Genome dynamics in a natural archaeal population

Allen, Eric E., Tyson, Gene W., Whitaker, Rachel J., Detter, John C., Richardson, Paul M. and Banfield, Jillian F. (2007) Genome dynamics in a natural archaeal population. Proceedings of the National Academy of Sciences of the United States of America, 104 6: 1883-1888. doi:10.1073/pnas.0604851104

Author Allen, Eric E.
Tyson, Gene W.
Whitaker, Rachel J.
Detter, John C.
Richardson, Paul M.
Banfield, Jillian F.
Title Genome dynamics in a natural archaeal population
Journal name Proceedings of the National Academy of Sciences of the United States of America   Check publisher's open access policy
ISSN 0027-8424
Publication date 2007-02-06
Year available 2007
Sub-type Article (original research)
DOI 10.1073/pnas.0604851104
Open Access Status Not Open Access
Volume 104
Issue 6
Start page 1883
End page 1888
Total pages 6
Place of publication Washington, D.C.
Publisher National Academy of Sciences of the U.S.
Language eng
Subject 03 Chemical Sciences
0304 Medicinal and Biomolecular Chemistry
0305 Organic Chemistry
Abstract Evolutionary processes that give rise to, and limit, diversification within strain populations can be deduced from the form and distribution of genomic heterogeneity. The extent of genomic change that distinguishes the acidophilic archaeon Ferroplasma acidarmanus fer1 from an environmental population of the same species from the same site, fer1(env), was determined by comparing the 1.94-megabase (Mb) genome sequence of the isolate with that reconstructed from 8 Mb of environmental sequence data. The fer1(env) composite sequence sampled ≈92% of the isolate genome. Environmental sequence data were also analyzed to reveal genomic heterogeneity within the coexisting, coevolving fer1(env) population. Analyses revealed that transposase movement and the insertion and loss of blocks of novel genes of probable phage origin occur rapidly enough to give rise to heterogeneity in gene content within the local population. Because the environmental DNA was derived from many closely related individuals, it was possible to quantify gene sequence variability within the population. All but a few gene variants show evidence of strong purifying selection. Based on the small number of distinct sequence types and their distribution, we infer that the population is undergoing frequent genetic recombination, resulting in a mosaic genome pool that is shaped by selection. The larger genetic potential of the population relative to individuals within it and the combinatorial process that results in many closely related genome types may provide the basis for adaptation to environmental fluctuations.
Keyword Archaea
Population genomics
Q-Index Code C1

Document type: Journal Article
Sub-type: Article (original research)
Collections: Excellence in Research Australia (ERA) - Collection
School of Chemistry and Molecular Biosciences
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Created: Tue, 22 Dec 2009, 09:20:59 EST by Macushla Boyle on behalf of Faculty of Science