Literature DB >> 18973487

Why does a method that fails continue to be used?

L Lacey Knowles1.   

Abstract

As a critical framework for addressing a diversity of evolutionary and ecological questions, any method that provides accurate and detailed phylogeographic inference would be embraced. What is difficult to understand is the continued use of a method that not only fails, but also has never been shown to work--nested clade analysis is applied widely even though the conditions under which the method will provide reliable results have not yet been demonstrated. This contradiction between performance and popularity is even more perplexing given the recent methodological and computational advances for making historical inferences, which include estimating population genetic parameters and testing different biogeographic scenarios. Here I briefly review the history of criticisms and rebuttals that focus specifically on the high rate of incorrect phylogeographic inference of nested-clade analysis, with the goal of understanding what drives its unfettered popularity. In this case, the appeal of what nested-clade analysis claims to do--not what the method actually achieves--appears to explain its paradoxical status as a favorite method that fails. What a method promises, as opposed to how it performs, must be considered separately when evaluating whether the method represents a valuable tool for historical inference.

Mesh:

Year:  2008        PMID: 18973487     DOI: 10.1111/j.1558-5646.2008.00481.x

Source DB:  PubMed          Journal:  Evolution        ISSN: 0014-3820            Impact factor:   3.694


  12 in total

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2.  Three roads diverged? Routes to phylogeographic inference.

Authors:  Erik W Bloomquist; Philippe Lemey; Marc A Suchard
Journal:  Trends Ecol Evol       Date:  2010-09-20       Impact factor: 17.712

3.  In defence of model-based inference in phylogeography.

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Journal:  Mol Ecol       Date:  2010-01-11       Impact factor: 6.185

4.  Phylogeography of two moray eels indicates high dispersal throughout the indo-pacific.

Authors:  Joshua S Reece; Brian W Bowen; Kavita Joshi; Vadim Goz; Allan Larson
Journal:  J Hered       Date:  2010-04-07       Impact factor: 2.645

5.  Distinguishing between hot-spots and melting-pots of genetic diversity using haplotype connectivity.

Authors:  Binh Nguyen; Andreas Spillner; Brent C Emerson; Vincent Moulton
Journal:  Algorithms Mol Biol       Date:  2010-03-20       Impact factor: 1.405

6.  Why does a method that fails continue to be used? The answer.

Authors:  Alan R Templeton
Journal:  Evolution       Date:  2009-04       Impact factor: 3.694

7.  Conservation genetics and phylogeography of endangered and endemic shrub Tetraena mongolica (Zygophyllaceae) in Inner Mongolia, China.

Authors:  Xue-Jun Ge; Chi-Chuan Hwang; Zin-Huang Liu; Chi-Chun Huang; Wei-Hsiang Huang; Kuo-Hsiang Hung; Wei-Kuang Wang; Tzen-Yuh Chiang
Journal:  BMC Genet       Date:  2011-01-04       Impact factor: 2.797

8.  Species delimitation and phylogeography of Aphonopelma hentzi (Araneae, Mygalomorphae, Theraphosidae): cryptic diversity in North American tarantulas.

Authors:  Chris A Hamilton; Daniel R Formanowicz; Jason E Bond
Journal:  PLoS One       Date:  2011-10-12       Impact factor: 3.240

9.  Conflicting evolutionary patterns due to mitochondrial introgression and multilocus phylogeography of the Patagonian freshwater crab Aegla neuquensis.

Authors:  Brian R Barber; Jiawu Xu; Marcos Pérez-Losada; Carlos G Jara; Keith A Crandall
Journal:  PLoS One       Date:  2012-06-07       Impact factor: 3.240

10.  Phylogeography and palaeodistribution modelling of Nassauvia subgenus Strongyloma (Asteraceae): exploring phylogeographical scenarios in the Patagonian steppe.

Authors:  Marcela V Nicola; Silvana M Sede; Raúl Pozner; Leigh A Johnson
Journal:  Ecol Evol       Date:  2014-10-24       Impact factor: 2.912

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