All characters were unordered and of equal weight
and gaps were treated as missing data. Maxtrees were unlimited, branches of zero length were collapsed and all multiple, equally parsimonious trees were saved. Clade Savolitinib solubility dmso stability was assessed using a bootstrap (BT) analysis with 1000 replicates, each with 10 replicates of random stepwise addition of taxa (Hillis and Bull 1993). The phylogram with bootstrap values above the branches is presented in Fig. 1 by using graphical options available in TreeDyn v. 198.3 (Chevenet et al. 2006). Fig. 1 The first of 1 000 equally most parsimonious trees obtained from a heuristic search with 1000 random taxon additions of the combined dataset of Cediranib in vitro SSU, LSU EF1-α and β-tubulin sequences alignment using PAUP v. 4.0b10. The scale bar shows 10 changes. Bootstrap support values for maximum parsimony (MP) and maximum likelihood (ML) greater than 50 % above the nodes. The values below the nodes are Bayesian posterior probabilities above 0.95. Hyphen (“–”) indicates a value lower than 50 % (BS) or 0.90 (PP). The original isolate numbers are noted after the
species names. The tree is rooted to Dothidea insculpta and Dothidea sambuci Fig. 2 Auerswaldia examinans (K 76513, holotype). a–c Appearance of ascostromata on the host substrate. d Vertical section through ascostroma. e–g Asci. Scale bars: b–c = 600 μm, d Isotretinoin = 200 μm e–g = 20 μm A maximum likelihood analysis was performed at the CIPRES webportal (Miller et al. 2010) using RAxML v. 7.2.8 as part of the “RAxML-HPC2 on TG” tool (Stamatakis 2006; Stamatakis et al. 2008). A general time reversible model (GTR) was applied with a AZD0156 cell line discrete gamma distribution and four rate classes. Fifty thorough maximum likelihood (ML) tree searches were done in RAxML v. 7.2.7 under the same model, with each one starting from a separate randomised tree and the best scoring tree selected with a final ln value of −13974.356237. One thousand non parametric bootstrap iterations were run with the GTR model and a discrete
gamma distribution. The resulting replicates were plotted on to the best scoring tree obtained previously. The model of evolution was estimated by using MrModeltest 2.2 (Nylander 2004). Posterior probabilities (PP) (Rannala and Yang 1996; Zhaxybayeva and Gogarten 2002) were determined by Markov Chain Monte Carlo sampling (BMCMC) in MrBayes v. 3.0b4 (Huelsenbeck and Ronquist 2001). Six simultaneous Markov chains were run for 1000000 generations and trees were sampled every 100th generation (resulting in 10000 total trees). The first 2000 trees, representing the burn-in phase of the analyses, were discarded and the remaining 8000 trees used for calculating posterior probabilities (PP) in the majority rule consensus tree (Cai et al. 2006). Phylogenetic trees were drawn using Treeview (Page 1996).