Overall, informative rates of 42.1% and 76.9% were obtained for HUMARA and GAMDDL analyses, respectively, in the present study.
However, having 10 clusters does not provide a set of clusters that are overall informative (Supplementary Material, Supplementary Fig. S6), where, for example, clusters 6, 9, 10 are essentially the same profile, containing genes that are invariant across the phenotypic group.
Given the different principles underlying the individual six scores, this aggregate ranking is only loosely defined, but we found this overall score informative (see Results).
Monitoring of drug effects on total protein expression levels, is simpler, but appears to be overall less informative as many phospho-changes are not mirrored by changes in overall protein expression.
Sequences of 16S were overall more informative for the combined analysis between species, whereas Cytb and COI were possibly more useful for recovering relationships among more closely related species, because of its faster rate of evolution (in average 3.3 times faster), which can be observed by comparing the pairwise divergences.
However, in some cases, the order of closely linked markers (N = 397, recombination = 0) could not be determined even though the overall number of informative meiosis was relatively high.
Four different datasets were chosen that differed not only in the number of taxa sampled but also in the kind of DNA sequence data used (e.g., absolute number of informative characters, overall sequence divergence, overall support levels and levels of homoplasy).
But for assessment as a prelude to planning management, the individual summed scores are more informative than overall grades.
Overall, these results are informative for studies with designs requiring temporally stable parameters e.g. genetic or longitudinal treatment studies.
Results from phylogenetic analysis of FLint2 are largely congruent with results using the chloroplast regions rbcL, matK, and trnL, and compare favorably in percentage of informative characters, overall homoplasy levels, number of well-supported clades in consensus trees and resolution of ingroup relationships within Amorphophallus.
However, at the same time, the non-pair correlation increased from 0.002 to 0.83 (±0.02) with all probes and from 0.009 to 0.59 (±0.05) with the most informative probes, overall lowering the difference in correlation between pairs and non-pairs.
