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Postglacial adaptations enabled colonization and quasi-clonal dispersal of ammonia-oxidizing archaea in modern European large lakes.

David Kamanda NgugiMichaela M SalcherAdrian-Ştefan AndreiRohit GhaiFranziska KlotzMaria-Cecilia ChiriacDanny IonescuPetra BüsingHans-Peter GrossartPeng XingJohn C PriscuSalmor AlymkulovMichael Pester
Published in: Science advances (2023)
Ammonia-oxidizing archaea (AOA) play a key role in the aquatic nitrogen cycle. Their genetic diversity is viewed as the outcome of evolutionary processes that shaped ancestral transition from terrestrial to marine habitats. However, current genome-wide insights into AOA evolution rarely consider brackish and freshwater representatives or provide their divergence timeline in lacustrine systems. An unbiased global assessment of lacustrine AOA diversity is critical for understanding their origins, dispersal mechanisms, and ecosystem roles. Here, we leveraged continental-scale metagenomics to document that AOA species diversity in freshwater systems is remarkably low compared to marine environments. We show that the uncultured freshwater AOA, " Candidatus Nitrosopumilus limneticus," is ubiquitous and genotypically static in various large European lakes where it evolved 13 million years ago. We find that extensive proteome remodeling was a key innovation for freshwater colonization of AOA. These findings reveal the genetic diversity and adaptive mechanisms of a keystone species that has survived clonally in lakes for millennia.
Keyphrases
  • genetic diversity
  • genome wide
  • dna methylation
  • risk assessment
  • climate change
  • single cell
  • ionic liquid