The evolution of a high copy gene array in arabidopsis

Joshua Kane, Michael Freeling, Eric H Lyons

Research output: Contribution to journalArticle

8 Citations (Scopus)

Abstract

Local gene duplication is a prominent mechanism of gene copy number expansion. Elucidating the mechanisms by which local duplicates arise is necessary in understanding the evolution of genomes and their host organisms. Chromosome one of Arabidopsis thaliana contains an 81-gene array subdivided into 27 triplet units (t-units), with each t-unit containing three pre-transfer RNA genes. We utilized phylogenetic tree reconstructions and comparative genomics to order the events leading to the array's formation, and propose a model using unequal crossing-over as the primary mechanism of array formation. The model is supported by additional phylogenetic information from intergenic spacer sequences separating each t-unit, comparative analysis to an orthologous array of 12 t-units in the sister taxa Arabidopsis lyrata, and additional modeling using a stochastic simulation of orthologous array divergence. Lastly, comparative phylogenetic analysis demonstrates that the two orthologous t-unit arrays undergo concerted evolution within each taxa and are likely fluctuating in copy number under neutral evolutionary drift. These findings hold larger implications for future research concerning gene and genome evolution.

Original languageEnglish (US)
Pages (from-to)531-544
Number of pages14
JournalJournal of Molecular Evolution
Volume70
Issue number6
DOIs
StatePublished - Jun 2010
Externally publishedYes

Fingerprint

Arabidopsis
gene
phylogeny
Genome
Genes
concerted evolution
gene dosage
transfer RNA
Intergenic DNA
Gene Duplication
Gene Dosage
genome
genes
crossing over
gene duplication
Genomics
Transfer RNA
phylogenetics
intergenic DNA
Arabidopsis thaliana

Keywords

  • Arabidopsis
  • Comparative genomics
  • Concerted evolution
  • Copy number variation
  • Gene array
  • Local duplication
  • Phylogenetics
  • Synteny
  • Tandem duplication
  • tRNA

ASJC Scopus subject areas

  • Molecular Biology
  • Genetics
  • Ecology, Evolution, Behavior and Systematics

Cite this

The evolution of a high copy gene array in arabidopsis. / Kane, Joshua; Freeling, Michael; Lyons, Eric H.

In: Journal of Molecular Evolution, Vol. 70, No. 6, 06.2010, p. 531-544.

Research output: Contribution to journalArticle

Kane, Joshua ; Freeling, Michael ; Lyons, Eric H. / The evolution of a high copy gene array in arabidopsis. In: Journal of Molecular Evolution. 2010 ; Vol. 70, No. 6. pp. 531-544.
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