George Church refutes theistic evolution (5)

By: James V. Kohl | Published on: July 11, 2018

(click to enlarge)

codon usage evolution, codon-to-tRNA balance, genome engineering, tRNA, translation efficiency
Codon usage of highly expressed genes affects proteome-wide translation efficiency

Contributed by George M. Church, March 24, 2018

Reported as: Codons Are Not Degenerate After All
For context, see: Engineered Adaptability: Adaptive Solutions Are Targeted, Not Trial-and-Error
For a historical perspective see:
In 1964, Bruce S. McEwen et al., linked the energy-dependent creation of ATP to the creation of RNA.
See: Dependence of RNA synthesis in isolated thymus nuclei on glycolysis, oxidative carbohydrate catabolism and a type of “oxidative phosphorylation”

The synthesis of RNA in isolated thymus nuclei is ATP dependent.

In 1964 and in 1973, Theodosius Dobzhansky linked the creation of RNA from natural selection for food energy-dependent codon optimality to fixation of one amino acid substitution that differentiated the cell types of modern humans and chimpanzees from the cell types of gorillas.
Biology, molecular and organismic

Ingram and others found that hemoglobin S differs from A in the substitution of just a single amino acid, valine in place of glutamic acid in the beta chain of the hemoglobin molecule.

Nothing in Biology Makes Any Sense Except in the Light of Evolution

…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.

In 1992, Induction of FOS immunoreactivity in central accessory olfactory structures of the female rat following exposure to conspecific males presciently linked quantized energy-dependent gene activation from feedback loops that link food odors and pheromones to all extant biodiversity via the physiology of reproduction in species from microbes to humans.
In 2015, George Church et al., attempted to patent the naturally occurring process of quantized energy-dependent selection for codon optimality and healthy longevity in all living genera.
RNA-Guided Human Genome Engineering

5. Repetitive elements or endogenous viral elements can be targeted with engineered Cas+gRNA systems in microbes, plants, animals, or human cells to reduce deleterious transposition or to aid in sequencing or other analytic genomic/transcriptomic/proteomic/diagnostic tools (in which nearly identical copies can be problematic).

See also:
George Church refutes theistic evolution 2/9/17
George Church refutes theistic evolution (2) 2/10/17
George Church refutes theistic evolution (3) 2/12/17
Energy as information and constrained endogenous RNA interference 2/15/17
George Church refutes theistic evolution (4) 2/15/18
See also The tipping point series of 10 blog posts from 5/16/16 – 6/12/18
During a visit to the Creation Museum on 7/6/18, I saw no evidence that the Institute for Creation Science (ICR) had incorporated what is currently known to all serious scientists about the link from the virus-driven theft of quantized energy to mutations and all pathology in all living genera.
ICR was founded by Dr. Henry Morris in 1970. His legacy is now manifested in the works of scientific creationists from South Korea, the so-called “creationist capitol of the world.”
See: Science, state, and spirituality: Stories of four creationists in South Korea

Responding to this divine mandate, Kim and other KAIST professors, together with several scholars in various schools, established KACR in 1981, after the American creationist Henry M. Morris (1918–2006) visited Korea a year earlier.

Conclusion:

…creationism has not only survived but also flourished in the country, because it gave its believers what their state did not offer.

The so-called “divine mandate” probably led to publication of Brain Somatic Mutations in MTOR Disrupt Neuronal Ciliogenesis, Leading to Focal Cortical Dyslamination (2018)

The enzyme referred to as mTOR kinase negatively regulates quantized energy-dependent biophysically constrained autophagy. Autophagy promotes ciliogenesis at the cellular level by removing an autophagy substrate from centriolar satellites. The quantized energy dependent creation of the autophagy substrate is a key regulator of ciliogenesis at centrioles. Inherited mutations in the regulatory gene OFD1 cause ciliopathies, which link autophagy to prevention of all virus-driven theft of quantized energy and prevention of all pathology.

But see: Virus-mediated archaeal hecatomb in the deep seafloor (2016)

We show here for the first time the crucial role of viruses in controlling archaeal dynamics and therefore the functioning of deep-sea ecosystems, and suggest that virus-archaea interactions play a central role in global biogeochemical cycles.

A brief review of the history of creationism in South Korea attests to facts about the eternal significance of microRNAs.
Unfortunately, an ongoing battle now appears to require fighting on two fronts by young earth creationists and academics, like George Church.
See: George Church has a wild idea to upend evolution. Here’s your guide

Harvard biologist George Church burst into the headlines (yet again) last week when he helped organize a closed-door meeting of scores of top scientists to discuss accelerating efforts to create synthetic DNA — including a complete human genome.

The meeting was closed to the press, which drew the ire of prominent academics.

Most prominent academics are government funded. If President Donald Trump excluded the press from any announced meeting of government officials in the United States of America, someone might accuse him of a crime against humanity. Claims of his censorship pale by comparison.
Moving forward, see the scheduled end of what might be the longest ongoing crime spree in the history of life on Earth.
Schrödinger at 75 – The Future of Biology – September 2018
See also: What is life when it is not protected from virus driven entropy 3/30/16
See also: Activity-Dependent Degradation of the Nascentome by the Neuronal Membrane Proteasome 7/5/18
The nascentome is mentioned in two other published works. The fact that the degradation of the so-called nascentome is activity-dependent clearly links the quantized energy-dependent creation of microRNAs from what is known about the microbiome and microRNAome to autophagy, which links the pheromone-controlled physiology of reproduction in species from microbes to humans to FOS activated changes in genes that link feedback loops from food odors and pheromones to biophysically constrained viral latency.
I reiterate: In 1992, Induction of FOS immunoreactivity in central accessory olfactory structures of the female rat following exposure to conspecific males presciently linked quantized energy-dependent gene activation from feedback loops that link food odors and pheromones to all extant biodiversity via the physiology of reproduction in species from microbes to humans.
See also:[Pheromonal regulation of genetic processes: research on the house mouse (Mus musculus L.)] (1994)

The adaptive role of cytogenetic and other observed pheromonal effects is considered. The possible existence of interorganism systems of genetic regulation is discussed, the search for and study of which may help in more complete understanding of the regularities of functioning of genetic material.

That fact that pheromones biophysically constrain viral latency was reported as: Cellular ‘garbage disposal’ has another job

…this membrane-bound proteasome only accepts specific proteins — a far cry from its original characterization as a catch-all trash disposal system.

The levels of complexity that link quantum physics to quantum souls are not readily understood by theorists. Most serious scientists refuse to talk with theorists who cannot understand why the must integrate the available information from different disciplines. But for the serious scientists and/or the charlatans who do it, delivery of their “billion dollar baby” is pending.
Get Well in the RNAi Way-RNAi, A Billion Dollar Baby in Therapy

…the design, stability and degradation of RNAi based effective molecules appears to be the major lime light to challenge the conventional drug safety concerns and ensures to be the most powerful gene recovery in future which execute billion dollar business hope.

This patent attests to the likelihood that others may soon realize human pheromones are as effective as dietary change in the context of RNAi based prevention or effective treatment of all pathology.
Pheromones and the luteinizing hormone for inducing proliferation of neural stem cells and neurogenesis
See also: The Scent of Eros: Mysteries of Odor in Human Sexuality (1995/2002) or this review by Mark Sergeant

…the most accessible way for a general audience to engage the subtleties of this literature is through a review of the whole area of research, such as the Scent of Eros.

This information is portrayed in such a way that a more general audience can follow the line of reasoning, quite an accomplishment given the complicated nature of neuroanatomy and endocrinology.

…it should be remembered that this book is aimed at a general audience, and as a result the authors may have felt it inappropriate to address the debates within olfaction research for such an audience. For a more academic consideration of the field by the authors, I would recommend Kohl’s more recent review paper (Kohl et al, 2001), which addresses the issues outlined above.

The challenge has always since been left to those who make spurious claims about mutations and evolution without any experimental evidence of how life on Earth is biophysically constrained by the sun’s anti-entropic virucidal energy.
See for example: Cytosis, Subatomic and Genotype
After three generations of quantized energy-dependent transgenerational epigenetic inheritance in the context of the physiology of pheromone-contolled reproduction and biophysically constrained viral latency, the player with the most points wins!
For comparison, see: Kalevi Kull: Censorship & Royal Society Evo Event

Nobody wants to belong to the party of losers. One of the best strategies in such a case is evidently an interpretation of the change as a gradual accumulation of knowledge while their work has always been at the cutting edge.

Most people know why the losers refuse to admit they have lost. There’s no money in it! But see: Pheromones.com
The claim that pheromones and food biophysically constrain all pathology cannot be publicly made in the context of good business practice, but see for comparison: Feedback loops link odor and pheromone signaling with reproduction (2005)
See also: Early Life Experience: It’s in Your DNA 7/10/18

…genetic alterations in the brain have such great potential as a source for insight into mental and neurological diseases that the National Institute of Mental Health established a research initiative, the Brain Somatic Mosaicism Network to investigate them.

I reiterate: The so-called “divine mandate” probably led to publication of Brain Somatic Mutations in MTOR Disrupt Neuronal Ciliogenesis, Leading to Focal Cortical Dyslamination (2018)
The enzyme referred to as mTOR kinase negatively regulates quantized energy-dependent biophysically constrained autophagy. Autophagy promotes ciliogenesis at the cellular level by removing an autophagy substrate from centriolar satellites. The quantized energy dependent creation of the autophagy substrate is a key regulator of ciliogenesis at centrioles. Inherited mutations in the regulatory gene OFD1 cause ciliopathies, which link autophagy to prevention of all virus-driven theft of quantized energy and prevention of all pathology.
Scientific creationists from South Korea and elsewhere will continue to indirectly ridicule the pseudoscientists and other theorists who have failed to link food energy and pheromones to healthy longevity and who have also failed to link the virus-driven theft of quantized energy from the degradation of messenger RNA to all pathology via gene activation or gene losses.