@article {Chase:August 2006:0040-0262:573, author = "Chase, Mark W.", author = "Fay, Michael F.", author = "Soltis, Douglas E.", author = "Soltis, Pamela S.", author = "Takahashi, Kei T.", author = "Savolainen, Vincent", title = "Simple phylogenetic tree searches easily "succeed" with large matrices of single genes", journal = "Taxon", volume = "55", year = "August 2006", abstract = "Here we show with both extensive real and simulated data that rigorous and time-intensive approaches, including parsimony, maximum likelihood and Bayesian methods, to reconstructing large phylogenetic trees are unwarranted with small amounts of data (i.e., single or small numbers, 2-3 genes) because they actually produce trees with scores that are shorter or otherwise less optimal than the model tree or trees produced with larger amounts of data. Furthermore they also fail to obtain consistently more correct groups than simple parsimony methods, leaving the latter to be preferred. When numbers of variable sites are limited relative to numbers of taxa sampled, simpler swapping strategies perform as well as much more rigorous methods. We caution against confidence in any results based on small data sets, even if (or especially if) there have been thorough analyses. Analyses of such data sets for exploratory purposes should rely on simple search strategies and not use excessive branch swapping or time.", pages = "573-578(6)", url = "http://www.ingentaconnect.com/content/iapt/tax/2006/00000055/00000003/art00004" }