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Gene duplication drives genome expansion in a major lineage of Thaumarchaeota
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Sheridan, Paul O., Raguideau, Sébastien, Quince, Christopher, Holden, Jennifer, Thames Consortium, , Zhang, Lihong, Gubry-Rangin, Cécile and Williams, Tom A. (2020) Gene duplication drives genome expansion in a major lineage of Thaumarchaeota. Nature Communications, 11 (1). 5494. doi:10.1038/s41467-020-19132-x
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Official URL: http://dx.doi.org/10.1038/s41467-020-19132-x
Abstract
Ammonia-oxidising archaea of the phylum Thaumarchaeota are important organisms in the nitrogen cycle, but the mechanisms driving their radiation into diverse ecosystems remain underexplored. Here, existing thaumarchaeotal genomes are complemented with 12 genomes belonging to the previously under-sampled Nitrososphaerales to investigate the impact of lateral gene transfer (LGT), gene duplication and loss across thaumarchaeotal evolution. We reveal a major role for gene duplication in driving genome expansion subsequent to early LGT. In particular, two large LGT events are identified into Nitrososphaerales and the fate of these gene families is highly lineage-specific, being lost in some descendant lineages, but undergoing extensive duplication in others, suggesting niche-specific roles. Notably, some genes involved in carbohydrate transport or coenzyme metabolism were duplicated, likely facilitating niche specialisation in soils and sediments. Overall, our results suggest that LGT followed by gene duplication drives Nitrososphaerales evolution, highlighting a previously under-appreciated mechanism of genome expansion in archaea.
| Item Type: | Journal Article | |||||||||||||||||||||||||||||||||
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| Subjects: | Q Science > QH Natural history Q Science > QR Microbiology |
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| Divisions: | Faculty of Medicine > Warwick Medical School > Biomedical Sciences Faculty of Science > Life Sciences (2010- ) Faculty of Medicine > Warwick Medical School > Biomedical Sciences > Microbiology & Infection Faculty of Medicine > Warwick Medical School |
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| Library of Congress Subject Headings (LCSH): | Archaebacteria , Genetic transformation | |||||||||||||||||||||||||||||||||
| Journal or Publication Title: | Nature Communications | |||||||||||||||||||||||||||||||||
| Publisher: | Nature Publishing Group | |||||||||||||||||||||||||||||||||
| ISSN: | 2041-1723 | |||||||||||||||||||||||||||||||||
| Official Date: | 30 October 2020 | |||||||||||||||||||||||||||||||||
| Dates: |
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| Date of first compliant deposit: | 16 November 2020 | |||||||||||||||||||||||||||||||||
| Volume: | 11 | |||||||||||||||||||||||||||||||||
| Number: | 1 | |||||||||||||||||||||||||||||||||
| Article Number: | 5494 | |||||||||||||||||||||||||||||||||
| DOI: | 10.1038/s41467-020-19132-x | |||||||||||||||||||||||||||||||||
| Status: | Peer Reviewed | |||||||||||||||||||||||||||||||||
| Publication Status: | Published | |||||||||||||||||||||||||||||||||
| Access rights to Published version: | Open Access | |||||||||||||||||||||||||||||||||
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