Population genetic structure of the toad Bufo woodhousii: an empirical assessment of the effects of haplotype extinction on nested cladistic analysis

Molecular Ecology
Susan E MastaEric J Routman

Abstract

Nested cladistic analysis (NCA) is increasingly being used to infer historical population-level processes, including population fragmentation, range expansion and long-distance colonization. However, the effects on interpretation of NCA inferences of stochastic extinction of haplotypes due to genetic drift (lineage sorting), or of haplotype loss via localized biotic or climatic influences, have not been thoroughly explored. We provide empirical evidence suggesting that NCA may misinterpret population history when haplotypes or haplotype groups from one clade are replaced by those of another clade. We do so by using NCA to analyse mitochondrial sequences from the toad Bufo woodhousii from 45 locations spanning the Great Plains and southwestern USA. Portions of this region were glaciated and/or desertified in the late Pleistocene and early Holocene, and hence uninhabitable for plains-dwelling organisms. Although NCA inferences of isolation-by-distance and gradual range expansion in B. woodhousii are compatible with expectations based on climatic data and toad biology, NCA also detected several instances of long-distance movement. Such movement seems unlikely, given the low vagility of this species. We conclude that inferences of ...Continue Reading

References

Jun 20, 1991·Nature·J H McDonald, M Kreitman
Jan 1, 1990·Journal of Mathematical Biology·M Notohara
Jan 1, 1987·Nature·R L CannA C Wilson
Jan 1, 1985·Journal of Molecular Evolution·M HasegawaT Yano
Jan 1, 1981·Journal of Molecular Evolution·J Felsenstein
Jun 1, 1994·Molecular Phylogenetics and Evolution·J Castelloe, A R Templeton
Apr 29, 1998·Molecular Biology and Evolution·M F HammerS L Zegura
Jan 27, 1999·Bioinformatics·D Posada, K A Crandall
Sep 27, 2000·Evolution; International Journal of Organic Evolution·J A Matos, B A Schaal
Oct 26, 2000·Molecular Ecology·M ClementK A Crandall
Feb 24, 2001·Journal of Neurology, Neurosurgery, and Psychiatry·P MaddisonM Johnson
Nov 24, 2001·Molecular Biology and Evolution·K Strimmer, O G Pybus
Mar 8, 2002·Nature·Alan Templeton
Jul 30, 2002·Molecular Phylogenetics and Evolution·Susan E MastaEric J Routman
Nov 28, 2002·Molecular Ecology·L Lacey Knowles, Wayne P Maddison
Jun 1, 1998·Trends in Ecology & Evolution·M L Wayne, K L Simonsen
Mar 1, 1975·Evolution; International Journal of Organic Evolution·Masatoshi NeiRanajit Chakraborty
Aug 1, 1995·Evolution; International Journal of Organic Evolution·Alan R Rogers
Mar 1, 1991·Evolution; International Journal of Organic Evolution·Joseph E NeigelJohn C Avise
Jun 1, 1993·Evolution; International Journal of Organic Evolution·Robert M Zink, Donna L Dittmann
Feb 1, 1996·Evolution; International Journal of Organic Evolution·Robert M Zink

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Citations

Sep 20, 2007·Biochemical Genetics·Yu-Ling HuSen-Yang Cao
Mar 10, 2009·Zoological Science·Mariko SakamotoAkinori Uchino
Apr 16, 2004·Proceedings of the National Academy of Sciences of the United States of America·Luciano B BeheregarayAdalgisa Caccone
Jul 30, 2008·Molecular Phylogenetics and Evolution·Anna M GoebelRichard G Olmstead
Nov 19, 2004·Molecular Ecology·M A Smith, D M Green
Jul 4, 2009·Molecular Ecology·Lauren M Chan, Kelly R Zamudio
Oct 25, 2007·Molecular Ecology·Rémy J Petit
Jan 9, 2008·Molecular Ecology·Julie A Lee-YawDavid M Green
Jun 5, 2007·Evolution; International Journal of Organic Evolution·Mahesh Panchal, Mark A Beaumont
Nov 9, 2010·Molecular Ecology·Leslie J Rissler, Walter H Smith
May 12, 2010·Molecular Ecology·Alisa P RamakrishnanMitchell B Cruzan
Nov 4, 2004·Molecular Phylogenetics and Evolution·Marti CorteyJose-Luis García-Marín
Jan 25, 2011·Molecular Phylogenetics and Evolution·Brian E FontenotPaul T Chippindale

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