Mining the Biosynthetic Potential for Specialized Metabolism of a <i>Streptomyces</i> Soil Community
The diversity and distribution of specialized metabolite gene clusters within a community of bacteria living in the same soil habitat are poorly documented. Here we analyzed the genomes of 8 <i>Streptomyces</i> isolated at micro-scale from a forest soil that belong to the same species or...
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| Format: | Article |
| Language: | English |
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MDPI AG
2020-05-01
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| Series: | Antibiotics |
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| Online Access: | https://www.mdpi.com/2079-6382/9/5/271 |
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| author | Matthieu Nicault Abdoul-Razak Tidjani Anthony Gauthier Stéphane Dumarcay Eric Gelhaye Cyril Bontemps Pierre Leblond |
| author_facet | Matthieu Nicault Abdoul-Razak Tidjani Anthony Gauthier Stéphane Dumarcay Eric Gelhaye Cyril Bontemps Pierre Leblond |
| author_sort | Matthieu Nicault |
| collection | DOAJ |
| description | The diversity and distribution of specialized metabolite gene clusters within a community of bacteria living in the same soil habitat are poorly documented. Here we analyzed the genomes of 8 <i>Streptomyces</i> isolated at micro-scale from a forest soil that belong to the same species or to different species. The results reveal high levels of diversity, with a total of 261 biosynthesis gene clusters (BGCs) encoding metabolites such as terpenes, polyketides (PKs), non-ribosomal peptides (NRPs) and ribosomally synthesized and post-translationally modified peptides (RiPPs) with potential bioactivities. A significant part of these BGCs (n = 53) were unique to only one strain when only 5 were common to all strains. The metabolites belong to very diverse chemical families and revealed that a large diversity of metabolites can potentially be produced in the community. Although that analysis of the global metabolome using GC-MS revealed that most of the metabolites were shared between the strains, they exhibited a specific metabolic pattern. We also observed that the presence of these accessory pathways might result from frequent loss and gain of genes (horizontal transfer), showing that the potential of metabolite production is a dynamic phenomenon in the community. Sampling <i>Streptomyces</i> at the community level constitutes a good frame to discover new biosynthetic pathways and it appears as a promising reservoir for the discovery of new bioactive compounds. |
| first_indexed | 2024-03-10T19:37:48Z |
| format | Article |
| id | doaj.art-894a29ce5fe248a3b8ef3bd54ffd5b5b |
| institution | Directory Open Access Journal |
| issn | 2079-6382 |
| language | English |
| last_indexed | 2024-03-10T19:37:48Z |
| publishDate | 2020-05-01 |
| publisher | MDPI AG |
| record_format | Article |
| series | Antibiotics |
| spelling | doaj.art-894a29ce5fe248a3b8ef3bd54ffd5b5b2023-11-20T01:31:29ZengMDPI AGAntibiotics2079-63822020-05-019527110.3390/antibiotics9050271Mining the Biosynthetic Potential for Specialized Metabolism of a <i>Streptomyces</i> Soil CommunityMatthieu Nicault0Abdoul-Razak Tidjani1Anthony Gauthier2Stéphane Dumarcay3Eric Gelhaye4Cyril Bontemps5Pierre Leblond6Université de Lorraine, INRAE, DynAMic, F-54000 Nancy, FranceUniversité de Lorraine, INRAE, DynAMic, F-54000 Nancy, FranceUniversité de Lorraine, INRAE, DynAMic, F-54000 Nancy, FranceUniversité de Lorraine, INRAE, LERMAB, F-54000 Nancy, FranceUniversité de Lorraine, INRAE, IAM, F-54000 Nancy, FranceUniversité de Lorraine, INRAE, DynAMic, F-54000 Nancy, FranceUniversité de Lorraine, INRAE, DynAMic, F-54000 Nancy, FranceThe diversity and distribution of specialized metabolite gene clusters within a community of bacteria living in the same soil habitat are poorly documented. Here we analyzed the genomes of 8 <i>Streptomyces</i> isolated at micro-scale from a forest soil that belong to the same species or to different species. The results reveal high levels of diversity, with a total of 261 biosynthesis gene clusters (BGCs) encoding metabolites such as terpenes, polyketides (PKs), non-ribosomal peptides (NRPs) and ribosomally synthesized and post-translationally modified peptides (RiPPs) with potential bioactivities. A significant part of these BGCs (n = 53) were unique to only one strain when only 5 were common to all strains. The metabolites belong to very diverse chemical families and revealed that a large diversity of metabolites can potentially be produced in the community. Although that analysis of the global metabolome using GC-MS revealed that most of the metabolites were shared between the strains, they exhibited a specific metabolic pattern. We also observed that the presence of these accessory pathways might result from frequent loss and gain of genes (horizontal transfer), showing that the potential of metabolite production is a dynamic phenomenon in the community. Sampling <i>Streptomyces</i> at the community level constitutes a good frame to discover new biosynthetic pathways and it appears as a promising reservoir for the discovery of new bioactive compounds.https://www.mdpi.com/2079-6382/9/5/271<i>Streptomyces</i>soilspecialized metabolismbiosynthetic gene clustercommunitydiversity |
| spellingShingle | Matthieu Nicault Abdoul-Razak Tidjani Anthony Gauthier Stéphane Dumarcay Eric Gelhaye Cyril Bontemps Pierre Leblond Mining the Biosynthetic Potential for Specialized Metabolism of a <i>Streptomyces</i> Soil Community Antibiotics <i>Streptomyces</i> soil specialized metabolism biosynthetic gene cluster community diversity |
| title | Mining the Biosynthetic Potential for Specialized Metabolism of a <i>Streptomyces</i> Soil Community |
| title_full | Mining the Biosynthetic Potential for Specialized Metabolism of a <i>Streptomyces</i> Soil Community |
| title_fullStr | Mining the Biosynthetic Potential for Specialized Metabolism of a <i>Streptomyces</i> Soil Community |
| title_full_unstemmed | Mining the Biosynthetic Potential for Specialized Metabolism of a <i>Streptomyces</i> Soil Community |
| title_short | Mining the Biosynthetic Potential for Specialized Metabolism of a <i>Streptomyces</i> Soil Community |
| title_sort | mining the biosynthetic potential for specialized metabolism of a i streptomyces i soil community |
| topic | <i>Streptomyces</i> soil specialized metabolism biosynthetic gene cluster community diversity |
| url | https://www.mdpi.com/2079-6382/9/5/271 |
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