title: Human population history revealed by a supertree approach.
abstract: Over the past two decades numerous new trees of modern human populations have been published extensively but little attention has been paid to formal phylogenetic synthesis. We utilized the "matrix representation with parsimony" (MRP) method to infer a composite phylogeny (supertree) of modern human populations, based on 257 genetic/genomic, as well as linguistic, phylogenetic trees and 44 admixture plots from 200 published studies (1990-2014). The resulting supertree topology includes the most basal position of S African Khoisan followed by C African Pygmies, and the paraphyletic section of all other sub-Saharan peoples. The sub-Saharan African section is basal to the monophyletic clade consisting of the N African-W Eurasian assemblage and the consistently monophyletic Eastern superclade (Sahul-Oceanian, E Asian, and Beringian-American peoples). This topology, dominated by genetic data, is well-resolved and robust to parameter set changes, with a few unstable areas (e.g., West Eurasia, Sahul-Melanesia) reflecting the existing phylogenetic controversies. A few populations were identified as highly unstable "wildcard taxa" (e.g. Andamanese, Malagasy). The linguistic classification fits rather poorly on the supertree topology, supporting a view that direct coevolution between genes and languages is far from universal.
authors.affiliation: Department of Zoology, Faculty of Science, University of South Bohemia, České Budějovice, Czech Republic.|Center for Theoretical Study, Charles University and Academy of Sciences of the Czech Republic, Prague, Czech Republic.
authors.forename: Pavel
authors.initials: P
authors.lastname: Duda
authors.affiliation: Department of Zoology, Faculty of Science, University of South Bohemia, České Budějovice, Czech Republic.
authors.lastname: Jan Zrzavý
mesh_terms: D017954:Africa South of the Sahara; D000465:Algorithms; D041322:Chromosomes, Human, Y / Q000235:genetics*; D004272:DNA, Mitochondrial / Q000235:genetics*; D005828:Genetics, Population / Q000266:history*; D049690:History, Ancient; D006801:Humans; D008037:Linguistics; D010802:Phylogeny; D000073336:Whole Genome Sequencing
chemical_list: D004272:DNA, Mitochondrial