Multi-omic analysis features (SNPs, miRNA)

See also: Viral and Cellular Genomes Activate Distinct DNA Damage Responses

Central to life is the faithful replication, inheritance, and maintenance of genomic DNA. The MRE11/RAD50/NBS1 (MRN) complex andATMplay a critical role in this biological mandate (Ciccia and Elledge, 2010). Cellular double-strand breaks (DSBs) are sensed by MRN and trigger the assembly of DNA damage response (DDR) foci that amplify global ATM signaling to induce cell-cycle arrest and DNA repair (Polo and Jackson, 2011). DNA viruses are an ancient and persistent threat to both cellular genome integrity and viability.

You can lean more about RNA-mediated correction factors here.


Innovative multi-omic analysis features (SNPs, miRNA).

My comment: Typically, RNA-mediated events control virus-driven DNA damage. How could any serious scientist not consider the effects of viral microRNAs on cell type differentiation? All effects must be compared to the epigenetic effects of nutrient-dependent microRNAs on DNA repair, which links ecological variation to ecological adaptation via the biophysically constrained chemistry of nutrient-dependent RNA-mediated protein biosynthesis and degradation.
See also: RNA Pol IV and V in gene silencing: Rebel polymerases evolving away from Pol II’s rules
Abstract excerpt: 

Noncoding RNAs regulate gene expression at both the transcriptional and post-transcriptional levels, and play critical roles in development, imprinting and the maintenance of genome integrity in eukaryotic organisms [1,2,3]. Therefore, it is important to understand how the production of such RNAs are controlled.

My comment: Biologically uninformed researchers cannot understand how the production of potentially beneficial noncoding RNAs is controlled by nutrient energy and how cell type differentiation is perturbed by viruses that steal the nutrient energy that is required for fixation of RNA-mediated amino acid substitutions in the organized genomes of all living genera.
See also: Combating Evolution to Fight Disease

An alternative theory proposes environmentally induced change in an organism’s behavior as the starting point (1), and “phenotypic plasticity” that is inherited across generations through an unspecified process of “genetic assimilation” (2).
This is now more than merely an alternative theory of genetic assimilation. It links transgenerational epigenetic effects from nutrient uptake and RNA-mediated events to amino acid substitutions that differentiate the cell types of all cells in all individuals of all organisms. See, for example: Starvation-Induced Transgenerational Inheritance of Small RNAs in C. elegans.
The nutrient stress-induced RNA-mediated events, which link the epigenetic landscape to the physical landscape of DNA in the organized genomes of species from microbes to man, also link morphological and behavioral diversity via conserved molecular mechanisms exemplified in the context of biologically plausible ecological speciation in nematodes.
See: System-wide Rewiring Underlies Behavioral Differences in Predatory and Bacterial-Feeding Nematodes
A difference in their feeding behavior and in the anatomy of their mouth parts is linked from nutrient-dependent pheromone-controlled feedback loops to ecological, social, and neurogenic niche construction. The change in focus from mutations, natural selection, and the evolution of biodiversity via unknown evolutionary events to nutrient-dependent pheromone-controlled RNA-mediated events that differentiate cell types may be required for others to realize the difference between evolutionary theories and biologically-based facts about RNA-mediated events.
RNA-mediated events are biophysically constrained, which means they are a biologically plausible way to link the physics and chemistry of protein folding to increasing organismal complexity via molecular biology. RNA-mediated events can also be compared to any unknown evolutionary events that might arise in the context of an alternative theory about constraint-breaking mutations, or other theories that include no mention of RNA-mediated events.

My comment: Any article that mentions the evolution of anything without consideration of Darwin’s ‘conditions of life’ is an article that bastardized his theory. Darwin clearly linked ecological variation to ecological adaptation before cause and effect was linked via nutrient-dependent RNA-mediated chromosomal rearrangements in white-throated sparrows and all other living genera.
See: Estrogen receptor α polymorphism in a species with alternative behavioral phenotypes

Estrogen receptor-mediated differences in parental feeding behavior appear to contribute to sex differences and species differences in morphology and in overt social behavior.

My comment:   “the evidence mentioned above indicates that viruses likely arose from their hosts and not the other way around. As molecular biologist and biochemist Peter Borger notes, “The most parsimonious answer is: the RNA viruses got their genes from their hosts.”6
See also: Armed Forces in the Cell Keep DNA Healthy

We aren’t surprised to notice that these articles say nothing about evolution.

See also: Ready to Return and Nutrient-dependent / Pheromone-controlled thermodynamics and thermoregulation.
For comparison of what is known to serious scientists about ecological variation and ecological adaptation in the context of an atoms to ecosystems model, see this video representation of my invited review of nutritional epigenetics: Nutrient-dependent pheromone-controlled ecological adaptations: from atoms to ecosystems
See also: Scientists map genes at work in human embryos’ earliest days

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