The first set of stages was shared between tasks, but after that, it split into two branches for further analysis — one branch for the speech task, and one for the musical genre task.
Small branches, as defined by a diameter of <15 μm (Glaser et al., 2009), are not resolved by this method due to detection limitations imposed by cast size; however, we define intermediate (20 220 μm) and main (240 520 μm) branches for our analysis.
Generally, there are three branches for quick look analysis as mentioned by Bateman (1985) which are compatible overlays of logs, crossplot of selected log readings, and simple algorithms for calculators.
Branches containing no substitutions were also removed, leaving us with 1,257 UP1, 14,326 UP2, 1,807 SO1, and 13,374 SO2 branches for the final analysis (Table 1).
However, they presented no phylogenetic analysis to support this assumption; unpublished trees give no support for lateral transfer, but as the α- and β-subunits and HslV proteins are very divergent and with too long branches for satisfactory phylogenetic analysis, such a possibility cannot be excluded with total confidence (J. Archibald pers.
From each bush four apical and mature leaves were collected, one from each branch, i.e. for analysis four replicates were used.
For analysis, only branches longer than 0.5 μm were counted.
Modules that had at least 30 genes that corresponded to the branches of the dendrogram were selected for analysis.
Phylogenetic reconstructions resulting from Dat-CON provided the most coherent topologies (ML and Bayesian), with strong support for most branches while analysis of MT-CO1 resulted in very similar phylogenetic reconstructions, only differing by the position of NA2 in the ML topology (Additional file 2A).
Size exclusion chromatography (SEC) coupled with triple detection (TD) method is widely used for branching analysis of polymers.
