Five hundred and twenty-eight microsatellite markers for ecological genomic investigations using Daphnia

J. K. Colbourne, B. Robison, K. Bogart, Michael Lynch

Research output: Contribution to journalArticle

45 Citations (Scopus)

Abstract

Until recently, an enormous effort was needed to apply genomic tools to ecological investigations, especially when striving to uncover the functional mechanisms of phenotypic plasticity and the genetic basis of evolutionary adaptation within natural populations. This present study aimed to develop a genomic resource for an organism ideally suited for functional ecology and evolutionary research. Over 760 unique DNA fragments containing microsatellite loci were isolated and characterized from Daphnia to provide more than 500 molecular markers for constructing a genetic map and for localizing chromosomal regions containing genes of ecological importance via quantitative trait locus analyses. Although primarily developed to genotype members of the Daphnia pulex species complex, a significant fraction of these markers is potentially valuable for population genetics and recombination mapping of distantly related species. Over 60% of markers tested in cross-specific amplifications are possibly conserved within the subgenus Daphnia, whereas 48 and 18% of tested primers are found to amplify subgenus Hyalodaphnia and subgenus Ctenodaphnia DNA, which represents ∼140 and 200 million years of evolutionary preservation.

Original languageEnglish (US)
Pages (from-to)485-490
Number of pages6
JournalMolecular Ecology Notes
Volume4
Issue number3
DOIs
StatePublished - Sep 1 2004
Externally publishedYes

Fingerprint

Daphnia
Microsatellite Repeats
genomics
microsatellite repeats
Daphnia pulex
evolutionary adaptation
DNA
Ecology
phenotypic plasticity
Plasticity
Amplification
quantitative trait loci
population genetics
Genes
Quantitative Trait Loci
Population Genetics
species complex
ecology
Genetic Recombination
loci

Keywords

  • Cladocera
  • Daphnia Genetics Consortium
  • Genetic markers
  • Simple sequence repeats
  • VNTR
  • Water flea

ASJC Scopus subject areas

  • Biochemistry
  • Ecology
  • Biochemistry, Genetics and Molecular Biology(all)

Cite this

Five hundred and twenty-eight microsatellite markers for ecological genomic investigations using Daphnia. / Colbourne, J. K.; Robison, B.; Bogart, K.; Lynch, Michael.

In: Molecular Ecology Notes, Vol. 4, No. 3, 01.09.2004, p. 485-490.

Research output: Contribution to journalArticle

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