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    Identification of microsatellites from an extinct moa species using highthroughput (454) sequence data

    Access Status
    Open access via publisher
    Authors
    Allentoft, M.
    Schuster, S.
    Holdaway, R.
    Hale, M.
    McLay, E.
    Oskam, C.
    Gilbert, Thomas
    Spencer, P.
    Willerslev, E.
    Bunce, Michael
    Date
    2009
    Type
    Journal Article
    
    Metadata
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    Citation
    Allentoft, M. and Schuster, S. and Holdaway, R. and Hale, M. and McLay, E. and Oskam, C. and Gilbert, T. et al. 2009. Identification of microsatellites from an extinct moa species using highthroughput (454) sequence data. BioTechniques. 46: pp. 195-200.
    Source Title
    BioTechniques
    DOI
    10.2144/000113086
    ISSN
    0736-6205
    URI
    http://hdl.handle.net/20.500.11937/18655
    Collection
    • Curtin Research Publications
    Abstract

    Genetic variation in microsatellites is rarely examined in the field of ancientDNA (aDNA) due to the low quantity of nuclear DNA in the fossil record together with the lack of characterized nuclear markers in extinct species. 454 sequencing platforms provide a new high-throughput technology capable of generating up to 1 gigabases per run as short (200–400-bp) read lengths. 454 data were generated from the fossil bone of an extinct New Zealand moa (Aves:Dinornithiformes). We identified numerous short tandem repeat (STR) motifs, and here present the successful isolation and characterization of one polymorphic microsatellite (Moa_MS2). Primers designed to flank this locus amplified all three moa species tested here. The presented method proved to be a fast and efficient way of identifying microsatellite markers in ancient DNAtemplates and, depending on biomolecule preservation, has the potential of enabling high-resolution population genetic studies of extinct taxa. As sequence read lengths of the 454 platforms and its competitors (e.g., the SOLEXA and SOLiD platforms) increase, this approach will become increasingly powerful in identifying microsatellites in extinct (and extant) organisms, and will affordnew opportunities to study past biodiversity and extinction processes.

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