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In defence of model-based inference in phylogeography (Reply) Inra
Beaumont, M.A.; Nielsen, R.; Robert, C.; Hey, J.; Gaggiotti, O; Knowles, L.; Estoup, A.; Panchal, M.; Corander, J.; Hickerson, M.; Sisson, S.A.; Fagundes, N.; Chikhi, L.; Beerli, P.; Vitalis, R.; Cornuet, J.M.; Huelsenbeck, J.; Foll, M.; Yang, Z.; Rousset, F.; Balding, D.; Excoffier, L..
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...
Tipo: Journal Article Palavras-chave: PHYLOGEOGRAPHIE MOLECULAR EVOLUTION; PHYLOGEOGRAPHY; POPULATION GENETICS-EMPIRICAL; POPULATION GENETICS-THEORETICAL.
Ano: 2010 URL: http://www.prodinra.inra.fr/prodinra/pinra/doc.xsp?id=PROD2010a6a04229&uri=/notices/prodinra1/2010/12/
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Origins and genetic diversity of Pygmy hunter-gatherers from Western Central Africa Inra
Verdu, P.; Austerlitz, F.; Estoup, A.; Vitalis, R.; Georges, M.; Théry, S.; Froment, A.; Le Bomin, S.; Gessain, A.; Hombert, J.M.; Van der Veen, L.; Quintana-Murci, L.; Bahuchet, S.; Heyer, E..
Central Africa is currently peopled by numerous sedentary agriculturalist populations neighboring the largest group of mobile hunter-gatherers, the Pygmies [1-3]. Although archeological remains attest to Homo sapiens' presence in the Congo Basin for at least 30,000 years, the demographic history of these groups, including divergence and admixture, remains widely unknown [4-6]. Moreover, it is still debated whether common history or convergent adaptation to a forest environment resulted in the short stature characterizing the pygmies [2,7]. We genotyped 604 individuals at 28 autosomal tetranucleotide microsatellite loci in 12 nonpygmy and 9 neighboring pygmy populations. We found a high level of genetic heterogeneity among Western Central African pygmies,...
Tipo: Journal Article Palavras-chave: PIGMEES.
Ano: 2009 URL: http://www.prodinra.inra.fr/prodinra/pinra/doc.xsp?id=PROD20107fa0c64e&uri=/notices/prodinra1/2010/08/
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Système génétique, polymorphisme neutre et sélectionné: implications en biologie de la conservation Inra
Godelle, B.; Austerlitz, F.; Brachet, S.; Colas, B.; Cuguen, J.; Gandon, S.; Gouyon, P.H.; Lefranc, M.; Olivieri, I.; Reboud, X.; Vitalis, R..
La diversité neutre est très souvent considérée comme un bon indicateur des capacités évolutives des populations, dans la mesure où elle renseignerait sur la variabilité génétique sélectionnée. Cependant, à la lumière des travaux récents de génétique des populations, il est possible de montrer qu’elle est surtout un indicateur de l’histoire démographique (incluant les conséquences démographiques des phases de sélection). En outre, c’est autant la qualité génétique que la variabilité génétique sélectionnée qui est importante du point de vue de la biologie de la conservation. Un tel résultat est une conséquence naturelle du rapprochement qui s’opère entre la génétique des populations et la démographie : comprendre les bases génétiques des...
Tipo: Journal Article Palavras-chave: BIOLOGIE DE LA CONSERVATION; CONSANGUINITE; POLYMORPHISME; EVOLUTION; INBREEDING.
Ano: 1998 URL: http://www.prodinra.inra.fr/prodinra/pinra/doc.xsp?id=PUB0000034064083103&uri=/notices/prodinra1/2007/07/
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