Using AFLP markers and the Geneland program for the inference of population genetic structure

Gilles Guillot, Filipe Santos

    Research output: Contribution to journalJournal articleResearchpeer-review

    Abstract

    The use of dominant markers such as amplified fragment length polymorphism (AFLP) for population genetics analyses is often impeded by the lack of appropriate computer programs and rarely motivated by objective considerations. The point of the present note is twofold: (i) we describe how the computer program Geneland designed to infer population structure has been adapted to deal with dominant markers; and (ii) we use Geneland for numerical comparison of dominant and codominant markers to perform clustering. AFLP markers lead to less accurate results than bi-allelic codominant markers such as single nucleotide polymorphisms (SNP) markers but this difference becomes negligible for data sets of common size (number of individuals n≥100, number of markers L≥200). The latest Geneland version (3.2.1) handling dominant markers is freely available as an R package with a fully clickable graphical interface. Installation instructions and documentation can be found on http://www2.imm.dtu.dk/~gigu/Geneland.
    Original languageEnglish
    JournalMolecular Ecology Resources
    Volume10
    Issue number6
    Pages (from-to)1082-1084
    ISSN1755-098X
    DOIs
    Publication statusPublished - 2010

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