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genotype and genodive: two programs for the analysis of genetic diversity of asexual organisms

Authors

  • PATRICK G. MEIRMANS,

    1. Institute for Biodiversity and Ecosystem Dynamics, Universiteit van Amsterdam, Kruislaan 318, 1098 SM, Amsterdam, The Netherlands
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  • PETER H. VAN TIENDEREN

    Corresponding author
    1. Institute for Biodiversity and Ecosystem Dynamics, Universiteit van Amsterdam, Kruislaan 318, 1098 SM, Amsterdam, The Netherlands
      Peter H. van Tienderen. E-mail: tienderen@science.uva.nl
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Peter H. van Tienderen. E-mail: tienderen@science.uva.nl

Abstract

Investigating diversity in asexual organisms using molecular markers involves the assignment of individuals to clonal lineages and the subsequent analysis of clonal diversity. Assignment is possible using a distance matrix in combination with a user-specified threshold, defined as the maximum distance between two individuals that are considered to belong to the same clonal lineage. Analysis of clonal diversity requires tests for differences in diversity and clonal composition between populations. We developed two programs, genotype and genodive for such analyses of clonal diversity in asexually reproducing organisms. Additionally, genotype can be used for detecting genotyping errors in studies of sexual organisms.

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