Biologically uninformed biologists fight back and lose

By: James V. Kohl | Published on: February 27, 2017

Novel layers of RNA polymerase III control affecting tRNA gene transcription in eukaryotes 22 Feb 2017

A subset of tRNA genes shows low responsiveness to both environmental and cellular signals. Notably, this group contains at least one tRNA for each amino acid. Together these findings suggest the existence of a basal subset of housekeeping tRNA genes [36]. This concept is consistent with the mode of Maf1-mediated repression of actively transcribed tRNA genes in human cells subjected to serum starvation [104].

See also the citation to (with my emphasis): Kimura M, Ishihama A. 1995 Functional map of the alpha subunit of Escherichia coli RNA polymerase: amino acid substitution within the amino-terminal assembly domain. J. Mol. Biol. 254, 342–349.
The fact that an enzymatic reaction linked energy to the amino acid substitution seems to have been virtually ignored by theorists

See for example comparison: Richard Lenski – Evolution in a Flask

Published on 24 Feb 2017

Dr. Stan Maloy talks with Richard Lenski Ph.D., Hannah Professor of Microbial Ecology, Michigan State University, about his research into the evolution of bacteria and the new frontier of digital evolution.Episode 61 of MicrobeWorld Video, filmed at the American Association for the Advancement of Science Meeting in Vancouver, Canada on February 17th, 2012.

Lenski’s Long Term Evolution Experiment with E. coli has seen over 50,000 new generations since its inception in 1998. This has led to insights such as how viruses can evolve from types that don’t infect humans to ones that do.

Lenski’s work with E. coli has also led him into the digital world. Using computers, Lenski can achieve precise, rapid results by manipulating digital organisms. Software that evolves much like bacteria in the real world.

Lenski is optimistic about the future of evolution research. Applying the generalities that have resulted from his studies to any number of other microbial species. He also sees large potential in applying what he’s learned to the study of antibiotic resistance and bioengery.

The fact that Richard Lenski failed to acknowledge what was known about the nutrient energy-dependent RNA-mediated amino acid substitution that stabilized the organized genome of E. coli, his model organism, attests to how much pseudoscientific nonsense about mutations, natural selection, and evolution he has been touting for more than 2 decades.
For comparison, see: Measurements of translation initiation from all 64 codons in E. coli
Reported as: Start codons in DNA may be more numerous than previously thought
See also: Biodiversity is autocatalytic

…it was recently shown using the RAF algorithm that the metabolic network of Escherichia coli forms a large autocatalytic set of close to 1800 reactions (Sousa et al., 2015). As far as we know, this is the first formal proof that living organisms
(or at least essential parts thereof) are indeed autocatalytic sets.

Reported as: Autocatalytic biodiversity hypothesis aims to supplant Darwin’s ‘war of the species (February 9, 2017)

A species emerges from this environment and is an expression of those interactions. In other words, species are expressed and maintained by a complex interacting ecological network.

Contrary to Darwin’s beliefs, biodiversity, according to Dr. Cazzolla Gatti, does not derive “from the war of nature, from famine and death,” but from the power of life to enable other life; not from war, but from coexistence; not from competition but from the avoidance of it, e.g. from cooperation and facilitation, i.e., by autocatalysis.

The power of life to enable other life is nutrient energy-dependent and controlled by the physiology of reproduction. That fact explains why virus-driven energy theft is being linked to all pathology in the science news that is reported each day. The obfuscation is clear in the fact that there is no such thing as a genomic pathway outside the context of epigenetic effects that link metabolic networks to genetic networks in all living genera. When you see a report that does not link energy-dependent epigenetic effects to supercoiled DNA or to virus-driven pathology, you should learn to recognize the tactics that are used to frame experimental evidence of biologically-based cause and effect in the context of evolutionary theories about evolutionary pathways and/or genomic pathways.
Faulty genomic pathway linked to schizophrenia developing in utero, study finds

“This research shows that there is a common dysregulated gene program that may be impacting more than 1,000 genes and that the great majority of those genes are targeted by the dysregulated nuclear FGFR1,” Stachowiak said.

When even one of the many schizophrenia-linked genes undergoes mutation, by affecting the INFS it throws off the development of the brain as a whole, similar to the way that an entire orchestra can be affected by a musician playing just one wrong note, he said.

See the obfuscatory attempt in:

See also: Epigenome: The symphony in your cells
The “symphony” is energy-dependent and RNA-mediated via endogenous RNA interference in the context of the physiology of reproduction.


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