Integrating statistical genetic and geospatial methods brings new power to phylogeography

LM Chan, JL Brown, AD Yoder - Molecular phylogenetics and evolution, 2011 - Elsevier
The field of phylogeography continues to grow in terms of power and accessibility. Initially
uniting population genetics and phylogenetics, it now spans disciplines as diverse as …

A practical guide to design and assess a phylogenomic study

J Lozano-Fernandez - Genome Biology and Evolution, 2022 - academic.oup.com
Over the last decade, molecular systematics has undergone a change of paradigm as high-
throughput sequencing now makes it possible to reconstruct evolutionary relationships …

Statistical phylogeography

LL Knowles - Annual Review of Ecology, Evolution, and …, 2009 - annualreviews.org
Phylogeography's objective—to understand the processes underlying the spatial and
temporal dimensions of genetic variation—underlies both the prominence and extensive …

Distribution modelling and statistical phylogeography: an integrative framework for generating and testing alternative biogeographical hypotheses

CL Richards, BC Carstens… - Journal of …, 2007 - Wiley Online Library
Statistical phylogeographic studies contribute to our understanding of the factors that
influence population divergence and speciation, and that ultimately generate …

Toward a paradigm shift in comparative phylogeography driven by trait-based hypotheses

A Papadopoulou, LL Knowles - Proceedings of the …, 2016 - National Acad Sciences
For three decades, comparative phylogeography has conceptually and methodologically
relied on the concordance criterion for providing insights into the historical/biogeographic …

Conserved genes, sampling error, and phylogenomic inference

R Betancur-R, GJP Naylor, G Ortí - Systematic biology, 2014 - academic.oup.com
Disagreement or conflict among phylogenetic hypotheses obtained by analysis of large,
genomewide data sets has incited debate over potential benefits, pitfalls, and best practices …

The burgeoning field of statistical phylogeography

LL Knowles - Journal of evolutionary biology, 2004 - academic.oup.com
In the newly emerging field of statistical phylogeography, consideration of the stochastic
nature of genetic processes and explicit reference to theoretical expectations under various …

To what extent current limits of phylogenomics can be overcome?

P Simion, F Delsuc, H Philippe - Phylogenetics in the genomic era, 2020 - hal.science
Current phylogenomic methods are still a long way from implementing a realistic genome
evolution model. An ideal approach would require a general joint analysis of genomic …

Twenty years of phylogeography: the state of the field and the challenges for the Southern Hemisphere

LB Beheregaray - Molecular Ecology, 2008 - Wiley Online Library
Phylogeography is a young, vigorous and integrative field of study that uses genetic data to
understand the history of populations. This field has recently expanded into many areas of …

Statistics and truth in phylogenomics

S Kumar, AJ Filipski, FU Battistuzzi… - Molecular biology …, 2012 - academic.oup.com
Phylogenomics refers to the inference of historical relationships among species using
genome-scale sequence data and to the use of phylogenetic analysis to infer protein …