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  In defence of model-based inference in phylogeography (reply)

Beaumont, M. A., Nielsen, R., Robert, C., Hey, J., Gaggiotti, O., Knowles, L., et al. (2010). In defence of model-based inference in phylogeography (reply). Molecular Ecology, 19(3), 436-446. doi:10.1111/j.1365-294X.2009.04515.x.

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 Urheber:
Beaumont, Mark A., Autor
Nielsen, Rasmus, Autor
Robert, Christian, Autor
Hey, Jody, Autor
Gaggiotti, Oscar, Autor
Knowles, Lacey, Autor
Estoup, Arnaud, Autor
Panchal, Mahesh1, Autor           
Corander, Jukka, Autor
Hickerson, Mike, Autor
Sisson, Scott A., Autor
Fagundes, Nelson, Autor
Chikhi, Lounès, Autor
Beerli, Peter, Autor
Vitalis, Renaud, Autor
Cornuet, Jean-Marie, Autor
Huelsenbeck, John, Autor
Foll, Matthieu, Autor
Yang, Ziheng, Autor
Rousset, Francois, Autor
Balding, David, AutorExcoffier, Laurent, Autor mehr..
Affiliations:
1Department Evolutionary Ecology, Max Planck Institute for Evolutionary Biology, Max Planck Society, ou_1445634              

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Schlagwörter: molecular evolution; phylogeography; population genetics-empirical; population genetics-theoretical
 Zusammenfassung: Recent papers have promoted the view that model-based methods in general, and those based on Approximate Bayesian Computation (ABC) in particular, are flawed in a number of ways, and are therefore inappropriate for the analysis of phylogeographic data. These papers further argue that Nested Clade Phylogeographic Analysis (NCPA) offers the best approach in statistical phylogeography. In order to remove the confusion and misconceptions introduced by these papers, we justify and explain the reasoning behind model-based inference. We argue that ABC is a statistically valid approach, alongside other computational statistical techniques that have been successfully used to infer parameters and compare models in population genetics. We also examine the NCPA method and highlight numerous deficiencies, either when used with single or multiple loci. We further show that the ages of clades are carelessly used to infer ages of demographic events, that these ages are estimated under a simple model of panmixia and population stationarity but are then used under different and unspecified models to test hypotheses, a usage the invalidates these testing procedures. We conclude by encouraging researchers to study and use model-based inference in population genetics.

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Sprache(n): eng - English
 Datum: 2010-02
 Publikationsstatus: Erschienen
 Seiten: -
 Ort, Verlag, Ausgabe: -
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 Art der Begutachtung: -
 Identifikatoren: eDoc: 447233
DOI: 10.1111/j.1365-294X.2009.04515.x
Anderer: 2957/S 39302
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Titel: Molecular Ecology
Genre der Quelle: Zeitschrift
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Ort, Verlag, Ausgabe: -
Seiten: - Band / Heft: 19 (3) Artikelnummer: - Start- / Endseite: 436 - 446 Identifikator: ISSN: 0962-1083 (print)
ISSN: 1365-294X (online)