Deeply ingrained thoughts

A universal trend of amino acid gain and loss in protein evolution
Excerpt: “We cannot conceive of a global external factor that could cause, during this time, parallel evolution of amino acid compositions of proteins in 15 diverse taxa that represent all three domains of life and span a wide range of lifestyles and environments. Thus, currently, the most plausible hypothesis is that we are observing a universal, intrinsic trend that emerged before the last universal common ancestor of all extant organisms.”
Excerpt: There is a Corrigendum (26 May 2005) associated with this document. We have since discovered that a similar scenario for protein evolution was proposed by Zuckerkandl and colleagues more than thirty years ago1.
Excerpt: There is a Brief Communications Arising (24 August 2006) associated with this document. ‘recent’ amino acids are becoming more common. They argue that this process has been going on since the genetic code first evolved to encompass all 20 amino acids. Here we provide evidence that the patterns observed conform with standard, nearly neutral theoretical expectations3 and require no new explanation.

Everything known about links from physics and the chemistry of RNA-mediated protein folding suggests that the de novo creation of light-induced amino acid substitutions leads to the differentiation of all cell types in all individuals of all genera. Obviously, it is long past time for evolutionary biologists to support their ridiculous claims with experimental evidence of biologically-based cause and effect. Let’s start with Masatoshi Nei, who concluded that: “…genomic conservation and constraint-breaking mutation is the ultimate source of all biological innovations and the enormous amount of biodiversity in this world” (p. 199).

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