The Natural History of Nitrogen Fixation

Jason Raymond, Janet L. Siefert, Christopher R. Staples, Robert E. Blankenship

Research output: Contribution to journalArticle

409 Citations (Scopus)

Abstract

In recent years, our understanding of biological nitrogen fixation has been bolstered by a diverse array of scientific techniques. Still, the origin and extant distribution of nitrogen fixation has been perplexing from a phylogenetic perspective, largely because of factors that confound molecular phylogeny such as sequence divergence, paralogy, and horizontal gene transfer. Here, we make use of 110 publicly available complete genome sequences to understand how the core components of nitrogenase, including NifH, NifD, NifK, NifE, and NifN proteins, have evolved. These genes are universal in nitrogen fixing organisms-typically found within highly conserved operons-and, overall, have remarkably congruent phylogenetic histories. Additional clues to the early origins of this system are available from two distinct clades of nitrogenase paralogs: a group composed of genes essential to photosynthetic pigment biosynthesis and a group of uncharacterized genes present in methanogens and in some photosynthetic bacteria. We explore the complex genetic history of the nitrogenase family, which is replete with gene duplication, recruitment, fusion, and horizontal gene transfer and discuss these events in light of the hypothesized presence of nitrogenase in the last common ancestor of modern organisms, as well as the additional possibility that nitrogen fixation might have evolved later, perhaps in methanogenic archaea, and was subsequently transferred into the bacterial domain.

Original languageEnglish (US)
Pages (from-to)541-554
Number of pages14
JournalMolecular Biology and Evolution
Volume21
Issue number3
DOIs
StatePublished - Mar 2004

Fingerprint

Nitrogen fixation
Nitrogenase
Nitrogen Fixation
nitrogenase
nitrogen fixation
Natural History
natural history
Genes
Horizontal Gene Transfer
gene
gene transfer
Gene transfer
history
phylogeny
phylogenetics
photosynthetic bacteria
Gene Duplication
methanogens
Essential Genes
Archaea

Keywords

  • Evolution
  • Horizontal gene transfer
  • Nitrogen fixation
  • Nitrogenase

ASJC Scopus subject areas

  • Genetics
  • Biochemistry
  • Genetics(clinical)
  • Biochemistry, Genetics and Molecular Biology(all)
  • Ecology, Evolution, Behavior and Systematics
  • Agricultural and Biological Sciences (miscellaneous)
  • Molecular Biology

Cite this

Raymond, J., Siefert, J. L., Staples, C. R., & Blankenship, R. E. (2004). The Natural History of Nitrogen Fixation. Molecular Biology and Evolution, 21(3), 541-554. https://doi.org/10.1093/molbev/msh047

The Natural History of Nitrogen Fixation. / Raymond, Jason; Siefert, Janet L.; Staples, Christopher R.; Blankenship, Robert E.

In: Molecular Biology and Evolution, Vol. 21, No. 3, 03.2004, p. 541-554.

Research output: Contribution to journalArticle

Raymond, J, Siefert, JL, Staples, CR & Blankenship, RE 2004, 'The Natural History of Nitrogen Fixation', Molecular Biology and Evolution, vol. 21, no. 3, pp. 541-554. https://doi.org/10.1093/molbev/msh047
Raymond J, Siefert JL, Staples CR, Blankenship RE. The Natural History of Nitrogen Fixation. Molecular Biology and Evolution. 2004 Mar;21(3):541-554. https://doi.org/10.1093/molbev/msh047
Raymond, Jason ; Siefert, Janet L. ; Staples, Christopher R. ; Blankenship, Robert E. / The Natural History of Nitrogen Fixation. In: Molecular Biology and Evolution. 2004 ; Vol. 21, No. 3. pp. 541-554.
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