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Informativeness of Microsatellite Markers

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Microsatellites

Part of the book series: Methods in Molecular Biology ((MIMB,volume 1006))

Abstract

Simple sequence repeats (SSR) are extensively used as genetic markers for studies of diversity, genetic mapping, and cultivar discrimination. The informativeness of a given SSR locus or a loci group depends on the number of alleles, their frequency distribution, as well as the kind of application. Here I describe several methods for calculating marker informativeness, all of them suitable for SSR polymorphisms, proposed by several authors and synthesized in an Information Theory framework. Additionally, free access software resources are described as well as their application through worked examples.

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Acknowledgements

I am thankful to Stella Kantarzi, who provided soybean SSR data to be used in one of the examples; to Noah Rosenberg, who reviewed the material related to his developments in marker informativeness; and to José Reyes, who checked my R scripts.

The R functions used in this book chapter can be accessed through the following link: http://www.uaaan.mx/∼mhreyes/Functions­ChapterSSR.html.

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Authors and Affiliations

  1. Department of Plant Breeding, Universidad Autónoma Agraria Antonio Narro, Saltillo, Coahuila, Mexico

    M. Humberto Reyes-Valdés

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  1. M. Humberto Reyes-Valdés
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Editors and Affiliations

  1. , Department of Plant, Soil,, Southern Illinois University, Carbondale, Lincoln Drive 1205, Carbondale, 62901, Illinois, USA

    Stella K. Kantartzi

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Reyes-Valdés, M.H. (2013). Informativeness of Microsatellite Markers. In: Kantartzi, S. (eds) Microsatellites. Methods in Molecular Biology, vol 1006. Humana Press, Totowa, NJ. https://doi.org/10.1007/978-1-62703-389-3_18

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  • DOI: https://doi.org/10.1007/978-1-62703-389-3_18

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  • Publisher Name: Humana Press, Totowa, NJ

  • Print ISBN: 978-1-62703-388-6

  • Online ISBN: 978-1-62703-389-3

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