GutBugDB: a web resource to predict the human gut microbiome-mediated biotransformation of biotic and xenobiotic molecules
There has been a growing recognition of the significant role played by the human gut microbiota in altering the bioavailability as well as the pharmacokinetic and pharmacodynamic aspects of orally ingested xenobiotic and biotic molecules. The determination of species-specific contributions to the me...
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| Format: | Article |
| Language: | English |
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Cambridge University Press
2025-01-01
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| Series: | Gut Microbiome |
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| Online Access: | https://www.cambridge.org/core/product/identifier/S263228972400015X/type/journal_article |
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| author | Usha Longwani Ashok K. Sharma Aditya S. Malwe Shubham K. Jaiswal Vineet K. Sharma |
| author_facet | Usha Longwani Ashok K. Sharma Aditya S. Malwe Shubham K. Jaiswal Vineet K. Sharma |
| author_sort | Usha Longwani |
| collection | DOAJ |
| description | There has been a growing recognition of the significant role played by the human gut microbiota in altering the bioavailability as well as the pharmacokinetic and pharmacodynamic aspects of orally ingested xenobiotic and biotic molecules. The determination of species-specific contributions to the metabolism of biotic and xenobiotic molecules has the potential to aid in the development of new therapeutic and nutraceutical molecules that can modulate human gut microbiota. Here we present “GutBugDB,” an open-access digital repository that provides information on potential gut microbiome-mediated biotransformation of biotic and xenobiotic molecules using the predictions from the GutBug tool. This database is constructed using metabolic proteins from 690 gut bacterial genomes and 363,872 protein enzymes assigned with their EC numbers (with representative Expasy ID and domains present). It provides information on gut microbiome enzyme-mediated metabolic biotransformation for 1439 FDA-approved drugs and nutraceuticals. GutBugDB is publicly available at https://metabiosys.iiserb.ac.in/gutbugdb/. |
| format | Article |
| id | doaj-art-18f61a9044274222ab8c3dc4a7646201 |
| institution | Kabale University |
| issn | 2632-2897 |
| language | English |
| publishDate | 2025-01-01 |
| publisher | Cambridge University Press |
| record_format | Article |
| series | Gut Microbiome |
| spelling | doaj-art-18f61a9044274222ab8c3dc4a76462012025-01-31T13:06:23ZengCambridge University PressGut Microbiome2632-28972025-01-01610.1017/gmb.2024.15GutBugDB: a web resource to predict the human gut microbiome-mediated biotransformation of biotic and xenobiotic moleculesUsha Longwani0Ashok K. Sharma1Aditya S. Malwe2Shubham K. Jaiswal3Vineet K. Sharma4https://orcid.org/0000-0002-2958-6215MetaBioSys Lab, Department of Biological Sciences, Indian Institute of Science Education and Research, Bhopal, Madhya Pradesh, IndiaMetaBioSys Lab, Department of Biological Sciences, Indian Institute of Science Education and Research, Bhopal, Madhya Pradesh, IndiaMetaBioSys Lab, Department of Biological Sciences, Indian Institute of Science Education and Research, Bhopal, Madhya Pradesh, IndiaMetaBioSys Lab, Department of Biological Sciences, Indian Institute of Science Education and Research, Bhopal, Madhya Pradesh, IndiaMetaBioSys Lab, Department of Biological Sciences, Indian Institute of Science Education and Research, Bhopal, Madhya Pradesh, IndiaThere has been a growing recognition of the significant role played by the human gut microbiota in altering the bioavailability as well as the pharmacokinetic and pharmacodynamic aspects of orally ingested xenobiotic and biotic molecules. The determination of species-specific contributions to the metabolism of biotic and xenobiotic molecules has the potential to aid in the development of new therapeutic and nutraceutical molecules that can modulate human gut microbiota. Here we present “GutBugDB,” an open-access digital repository that provides information on potential gut microbiome-mediated biotransformation of biotic and xenobiotic molecules using the predictions from the GutBug tool. This database is constructed using metabolic proteins from 690 gut bacterial genomes and 363,872 protein enzymes assigned with their EC numbers (with representative Expasy ID and domains present). It provides information on gut microbiome enzyme-mediated metabolic biotransformation for 1439 FDA-approved drugs and nutraceuticals. GutBugDB is publicly available at https://metabiosys.iiserb.ac.in/gutbugdb/.https://www.cambridge.org/core/product/identifier/S263228972400015X/type/journal_articlebiotransformationdatabasehuman gut microbiomemachine learningxenobiotic metabolism |
| spellingShingle | Usha Longwani Ashok K. Sharma Aditya S. Malwe Shubham K. Jaiswal Vineet K. Sharma GutBugDB: a web resource to predict the human gut microbiome-mediated biotransformation of biotic and xenobiotic molecules Gut Microbiome biotransformation database human gut microbiome machine learning xenobiotic metabolism |
| title | GutBugDB: a web resource to predict the human gut microbiome-mediated biotransformation of biotic and xenobiotic molecules |
| title_full | GutBugDB: a web resource to predict the human gut microbiome-mediated biotransformation of biotic and xenobiotic molecules |
| title_fullStr | GutBugDB: a web resource to predict the human gut microbiome-mediated biotransformation of biotic and xenobiotic molecules |
| title_full_unstemmed | GutBugDB: a web resource to predict the human gut microbiome-mediated biotransformation of biotic and xenobiotic molecules |
| title_short | GutBugDB: a web resource to predict the human gut microbiome-mediated biotransformation of biotic and xenobiotic molecules |
| title_sort | gutbugdb a web resource to predict the human gut microbiome mediated biotransformation of biotic and xenobiotic molecules |
| topic | biotransformation database human gut microbiome machine learning xenobiotic metabolism |
| url | https://www.cambridge.org/core/product/identifier/S263228972400015X/type/journal_article |
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