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The simple GA undergoes a set of operations on the model population to produce the next generation: selection, coding, crossover, and mutation.
We found 130 codons under significant negative selection, coding for amino acids scattered throughout MLO protein domains.
As expected in the relative absence of selection, coding homopolymers suffer the same mutational mechanism as those in noncoding regions [ 7].
A process of constant comparison was carried out throughout the collection, selection, coding and analysis of data until saturation was judged to be reached and concepts had become satisfactorily refined.
In this study we present genome-wide empirical evidence of deeper depressions in MAF around the most conserved genes, which is most consistent with purifying selection being the primary mechanism driving allele frequencies in and around (via background selection) coding regions.
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Nineteen of the twenty codon sites putatively indentified as likely to be under positive selection code for amino acid residues located in extracellular domains of the receptor protein products.
The observed pattern is better explained by balancing selection on coding regions [52] regardless if the selection operated before or after speciation (see below about alternative explanations).
In any case, although modalities of selection on coding nucleotide sequences are well characterized, the way selection impacts noncoding sequences and structure of genomes deserves further investigation.
Numerous methods have been proposed to identify positive selection in coding sequences [1] [10].
Table S4 - Test for positive selection on coding HSFY loci.
But, the effect of RNA structure selection on coding sequence evolution remains unknown.
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