The dataset is composed of 38 taxa and 54 discrete characters (data files S1 and S2), modified from Lin et al. (5). All 54 characters were subsequently unordered and unweighted, with Permithone used as outgroup. Bayesian phylogenetic analyses were performed using MrBayes v.3.2.6 ×64 (27) and parsimony analyses with TNT v.1.5 (28). Equal weight traditional heuristic tree branch swapping (tree bisection reconnection) and an equal weight new technology search implementing ratchet were used as methods of parsimony analysis with TNT (29). The heuristic tree bisection reconnection search was performed using 1000 replicates and 10 trees saved per replicate, while the new technology analysis with ratchet followed default settings provided by TNT. Bayesian tree searches followed an Mkv+Γ model (30) with four chains sampled during four runs for 1,000,000 Markov chain Monte Carlo generations, a tree sampled every 1000 generations, and burn-in of 20%.

Note: The content above has been extracted from a research article, so it may not display correctly.

Please log in to submit your questions online.
Your question will be posted on the Bio-101 website. We will send your questions to the authors of this protocol and Bio-protocol community members who are experienced with this method. you will be informed using the email address associated with your Bio-protocol account.

We use cookies on this site to enhance your user experience. By using our website, you are agreeing to allow the storage of cookies on your computer.