Neurospora Topology Results. Figure 7A gives the topology of the natural phylogeny for the eight conidiating species of Neurospora, modified from Dettman 2003a. Figure 7B gives the stacked histogram shows the proportion of NJ trees in 200 replicates that are 0 or more steps away from the input topology. The first three columns show the symmetric distance using N. crassa clade A (NcA) as the reference taxa for the average sequence divergence indicated. Columns 4-6 show the results using N. tetrasperma (tet) as the reference taxa. Columns 7-9 use N. discreta (disc) as the reference. Figure 7C gives the stacked histogram of the symmetric distance for 100 NJ trees built with the Euclidean distance metric. No trees were less than 2 or more steps away. Figure 7D gives the stacked histogram showing the proportion of PMR trees in 100 replicates that are 0 or more steps away from the input topology. Three examples of this topology, between four to eight steps away from the reference, are given in Figure 8B, 8C, and 8D.
Gilbert et al. BMC Genomics 2011 12:456 doi:10.1186/1471-2164-12-456