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Journal of Molecular Evolution

, Volume 59, Issue 5, pp 571–586 | Cite as

Archaea-Like Genes for C1-Transfer Enzymes in Planctomycetes: Phylogenetic Implications of Their Unexpected Presence in This Phylum

  • Margarete Bauer
  • Thierry Lombardot
  • Hanno Teeling
  • Naomi L. Ward
  • Rudolf I. Amann
  • Frank O. Glöckner
Article

Abstract

The unexpected presence of archaea-like genes for tetrahydromethanopterin (H4MPT)-dependent enzymes in the completely sequenced genome of the aerobic marine planctomycete Pirellula sp. strain 1 (“Rhodopirellula baltica”) and in the currently sequenced genome of the aerobic freshwater planctomycete Gemmata obscuriglobus strain UQM2246 revives the discussion on the origin of these genes in the bacterial domain. We compared the genomic arrangement of these genes in Planctomycetes and methylotrophic proteobacteria and performed a phylogenetic analysis of the encoded protein sequences to address the question whether the genes have been present in the common ancestor of Bacteria and Archaea or were transferred laterally from the archaeal to the bacterial domain and therein. Although this question could not be solved using the data presented here, some constraints on the evolution of the genes involved in archaeal and bacterial H4MPT-dependent C1-transfer may be proposed: (i) lateral gene transfer (LGT) from Archaea to a common ancestor of Proteobacteria and Planctomycetes seems more likely than the presence of the genes in the common ancestor of Bacteria and Archaea; (ii) a single event of interdomain LGT can be favored over two independent events; and (iii) the archaeal donor of the genes might have been a representative of the Methanosarcinales. In the bacterial domain, the acquired genes evolved according to distinct environmental and metabolic constraints, reflected by specific rearrangements of gene order, gene recruitment, and gene duplication, with subsequent functional specialization. During the course of evolution, genes were lost from some planctomycete genomes or replaced by orthologous genes from proteobacterial lineages.

Keywords

Planctomycetes Tetrahydromethanopterin Formaldehyde Oxidation Phylogeny 

Notes

Acknowledgments

Preliminary sequence data were obtained from The Institute for Genomic Research (http://www.tigr.org). Sequencing of Gemmata obscuriglobus UQM2246 and sequencing of Methylococcus capsulatus Bath were accomplished with support from DOE. The Gemmata obscuriglobus UQM2246 genome sequencing project is a collaboration between The Institute of Genomic Research and the group of John A. Fuerst at the University of Queensland, Australia. Preliminary sequence data were also obtained from the DOE Joint Genome Institute (http://www.jgi.doe.gov/). Sequencing of Burkholderia fungorum LB400 was accomplished with support from DOE. This work was supported by the Max Planck Society and the German Federal Office of Research and Education.

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Copyright information

© Springer-Verlag 2004

Authors and Affiliations

  • Margarete Bauer
    • 1
  • Thierry Lombardot
    • 1
  • Hanno Teeling
    • 1
  • Naomi L. Ward
    • 3
  • Rudolf I. Amann
    • 2
  • Frank O. Glöckner
    • 1
  1. 1.Max Planck Institute for Marine Microbiology, Microbial Genomics GroupGermany
  2. 2.Department of Molecular Ecology, Max Planck Institute for Marine MicrobiologyGermany
  3. 3.The Institute for Genomic ResearchRockvilleUSA

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