They further rationalize clade-specific differences in GGT based on sequence conservation, selection, and functional divergence.
Fitting the best model by taking into account that different residues are exchanged at different frequencies, increases the accuracy of detection of natural selection based on sequence alignments [ 63].
Clustering ended up by selecting a subset of SLSs different from the original population and characterized by a much higher probability of non-random folding (see Figure 1), indicating that selection based on sequence similarity was very effective in enriching for structured regions.
But it should be noted that our bioinformatical method used to detect positive selection is based on sequence alignments, and therefore we cannot exclude that in some cases we have included false positives because of improper alignments.
A recent phylogenetic analysis by Antonelli, based on sequencing the widest selection of lobeliads to date, raises doubts about this paradigmatic example of convergent evolution.
From a mechanistic point of view, a model based on sequence drift and strand exchange promoted by the absence of a selection pressure for splicing can be envisaged.
Their strategy was based on probe sequence selection using in silico modeling [ 30].
Thereby, SNP selection was based on sequences published in the GenBank database [accession nos.
The simulation is based on a hopping sequence selection methodology that randomizes the available hopping sequences within a frequency hopping zone around each active receiver.
Thus, based on a sequence of selection criteria (publication or not, randomisation to 10% and the final exclusion), 842 QAPs were included in the study.
