Evolutionists Are Bailing Outhere, there is a much better way.
Very simply put, the problem with comparing non-synonymous to synonymous differences between genes is that synonymous differences are not unimportant as evolutionists have assumed. As we have discussed protein coding genes carry a multitude of signals and the resulting protein amino acid sequence is just one of many layers of information in the gene sequence. And for most of these signals, what are synonymous differences in the protein sequence are most definitely not synonymous in the message the signal sends.
All of this is highlighted in a new survey paper on messenger RNA, the copy of the DNA gene. As the paper explains:
There are several well-documented ways in which synonymous sites exert their impact on gene functions: effect on mRNA splicing, mRNA folding, stability and regulation of translation through utilization of preferred synonymous codons that translate more efficiently and accurately. Additional and sometimes opposing selective forces appear to affect codon frequency as well. Previous findings show roles for synonymous positions in RNA–RNA interactions, which influence the translation efficiency, and in RNA–RNA cross-talk, which is a key to biological regulation of expression and transcriptome complexity. Emerging evidence shows that “silent” substitutions carry a wealth of information, which is written over the encoded amino acid sequence, and that this information can be used to regulate translation speed, protein homeostasis, metabolic fate and even posttranslational modifications, which will be discussed in this review. Here we will focus on the RNA level of regulation and the role of synonymous sites and mRNA structure in generating biological complexity.
Once again evolutionary assumptions are being proven wrong by science. The facts of molecular biology make no sense on evolution, yet untold numbers of evolutionary studies, incorporating this test of the ratio of non-synonymous to synonymous mutations, are beholden to evolutionary assumptions.