Do bacterial proteins evolve?

Among the phrases most likely to get my attention but least likely to get the attention of an evolutionary theorist is “bacterial proteins evolve.” See for example (with my emphasis): To provide insight into how bacterial proteins evolve to adapt to cold environment….

Most people would assume that evolution led to the ecological adaptation so that these bacteria could survive in a cold environment. In fact, many people must have made that assumption along with all the other assumptions they made when they invented the neo-Darwinian theory of evolution.

“[W]hat Haldane, Fisher, Sewell Wright, Hardy, Weinberg et al. did was invent…. The anglophone tradition was taught. I was taught, and so were my contemporaries, and so were the younger scientists. Evolution was defined as “changes in gene frequencies in natural populations.” The accumulation of genetic mutations was touted to be enough to change one species to another…. No, it wasn’t dishonesty. I think it was wish fulfillment and social momentum. Assumptions, made but not verified, were taught as fact.” Replace the Modern Synthesis (Neo-Darwinism): An Interview With Denis Noble

Given the difficulty of inventing a theory from scratch, the de novo creation of neo-Darwinism was required to start from the evolution of proteins that had already somehow adapted. Moving forward, the population geneticist/creators of evolutionary theory decided that changes in the gene frequencies caused by the evolution of proteins created new species. Others have since noted that “The repertoire of proteins and nucleic acids in the living world is determined by evolution; their properties are determined by the laws of physics and chemistry.” However, in their accurate representation of how physics and chemistry limit the ability of bacterial proteins to evolve into humans, these authors noted that the properties of proteins are determined by the laws of physics. That changes everything!

Everything taught about evolution neglected to mention that the laws of physics made it impossible for functional proteins to evolve. The invention of neo-Darwinism left out physics and physicists accepted their fate.

No one ever understood what physicists talked about, anyway. The popularity of neo-Darwinism let them enter discussions of how species evolved via protein evolution. For example,  “As proteins evolve, they follow trajectories along edges through the genotype–phenotype space.” Finally, physicists could discuss the evolution of morphological and behavioral phenotypes in the context of natural selection instead of the Laws of Physics. The question arose: Does selection against misfolding and aggregation due to translational errors explain why certain codons for the same amino acid are observed more frequently than others54–56?

The answer was: Who cares? What’s an amino acid? Natural selection somehow selects, who cares how it selects whatever it selects?

Answering these questions requires evaluating the role of an evolutionary force — natural selection in this case — on physical properties, so an approach that synthesizes the two modes of analysis is necessary.

The prevention of misfolding and aggregation by the nutrient-dependent thermodynamics of amino acids substitutions and protein folding that stabilizes DNA in the organized genomes of species from microbes to man was eliminated from any further consideration by physicists or evolutionary theorists. They have continued to invent more theories about protein evolution via natural selection. They never tried to teach anyone about biophysical constraints that prevent increasing organismal complexity from arising due to perturbed protein folding. Those biophysical constraints enable nutrient-dependent amino acid substitutions to facilitate the epigenetically-effected link from ecological variation to ecological adaptions in species from microbes to man. See for examples:

Genetics and Genomics of Human Population Structure

“Recent studies have also offered detailed information about the composition of specific populations from around the world, revealing how [their RNA-mediated] history has shaped their genetic makeup.”

See also:

New technique used in report of atomic-level ecological adaptations

 

About James V. Kohl 1308 Articles
James Vaughn Kohl was the first to accurately conceptualize human pheromones, and began presenting his findings to the scientific community in 1992. He continues to present to, and publish for, diverse scientific and lay audiences, while constantly monitoring the scientific presses for new information that is relevant to the development of his initial and ongoing conceptualization of human pheromones. Recently, Kohl integrated scientific evidence that pinpoints the evolved neurophysiological mechanism that links olfactory/pheromonal input to genes in hormone-secreting cells of tissue in a specific area of the brain that is primarily involved in the sensory integration of olfactory and visual input, and in the development of human sexual preferences. His award-winning 2007 article/book chapter on multisensory integration: The Mind’s Eyes: Human pheromones, neuroscience, and male sexual preferences followed an award winning 2001 publication: Human pheromones: integrating neuroendocrinology and ethology, which was coauthored by disinguished researchers from Vienna. Rarely do researchers win awards in multiple disciplines, but Kohl’s 2001 award was for neuroscience, and his 2007 “Reiss Theory” award was for social science. Kohl has worked as a medical laboratory scientist since 1974, and he has devoted more than twenty-five years to researching the relationship between the sense of smell and the development of human sexual preferences. Unlike many researchers who work with non-human subjects, medical laboratory scientists use the latest technology from many scientific disciplines to perform a variety of specialized diagnostic medical testing on people. James V. Kohl is certified with: * American Society for Clinical Pathology * American Medical Technologists James V. Kohl is a member of: * Society for Neuroscience * Society for Behavioral Neuroendocrinology * Association for Chemoreception Sciences * Society for the Scientific Study of Sexuality * International Society for Human Ethology * American Society for Clinical Laboratory Science * Mensa, the international high IQ society