The application of LTR retrotransposons as molecular markers in plants

Alan H. Schulman, Alan J. Flavell, Etienne Paux, T. H. Noel Ellis

    Research output: Chapter in Book/Report/Conference proceedingChapter (peer-reviewed)

    51 Citations (Scopus)


    Retrotransposons are a major agent of genome evolution. Various molecular marker systems have been developed that exploit the ubiquitous nature of these genetic elements and their property of stable integration into dispersed chromosomal loci that are polymorphic within species. The key methods, SSAP, IRAP, REMAP, RBIP, and ISBP, all detect the sites at which the retrotransposon DNA, which is conserved between families of elements, is integrated into the genome. Marker systems exploiting these methods can be easily developed and inexpensively deployed in the absence of extensive genome sequence data. They offer access to the dynamic and polymorphic, nongenic portion of the genome and thereby complement methods, such as gene-derived SNPs, that target primarily the genic fraction.
    Original languageEnglish
    Title of host publicationMobile genetic elements
    Subtitle of host publicationprotocols and genomic applications
    EditorsJohn M. Walker, Yves Bigot
    Place of PublicationNew York
    PublisherHumana Press
    Number of pages39
    ISBN (Electronic)9781617796036
    ISBN (Print)9781617796029
    Publication statusPublished - 2012

    Publication series

    NameMethods in Molecular Biology
    PublisherHumana Press
    ISSN (Print)1064-3745
    ISSN (Electronic)1940-6029


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