Light-activated error free DNA repair (2)

By: James V. Kohl | Published on: November 22, 2017

Summary: In the diagram and diatribes that accompany claims about de novo changes in electrons and the production of nucleotides, the amount of pseudoscientific nonsense becomes perfectly clear. Pseudoscientists start with energy-dependent changes but call the changes de novo changes in electrons. That allows the pseudoscientists to dismiss any facts about how the creation of energy must be linked to the creation of enzymes. The creation of enzymes does not automagically occur and the creation of all biodiversity must occur via the enzymatic metabolism of food to pheromones and the physiology of pheromone-controlled reproduction. Use of the phrase de novo changes is a clear indicator that pseudoscientists know nothing about biophysically constrained viral latency and nothing about cell type differentiation. All changes are energy-dependent and virus-driven energy theft links the degradation of messenger RNA from mutations to all pathology.
In Light-activated error free DNA repair, I wrote:

The creation of quantized energy in sunlight links energy as information from electrons to ecosystems via the physiology of reproduction in all living genera.

See also: Endogenous adenosine maintains cartilage homeostasis and exogenous adenosine inhibits osteoarthritis progression

We conclude that adenosine, acting at A2AR, is an important homeostatic regulator of chondrocytes and cartilage and adenosine repletion may represent a novel approach to treating OA (Fig. 6).

The link from exogenous adenosine to the endogenous adenosine that inhibits pathology is food energy-dependent and RNA-mediated.That is why adenosine repletion will almost undoubtedly be effective. Some friends have already found that supplements of curcumin and nicotinamide/niacinamide are helpful.
Science needs reason to be trusted to link the creation of visible light to the creation of the nicotinamide-dependent enzyme known as ketoreductase, which can be transformed from a carbonyl reductase into an initiator of radical species and a chiral source of hydrogen atoms.
If hydrogen-atom transfer in DNA base pairs in solution is not linked to healthy longevity, the virus-driven degradation of messenger RNA will not be linked from mutations to all pathology.
See: Accessing non-natural reactivity by irradiating nicotinamide-dependent enzymes with light
The link from the quantized energy of the sun has been placed into this context:

We demonstrate this new reactivity through a highly enantioselective radical dehalogenation of lactones-a challenging transformation for small-molecule catalysts. Mechanistic experiments support the theory that a radical species acts as an intermediate in this reaction, with NADH and NADPH (the reduced forms of nicotinamide adenine nucleotide and nicotinamide adenine dinucleotide phosphate, respectively) serving as both a photoreductant and the source of hydrogen atoms.

The photoreductant source of hydrogen atoms links the quantized energy of sunlight from quantum physics to quantum souls via error-free RNA-mediated DNA repair in the context of the physiology of pheromone-controlled reproduction and the creation of all morphological and behavioral diversity on Earth via what is known about the stability of the gonadotropin releasing hormone (GnRH) decapeptide. The creation of achiral glycine and its position at position 6 in the GnRH decapeptide is linked from food odors and pheromones to the stability of all vertebrate genomes.
See how easily the facts about the stability of supercoiled DNA in the organized genomes of all vertebrates was placed back into the context of evolution.
A quantum theory for the irreplaceable role of docosahexaenoic acid in neural cell signalling throughout evolution
Explanations from classical physics cannot be used to support the theory and nothing but that facts about chemistry links sunlight to the creation of enzymes that metabolize food and link the food energy to biophysically constrained life via the physiology of pheromone-controlled reproduction, which protects organized genomes from the virus-driven degradation of messenger RNA that links mutations to all pathology.

We suggest that DHA is one Darwin’s “Conditions of Existence” [conditions of life] which made DHA the master of DNA

How Popper killed Particle Physics

Even in his worst moments Popper never said a theory is scientific just because it’s falsifiable. That’s Popper upside-down and clearly nonsense. Unfortunately, upside-down Popper now drives theory-development, both in cosmology and in high energy physics.
It’s not hard to come up with theories that are falsifiable but not scientific. By scientific I mean the theory has a reasonable chance of accurately describing nature.

Jay R. Feierman:

Science is about predicting, not post hoc explaining except under the conditions stated above. I still find Popper’s methods useful for crafting theories in the bio-behavioral sciences. I’m not ready to declare his philosophy as dead.

Jay R. Feierman: Variation is not nutrient availability and the something that is doing the selecting is not the individual organism. A feature of an educated person is to realize what they do not know. Sadly, you don’t know that you have an incorrect understanding [of] Darwinian biological evolution.
Popper’s upside-down theory can be replaced in the context of the inside-out olfactory receptor, which links the epigenetic landscape to the physical landscape of DNA via two epigenetic traps
An Epigenetic Signature for Monoallelic Olfactory Receptor Expression
Nuclear Aggregation of Olfactory Receptor Genes Governs Their Monogenic Expression

We’ve got the evolution of complex cells inside-out

Almost everybody agrees that the complex eukaryotic cell evolved from a simple ancestor. The question is how.

All serious scientists know that the energy-dependent creation of ATP (epigenetic trap #1) must be linked from the creation of RNA (epigenetic trap #2) to all biodiversity on Earth via the physiology of pheromone-controlled reproduction in species from microbes to humans. For example, without the energy-dependent de novo creation of G protein-coupled receptors, there is no way to link any light-induced endogenous substrate to the creation of enzymes and the metabolism of food to the energy that sustains life in electron eating microbes and microbes that “eat” light.

“…Golden didn’t set out from school intent on pursuing a career in chronobiology. The field only barely existed when she did her graduate work in the 1980s. Her specialty was, and still is, studying bacteria that use light as a source of energy.

See also: Biogenic non-crystalline U(IV) revealed as major component in uranium ore deposits

The fact that bacteria eat electrons and produce uranium isotopes can now be linked from light-harvesting to all pheromone-controlled biophysically constrained biodiversity on Earth by what was known to Susan S. Golden in the 1980s.

Two Questions remain:

1) Where do the electrons come from?

2) Why doesn’t every serious scientist know how to link energy-dependent changes from electrons to ecosystems via the link from ultraviolet light to the vibrational theory of olfaction and RNA-mediated feedback loops that link food odors and pheromones to the physiology of reproduction in species from microbes to humans?

The vibrational theory of olfaction for the win by John Hewitt

On 11/21/17, John Hewitt alerted me to the fact that the information in this article might be linked from the de novo creation of olfactory receptor genes to all biodiversity on Earth via links from the physiology of pheromone-controlled reproduction in bacteria to human adult hippocampal neurogenesis. The monoallelic disease(s) known as Kallmann’s Syndrome clearly link the transgenerational epigenetic inheritance of virus-driven pathology to deficits in olfactory acuity and specificity. The olfactory deficites link interactions among all neuronal systems in the brain to healthy longevity via the substitution of the achiral amino acid glycine in position 6 of the GnRH decapeptide.

See: Long-Range GABAergic Inputs Regulate Neural Stem Cell Quiescence and Control Adult Hippocampal Neurogenesis

Taken together, these findings delineate a GABAergic network involving long-range GABAergic projection neurons and local PV interneurons that couples dynamic brain activity to the neurogenic niche in controlling NSC quiescence and hippocampal neurogenesis.

See for comparison: Guidelines for Genome-Scale Analysis of Biological Rhythms

1) Genome biology approaches have made enormous contributions to our understanding of biological rhythms, particularly in identifying outputs of the clock, including RNAs, proteins, and metabolites, whose abundance oscillates throughout the day.

2) …we discuss several unmet analytical needs, including applications to clinical medicine, and suggest productive avenues to address them.

This suggests they are going to try to make it appear that Schrodinger’s link from the anti-entropic virucidal effects of sunlight has only recently been discovered to be the key to the prevention of the virus-driven degradation of messenger RNA, which all serious scientists know is the link from mutations to all pathology.
SS Golden is the co-author and they propose 3 broadly applicable “golden rules” of light-activated biological rhythms. The “Golden Rules” do not link more than 66,000 published works on microRNAs to Kohl’s “Laws of Biology” in this 2014 invited review of nutritional epigenetics: Nutrient-dependent pheromone-controlled ecological adaptations: from atoms to ecosystems
The Law’s of Biology are Darwin’s “conditions of life.” Simply put, all organisms must eat and the physiology of pheromone-controlled reproduction must be linked to all morphological and behavioral biodiversity on Earth after the creation of light made life possible. Natural selection for anything that was selected after the creation of energy, should not be viewed in the context of explanations of anything else.
Nothing on Earth exists outside the context of biophysically constrained energy and viral latency. Nothing on Earth exists outside the context of energy-dependent natural selection for codon optimality in the context of fixation of RNA-mediated amino acid substitutions, the creation of enzymes and the interactions among complex systems in humans that link achiral glycine in position 6 of the GnRH decapeptide to all morphological and behavioral phenotypes.

See also: An epigenetics gold rush: new controls for gene expression

‘A-to-I editing’ can alter a protein’s coding sequence, and, in humans, is crucial for keeping the innate immune response in check.

See for comparison: Redox-sensitive alteration of replisome architecture safeguards genome integrity

DNA replication requires coordination between replication fork progression and deoxynucleotide triphosphate (dNTP)–generating metabolic pathways

The safeguards are energy-dependent and they have been linked from light-activated endogenous substrates in all cell types to changes in immune system function. That fact is ignored in the context of a “genome survellance mechanism.”

Studying this genome surveillance mechanism in cancer cells with elevated ROS levels and increased replication adaptability may provide opportunities to specifically target tumors.

Reported as: Redox sensing controls DNA replication!

Redox sensing controls DNA replication!

New DNA is generated in human cells from tiny building blocks called nucleotides produced by an enzyme called RNR (ribonucleotide reductase).

By starting with de novo changes in electrons, the diagram that accompanies the pseudoscientific nonsense of their claim makes the nonsense perfectly clear. They intend to leave out anything known to serious scientists who have linked the creation of energy to the creation of enzymes and to the creation of all biodiversity via the metabolism of food to pheromones and the physiology of pheromone-controlled reproduction.
For comparison, serious scientists have linked energy-dependent changes from atoms to ecosystems via the conserved molecular mechanisms of base editing, microRNA editing, and RNA editing as detailed in Light-activated error free DNA repair.
See for examples:
Nutrient-dependent pheromone-controlled ecological adaptations: from atoms to ecosystems
Reduced adenosine-to-inosine miR-455-5p editing promotes melanoma growth and metastasis

…adenosine-to-inosine (A-to-I) RNA editing occurs in microRNAs (miRNAs)…

Thanks to Dr. Phil Mills for bring this to my attention in the context of more than 40 skin cancer excisions I have had during the past few years. RNA editing by ADAR1 leads to context-dependent transcriptome-wide changes in RNA secondary structure

Our findings imply that the editing effect on RNA secondary structure is context dependent and underline the intricate regulatory role of ADAR1 on global RNA secondary structure.

See: Scientists demonstrate the importance of RNA editing in melanoma development

…a lack of RNA editing, a process by which information inside RNA molecules is transformed, leads to tumor growth and progression through manipulation of proteins.

See also: Study: Vitamin B3 might help against skin cancer

…people who took a specific type of vitamin B3 for a year had a 23 percent lower rate of new skin cancers compared to others…

The link from sun exposure to vitamin C production in plants and vitamin D production in human populations that might be protected from skin cancer by niacinamide, led me to become more focused on prevention. For example, a 23 percent lower rate of skin cancers translates to 10 less excision surgeries if I can achieve a better energy-dependent microRNA/messenger RNA balance.
Energy-dependent base editing has been linked to microRNA editing and linked from RNA editing to the fixation of RNA-mediated amino acid substitutions in the organized genomes of all living genera via the pheromone-controlled physiology of reproduction. Any presentation of data that fails to start with energy-dependent changes in the microRNA/messenger RNA balance implies a deliberate attempt to support the pseudoscientific nonsense of evolutionary theorists and/or big bang cosmologists.
It’s time for pseudoscientists to admit they’ve been wrong about mutation-driven evolution and move forward via consideration of experimental evidence.
See also: Systematic characterization of A-to-I RNA editing hotspots in microRNAs across human cancers
MicroRNA-mediated RNA editing links energy-dependent changes in base pairs from the creation of nucleotides to the stability of organized genome in all living genera via the physiology of pheromone-controlled reproduction in species from microbes to humans.  All serious scientists know that. However, the number of pseudoscientists is more than the serious scientists who will be presenting at this conference.
See: Mechanisms of Recombination conference
For comparison, the pseudoscientists have their own conferences. See for a possible example: Neuroimmunology and Neurological disorders
I’ve already asked the conference organizer “Who will be linking the molecular mechanisms of recombination to neuroimmunology via autophagy or help serious scientists to link the virus-driven degradation of messenger RNA to all pathology?” 
I no longer expect any answer to my questions from those who have not linked the creation of quantized energy to all biodiversity via the pheromone-controlled physiology of reproduction in species from microbes to humans.
See instead, more information on: A-to-I RNA editing

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