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Systematic Biology 2007 56(5):857-862; doi:10.1080/10635150701633153
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© 2007 Society of Systematic Biologists

Haplotype Networks Can Be Misleading in the Presence of Missing Data

Edited by Marshal Hedin, Jack Sullivan

Simon Joly1, Mark I. Stevens1,2 and Bettine Jansen van Vuuren3

1 Allan Wilson Centre for Molecular Ecology and Evolution, Massey University Private Bag 11222, Palmerston North 4442, New Zealand E-mail: s.joly@massey.ac.nz
2 School of Biological Sciences, Monash University, Clayton 3800 Victoria, Australia
3 DST-NRF Centre of Excellence for Invasion Biology, Department of Botany and Zoology, Stellenbosch University Private Bag X1, Matieland 7602, South Africa

Received May 10, 2007; Revised June 26, 2007; Accepted July 10, 2007
The first 150 words of the full text of this article appear below.

Accurate haplotype networks are of critical importance for studies at the population-species interface or below the species level, in particular those that estimate parameters based on network topologies such as nested clade analyses (NCA). Although the impact of missing data in phylogenetic analyses has received much attention (reviewed in Kearney and Clark, 2003), no equivalent studies exist for haplotype network methods even though these approaches have major differences (Posada and Crandall, 2001). For example, the most commonly reported consequence of missing data in bifurcating trees is the occurrence of multiple equally likely solutions that when summarized in a consensus lead to reduced resolution in the form of polytomies (Kearney and Clark, 2003). In contrast, in haplotype networks the aim is to represent all equally most-parsimonious solutions and missing data are likely to result in greater network complexity. Moreover, because of the low levels of divergence . . . [Full Text of this Article]


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Suggestions

   Appendix 1. An Algorithm for Constructing Minimum Spanning Networks in the Presence of Missing Data
 

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