{"status":"ok","message-type":"work","message-version":"1.0.0","message":{"indexed":{"date-parts":[[2026,4,10]],"date-time":"2026-04-10T21:10:18Z","timestamp":1775855418475,"version":"3.50.1"},"reference-count":31,"publisher":"Public Library of Science (PLoS)","issue":"5","license":[{"start":{"date-parts":[[2013,5,7]],"date-time":"2013-05-07T00:00:00Z","timestamp":1367884800000},"content-version":"unspecified","delay-in-days":0,"URL":"http:\/\/creativecommons.org\/licenses\/by\/4.0\/"}],"content-domain":{"domain":["www.plosone.org"],"crossmark-restriction":false},"short-container-title":["PLoS ONE"],"DOI":"10.1371\/journal.pone.0062992","type":"journal-article","created":{"date-parts":[[2013,5,8]],"date-time":"2013-05-08T01:21:00Z","timestamp":1367976060000},"page":"e62992","update-policy":"https:\/\/doi.org\/10.1371\/journal.pone.corrections_policy","source":"Crossref","is-referenced-by-count":315,"title":["The Confounding Effect of Population Structure on Bayesian Skyline Plot Inferences of Demographic History"],"prefix":"10.1371","volume":"8","author":[{"given":"Rasmus","family":"Heller","sequence":"first","affiliation":[]},{"given":"Lounes","family":"Chikhi","sequence":"additional","affiliation":[]},{"given":"Hans Redlef","family":"Siegismund","sequence":"additional","affiliation":[]}],"member":"340","published-online":{"date-parts":[[2013,5,7]]},"reference":[{"key":"ref1","doi-asserted-by":"crossref","first-page":"1429","DOI":"10.1093\/genetics\/155.3.1429","article-title":"An integrated framework for the inference of viral population history from reconstructed genealogies","volume":"155","author":"OG Pybus","year":"2000","journal-title":"Genetics"},{"key":"ref2","doi-asserted-by":"crossref","first-page":"1185","DOI":"10.1093\/molbev\/msi103","article-title":"Bayesian coalescent inference of past population dynamics from molecular sequences","volume":"22","author":"AJ Drummond","year":"2005","journal-title":"Mol Biol Evol"},{"key":"ref3","doi-asserted-by":"crossref","first-page":"468","DOI":"10.1093\/molbev\/msm277","article-title":"mtDNA variation predicts population size in humans and reveals a major southern Asian chapter in human prehistory","volume":"25","author":"QD Atkinson","year":"2008","journal-title":"Mol Biol Evol"},{"key":"ref4","doi-asserted-by":"crossref","first-page":"e3157","DOI":"10.1371\/journal.pone.0003157","article-title":"A reevaluation of the native American mtDNA genome diversity and its bearing on the models of early colonization of Beringia","volume":"3(9)","author":"NJR Fagundes","year":"2008","journal-title":"PLoS One"},{"key":"ref5","doi-asserted-by":"crossref","first-page":"6044","DOI":"10.1073\/pnas.0914274108","article-title":"Rapid, global demographic expansions after the origins of agriculture","volume":"108","author":"CR Gignoux","year":"2011","journal-title":"Proc Natl Acad Sci USA"},{"key":"ref6","doi-asserted-by":"crossref","first-page":"1561","DOI":"10.1126\/science.1101074","article-title":"Rise and fall of the Beringian steppe bison","volume":"306","author":"B Shapiro","year":"2004","journal-title":"Science"},{"key":"ref7","doi-asserted-by":"crossref","first-page":"5675","DOI":"10.1073\/pnas.0907189107","article-title":"Ancient DNA analyses exclude humans as the driving force behind late Pleistocene musk ox (<italic>Ovibos moschatus<\/italic>) population dynamics","volume":"107","author":"P Campos","year":"2010","journal-title":"Proc Natl Acad Sci USA"},{"key":"ref8","doi-asserted-by":"crossref","first-page":"359","DOI":"10.1038\/nature10574","article-title":"Species-specific responses of Late Quaternary megafauna to climate and humans","volume":"479","author":"ED Lorenzen","year":"2011","journal-title":"Nature"},{"key":"ref9","doi-asserted-by":"crossref","first-page":"205","DOI":"10.1534\/genetics.108.094904","article-title":"The impact of sampling schemes on the site frequency spectrum in nonequilibrium subdivided populations","volume":"182","author":"T St\u00e4dler","year":"2009","journal-title":"Genetics"},{"key":"ref10","doi-asserted-by":"crossref","first-page":"983","DOI":"10.1534\/genetics.110.118661","article-title":"The confounding effects of population structure, genetic diversity and the sampling scheme on the detection and quantification of population size changes","volume":"186","author":"L Chikhi","year":"2010","journal-title":"Genetics"},{"key":"ref11","doi-asserted-by":"crossref","first-page":"4648","DOI":"10.1111\/j.1365-294X.2010.04783.x","article-title":"Distinguishing between population bottleneck and population subdivision by a Bayesian model choice procedure","volume":"19","author":"MB Peter","year":"2010","journal-title":"Mol Ecol"},{"key":"ref12","doi-asserted-by":"crossref","unstructured":"Heled J, Drummond AJ (2008) Bayesian inference of population size history from multiple loci. BMC Evol Biol 8:doi:10.1186\/1471-2148-8-289.","DOI":"10.1186\/1471-2148-8-289"},{"key":"ref13","doi-asserted-by":"crossref","first-page":"423","DOI":"10.1111\/j.1755-0998.2011.02988.x","article-title":"Skyline-plot methods for estimating demographic history from nucleotide sequences","volume":"11","author":"SYW Ho","year":"2011","journal-title":"Mol Ecol Resour"},{"key":"ref14","doi-asserted-by":"crossref","first-page":"1836","DOI":"10.1093\/genetics\/153.4.1863","article-title":"Non-equilibrium migration in human history","volume":"153","author":"J Wakeley","year":"1999","journal-title":"Genetics"},{"key":"ref15","doi-asserted-by":"crossref","first-page":"365","DOI":"10.1038\/sj.hdy.6800447","article-title":"Recent developments in genetic data analysis: What can they tell us about human demographic history?","volume":"92","author":"MA Beaumont","year":"2004","journal-title":"Heredity"},{"key":"ref16","doi-asserted-by":"crossref","first-page":"1034","DOI":"10.1111\/j.1365-294X.2008.04059.x","article-title":"Statistical inferences in phylogeography","volume":"18","author":"R Nielsen","year":"2009","journal-title":"Mol Ecol"},{"key":"ref17","doi-asserted-by":"crossref","first-page":"949","DOI":"10.1111\/j.0014-3820.2003.tb00307.x","article-title":"Coalescence in a metapopulation with recurrent local extinction and recolonization","volume":"57","author":"JR Pannell","year":"2003","journal-title":"Evolution"},{"key":"ref18","doi-asserted-by":"crossref","first-page":"2013","DOI":"10.1093\/genetics\/153.4.2013","article-title":"Detecting population expansion and decline using microsatellites","volume":"153","author":"MA Beaumont","year":"1999","journal-title":"Genetics"},{"key":"ref19","doi-asserted-by":"crossref","unstructured":"Smitz N, Berthouly C, Cornelis D, Heller R, Van Hooft WF, <etal>et al<\/etal>.. (2013) Pan-African genetic structure in the African buffalo (<italic>Syncerus caffer<\/italic>): Investigating intraspecific divergence. Accepted for publication, PLoS One.","DOI":"10.1371\/journal.pone.0056235"},{"key":"ref20","doi-asserted-by":"crossref","first-page":"4845","DOI":"10.1111\/j.1365-294X.2008.03961.x","article-title":"Mid-Holocene decline in African buffalos inferred from Bayesian coalescent-based analyses of microsatellites and mitochondrial DNA","volume":"17","author":"R Heller","year":"2008","journal-title":"Mol Ecol"},{"key":"ref21","doi-asserted-by":"crossref","first-page":"3947","DOI":"10.1111\/j.1365-294X.2012.05671.x","article-title":"Cape buffalo mitogenomics reveals a Holocene shift in the African human-megafauna dynamics","volume":"21","author":"R Heller","year":"2012","journal-title":"Mol Ecol"},{"key":"ref22","doi-asserted-by":"crossref","first-page":"e59","DOI":"10.1371\/journal.pgen.0020059","article-title":"Bayesian estimation of the timing and severity of a population bottleneck from ancient DNA","volume":"2(4)","author":"YL Chan","year":"2006","journal-title":"PLoS Genet"},{"key":"ref23","doi-asserted-by":"crossref","first-page":"380","DOI":"10.1038\/nrg795","article-title":"Genealogical trees, coalescent history and the analysis of genetic polymorphisms","volume":"3","author":"NA Rosenberg","year":"2002","journal-title":"Nature Reviews | Genetics"},{"key":"ref24","doi-asserted-by":"crossref","first-page":"583","DOI":"10.1093\/genetics\/132.2.583","article-title":"Estimation of levels of gene flow from DNA sequence data","volume":"132","author":"RR Hudson","year":"1992","journal-title":"Genetics"},{"key":"ref25","doi-asserted-by":"crossref","first-page":"117","DOI":"10.1038\/sj.hdy.6884960","article-title":"Indirect measures of gene flow and migration: FST \u2260 1\/(4Nm +1)","volume":"82","author":"MC Whitlock","year":"1999","journal-title":"Heredity"},{"key":"ref26","unstructured":"Wakeley J (2009) Coalescent Theory. Greenwood Village: Roberts and Company Publishers."},{"key":"ref27","doi-asserted-by":"crossref","first-page":"76","DOI":"10.1093\/molbev\/msg009","article-title":"Intra-deme molecular diversity in spatially expanding populations","volume":"29","author":"N Ray","year":"2003","journal-title":"Mol Biol Evol"},{"key":"ref28","doi-asserted-by":"crossref","unstructured":"Nordborg M, Krone SM (2002) Separation of time scales and convergence to the coalescent in structured populations, 194\u2013232 in Modern Developments in Theoretical Population Genetics: The Legacy of Gustave Mal\u00e9cot, edited by M. Slatkin and M. Veuille. Oxford University Press, Oxford.","DOI":"10.1093\/oso\/9780198599623.003.0012"},{"key":"ref29","doi-asserted-by":"crossref","first-page":"1061","DOI":"10.1534\/genetics.104.026799","article-title":"On the meaning and existence of an effective population size","volume":"169","author":"P Sj\u00f6din","year":"2005","journal-title":"Genetics"},{"key":"ref30","doi-asserted-by":"crossref","first-page":"768","DOI":"10.1093\/bioinformatics\/btk051","article-title":"LAMARC 2.0: maximum likelihood and Bayesian estimation of population parameters","volume":"22","author":"MK Kuhner","year":"2006","journal-title":"Bioinformatics"},{"key":"ref31","doi-asserted-by":"crossref","first-page":"2785","DOI":"10.1073\/pnas.0611164104","article-title":"Integration within the Felsenstein equation for improved Markov chain Monte Carlo methods in population genetics","volume":"104","author":"J Hey","year":"2007","journal-title":"Proc Natl Acad Sci USA"}],"container-title":["PLoS ONE"],"original-title":[],"language":"en","link":[{"URL":"http:\/\/dx.plos.org\/10.1371\/journal.pone.0062992","content-type":"unspecified","content-version":"vor","intended-application":"similarity-checking"}],"deposited":{"date-parts":[[2024,5,10]],"date-time":"2024-05-10T09:23:57Z","timestamp":1715333037000},"score":1,"resource":{"primary":{"URL":"https:\/\/dx.plos.org\/10.1371\/journal.pone.0062992"}},"subtitle":[],"editor":[{"given":"Thomas","family":"Mailund","sequence":"first","affiliation":[]}],"short-title":[],"issued":{"date-parts":[[2013,5,7]]},"references-count":31,"journal-issue":{"issue":"5","published-online":{"date-parts":[[2013,5,7]]}},"URL":"https:\/\/doi.org\/10.1371\/journal.pone.0062992","relation":{},"ISSN":["1932-6203"],"issn-type":[{"value":"1932-6203","type":"electronic"}],"subject":[],"published":{"date-parts":[[2013,5,7]]}}}