Genome-scale metabolic modelling reveals interactions and key roles of symbiont clades in a sponge holobiont
Abstract Sponges harbour complex microbiomes and as ancient metazoans and important ecosystem players are emerging as powerful models to understand the evolution and ecology of symbiotic interactions. Metagenomic studies have previously described the functional features of sponge symbionts, however,...
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| Format: | Article |
| Language: | English |
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Nature Portfolio
2024-12-01
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| Series: | Nature Communications |
| Online Access: | https://doi.org/10.1038/s41467-024-55222-w |
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| author | Shan Zhang Weizhi Song Geogios Marinos Silvio Waschina Johannes Zimmermann Christoph Kaleta Torsten Thomas |
| author_facet | Shan Zhang Weizhi Song Geogios Marinos Silvio Waschina Johannes Zimmermann Christoph Kaleta Torsten Thomas |
| author_sort | Shan Zhang |
| collection | DOAJ |
| description | Abstract Sponges harbour complex microbiomes and as ancient metazoans and important ecosystem players are emerging as powerful models to understand the evolution and ecology of symbiotic interactions. Metagenomic studies have previously described the functional features of sponge symbionts, however, little is known about the metabolic interactions and processes that occur under different environmental conditions. To address this issue, we construct here constraint-based, genome-scale metabolic networks for the microbiome of the sponge Stylissa sp. Our models define the importance of sponge-derived nutrients for microbiome stability and discover how different organic inputs can result in net heterotrophy or autotrophy of the symbiont community. The analysis further reveals the key role that a newly discovered bacterial taxon has in cross-feeding activities and how it dynamically adjusts with nutrient inputs. Our study reveals insights into the functioning of a sponge microbiome and provides a framework to further explore and define metabolic interactions in holobionts. |
| format | Article |
| id | doaj-art-184cb6fd396542d78d7cf551f2aa5c6e |
| institution | Kabale University |
| issn | 2041-1723 |
| language | English |
| publishDate | 2024-12-01 |
| publisher | Nature Portfolio |
| record_format | Article |
| series | Nature Communications |
| spelling | doaj-art-184cb6fd396542d78d7cf551f2aa5c6e2025-01-05T12:36:48ZengNature PortfolioNature Communications2041-17232024-12-0115111310.1038/s41467-024-55222-wGenome-scale metabolic modelling reveals interactions and key roles of symbiont clades in a sponge holobiontShan Zhang0Weizhi Song1Geogios Marinos2Silvio Waschina3Johannes Zimmermann4Christoph Kaleta5Torsten Thomas6School of Biological, Earth and Environmental Sciences, University of New South WalesSchool of Biological, Earth and Environmental Sciences, University of New South WalesResearch Group Medical Systems Biology, Institute of Experimental Medicine, University of Kiel and University Hospital Schleswig-HolsteinInstitute of Human Nutrition and Food Science, University of KielResearch Group Medical Systems Biology, Institute of Experimental Medicine, University of Kiel and University Hospital Schleswig-HolsteinResearch Group Medical Systems Biology, Institute of Experimental Medicine, University of Kiel and University Hospital Schleswig-HolsteinSchool of Biological, Earth and Environmental Sciences, University of New South WalesAbstract Sponges harbour complex microbiomes and as ancient metazoans and important ecosystem players are emerging as powerful models to understand the evolution and ecology of symbiotic interactions. Metagenomic studies have previously described the functional features of sponge symbionts, however, little is known about the metabolic interactions and processes that occur under different environmental conditions. To address this issue, we construct here constraint-based, genome-scale metabolic networks for the microbiome of the sponge Stylissa sp. Our models define the importance of sponge-derived nutrients for microbiome stability and discover how different organic inputs can result in net heterotrophy or autotrophy of the symbiont community. The analysis further reveals the key role that a newly discovered bacterial taxon has in cross-feeding activities and how it dynamically adjusts with nutrient inputs. Our study reveals insights into the functioning of a sponge microbiome and provides a framework to further explore and define metabolic interactions in holobionts.https://doi.org/10.1038/s41467-024-55222-w |
| spellingShingle | Shan Zhang Weizhi Song Geogios Marinos Silvio Waschina Johannes Zimmermann Christoph Kaleta Torsten Thomas Genome-scale metabolic modelling reveals interactions and key roles of symbiont clades in a sponge holobiont Nature Communications |
| title | Genome-scale metabolic modelling reveals interactions and key roles of symbiont clades in a sponge holobiont |
| title_full | Genome-scale metabolic modelling reveals interactions and key roles of symbiont clades in a sponge holobiont |
| title_fullStr | Genome-scale metabolic modelling reveals interactions and key roles of symbiont clades in a sponge holobiont |
| title_full_unstemmed | Genome-scale metabolic modelling reveals interactions and key roles of symbiont clades in a sponge holobiont |
| title_short | Genome-scale metabolic modelling reveals interactions and key roles of symbiont clades in a sponge holobiont |
| title_sort | genome scale metabolic modelling reveals interactions and key roles of symbiont clades in a sponge holobiont |
| url | https://doi.org/10.1038/s41467-024-55222-w |
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