DNA transposons and the role of recombination in mutation accumulation in Daphnia pulex

Sarah Schaack, Eunjin Choi, Michael Lynch, Ellen J. Pritham

Research output: Contribution to journalArticle

25 Citations (Scopus)

Abstract

Background: We identify DNA transposons from the completed draft genome sequence of Daphnia pulex, a cyclically parthenogenetic, aquatic microcrustacean of the class Branchiopoda. In addition, we experimentally quantify the abundance of six DNA transposon families in mutation-accumulation lines in which sex is either promoted or prohibited in order to better understand the role of recombination in transposon proliferation.Results: We identified 55 families belonging to 10 of the known superfamilies of DNA transposons in the genome of D. pulex. DNA transposons constitute approximately 0.7% of the genome. We characterized each family and, in many cases, identified elements capable of activity in the genome. Based on assays of six putatively active element families in mutation-accumulation lines, we compared DNA transposon abundance in lines where sex was either promoted or prohibited. We find the major difference in abundance in sexuals relative to asexuals in lab-reared lines is explained by independent assortment of heterozygotes in lineages where sex has occurred.Conclusions: Our examination of the duality of sex as a mechanism for both the spread and elimination of DNA transposons in the genome reveals that independent assortment of chromosomes leads to significant copy loss in lineages undergoing sex. Although this advantage may offset the so-called 'two fold cost of sex' in the short-term, if insertions become homozygous at specific loci due to recombination, the advantage of sex may be decreased over long time periods. Given these results, we discuss the potential effects of sex on the dynamics of DNA transposons in natural populations of D. pulex.

Original languageEnglish (US)
Article numberR46
JournalGenome Biology
Volume11
Issue number4
DOIs
StatePublished - Apr 30 2010
Externally publishedYes

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Daphnia
Daphnia pulex
DNA Transposable Elements
transposons
Genetic Recombination
recombination
mutation
DNA
gender
genome
Genome
Branchiopoda
Mutation Accumulation
Heterozygote
chromosome
heterozygosity
assay
fold
Chromosomes
chromosomes

ASJC Scopus subject areas

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

Cite this

DNA transposons and the role of recombination in mutation accumulation in Daphnia pulex. / Schaack, Sarah; Choi, Eunjin; Lynch, Michael; Pritham, Ellen J.

In: Genome Biology, Vol. 11, No. 4, R46, 30.04.2010.

Research output: Contribution to journalArticle

Schaack, Sarah ; Choi, Eunjin ; Lynch, Michael ; Pritham, Ellen J. / DNA transposons and the role of recombination in mutation accumulation in Daphnia pulex. In: Genome Biology. 2010 ; Vol. 11, No. 4.
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