Ecological validity vs evolutionary theory

Genetic code
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Functional characterisation of a SNP in the ABCC11 allele—Effects on axillary skin metabolism, odour generation and associated behaviours

Excerpt:

the fact that a single SNP plays such a large role in governing this specific aspect of human behaviour is quite a novel finding.

My comment: A single nucleotide polymorphism (SNP) in one of the duplicated genes (the ABCC11 allele) links the epigenetic landscape to the physical landscape of DNA via the biophysically constrained chemistry of nutrient-dependent RNA-mediated protein folding chemistry in species from microbes to humans. The underlying basis for cause and effect was included in our section on RNA-mediated molecular epigenetics in our 1996 Hormones and Behavior review: From Fertilization to Adult Sexual Behavior

The ecological validity of the pheromone-controlled physiology of reproduction in our review, which the late Robert T. Francoeur helped me to place into the context of our 1995 book representation, has not been challenged. We updated the book in 2002.

See also: An Initial Evaluation of the Functions of Human Olfaction

Excerpt: Of all areas of human olfactory function, the role of smell in reproductive behavior has consistently attracted the most popular attention (e.g., Hassett 1978; Kohl and Francoeur 1995).

Every claim in The Scent of Eros: Mysteries of Odor in Human Sexuality has since been placed into the context of what is currently known about how chemical ecology drives ecological adaptation in the context of: (1) ecological niche construction, (2) social niche construction, (3) neurogenic niche construction, and (4) socio-cognitive niche construction.

See for example: Nutrient-dependent/pheromone-controlled adaptive evolution: a model

Excerpt 1)

This model exemplifies the epigenetic effects of olfactory/pheromonal conditioning, which alters genetically predisposed, nutrient-dependent, hormone-driven mammalian behavior and choices for pheromones that control reproduction…

Excerpt 2)

These two reports (Grossman et al., 2013; Kamberov et al., 2013) tell a new short story of adaptive evolution. The story begins with what was probably a nutrient-dependent variant allele that arose in central China approximately 30,000 years ago. The effect of the allele is adaptive and it is manifested in the context of an effect on sweat, skin, hair, and teeth. In other mammals, like the mouse, the effect on sweat, skin, hair, and teeth is due to an epigenetic effect of nutrients on hormones responsible for the tweaking of immense gene networks that metabolize nutrients to pheromones.

Grossman et al (2013) and Kamberov et al., (2013) linked a single SNP to a single amino acid substitution and changes in morphological phenotypes in species from mice to humans.

Unfortunately, the single amino acid substitution linked to the morphological phenotypes was placed into the context of mutations and evolution: East Asian Physical Traits Linked to 35,000-Year-Old Mutation.

Excerpt:

The traits — thicker hair shafts, more sweat glands, characteristically identified teeth and smaller breasts — are the result of a gene mutation that occurred about 35,000 years ago, the researchers have concluded.

My comment: However, Holger Heyn placed what others called a “mutation” into the context of a model that “…is further extendable to virtually all traceable molecular traits.” Obviously, mutations are not included in any model that extends across species to traceable molecular traits. Examining molecular traits leads to links from ecological variation to ecological adaptation without the pseudoscientific claims about mutations and evolution.

See: A symbiotic liaison between the genetic and epigenetic code

Excerpt (with my emphasis):

Intriguingly, a SNP in perfect linkage disequilibrium directly flanking the altered CpG overlapped transcription factor binding sites, presenting potential mechanistic consequences of the genetic variant. Consistently, transcription factor binding was previously shown to influence DNA methylation levels at distal regulatory elements (Stadler et al., 2011).

Conclusion:

The association of DNA methylation and genetic sequence displays an exemplary application, which is further extendable to virtually all traceable cellular features, including proteomics or metabolomics, among many others. It will be the knowledge of these complex relationships that will drive future efforts to resolve the conundrum of human variation in physiological and pathological contexts.

The SNP can be linked from nutrient-dependent RNA-directed DNA methylation to RNA-mediated gene duplication. Nutrient-dependent gene duplication links the genetic variant to fixation of an RNA-mediated amino acid substitution in the context of the physiology of reproduction in all living genera.

The fixation of nutrient-dependent amino acid substitutions determines cell type differentiation in all cells of all individuals of all living genera via the physiology of reproduction. The physiology of nutrient-dependent reproduction enables fixation of the amino acid substitutions that stabilize the organized genomes of all living genera.

See my comment on A symbiotic liaison between the genetic and epigenetic code: Nutrient-dependent/pheromone-controlled adaptive evolution: a model “Conclusion: An environmental drive evolved from that of nutrient ingestion in unicellular organisms to that of pheromone-controlled socialization in insects. In mammals, food odors and pheromones cause changes in hormones such as LH, which has developmental affects on pheromone-controlled sexual behavior in nutrient-dependent reproductively fit individuals across species of vertebrates.” http://www.ncbi.nlm.nih.gov/pubmed/24693353

Polese et al., (2015), have since linked the molecular mechanisms of RNA-directed DNA methylation from gene duplication and RNA-mediated amino acid substitutions to cell type differentiation octopuses via the substitution of achiral glycine in the decapeptide, gonadotropin releasing hormone (GnRH). See: Role of olfaction in Octopus vulgaris reproduction.

They did not include all the details that support their claims, probably because the journal article was not targeted to an audience of physicists or chemists. However, the substitution of the only achiral amino acid in the GnRH decapeptide has been linked from olfaction to reproduction in this non-technical representation of biologically-based cause and effect.

See also: Is Smell the Key To an Octopus’s Heart?

Excerpt:

Recent research suggests that somehow the olfactory organs are partly responsible in this switch from growing to reproduction.

For contrast, to everything known about these “switches” see: The pronoun ‘I’ is becoming obsolete

The claim is made that” “This PLOS Biology essay… lays out ten principles that advance a unified theory of the evolution and ecology of host-associated microbiomes.”

Host Biology in Light of the Microbiome: Ten Principles of Holobionts and Hologenomes

Excerpt:

… there is no fundamental rewriting of Darwin’s and Wallace’s theory of evolutionary biology involved in this concept. Like single nucleotide mutations, acquisition of new symbionts births raw genetic variation that evolution can operate on.

My question: Were you fooled by this ridiculous misrepresentation of Darwin’s and Wallace’s works? Please read that claim again.

My comment: Darwin never claimed mutations led to genetic variation that evolution could operate on. Darwin knew nothing about genes and neither did Wallace. Darwin claimed that “conditions of life” must be considered before natural selection. The misrepresentation in Light of the Microbiome is merely another attempt to convince the biologically uniformed pseudoscientists of the world that they can continue to cling to their ridiculous neo-Darwinian theories.

See also: 

A Surprise Source of Life’s Code

Emerging data suggests the seemingly impossible — that mysterious new genes arise from “junk” DNA.

In 2006, Begun found some of the first evidence that genes could indeed pop into existence from noncoding DNA.

The idea that evidence could consist of something linked to genes that “pop into existence” is common among neo-Darwinian theorists. They don’t know where the first genes came from, which means they can claim that old genes and new genes could “pop into existence” and lead to the evolution of new species. Indeed, outside the context of biophysically contrained protein folding chemistry, unsupported claims of different type have proliferated.

See for examples:

How Structure Arose in the Primordial Soup

Scientists Map 5,000 New Ocean Viruses

A Surprise for Evolution in Giant Tree of Life

Excerpt: Each variant adapted to suit a different ecological niche. But Blair Hedges, a biologist at Temple University in Philadelphia, has proposed a provocative alternative: Adaptation had little to do with it. It was simply a matter of chance and time.

My comment: These articles lack continuity / scientific integrity. Ecological variation is linked to ecological adaptations. Ecological adaptation is prevented by viruses and facilitated by the nutrient-dependent physiology of reproduction. That is what serious scientists have shown and supported with experimental evidence of biologically-based cause and effect.

It doesn’t matter what biologically uniformed science idiots claim. Experimental evidence supports what serious scientists know. The light-induced de novo creation of nucleic acids is linked to RNA-mediated gene duplication and RNA-mediated amino acid substitutions. RNA-mediated events differentiate all cell types in all individuals of all living genera. Nutrient uptake links the epigenetic landscape to the physical landscape of DNA in organized genomes via metabolic networks and genetic networks.

The networks are perturbed by the accumulation of viruses because viral microRNAs perturb protein folding.  Only via nutrient-dependent DNA repair can the stability of organized genomes be established. In species from microbes to man experimental evidence links SNPs to energy-dependent DNA repair from nutrient-dependent base pair changes to the pheromone-controlled physiology of reproduction via RNA-mediated events that link morphology and behavior.

Dobzhansky (1973) linked one amino acid substitution to cell type differentiation in gorillas compared to chimpanzee and humans.

Excerpt:

For example, the so-called alpha chains of hemoglobin have identical sequences of amino acids in man and the chimpanzee, but they differ in a single amino acid (out of 141) in the gorilla. ( p. 127)

In my 2013 review I linked single amino acid substitutions to cell type differentiation across species via their pheromone-controlled physiology of reproduction. And Functional characterisation of a SNP in the ABCC11 allele—Effects on axillary skin metabolism, odour generation and associated behaviours links one SNP and one allele to metabolism, odour generation and associated behaviours that clearly link the mouse model to human morphological and behavioral phenotypes via everything currently known to link physics, chemistry, and biology to the conserved molecular mechanisms of biophysically constrained nutrient-dependent RNA-mediated cell type differentiation.

See also, discussion of The pronoun ‘I’ is becoming obsolete on the Evolutionary Psychology News FB group where attempts to discuss biologically based caused and effect have always been futile.

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