In Silico AFLP: An Application to Assess What Is Needed to Resolve a Phylogeny
We examined the effect of increasing the number of scored AFLP bands to reconstruct an accurate and well-supported AFLP-based phylogeny. In silico AFLP was performed using simulated DNA sequences evolving along a symmetric tree with ancient radiation. The comparison of the true tree to the estimated AFLP trees suggests that moderate numbers of AFLP bands are necessary to recover the correct topology with high bootstrap support values (i.e > 70%). However, branch length estimation is rather unreliable and does not improve substantially after a certain number of bands are sampled.
KeywordsAFLP phylogeny bootstrap support simulation accuracy
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