Journal
SYSTEMATIC BIOLOGY
Volume 55, Issue 6, Pages 928-935Publisher
TAYLOR & FRANCIS INC
DOI: 10.1080/10635150600865419
Keywords
Alu; mobile element; phylogenetics; retrotransposon; SINE
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Funding
- NIGMS NIH HHS [R01 GM59290] Funding Source: Medline
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Mobile elements have been recognized as powerful tools for phylogenetic and population-level analyses. However, issues regarding potential sources of homoplasy and other misleading events have been raised. We have collected available data for all phylogenetic and population level studies of primates utilizing Alu insertion data and examined them for potentially homoplasious and other misleading events. Very low levels of each potential confounding factor in a phylogenetic or population analysis (i.e., lineage sorting, parallel insertions, and precise excision) were found. Although taxa known to be subject to high levels of these types of events may indeed be subject to problems when using SINE analysis, we propose that most taxa will respond as the order Primates has-by the resolution of several long-standing problems observed using sequence-based methods.
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