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Analyses for Study 15096

Citation title: "Assessing fairy shrimp biodiversity and the utility of specimens for genetic work in a natural history museum collection".

Study name: "Assessing fairy shrimp biodiversity and the utility of specimens for genetic work in a natural history museum collection".

This study is part of submission 15096 (Status: Published).

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Phylogeny was also estimated with Mr. Bayes 3.0b4 (Ronquist & Huelsenbeck 2003) using Bayesian inferences coupled with Markov chain Monte Carlo techniques. Four Markov-Monte-Carlo chains were run for ten million generations, and a sample tree was saved every 1000 generations. Model parameters were treated as unknown variables with uniform default priors and estimated as part of the analysis. Convergence and mixing were monitored using Tracer v1.4 (Rambaut & Drummond 2009). All sample points prior to reaching stationary (one million generations) were discarded as burn-in. The posterior probabilities (pP) for individual clades obtained from separate analyses were compared for congruence and then combined and summarized on a 50% majority-rule consensus tree (Huelsenbeck & Imennov 2002; Huelsenbeck et al. 2002) in PAUP* (Swofford 2002). Clade support under the ML approach was assessed using the nonparametric bootstrap procedure (Felsenstein 1985) with 5,000 bootstrap replicates and one random addition per replicate. Add Marcos' analysis (Herewith are the MrBayes results. I ran 2 analyses, 8 chains each, 10 million generations sampling every 1000 generations.

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