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GESP: A computer program for modelling genetic effective population size, inbreeding and divergence in substructured populations
Stockholm University, Faculty of Science, Department of Mathematics.
Stockholm University, Faculty of Science, Department of Zoology.
Stockholm University, Faculty of Science, Department of Mathematics.
Stockholm University, Faculty of Science, Department of Zoology.
Number of Authors: 42017 (English)In: Molecular Ecology Resources, ISSN 1755-098X, E-ISSN 1755-0998, Vol. 17, no 6, p. 1378-1384Article in journal (Refereed) Published
Abstract [en]

The genetically effective population size (N-e) is of key importance for quantifying rates of inbreeding and genetic drift and is often used in conservation management to set targets for genetic viability. The concept was developed for single, isolated populations and the mathematical means for analysing the expected N-e in complex, subdivided populations have previously not been available. We recently developed such analytical theory and central parts of that work have now been incorporated into a freely available software tool presented here. gesp (Genetic Effective population size, inbreeding and divergence in Substructured Populations) is R-based and designed to model short- and long-term patterns of genetic differentiation and effective population size of subdivided populations. The algorithms performed by gesp allow exact computation of global and local inbreeding and eigenvalue effective population size, predictions of genetic divergence among populations (G(ST)) as well as departures from random mating (F-IS, F-IT) while varying (i) subpopulation census and effective size, separately or including trend of the global population size, (ii) rate and direction of migration between all pairs of subpopulations, (iii) degree of relatedness and divergence among subpopulations, (iv) ploidy (haploid or diploid) and (v) degree of selfing. Here, we describe gesp and exemplify its use in conservation genetics modelling.

Place, publisher, year, edition, pages
2017. Vol. 17, no 6, p. 1378-1384
Keywords [en]
eigenvalue effective size, inbreeding coefficient, inbreeding effective size, kinship coefficient, metapopulation effective size, migration, software, subpopulation differentiation
National Category
Biological Sciences Mathematics
Identifiers
URN: urn:nbn:se:su:diva-150004DOI: 10.1111/1755-0998.12673ISI: 000415921900048PubMedID: 28339169OAI: oai:DiVA.org:su-150004DiVA, id: diva2:1167746
Available from: 2017-12-19 Created: 2017-12-19 Last updated: 2017-12-19Bibliographically approved

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Laikre, LindaHössjer, OlaRyman, Nils
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