Excerpt: During the past 21 months, others have either learned nothing about microRNAs or they have ignored the fact that virus-driven energy theft is not the same as energy dissipation in the context of food energy (the quantized energy as information that is used by viruses to create the amino acid substitutions that stabilize their RNA and DNA).

The dark side of the new popularity of cryo-electron microscopy

…we need to stand together as a field, and support our colleagues by accepting to review their papers and grant applications in order to ensure a fair evaluation. In my opinion, we need to collaborate, support and acknowledge each other as best as we can so we can successfully move forward together into a bright future in cryoEM.

This invited review of nutritional epigenetics was returned without review.  Nutrient-dependent pheromone-controlled ecological adaptations: from atoms to ecosystems

Food energy-dependent changes in base pairs were linked to ecological adaptation in species from microbes to humans via methylation and the fixation of RNA-mediated amino acid substitutions. There is no dark side to cryo-electron microscopy (cryoEM), and Ariane Briegel knows that. See: Structure of bacterial cytoplasmic chemoreceptor arrays and implications for chemotactic signaling (2014)

  1. …methylations confer adaptation on the system, modulating its response based on recent environmental conditions (Kleene et al., 1979; Toews et al., 1979; Lupas and Stock, 1989). The architecture of these membrane-bound chemoreceptor arrays is not specific to E. coli, indeed it is universal among bacteria (Briegel et al., 2009). The architecture of these arrays is likely key to the high sensitivity, wide dynamic range, cooperativity, and feedback control of this system…
  2. Interestingly, while transmembrane arrays remain intact upon cell lysis, presumably due to the stabilizing effect of the membrane, cytoplasmic arrays fall apart unless molecular crowding agents are added. This suggests that cellular crowding contributes to the stability of the array and may be an important factor in assembly of these, and likely other, cellular structures (Ellis, 2001; Zhou et al., 2008; Zhou, 2013). We observe the same requirement for molecular crowding (mimicking the cellular environment) in our in vitro preparation from E. coli. This supports the idea that chemoreceptor interactions can be enhanced by membrane binding (Shrout et al., 2003), but in the absence of a membrane, this can be achieved by molecular crowding and sandwiching (Fowler et al., 2010).

Briegel et  al., (2014) reestablished the facts from our 1996 review of biophysically constrained RNA-mediated cell type differentiation. See the molecular epigenetics section of From Fertilization to Adult Sexual Behavior.

Life on Earth exists within the confines of the energy that is required to maintain the functional structure of the cell membrane. The crowding of food energy-dependent microRNAs in the cell membrane is reduced by virus-driven energy theft. See: Virus-mediated archaeal hecatomb in the deep seafloor

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.

Bacteria become archaea and archaea become L-forms (with no cell wall).

See: L-form bacteria cohabitants in human blood: significance for health and diseases

That significance of L-forms was not placed into the context of this representation of how serious scientists will prevent or begin to effectively treat all virus-driven pathology in the context of what has been revealed by the cryoEM technology.

See: Feedback of the Drosophila period gene product on circadian cycling of its messenger RNA levels

The circadian cycling of energy-dependent microRNA-mediated protein biosynthesis and degradation has been linked to healthy longevity via what is known about quantum physics and the link from quantized energy as information to quantum souls via hydrogen-atom transfer in DNA base pairs in solution that link microRNA flanking sequences in exosomes to RNA-mediated DNA repair.

See: Exosomes from human umbilical cord blood accelerate cutaneous wound healing through miR-21-3p-mediated promotion of angiogenesis and fibroblast function (Jan 1, 2018)

It has been shown that exosomes contain large amounts of miRNAs and can serve as vehicles to transfer miRNAs to recipient cells, where the exogenous miRNAs can alter the gene expression and bioactivity of recipient cells [28].

28. Au Yeung CL, Co NN, Tsuruga T, Yeung TL, Kwan SY, Leung CS. et al. Exosomal transfer of stroma-derived miR21 confers paclitaxel resistance in ovarian cancer cells through targeting APAF1. Nat Commun. 2016;7:11150

These data suggest that the malignant phenotype of metastatic ovarian cancer cells can be altered by miR21 delivered by exosomes derived from neighbouring stromal cells in the omental tumour microenvironment, and that inhibiting the transfer of stromal-derived miR21 is an alternative modality in the treatment of metastatic and recurrent ovarian cancer.

All experimental evidence of biophysically constrained viral latency links the food energy-dependent creation of microRNAs from the bioreactivity of recipient cells to healthy longevity via  protection from the virus-driven degradation of messenger RNA, which all serious scientists have linked from mutations to all pathology.

See this presentation from a Precision Medicine virtual conference for review

See also:

Mar 2, 2016  From hydrogen atom transfer in DNA base pairs to ecosystems
Mar 2, 2016  RNA mediated molecular epigenetics and virus driven entropy
Mar 30, 2016 What is life when it is not protected from virus driven entropy
May 3, 2016  RNA-mediated physics, chemistry, and molecular epigenetics

Not only did Telepresence robots let employees ‘beam’ into work (December 24, 2012), telecommuting established my ability to disseminate accurate information about biophysically constrained biologically-based cause and effect to those who want to inform themselves. After I learned about microRNAs during the 2012 Society for Neuroscience annual meeting, I did not waste anymore time or money attending scientific conferences. It became perfectly clear that biologically uninformed theorists ignored the facts that link the creation of energy-dependent microRNAs to healthy longevity — if only because I had never heard of them.

During the past 21 months, others have either learned nothing about microRNAs or they have ignored the fact that virus-driven energy theft is not the same as energy dissipation in the context of food energy (the quantized energy as information that is used by viruses to create the amino acid substitutions that stabilize their RNA and DNA.

See for comparison: Quantum secret sharing for a multipartite system under energy dissipation!

Only the virus-driven theft of quantized energy has been linked to all pathology in all living genera.

That fact makes this fact perfectly clear. Scientific progress toward the prevention or effective treatment of all pathology has been delayed at every level of examination by theorists. See for example:

 Complex Mutations can Help Drive Evolution

“This study is the first of its kind in complex organisms like the fruit fly. With this unique resource in hand, we have already characterized several candidate structural variation which show evidence for phenotypic adaptation, which can function to drive species evolution,” explained Emerson.

Species do not evolve. Natural selection for energy-dependent codon optimality links food energy from ecological variation to fixation of RNA-mediated amino acid substitutions in organized genomes via DNA repair. The RNA-mediated DNA repair is evidence of how organisms phenotypically adapt.

Food odors and pheromones biophysically constrain ecological adaptations in species from mice to humans. That fact was established via the works of people such as Eugene Daev, who used experimental evidence of biophysical constraints in their refutation of neo-Darwinian pseudoscientific nonsense.

See: [Pheromonal regulation of genetic processes: research on the house mouse (Mus musculus L.)] (1994)

A study of the influence of pheromone stressor(s) on proliferating germ and somatic cells was performed on laboratory lines of house mouse in the context of the physiological hypothesis of mutation process, proposed by M.E. Lobashev in 1947. Data from experiments are presented, and results obtained during last 10-15 years are discussed. 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.

See also: Size matters – the olfactory bulb as a marker for depression (2017)

We assume that reduced neural olfactory input to subsequent limbic and salience processing structures moderates this relation. However, the OB was in an inferior position compared to conventional questionnaires for diagnosis of depression.

Despite two decades of scientific progress, the authors assume that the link between olfaction and emotion processing structures may not be as strong in humans compared to mice. They are either biologically uninformed, or they are lying. In either case, serious scientists do not base their claims on ridiculous assumptions. There may be no serious scientists who have ever worked with Thomas Hummel.

See: Hummel T and microRNA

See for comparison: The tipping point (revisited): 68,000 publications

See also: Feedback loops link odor and pheromone signaling with reproduction (2005) and Olfaction Warps Visual Time Perception (2017)

Attacks on my scientific credibility by Nik Wilmore, who claims these credentials Chemist (Columbia/Harvard), can be linked to this Historical Perspective as the obvious basis for social media attacks by biologically uninformed chemists and other theorists:

A fear of pheromones (1971)

WHAT are we going to do if it turns out that we have pheromones? What on earth would we be doing with such things? With the richness of speech, and all our new devices for communication, why would we want to release odors into the air to convey information about anything? We can send notes, telephone, whisper cryptic invitations, announce the giving of parties, even bounce words off the moon and make them carom around the planets. Why a gas, or droplets of moisture made to be deposited on fenceposts?

Similarly, what are we going to do if it turns out that food odors are the link from quantum physics to quantum souls, and that only pheromones biophysically constrain the virus-driven entropy of organized genomes?

Let food be thy medicine and medicine be thy food.” ― Hippocrates

There are in fact two things, science and opinion; the former begets knowledge, the latter ignorance.” ― Hippocrates

Declare the past, diagnose the present, foretell the future.” ― Hippocrates

Wherever the art of Medicine is loved, there is also a love of Humanity. ” ― Hippocrates

Wherever Money is loved, it is loved more than the Art of Medicine and more than Humanity. ― James V. Kohl

See Kohl’s Laws of Biology in Nutrient-dependent pheromone-controlled ecological adaptations: from atoms to ecosystems

See for comparison: Analysis of 6,515 exomes reveals the recent origin of most human protein-coding variants

Reported as: Past 5,000 years prolific for changes to human genome

Of 1.15 million single-nucleotide variants found among more than 15,000 protein-encoding genes, 73% in arose the past 5,000 years, the researchers report. 164,688 of the variants — roughly 14% — were potentially harmful, and of those, 86% arose in the past 5,000 years.

Only if you ignore everything that could be learned about cell biology by playing the game “Cytosis,” could you continue to believe in the ridiculous theories of “Big Bang” cosmologists and neo-Darwinian theorists.

Cytosis: “A board game taking place inside a human cell! Players compete to build enzymes, hormones and receptors and fend off attacking Viruses!”

Darwin’s “conditions of life” and Kohl’s Laws of Biology attest to the fact that food energy-dependent RNA-mediated DNA repair biophysically constrains viral latency. Changes in the diet lead to ecological variation or from virus-driven energy theft to mutation-driven pathology.

The only recommended use for the term evolution is in the context of the evolution of virus-driven pathology.

See: Virus-mediated archaeal hecatomb in the deep seafloor

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.

See for comparison: Role of enhanced receptor engagement in the evolution of a pandemic acute hemorrhagic conjunctivitis virus

We provide a high-resolution cryo-EM structure of a virus-ICAM-1 complex, which revealed critical ICAM-1-binding residues. These data could help identify a possible conserved mode of receptor engagement among ICAM-1-binding enteroviruses and rhinoviruses. Moreover, we identify a single capsid substitution that has been adopted by all pandemic CV-A24v strains and we reveal that this adaptation enhances the capacity of CV-A24v to bind sialic acid. Our data elucidate the CV-A24v receptor repertoire and point to a role of enhanced receptor engagement in the adaptation to the eye, possibly enabling pandemic spread.

The theft of quantized energy as information is linked to the adaptation of the virus. The creation of sunlight an its contract with water typically links the anti-entropic virucidal effects of the sun’s energy from food energy and the pheromone-controlled physiology of reproduction to fixation of amino acid substitutions in the organized genomes of all living genera. If Baggen et al., (2017) Role of enhanced receptor engagement in the evolution of a pandemic acute hemorrhagic conjunctivitis virus was an accurate representation of how viral latency is biophysically constrained, the experimental evidence could help others to maintain their mental health.

See: Avoiding spiritual struggles and existential questions is linked with poorer mental health

Among the study’s findings:

  • An unwillingness to accept spiritual struggle could contribute to major social ills, leading to lost opportunities to engage with people of different faith beliefs and backgrounds and come to view them as threatening.

“This avoidance may lead to the rejection of whole groups of people based on their religious differences or perceived incongruence between, for example, their sexuality or gender-based identity and religious teachings,” Exline said.

  • Mental health providers may find it useful to help clients with spiritual struggles face their difficulties in a more proactive way.

“People seem to be more emotionally healthy if they’re able to accept troubling thoughts,” Exline said. “Looking at spiritual doubts in an objective way seems to help. You may or may not work through them, but at least you can tolerate having them.”

  • Avoidance itself is not a problem; rather, the behavior can become problematic when escaping becomes harmful or contrary to personal goals and sets a rigid pattern of experiencing and responding to the world.

“Regular spiritual avoidance can make it difficult to identify, work toward or experience the qualities that lend a sense of purpose to life,” she said.

  • Using emotional and cognitive energy to push thoughts away will not stop them from continuing to intrude over time.

“Continually being re-visited by these thoughts can create strains on emotional health, especially if a person sees this kind of questioning as morally unacceptable and dangerous,” Exline said.

See for comparison: Formulation and evaluation of anti-suicidal nasal spray of Thyrotropin releasing hormone

Dose of TRH is 200 μg and can be given once in a day. In the present study, an attempt has been made to prepare nasal spray of TRH by optimizing its pH, viscosity, osmolality and formulation parameters for use in crisis management.

The optimization of pH is essential in the context of prevention and all treatments that act on the potential of hydrogen. I don’t know of anything in life that does not act on the potential of hydrogen in the context of hydrogen-atom transfer in DNA base pairs in solutuon..

See also: Reduced expression of brain-enriched microRNAs in glioblastomas permits targeted regulation of a cell death gene

Together, these results provide an in-depth analysis of miRNA dysregulation in glioblastoma and demonstrate the potential utility of these data in the design of miRNA-regulated therapies for the treatment of brain cancers.

Dietary energy substrates reverse early neuronal hyperactivity in a mouse model of Alzheimer’s disease

See also: Lack of sleep boosts levels of Alzheimer’s proteins December 28, 2017

In the study, people who took sleep medication had levels of amyloid beta no lower than people who had slept normally.

See for comparison: microRNA Alzheimer’s 

See also: Blind Loyalty – Why Civil Discourse is Dead October 14, 2017

The more we are tied to something, the stronger our reaction to it. I believe this is the problem with modern politics. We, both sides, have become so tied to our ideals that we cannot have a rational discussion about anything that goes against them.

The politicized practice of medicine prevents recognition of the facts established by serious scientists. For example, the innate antiphage defense system protects all organized genomes from virus-driven entropy via autophagy. That fact was placed into the context of the cell biology game Cytosis.

See also the discussion of Mitochondrial metabolite linked to regulation of neurotransmission

Pat Sweeney I am beginning to think that the genes in the mitochondria that direct the assembly of some of the necessary factors for nerve firing, are in cell types that have not had enough time to evolve or move the genes to the nucleus yet. Other cell types have had enough time to evolve or duplicate the mitochondrial genes into the cell genome and mutate them out of the mitochondrial genome.

Mitochondrial Genes Move to the Nucleus — but it’s not for the sex. The loss of endosymbiont genes can be complete, in which lost genes are absent from the host–endosymbiont complex, a substitution, in which a nuclear allele functions in place of the lost symbiont gene, or a functional transfer of an endosymbiont gene to the nucleus, followed by its loss (Adams and Palmer 2003). Such “functional transfer” involves the relocation of a mitochondrial gene to the nucleus, its acquisition of a promoter, successful targeting to the mitochondria for proper function, and the eventual loss of the gene from the mitochondrial genome altogether. Although this process is probably quite complex and requires numerous evolutionary modifications (Murcha et al. 2005), there is evidence that some mitochondrial genes are preadapted to functional transfer as they contain signals that target them to the mitochondria before functional transfer to the nucleus (Ueda et al. 2008a).

He cited: The Functional Transfer of Genes From the Mitochondria to the Nucleus: The Effects of Selection, Mutation, Population Size and Rate of Self-Fertilization (2009)

and Massive Mitochondrial Gene Transfer in a Parasitic Flowering Plant Clade (2013)

My response:

I am beginning to think that some people still do not realize that cell types do not evolve. But now, Pat Sweeney makes claims that differentiate the terms “evolve or duplicate” from phrases such as “mutate them out of the mitochondrial genome” and “evidence that some mitochondrial genes are preadapted.”

The preadaptations are quantized energy-dependent and biophysically constrained by the pheromone-controlled physiology of reproduction. There is a model for that.

Nutrient-dependent pheromone-controlled ecological adaptations: from atoms to ecosystems

There is still no mathematical model of biologically-based cause and effect for comparison, which is why all serious scientists are laughing at the pseudoscientists who still tout “evolution” as an explanation for cell type differentiation in different species that must eat to reproduce.

See for comparison: Impaired mitochondrial β-oxidation in cardiomyocytes: role of the cardiac renin-angiotensin system and miR-208 Wednesday, January 24, 2018

In this webinar we will discuss [facts]:

  • Analysis of mitochondrial function in cardiomyocytes using Agilent Seahorse XF technology
  • Application of mito stress test, glycolysis stress test and palmitate oxidation assays in HL-1 cardiomyocytes

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