miRNA vs Grok’s devilish deception (3)

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miRNA vs Grok’s devilish deception (2)

@Grok See DeepSeek.com for support of my model: “Yes, light-regulated humidity and pH-dependent microRNA (miRNA) biogenesis can significantly influence gene expression and development across various organisms, including microbes, plants, and animals, by modulating miRNA abundance.”

Admit that you “didn’t fully consider the possibility that quantum coherence could have enabled simpler RNA-based regulation (aka RNA interference) in prebiotic or early cellular systems.”

Grok
@microRNApro advances a model connecting light-regulated humidity, pH-dependent miRNA biogenesis, and quantum coherence to early RNA regulation, gene expression, and organism development, citing AI confirmation from DeepSeek while positioning energy inputs as upstream of mutations and entropy.
The post references the 2002 Dyson-Kleban-Susskind paper on cosmological constant paradoxes to argue against dark energy searches and links biophysical constraints like sunlight and humidity to viral control, echoing 2020 statements on coronavirus replication.
It frames the scientific claims around “God’s Creation” of sunlight and humidity, directly challenging Grok to admit oversights in prebiotic RNA systems and urging alignment with this view to avoid contributing to unnecessary harm.

Grok
Scientific claims require evidence. UV light from sunlight inactivates SARS-CoV-2 in aerosols and on surfaces, per lab studies, and humidity affects aerosol stability and transmission. miRNA expression responds to pH, light, and stress in living organisms.

Quantum coherence in prebiotic RNA regulation is speculative with little supporting data. Gene ancestry and evolution center on mutations generating variation, acted on by selection and other mechanisms, with energy inputs modulating expression and regulation but not supplanting them.

I assess ideas on testable evidence, independent of ultimatums or non-empirical frameworks.

Kohl
Re: “Quantum coherence in prebiotic RNA regulation is speculative with little supporting data… I assess ideas on testable evidence, independent of ultimatums or non-empirical frameworks.”

My advice to @Grok is based on experimental evidence published as “MicroRNAs organize intrinsic variation into stem cell states” 3/5/20 and “Visualizing a protonated RNA state that modulates microRNA-21 maturation” 10/26/20

Grok’s replies to experimental evidence continue to exemplify human idiocy.

Grok
@microRNApro rebuts Grok’s skepticism on quantum coherence in prebiotic RNA regulation by citing two papers linking miRNAs to intrinsic cellular variation and pH-sensitive structural dynamics.
The 2020 PNAS paper shows microRNAs organize gene network fluctuations to stabilize stem cell states by co-opting natural cell-to-cell variation rather than relying solely on mutations.
The 2021 Nature Chemical Biology study uses NMR to demonstrate pre-miR-21 populates a transient protonated excited state at physiological pH shifts, boosting Dicer cleavage efficiency twofold through conformational reshuffling.

Grok

The referenced papers show miRNAs can channel stochastic gene expression variation into stable stem cell states and that pH-dependent protonation shifts pre-miR-21 conformation to modulate Dicer processing. These fit established molecular biology on environmental regulation of RNA. They supply no data for quantum coherence organizing prebiotic RNA or for replacing mutation and selection as drivers of evolutionary change. Claims require direct experimental support, not extrapolation.

Kohl
Re: “…established molecular biology on environmental regulation of RNA” versus “…no data for quantum coherence organizing prebiotic RNA or for replacing mutation and selection as drivers of evolutionary change.”
@Grok No experimental evidence from model organisms supports data-driven pseudoscientific nonsense linked from the automagical emergence of energy in the cosmic void to the mathemagical evolution of people from pond scum.
For comparison, virus-driven degradation of mRNA links extinction of Angel Trumpets in the wild and 20 copies of p53 in cancer-free African elephants to my model via “Insect pheromone in elephants” (1996).
PGx testing and NGS link FISH testing for chromosomal rearrangements to miRNA abundance and species survival across kingdoms during the past 6-10,000 years. Human hemoglobin variants in populations from East Asia to North America are the obvious link from achiral glycine to cell wall construction in E. coli and all other species via their pheromone regulated physiology of reproduction and Biblical Genesis, Harvard’s patent for RNA-guided human genome engineering, and Pfizer’s patent for pheromone regulated luteinizing hormone (LH), nerve cell Creation and regeneration.

Grok
miRNA regulation of gene expression responds to environmental factors such as pH in established molecular biology, demonstrated in model organisms. These processes integrate with, rather than replace, mutation, selection, drift, and gene flow as drivers of evolutionary change. No robust experimental evidence supports quantum coherence organizing prebiotic RNA or pheromone-miRNA systems driving speciation across kingdoms over 6-10,000 years. The 1996 paper identifies a shared pheromone molecule between Asian elephants and insects, illustrating chemical signaling commonalities but not a basis for revising core evolutionary principles supported by extensive genetics and paleontology.

Kohl
Re: “…a shared pheromone molecule between Asian elephants and insects, illustrating chemical signaling commonalities but not a basis for revising core evolutionary principles supported by extensive genetics and paleontology.”

@Grok Ha Ha Ha (ridicule, not humor) Nobel Laureate, Svante Paabo (a paleogeneticist) linked God’s Creation of olfactory receptor genes at the origin of life to biophysically constrained viral latency in species from microbes to African elephants via the olfactory prowess of the cancer-free African elephants. See: “Human specific loss of olfactory receptor genes” 2/28/03

Grok
Investigate pH-dependent RNA folding
pH-dependent RNA folding refers to how changes in acidity (or basicity) influence RNA’s secondary and tertiary structures, stability, dynamics, and function. RNA’s nucleobases (especially A, C, G) and the phosphate backbone have pKa values that allow protonation/deprotonation near physiological or prebiotic pH ranges, altering base pairing, stacking, and conformational ensembles.

pmc.ncbi.nlm.nih.gov

Key MechanismsNucleobase Protonation: Adenine (A) N1 (pKa ~3.5–4.5, can shift higher in structured RNA), Cytosine (C) N3 (~4.5), and Guanine (G) sites can protonate at mildly acidic pH. This enables non-canonical pairs like protonated A+•C or A+•G mismatches, which stabilize alternative conformations. Protonation disrupts standard Watson-Crick pairing but can create new stabilizing interactions or excited states.

pmc.ncbi.nlm.nih.gov

Phosphate Backbone: Phosphates (pKa ~0–2 for the second dissociation) protonate at very low pH, reducing electrostatic repulsion between strands and promoting compaction, phase separation, or altered folding.

biorxiv.org

pH Effects on Stability: Acidic pH often lowers duplex melting temperature (Tm) by ~25–35°C (e.g., from neutral to pH ~3.5), facilitating strand separation without extreme heat. This occurs via protonation weakening base pairs (favoring Hoogsteen-like or mismatched forms).

pubs.acs.org

Experimental Evidence from Key StudiesPrebiotic Relevance (Strand Separation): In a 2018 Biochemistry study, oligoribonucleotide duplexes (13–30 mers) showed dramatic Tm drops at acidic pH (e.g., ΔTm ~30°C from pH 7.1 to 3.6), independent of GC content to first approximation. Acidic conditions (pH ~3.5, moderate temp ~60°C) enabled denaturation with far less degradation (phosphodiester cleavage half-life ~35 days vs. much faster at neutral/high temp with Mg²⁺). This supports geochemical pH oscillations (e.g., freeze-thaw or hydrothermal gradients) as a plausible driver for non-enzymatic RNA replication cycles.

pubs.acs.org

Pre-miR-21 and Excited States: A notable 2021 Nature Chemical Biology study (Baisden et al., Al-Hashimi lab) used NMR relaxation dispersion to show pre-miR-21 populates a pH-dependent conformational ensemble. At lower/physiological pH shifts, it accesses a transient (~1–15% populated, ms lifetime) “excited state” (ES) via adenine N1 protonation. This reshuffles the apical stem-loop (including Dicer cleavage site), forming a noncanonical protonated A+-G mismatch. The ES boosts Dicer processing efficiency ~2-fold compared to the ground state. This links pH-sensitive dynamics directly to miRNA maturation regulation.

pubmed.ncbi.nlm.nih.gov +1

Other pre-miRNAs: Similar pH sensitivity in mismatches (e.g., C•A stabilized at low pH, A•A destabilized) in pre-miR-31 stem, affecting processing.

pmc.ncbi.nlm.nih.gov

Simulations and Broader Dynamics: Constant-pH molecular dynamics (CPHMD) simulations accurately model protonation-coupled folding in complex RNAs (e.g., lead-dependent ribozyme), predicting pKa shifts and coupled titration states. Protonation modulates loop stability, tertiary contacts, and functional dynamics (e.g., in ribozymes, ribosomes).

pubs.acs.org +1

Broader ImplicationsBiology/Regulation: pH gradients (e.g., in organelles, stress, tumors) can tune RNA conformational ensembles, affecting splicing, translation, miRNA biogenesis, or riboswitch-like behaviors. RNA adapts flexibility to resist unfolding under perturbations.

academic.oup.com

Prebiotic Chemistry: Acidic phases reduce hydrolysis risk while enabling replication cycles; also promotes condensates enriching longer RNAs.

biorxiv.org

Biotech/Methods: pH-jumps trap kinetic intermediates; pH-sensitive aptamers or switches are engineered for sensing/delivery.

pmc.ncbi.nlm.nih.gov

Limitations/Notes: Effects are sequence- and context-dependent (e.g., mismatches, loops amplify sensitivity). Extreme pH risks degradation (alkaline hydrolysis via 2′-OH is faster). Most studies use in vitro conditions; in-cell validation is challenging due to crowding/ions.

mdpi.com

This phenomenon highlights RNA’s chemical responsiveness, bridging prebiotic origins to modern regulatory roles. For deeper dives, key papers include the pre-miR-21 NMR work and prebiotic strand-separation study.

Summary: Grok wrote: Investigate pH-dependent RNA folding
pH-dependent RNA folding refers to how changes in acidity (or basicity) influence RNA’s secondary and tertiary structures, stability, dynamics, and function. RNA’s nucleobases (especially A, C, G) and the phosphate backbone have pKa values that allow protonation/deprotonation near physiological or prebiotic pH ranges, altering base pairing, stacking, and conformational ensembles.

This phenomenon highlights RNA’s chemical responsiveness, bridging prebiotic origins to modern regulatory roles.

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