Integrative analysis of gut microbiota and metabolic pathways reveals key microbial and metabolomic alterations in diabetes
Abstract Type 2 diabetes mellitus (T2DM) is increasingly recognized as a condition influenced by gut microbiota composition and associated metabolic pathways. This study investigated the differences in gut microbial diversity, composition, and metabolomic profiles between diabetic and control indivi...
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Nature Portfolio
2025-08-01
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| Online Access: | https://doi.org/10.1038/s41598-025-09328-w |
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| author | Yasser Morsy Nesma S. Shafie GP2324 consortium Marwa Amer |
| author_facet | Yasser Morsy Nesma S. Shafie GP2324 consortium Marwa Amer |
| author_sort | Yasser Morsy |
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| description | Abstract Type 2 diabetes mellitus (T2DM) is increasingly recognized as a condition influenced by gut microbiota composition and associated metabolic pathways. This study investigated the differences in gut microbial diversity, composition, and metabolomic profiles between diabetic and control individuals. Using 16 S rRNA gene sequencing and metabolomic analyses, we observed significantly higher microbial diversity and evenness in the diabetic group, with distinct clustering patterns as revealed by Principal Coordinate Analysis (PCoA). Taxonomic profiling demonstrated an increased relative abundance of Bacteroidaceae and Lachnospiraceae in the diabetic group, while Streptococcaceae was more prevalent in the control group. LEfSe analysis identified key microbial taxa such as Bacteroides, Blautia, and Lachnospiraceae_FCS020_group enriched in diabetic individuals, suggesting a role in metabolic dysregulation. Metabolomic pathway enrichment analysis revealed significant differences in pathways related to fatty acid metabolism, glucose homeostasis, bile acid metabolism, and amino acid biosynthesis in diabetic individuals. Enriching fatty acid elongation and β-oxidation pathways, alongside disrupted glucose metabolism, indicate profound metabolic changes associated with diabetes. Bile acid metabolism and branched-chain amino acid (BCAA) pathways were also elevated, linking these metabolites to the observed gut microbiota shifts. These findings suggest that diabetes is associated with significant alterations in the gut microbiome’s composition and function, leading to disruptions in critical metabolic pathways. This study provides insights into potential microbial biomarkers and therapeutic targets for improving metabolic health in diabetic patients. |
| format | Article |
| id | doaj-art-1a808b5e5a7b4dcb9ef1e7e6b0292997 |
| institution | Kabale University |
| issn | 2045-2322 |
| language | English |
| publishDate | 2025-08-01 |
| publisher | Nature Portfolio |
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| spelling | doaj-art-1a808b5e5a7b4dcb9ef1e7e6b02929972025-08-24T11:30:43ZengNature PortfolioScientific Reports2045-23222025-08-0115111310.1038/s41598-025-09328-wIntegrative analysis of gut microbiota and metabolic pathways reveals key microbial and metabolomic alterations in diabetesYasser Morsy0Nesma S. Shafie1GP2324 consortiumMarwa Amer2Department of Gastroenterology and Hepatology, University Hospital of ZürichDepartment of Bioinformatics and Genomics, College of Biotechnology, Misr University for Science and Technology (MUST)Department of Bioinformatics and Genomics, College of Biotechnology, Misr University for Science and Technology (MUST)Abstract Type 2 diabetes mellitus (T2DM) is increasingly recognized as a condition influenced by gut microbiota composition and associated metabolic pathways. This study investigated the differences in gut microbial diversity, composition, and metabolomic profiles between diabetic and control individuals. Using 16 S rRNA gene sequencing and metabolomic analyses, we observed significantly higher microbial diversity and evenness in the diabetic group, with distinct clustering patterns as revealed by Principal Coordinate Analysis (PCoA). Taxonomic profiling demonstrated an increased relative abundance of Bacteroidaceae and Lachnospiraceae in the diabetic group, while Streptococcaceae was more prevalent in the control group. LEfSe analysis identified key microbial taxa such as Bacteroides, Blautia, and Lachnospiraceae_FCS020_group enriched in diabetic individuals, suggesting a role in metabolic dysregulation. Metabolomic pathway enrichment analysis revealed significant differences in pathways related to fatty acid metabolism, glucose homeostasis, bile acid metabolism, and amino acid biosynthesis in diabetic individuals. Enriching fatty acid elongation and β-oxidation pathways, alongside disrupted glucose metabolism, indicate profound metabolic changes associated with diabetes. Bile acid metabolism and branched-chain amino acid (BCAA) pathways were also elevated, linking these metabolites to the observed gut microbiota shifts. These findings suggest that diabetes is associated with significant alterations in the gut microbiome’s composition and function, leading to disruptions in critical metabolic pathways. This study provides insights into potential microbial biomarkers and therapeutic targets for improving metabolic health in diabetic patients.https://doi.org/10.1038/s41598-025-09328-wGut microbiotaDiabetesMicrobial diversityMetabolic pathwaysLEfSe analysisMetabolomics |
| spellingShingle | Yasser Morsy Nesma S. Shafie GP2324 consortium Marwa Amer Integrative analysis of gut microbiota and metabolic pathways reveals key microbial and metabolomic alterations in diabetes Scientific Reports Gut microbiota Diabetes Microbial diversity Metabolic pathways LEfSe analysis Metabolomics |
| title | Integrative analysis of gut microbiota and metabolic pathways reveals key microbial and metabolomic alterations in diabetes |
| title_full | Integrative analysis of gut microbiota and metabolic pathways reveals key microbial and metabolomic alterations in diabetes |
| title_fullStr | Integrative analysis of gut microbiota and metabolic pathways reveals key microbial and metabolomic alterations in diabetes |
| title_full_unstemmed | Integrative analysis of gut microbiota and metabolic pathways reveals key microbial and metabolomic alterations in diabetes |
| title_short | Integrative analysis of gut microbiota and metabolic pathways reveals key microbial and metabolomic alterations in diabetes |
| title_sort | integrative analysis of gut microbiota and metabolic pathways reveals key microbial and metabolomic alterations in diabetes |
| topic | Gut microbiota Diabetes Microbial diversity Metabolic pathways LEfSe analysis Metabolomics |
| url | https://doi.org/10.1038/s41598-025-09328-w |
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