Literature DB >> 18245344

A new Bayesian method to identify the environmental factors that influence recent migration.

Pierre Faubet1, Oscar E Gaggiotti.   

Abstract

We present a new multilocus genotype method that makes inferences about recent immigration rates and identifies the environmental factors that are more likely to explain observed gene flow patterns. It also estimates population-specific inbreeding coefficients, allele frequencies, and local population F(ST)'s and performs individual assignments. We generate synthetic data sets to determine the region of the parameter space where our method is and is not able to provide accurate estimates. Our simulation study indicates that reliable results can be obtained when the global level of genetic differentiation (F(ST)) is >1%, the number of loci is only 10, and sample sizes are of the order of 50 individuals per population. We illustrate our method by applying it to Pakistani human data, considering altitude and geographic distance as explanatory factors. Our results suggest that altitude explains better the genetic data than geographic distance. Additionally, they show that southern low-altitude populations have higher migration rates than northern high-altitude ones.

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Year:  2008        PMID: 18245344      PMCID: PMC2278086          DOI: 10.1534/genetics.107.082560

Source DB:  PubMed          Journal:  Genetics        ISSN: 0016-6731            Impact factor:   4.562


  17 in total

1.  Maximum likelihood estimation of a migration matrix and effective population sizes in n subpopulations by using a coalescent approach.

Authors:  P Beerli; J Felsenstein
Journal:  Proc Natl Acad Sci U S A       Date:  2001-04-03       Impact factor: 11.205

2.  A human genome diversity cell line panel.

Authors:  Howard M Cann; Claudia de Toma; Lucien Cazes; Marie-Fernande Legrand; Valerie Morel; Laurence Piouffre; Julia Bodmer; Walter F Bodmer; Batsheva Bonne-Tamir; Anne Cambon-Thomsen; Zhu Chen; J Chu; Carlo Carcassi; Licinio Contu; Ruofu Du; Laurent Excoffier; G B Ferrara; Jonathan S Friedlaender; Helena Groot; David Gurwitz; Trefor Jenkins; Rene J Herrera; Xiaoyi Huang; Judith Kidd; Kenneth K Kidd; Andre Langaney; Alice A Lin; S Qasim Mehdi; Peter Parham; Alberto Piazza; Maria Pia Pistillo; Yaping Qian; Qunfang Shu; Jiujin Xu; S Zhu; James L Weber; Henry T Greely; Marcus W Feldman; Gilles Thomas; Jean Dausset; L Luca Cavalli-Sforza
Journal:  Science       Date:  2002-04-12       Impact factor: 47.728

3.  Inference of population structure using multilocus genotype data: linked loci and correlated allele frequencies.

Authors:  Daniel Falush; Matthew Stephens; Jonathan K Pritchard
Journal:  Genetics       Date:  2003-08       Impact factor: 4.562

4.  Genetic structure of human populations.

Authors:  Noah A Rosenberg; Jonathan K Pritchard; James L Weber; Howard M Cann; Kenneth K Kidd; Lev A Zhivotovsky; Marcus W Feldman
Journal:  Science       Date:  2002-12-20       Impact factor: 47.728

5.  Identifying adaptive genetic divergence among populations from genome scans.

Authors:  Mark A Beaumont; David J Balding
Journal:  Mol Ecol       Date:  2004-04       Impact factor: 6.185

6.  Linkage disequilibrium due to random genetic drift in finite subdivided populations.

Authors:  T Ohta
Journal:  Proc Natl Acad Sci U S A       Date:  1982-03       Impact factor: 11.205

7.  Bayesian clustering using hidden Markov random fields in spatial population genetics.

Authors:  Olivier François; Sophie Ancelet; Gilles Guillot
Journal:  Genetics       Date:  2006-08-03       Impact factor: 4.562

8.  Identifying the environmental factors that determine the genetic structure of populations.

Authors:  Matthieu Foll; Oscar Gaggiotti
Journal:  Genetics       Date:  2006-09-01       Impact factor: 4.562

9.  Significant genetic correlations among Caucasians at forensic DNA loci.

Authors:  D J Balding; R A Nichols
Journal:  Heredity (Edinb)       Date:  1997-06       Impact factor: 3.821

10.  A spatial statistical model for landscape genetics.

Authors:  Gilles Guillot; Arnaud Estoup; Frédéric Mortier; Jean François Cosson
Journal:  Genetics       Date:  2004-11-01       Impact factor: 4.562

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  27 in total

1.  A longitudinal genetic survey identifies temporal shifts in the population structure of Dutch house sparrows.

Authors:  L Cousseau; M Husemann; R Foppen; C Vangestel; L Lens
Journal:  Heredity (Edinb)       Date:  2016-06-08       Impact factor: 3.821

Review 2.  Invasions and extinctions through the looking glass of evolutionary ecology.

Authors:  Robert I Colautti; Jake M Alexander; Katrina M Dlugosch; Stephen R Keller; Sonia E Sultan
Journal:  Philos Trans R Soc Lond B Biol Sci       Date:  2017-01-19       Impact factor: 6.237

3.  No signs of inbreeding despite long-term isolation and habitat fragmentation in the critically endangered Montseny brook newt (Calotriton arnoldi).

Authors:  E Valbuena-Ureña; A Soler-Membrives; S Steinfartz; P Orozco-terWengel; S Carranza
Journal:  Heredity (Edinb)       Date:  2017-01-11       Impact factor: 3.821

4.  Response to Janecka et al. 2017.

Authors:  H Senn; G Murray-Dickson; A C Kitchener; P Riordan; D Mallon
Journal:  Heredity (Edinb)       Date:  2017-12-11       Impact factor: 3.821

5.  Gene flow and population structure of a common agricultural wild species (Microtus agrestis) under different land management regimes.

Authors:  C Marchi; L W Andersen; C Damgaard; K Olsen; T S Jensen; V Loeschcke
Journal:  Heredity (Edinb)       Date:  2013-07-31       Impact factor: 3.821

6.  Potential drivers of samango monkey (Cercopithecus albogularis) population subdivision in a highly fragmented mountain landscape in northern South Africa.

Authors:  Birthe Linden; Desiré L Dalton; Anna Van Wyk; Deon de Jager; Yoshan Moodley; Peter J Taylor
Journal:  Primates       Date:  2022-02-28       Impact factor: 2.163

7.  Landscape genetics of the nonnative red fox of California.

Authors:  Benjamin N Sacks; Jennifer L Brazeal; Jeffrey C Lewis
Journal:  Ecol Evol       Date:  2016-06-16       Impact factor: 2.912

8.  Evidence for isolation-by-habitat among populations of an epiphytic orchid species on a small oceanic island.

Authors:  Bertrand Mallet; Florent Martos; Laury Blambert; Thierry Pailler; Laurence Humeau
Journal:  PLoS One       Date:  2014-02-03       Impact factor: 3.240

9.  Spatial variation in anthropogenic mortality induces a source-sink system in a hunted mesopredator.

Authors:  Liaan Minnie; Andrzej Zalewski; Hanna Zalewska; Graham I H Kerley
Journal:  Oecologia       Date:  2018-01-31       Impact factor: 3.225

Review 10.  Using genetics to understand the dynamics of wild primate populations.

Authors:  Linda Vigilant; Katerina Guschanski
Journal:  Primates       Date:  2009-01-28       Impact factor: 2.163

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