Genomic and proteomic characterization of "Candidatus Nitrosopelagicus brevis": An ammonia-oxidizing archaeon from the open ocean

Alyson E. Santoro, Christopher L. Dupont, R. Alex Richter, Matthew T. Craig, Paul Carini, Matthew R. McIlvin, Youngik Yang, William D. Orsi, Dawn M. Moran, Mak A. Saito

Research output: Contribution to journalArticlepeer-review

147 Scopus citations

Abstract

Thaumarchaeota are among the most abundant microbial cells in the ocean, but difficulty in cultivating marine Thaumarchaeota has hindered investigation into the physiological and evolutionary basis of their success. We report here a closed genome assembled from a highly enriched culture of the ammonia-oxidizing pelagic thaumarchaeon CN25, originating from the open ocean. The CN25 genome exhibits strong evidence of genome streamlining, including a 1.23-Mbp genome, a high coding density, and a low number of paralogous genes. Proteomic analysis recovered nearly 70% of the predicted proteins encoded by the genome, demonstrating that a high fraction of the genome is translated. In contrast to other minimal marine microbes that acquire, rather than synthesize, cofactors, CN25 encodes and expresses near-complete biosynthetic pathways for multiple vitamins. Metagenomic fragment recruitment indicated the presence of DNA sequences >90% identical to the CN25 genome throughout the oligotrophic ocean. We propose the provisional name "Candidatus Nitrosopelagicus brevis" str. CN25 for this minimalist marine thaumarchaeon and suggest it as a potentialmodel system for understanding archaeal adaptation to the open ocean.

Original languageEnglish (US)
Pages (from-to)1173-1178
Number of pages6
JournalProceedings of the National Academy of Sciences of the United States of America
Volume112
Issue number4
DOIs
StatePublished - Jan 27 2015
Externally publishedYes

Keywords

  • Archaea
  • Genome streamlining
  • Marine metagenomics
  • Nitrification

ASJC Scopus subject areas

  • General

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