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Updated: Oct 9, 2025

Detection of Rare Genomic Variants from Pooled Sequencing Using SPLINTER
Published on: June 23, 2012
RANDOM AMPLIFIED POLYMORPHIC DNA (RAPD) AND PARSIMONY METHODS
Thierry Backeljau1, Luc De Bruyn2, Hans De Wolf2
1Royal Belgian Institute of Natural Sciences (KBIN), Malacology Section, Vautierstraat 29, B-1000 Brussels, Belgium.
Abstract:
- Random amplified polymorphic DNA (RAPD) data possess a number of undesirable features for parsimony analysis. These features include their non-codominant inheritance, their anonymous nature, their different (a)symmetrical transformation probabilities, and their possible GC priming bias. As a consequence, no single parsimony method seems appropriate for RAPD data. Moreover, the presence/absence coding of RAPDs is equivalent to the invalid independent allele model for allozymes. These issues are discussed and the way in which parsimony analysis of RAPDs can be misleading is illustrated.
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