"},{"key":"ref_196","doi-asserted-by":"crossref","first-page":"1621","DOI":"10.1016\/S0002-8223(02)90346-9","article-title":"Dietary Reference Intakes for Energy, Carbohydrate, Fiber, Fat, Fatty Acids, Cholesterol, Protein and Amino Acids","volume":"102","author":"Trumbo","year":"2002","journal-title":"J. Am. Diet. Assoc."},{"key":"ref_197","first-page":"199","article-title":"Dietary Fiber and Obesity Management\u2014A Review","volume":"7","author":"Sarker","year":"2017","journal-title":"Adv. Obes. Weight Manag. Control"},{"key":"ref_198","first-page":"504","article-title":"Obesity and Obesity-Induced Inflammatory Disease Contribute to Atherosclerosis: A Review of the Pathophysiology and Treatment of Obesity","volume":"11","author":"Henning","year":"2021","journal-title":"Am. J. Cardiovasc. Dis."},{"key":"ref_199","doi-asserted-by":"crossref","first-page":"1415","DOI":"10.1093\/jn\/nxac038","article-title":"Consuming a Protein and Fiber-Based Supplement Preload Promotes Weight Loss and Alters Metabolic Markers in Overweight Adults in a 12-Week, Randomized, Double-Blind, Placebo-Controlled Trial","volume":"152","author":"Glynn","year":"2022","journal-title":"J. Nutr."},{"key":"ref_200","doi-asserted-by":"crossref","first-page":"467","DOI":"10.1038\/nrmicro2577","article-title":"Evolution and Classification of the CRISPR\u2013Cas Systems","volume":"9","author":"Makarova","year":"2011","journal-title":"Nat. Rev. Microbiol."},{"key":"ref_201","doi-asserted-by":"crossref","first-page":"213","DOI":"10.1136\/archdischild-2016-310459","article-title":"What Is CRISPR\/Cas9?","volume":"101","author":"Redman","year":"2016","journal-title":"Arch. Dis. Child. Educ. Pract. Ed."},{"key":"ref_202","doi-asserted-by":"crossref","first-page":"72","DOI":"10.1186\/s12934-022-01799-0","article-title":"Engineered Probiotics","volume":"21","author":"Ma","year":"2022","journal-title":"Microb. Cell Fact."},{"key":"ref_203","doi-asserted-by":"crossref","first-page":"106","DOI":"10.1016\/j.jconrel.2020.06.016","article-title":"Challenges & Opportunities for Phage-Based in Situ Microbiome Engineering in the Gut","volume":"326","author":"Voorhees","year":"2020","journal-title":"J. Control. Release"},{"key":"ref_204","doi-asserted-by":"crossref","first-page":"100196","DOI":"10.1016\/j.fochx.2021.100196","article-title":"Bioactive Peptides Produced by Engineered Probiotics and Other Food-Grade Bacteria: A Review","volume":"13","year":"2022","journal-title":"Food Chem. X"},{"key":"ref_205","doi-asserted-by":"crossref","first-page":"8081","DOI":"10.1021\/acs.nanolett.3c02061","article-title":"Deep Tumor Penetration of CRISPR-Cas System for Photothermal-Sensitized Immunotherapy via Probiotics","volume":"23","author":"Luo","year":"2023","journal-title":"Nano Lett."},{"key":"ref_206","doi-asserted-by":"crossref","first-page":"20180103","DOI":"10.1098\/rstb.2018.0103","article-title":"Editing the Microbiome the CRISPR Way","volume":"374","author":"Ramachandran","year":"2019","journal-title":"Philos. Trans. R. Soc. B Biol. Sci."},{"key":"ref_207","doi-asserted-by":"crossref","unstructured":"Liu, J. (2024). Editorial: Emerging Roles of the Gut Microbiota in the Pathogenesis of Metabolic Disorders, Volume II. Front. Endocrinol., 15.","DOI":"10.3389\/fendo.2024.1415705"},{"key":"ref_208","doi-asserted-by":"crossref","first-page":"408","DOI":"10.1016\/j.chom.2020.12.004","article-title":"A Microbial Metabolite Remodels the Gut-Liver Axis Following Bariatric Surgery","volume":"29","author":"Chaudhari","year":"2021","journal-title":"Cell Host Microbe"},{"key":"ref_209","doi-asserted-by":"crossref","first-page":"1606","DOI":"10.1016\/S0140-6736(09)61375-1","article-title":"Effects of Liraglutide in the Treatment of Obesity: A Randomised, Double-Blind, Placebo-Controlled Study","volume":"374","author":"Astrup","year":"2009","journal-title":"Lancet"},{"key":"ref_210","doi-asserted-by":"crossref","unstructured":"Zhao, Y., Zhong, X., Yan, J., Sun, C., Zhao, X., and Wang, X. (2022). Potential Roles of Gut Microbes in Biotransformation of Natural Products: An Overview. Front. Microbiol., 13.","DOI":"10.3389\/fmicb.2022.956378"},{"key":"ref_211","doi-asserted-by":"crossref","first-page":"156","DOI":"10.1016\/j.biochi.2019.03.006","article-title":"Primers on Nutrigenetics and Nutri(Epi)Genomics: Origins and Development of Precision Nutrition","volume":"160","author":"Bordoni","year":"2019","journal-title":"Biochimie"},{"key":"ref_212","doi-asserted-by":"crossref","unstructured":"Wallace, R.K. (2020). The Microbiome in Health and Disease from the Perspective of Modern Medicine and Ayurveda. Medicina, 56.","DOI":"10.3390\/medicina56090462"},{"key":"ref_213","doi-asserted-by":"crossref","first-page":"1","DOI":"10.21760\/jaims.10.5.1","article-title":"Ganer Charaka Samhita: The Timeless Gem of Ayurveda","volume":"10","author":"Umapati","year":"2025","journal-title":"J. Ayurveda Integr. Med. Sci."},{"key":"ref_214","doi-asserted-by":"crossref","unstructured":"Fiandaca, M.S., Mapstone, M., Connors, E., Jacobson, M., Monuki, E.S., Malik, S., Macciardi, F., and Federoff, H.J. (2017). Systems Healthcare: A Holistic Paradigm for Tomorrow. BMC Syst. Biol., 11.","DOI":"10.1186\/s12918-017-0521-2"},{"key":"ref_215","doi-asserted-by":"crossref","first-page":"15","DOI":"10.4103\/0975-9476.128848","article-title":"Prakriti and Its Associations with Metabolism, Chronic Diseases, and Genotypes: Possibilities of New Born Screening and a Lifetime of Personalized Prevention","volume":"5","author":"Dey","year":"2014","journal-title":"J. Ayurveda Integr. Med."},{"key":"ref_216","doi-asserted-by":"crossref","first-page":"396","DOI":"10.1093\/jlb\/lsv032","article-title":"Ensuring the safe and effective FDA regulation of fecal microbiota transplantation","volume":"2","author":"Sachs","year":"2015","journal-title":"J. Law Biosci."},{"key":"ref_217","doi-asserted-by":"crossref","first-page":"137","DOI":"10.5946\/ce.2019.009","article-title":"Fecal Microbiota Transplantation: An Update on Clinical Practice","volume":"52","author":"Kim","year":"2019","journal-title":"Clin. Endosc."},{"key":"ref_218","doi-asserted-by":"crossref","first-page":"360","DOI":"10.1016\/j.jaim.2020.05.013","article-title":"Prakriti Phenotypes as a Stratifier of Gut Microbiome: A New Frontier in Personalized Medicine?","volume":"11","author":"Jnana","year":"2020","journal-title":"J. Ayurveda Integr. Med."},{"key":"ref_219","first-page":"177","article-title":"Ancient Thali Diet: Gut Microbiota, Immunity, and Health","volume":"91","author":"Shondelmyer","year":"2018","journal-title":"Yale J. Biol. Med."},{"key":"ref_220","doi-asserted-by":"crossref","first-page":"54","DOI":"10.1007\/s12038-021-00182-2","article-title":"Exploring the Signature Gut and Oral Microbiome in Individuals of Specific Ayurveda Prakriti","volume":"46","author":"Shalini","year":"2021","journal-title":"J. Biosci."},{"key":"ref_221","doi-asserted-by":"crossref","unstructured":"Payyappallimana, U., and Venkatasubramanian, P. (2016). Exploring Ayurvedic Knowledge on Food and Health for Providing Innovative Solutions to Contemporary Healthcare. Front. Public Health, 4.","DOI":"10.3389\/fpubh.2016.00057"},{"key":"ref_222","doi-asserted-by":"crossref","first-page":"77","DOI":"10.1016\/j.chom.2017.11.007","article-title":"Bacteria Facilitate Enteric Virus Co-Infection of Mammalian Cells and Promote Genetic Recombination","volume":"23","author":"Erickson","year":"2018","journal-title":"Cell Host Microbe"},{"key":"ref_223","doi-asserted-by":"crossref","first-page":"92","DOI":"10.5005\/jras-10064-0083","article-title":"Clinical Efficacy and Safety of Brihat Gangadhara Churna in the Management of Irritable Bowel Syndrome","volume":"3","author":"Das","year":"2019","journal-title":"J. Res. Ayurvedic Sci."},{"key":"ref_224","doi-asserted-by":"crossref","first-page":"2","DOI":"10.1186\/s42779-021-00078-4","article-title":"Adopting Seasonal Regimen (Ritucharya) to Modulate the Seasonal Variation in Gut Microbiome","volume":"8","author":"Deepthi","year":"2021","journal-title":"J. Ethn. Foods"},{"key":"ref_225","doi-asserted-by":"crossref","first-page":"368","DOI":"10.1017\/S0029665113003753","article-title":"Seasonality and Dietary Requirements: Will Eating Seasonal Food Contribute to Health and Environmental Sustainability?","volume":"73","author":"Macdiarmid","year":"2014","journal-title":"Proc. Nutr. Soc."},{"key":"ref_226","doi-asserted-by":"crossref","first-page":"100374","DOI":"10.1016\/j.jaim.2020.11.004","article-title":"Network Pharmacology of AYUSH Recommended Immune-Boosting Medicinal Plants against COVID-19","volume":"13","author":"Khanal","year":"2022","journal-title":"J. Ayurveda Integr. Med."},{"key":"ref_227","doi-asserted-by":"crossref","first-page":"33251","DOI":"10.1038\/srep33251","article-title":"Structural Modulation of the Gut Microbiota and the Relationship with Body Weight: Compared Evaluation of Liraglutide and Saxagliptin Treatment","volume":"6","author":"Wang","year":"2016","journal-title":"Sci. Rep."},{"key":"ref_228","doi-asserted-by":"crossref","unstructured":"Whipps, J.M. (1991). Effects of Mycoparasites on Sclerotia-Forming Fungi, Elsevier.","DOI":"10.1016\/B978-0-444-88728-3.50025-1"},{"key":"ref_229","doi-asserted-by":"crossref","unstructured":"Li, X., Mi, Z., Liu, Z., and Rong, P. (2024). SARS-CoV-2: Pathogenesis, therapeutics, variants, and vaccines. Front. Microbiol., 15.","DOI":"10.3389\/fmicb.2024.1334152"},{"key":"ref_230","doi-asserted-by":"crossref","first-page":"708","DOI":"10.1126\/science.1232467","article-title":"Host-Derived Nitrate Boosts Growth of E. coli in the Inflamed Gut","volume":"339","author":"Winter","year":"2013","journal-title":"Science"},{"key":"ref_231","doi-asserted-by":"crossref","first-page":"105","DOI":"10.1126\/science.1208344","article-title":"Linking Long-Term Dietary Patterns with Gut Microbial Enterotypes","volume":"334","author":"Wu","year":"2011","journal-title":"Science"},{"key":"ref_232","doi-asserted-by":"crossref","first-page":"1279","DOI":"10.1038\/s41590-019-0451-9","article-title":"The Influence of the Microbiome on Respiratory Health","volume":"20","author":"Wypych","year":"2019","journal-title":"Nat. Immunol."},{"key":"ref_233","doi-asserted-by":"crossref","unstructured":"Xu, L., Yang, C.S., Liu, Y., and Zhang, X. (2022). Effective Regulation of Gut Microbiota With Probiotics and Prebiotics May Prevent or Alleviate COVID-19 Through the Gut-Lung Axis. Front. Pharmacol., 13.","DOI":"10.3389\/fphar.2022.895193"},{"key":"ref_234","doi-asserted-by":"crossref","unstructured":"Yagi, K., Huffnagle, G.B., Lukacs, N.W., and Asai, N. (2021). The Lung Microbiome during Health and Disease. Int. J. Mol. Sci., 22.","DOI":"10.3390\/ijms221910872"},{"key":"ref_235","doi-asserted-by":"crossref","first-page":"222","DOI":"10.1038\/nature11053","article-title":"Human Gut Microbiome Viewed across Age and Geography","volume":"486","author":"Yatsunenko","year":"2012","journal-title":"Nature"},{"key":"ref_236","doi-asserted-by":"crossref","unstructured":"Yip, W., Hughes, M.R., Li, Y., Cait, A., Hirst, M., Mohn, W.W., and McNagny, K.M. (2021). Butyrate Shapes Immune Cell Fate and Function in Allergic Asthma. Front. Immunol., 12.","DOI":"10.3389\/fimmu.2021.628453"},{"key":"ref_237","doi-asserted-by":"crossref","first-page":"97","DOI":"10.1038\/nature12347","article-title":"Obesity-Induced Gut Microbial Metabolite Promotes Liver Cancer through Senescence Secretome","volume":"499","author":"Yoshimoto","year":"2013","journal-title":"Nature"}],"container-title":["Nutrients"],"original-title":[],"language":"en","link":[{"URL":"https:\/\/www.mdpi.com\/2072-6643\/18\/6\/888\/pdf","content-type":"unspecified","content-version":"vor","intended-application":"similarity-checking"}],"deposited":{"date-parts":[[2026,3,11]],"date-time":"2026-03-11T10:56:32Z","timestamp":1773226592000},"score":1,"resource":{"primary":{"URL":"https:\/\/www.mdpi.com\/2072-6643\/18\/6\/888"}},"subtitle":[],"short-title":[],"issued":{"date-parts":[[2026,3,11]]},"references-count":237,"journal-issue":{"issue":"6","published-online":{"date-parts":[[2026,3]]}},"alternative-id":["nu18060888"],"URL":"https:\/\/doi.org\/10.3390\/nu18060888","relation":{},"ISSN":["2072-6643"],"issn-type":[{"value":"2072-6643","type":"electronic"}],"subject":[],"published":{"date-parts":[[2026,3,11]]}}}