Mapping out the gut microbiota-dependent trimethylamine N-oxide super pathway for systems biology applications
The metabolic axis linking the gut microbiome and heart is increasingly being researched in the context of cardiovascular health. The gut microbiota-derived trimethylamine/trimethylamine N-oxide (TMA/TMAO) pathway is responsible along this axis for the bioconversion of dietary precursors into TMA/TM...
| Main Authors: | , , , |
|---|---|
| Format: | Article |
| Language: | English |
| Published: |
Frontiers Media S.A.
2023-03-01
|
| Series: | Frontiers in Systems Biology |
| Subjects: | |
| Online Access: | https://www.frontiersin.org/articles/10.3389/fsysb.2023.1074749/full |
| _version_ | 1811158267891548160 |
|---|---|
| author | Isabel M. E. Valenbreder Sonia Balăn Marian Breuer Michiel E. Adriaens |
| author_facet | Isabel M. E. Valenbreder Sonia Balăn Marian Breuer Michiel E. Adriaens |
| author_sort | Isabel M. E. Valenbreder |
| collection | DOAJ |
| description | The metabolic axis linking the gut microbiome and heart is increasingly being researched in the context of cardiovascular health. The gut microbiota-derived trimethylamine/trimethylamine N-oxide (TMA/TMAO) pathway is responsible along this axis for the bioconversion of dietary precursors into TMA/TMAO and has been implicated in the progression of heart failure and dysbiosis through a positive-feedback interaction. Systems biology approaches in the context of researching this interaction offer an additional dimension for deepening the understanding of metabolism along the gut-heart axis. For instance, genome-scale metabolic models allow to study the functional role of pathways of interest in the context of an entire cellular or even whole-body metabolic network. In this mini review, we provide an overview of the latest findings on the TMA/TMAO super pathway and summarize the current state of knowledge in a curated pathway map on the community platform WikiPathways. The pathway map can serve both as a starting point for continual curation by the community as well as a resource for systems biology modeling studies. This has many applications, including addressing remaining gaps in our understanding of the gut-heart axis. We discuss how the curated pathway can inform a further curation and implementation of the pathway in existing whole-body metabolic models, which will allow researchers to computationally simulate this pathway to further understand its role in cardiovascular metabolism. |
| first_indexed | 2024-04-10T05:21:38Z |
| format | Article |
| id | doaj.art-aa41b194007b4fd49f888f809f7a250d |
| institution | Directory Open Access Journal |
| issn | 2674-0702 |
| language | English |
| last_indexed | 2024-04-10T05:21:38Z |
| publishDate | 2023-03-01 |
| publisher | Frontiers Media S.A. |
| record_format | Article |
| series | Frontiers in Systems Biology |
| spelling | doaj.art-aa41b194007b4fd49f888f809f7a250d2023-03-08T07:28:27ZengFrontiers Media S.A.Frontiers in Systems Biology2674-07022023-03-01310.3389/fsysb.2023.10747491074749Mapping out the gut microbiota-dependent trimethylamine N-oxide super pathway for systems biology applicationsIsabel M. E. ValenbrederSonia BalănMarian BreuerMichiel E. AdriaensThe metabolic axis linking the gut microbiome and heart is increasingly being researched in the context of cardiovascular health. The gut microbiota-derived trimethylamine/trimethylamine N-oxide (TMA/TMAO) pathway is responsible along this axis for the bioconversion of dietary precursors into TMA/TMAO and has been implicated in the progression of heart failure and dysbiosis through a positive-feedback interaction. Systems biology approaches in the context of researching this interaction offer an additional dimension for deepening the understanding of metabolism along the gut-heart axis. For instance, genome-scale metabolic models allow to study the functional role of pathways of interest in the context of an entire cellular or even whole-body metabolic network. In this mini review, we provide an overview of the latest findings on the TMA/TMAO super pathway and summarize the current state of knowledge in a curated pathway map on the community platform WikiPathways. The pathway map can serve both as a starting point for continual curation by the community as well as a resource for systems biology modeling studies. This has many applications, including addressing remaining gaps in our understanding of the gut-heart axis. We discuss how the curated pathway can inform a further curation and implementation of the pathway in existing whole-body metabolic models, which will allow researchers to computationally simulate this pathway to further understand its role in cardiovascular metabolism.https://www.frontiersin.org/articles/10.3389/fsysb.2023.1074749/fullgut microbiomeTMA/TMAO pathwayconstraint-based modelinggut-heart axispathwaywhole-body metabolic model |
| spellingShingle | Isabel M. E. Valenbreder Sonia Balăn Marian Breuer Michiel E. Adriaens Mapping out the gut microbiota-dependent trimethylamine N-oxide super pathway for systems biology applications Frontiers in Systems Biology gut microbiome TMA/TMAO pathway constraint-based modeling gut-heart axis pathway whole-body metabolic model |
| title | Mapping out the gut microbiota-dependent trimethylamine N-oxide super pathway for systems biology applications |
| title_full | Mapping out the gut microbiota-dependent trimethylamine N-oxide super pathway for systems biology applications |
| title_fullStr | Mapping out the gut microbiota-dependent trimethylamine N-oxide super pathway for systems biology applications |
| title_full_unstemmed | Mapping out the gut microbiota-dependent trimethylamine N-oxide super pathway for systems biology applications |
| title_short | Mapping out the gut microbiota-dependent trimethylamine N-oxide super pathway for systems biology applications |
| title_sort | mapping out the gut microbiota dependent trimethylamine n oxide super pathway for systems biology applications |
| topic | gut microbiome TMA/TMAO pathway constraint-based modeling gut-heart axis pathway whole-body metabolic model |
| url | https://www.frontiersin.org/articles/10.3389/fsysb.2023.1074749/full |
| work_keys_str_mv | AT isabelmevalenbreder mappingoutthegutmicrobiotadependenttrimethylaminenoxidesuperpathwayforsystemsbiologyapplications AT soniabalan mappingoutthegutmicrobiotadependenttrimethylaminenoxidesuperpathwayforsystemsbiologyapplications AT marianbreuer mappingoutthegutmicrobiotadependenttrimethylaminenoxidesuperpathwayforsystemsbiologyapplications AT michieleadriaens mappingoutthegutmicrobiotadependenttrimethylaminenoxidesuperpathwayforsystemsbiologyapplications |