Co-occurrence is associated with horizontal gene transfer across marine bacteria independent of phylogeny.
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| Natura: | Artículo científico |
| Lingua: | en |
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The ISME journal
2026
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| _version_ | 1868266114426863616 |
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| author | Douglas, Gavin M Tromas, Nicolas Gaudin, Marinna Lypaczewski, Patrick Bobay, Louis-Marie Shapiro, B Jesse Chaffron, Samuel |
| author_facet | Douglas, Gavin M Tromas, Nicolas Gaudin, Marinna Lypaczewski, Patrick Bobay, Louis-Marie Shapiro, B Jesse Chaffron, Samuel Douglas, Gavin M Tromas, Nicolas Gaudin, Marinna Lypaczewski, Patrick Bobay, Louis-Marie Shapiro, B Jesse Chaffron, Samuel |
| collection | PubMed - marine biology |
| contents | Co-occurrence is associated with horizontal gene transfer across marine bacteria independent of phylogeny. Douglas, Gavin M Tromas, Nicolas Gaudin, Marinna Lypaczewski, Patrick Bobay, Louis-Marie Shapiro, B Jesse Chaffron, Samuel Gene Transfer, Horizontal Phylogeny Bacteria Seawater Genome, Bacterial Aquatic Organisms Oceans and Seas Metagenomics Understanding the drivers and consequences of horizontal gene transfer (HGT) is a key goal of microbial evolution research. Although co-occurring taxa have long been appreciated to undergo HGT more often, this association is confounded with other factors, most notably their phylogenetic relatedness. To disentangle these factors, we analyzed 15 339 marine prokaryotic genomes (mainly bacteria) and their distribution in the global ocean. We identified HGT events across these genomes and enrichments for functions previously shown to be prone to HGT. By mapping metagenomic reads from 1862 ocean samples to these genomes, we also identified co-occurrence patterns and environmental associations. Although we observed an expected negative association between HGT rates and phylogenetic distance, we only detected an association between co-occurrence and phylogenetic distance for closely related taxa. This observation refines the previously reported trend to closely related taxa, rather than a consistent pattern across all taxonomic levels, at least here within marine environments. In addition, we identified a significant association between co-occurrence and HGT, which remains even after controlling for phylogenetic distance and measured environmental variables. In a subset of samples with extended environmental data, we identified higher HGT levels associated with particle-attached prokaryotes and associations of varying directions with specific environmental variables, such as chlorophyll a and photosynthetically available radiation. Overall, our findings demonstrate the significant influence of ecological associations in shaping marine prokaryotic evolution through HGT. |
| format | Artículo científico |
| id | pubmed_41378915 |
| institution | PubMed |
| language | en |
| publishDate | 2026 |
| publisher | The ISME journal |
| record_format | pubmed |
| spellingShingle | Co-occurrence is associated with horizontal gene transfer across marine bacteria independent of phylogeny. Douglas, Gavin M Tromas, Nicolas Gaudin, Marinna Lypaczewski, Patrick Bobay, Louis-Marie Shapiro, B Jesse Chaffron, Samuel Gene Transfer, Horizontal Phylogeny Bacteria Seawater Genome, Bacterial Aquatic Organisms Oceans and Seas Metagenomics Co-occurrence is associated with horizontal gene transfer across marine bacteria independent of phylogeny. Douglas, Gavin M Tromas, Nicolas Gaudin, Marinna Lypaczewski, Patrick Bobay, Louis-Marie Shapiro, B Jesse Chaffron, Samuel Gene Transfer, Horizontal Phylogeny Bacteria Seawater Genome, Bacterial Aquatic Organisms Oceans and Seas Metagenomics Understanding the drivers and consequences of horizontal gene transfer (HGT) is a key goal of microbial evolution research. Although co-occurring taxa have long been appreciated to undergo HGT more often, this association is confounded with other factors, most notably their phylogenetic relatedness. To disentangle these factors, we analyzed 15 339 marine prokaryotic genomes (mainly bacteria) and their distribution in the global ocean. We identified HGT events across these genomes and enrichments for functions previously shown to be prone to HGT. By mapping metagenomic reads from 1862 ocean samples to these genomes, we also identified co-occurrence patterns and environmental associations. Although we observed an expected negative association between HGT rates and phylogenetic distance, we only detected an association between co-occurrence and phylogenetic distance for closely related taxa. This observation refines the previously reported trend to closely related taxa, rather than a consistent pattern across all taxonomic levels, at least here within marine environments. In addition, we identified a significant association between co-occurrence and HGT, which remains even after controlling for phylogenetic distance and measured environmental variables. In a subset of samples with extended environmental data, we identified higher HGT levels associated with particle-attached prokaryotes and associations of varying directions with specific environmental variables, such as chlorophyll a and photosynthetically available radiation. Overall, our findings demonstrate the significant influence of ecological associations in shaping marine prokaryotic evolution through HGT. |
| title | Co-occurrence is associated with horizontal gene transfer across marine bacteria independent of phylogeny. |
| topic | Gene Transfer, Horizontal Phylogeny Bacteria Seawater Genome, Bacterial Aquatic Organisms Oceans and Seas Metagenomics |
| url | https://pubmed.ncbi.nlm.nih.gov/41378915/ |