Pharmacogenomics

Carl Woese was wrong

Carl R. Woese Excerpt: Using ribosomal RNA sequence as an evolutionary measure, his laboratory provided a phylogenetically valid system of classification for prokaryotes; the revised classification of the archaebacteria was a product of these studies.  His research later focused on defining ancestral gene families, determining the evolution of cellular translation, and tracing the origin of the genetic code. See for comparison: Nascent Proteome Remodeling following Homeostatic Scaling at Hippocampal Synapses Excerpt: …although it has not been explicitly addressed here, it…

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Hecatombic non-specific mutation-driven evolution

Virus-mediated archaeal hecatomb in the deep seafloor Excerpt: These findings provide new evidence for a possible link between viral infections and chemoautotrophic production in the microbial food web. Viral-mediated mortality of bacteria and archaea may stimulate heterotrophic metabolism. This, in turn, may enhance nitrogen regeneration processes, supporting ammonia-dependent chemoautotrophic production. This biological feedback could have important consequences for C and N cycling. My comment: This is an open-access article… You can cite it and help others to learn what the…

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Nutrient-dependent pheromone-controlled autophagy (2)

See also: Nutrient-dependent pheromone-controlled autophagy Autophagy: cellular and molecular mechanisms (2010) Conclusion: … autophagy has emerged as a new and potent modulator of disease progression that is both scientifically intriguing and clinically relevant. My comment: Autophagy is energy-dependent and linked to supercoiled DNA by epigenetic effects on the innate immune system, which are linked to the physiology of energy-dependent reproduction. If you think that the innate immune system automagically “emerged,” you might also think that autophagy has automagically emerged as the…

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Hypothesis free pseudoscience vs facts (5)

See first: Hypothesis free pseudoscience vs facts (4) Re: There is literally nothing left of neo-Darwinian pseudoscientific nonsense, and yet pseudoscientists still make the same ridiculous claims. See for comparison:  Current Drug Design Studies for Hsp70 in Oncological Applications SBD [substrate binding domain] contains hydrophobic amino acid residues, and this hydrophobic cavity helps unfolded substrate proteins to fold their native structure. Thus, exposed part of the folded proteins may not interact with each other and cause aggregation [in the context…

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Hypothesis free pseudoscience vs facts (2)

See first: Hypothesis free pseudoscience vs facts (1) Kondrashov and Kondrashov study shows the complexities of evolution at the mitochondrial tRNA level Conclusion: “As compelling as the step-by-step model of Darwinian evolution is, it seems that at least for stems of mt-tRNAs a majority of substitutions involve population dynamics that allow a population to jump over a short but deep valley in fitness.” My comment: As I recall, de Vries defined “mutation” in the content of sudden jumps in morphological…

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Chromatin: The structure of DNA (3)

See:  Chromatin: The structure of DNA (2) Inherited parental methylation shifts over time, may have functional effects in the brain and other tissues Excerpt: …researchers have theorized that inherited methylation, also referred to as parental imprinting, largely remains stable throughout development, except during two important developmental milestones: after fertilization and during the creation of sperm and egg cells. Altered gene imprinting at other times has been associated with developmental disorders and cancer. My comment: Theorists have historically failed to learn…

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DNA repair via junk DNA (2)

See also: DNA repair via junk DNA (1) Recently Evolved Genes Identified From Drosophila yakuba and D. erecta Accessory Gland Expressed Sequence Tags (2006) Reported in Singer (2015) as: In 2006, Begun found some of the first evidence that genes could indeed pop into existence from noncoding DNA. Singer’s claim that genes automagically pop into existence is consistent with Masatoshi Nei’s conclusion in: Mutation-Driven Evolution …genomic conservation and constraint-breaking mutation is the ultimate source of all biological innovations and the…

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From angstroms to ecosystems

How a happy moment for neuroscience is a sad moment for science Systems neuroscience is celebrating a landmark, but one that shows the way we do science is broken. Excerpt: These data are the first complete set of neural activity recordings released before publication. No papers preceded it; not even a report. Nothing. Just: here you go guys, the fruits of the joint labour of around 100 people over 4 years.” My comment: They released the information on June 13,…

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Food supplement or licensed immunostimulant?

Glucan from Food Supplement to a Licensed Drug   Excerpt: “…β-glucan possesses a significant immunostimulating activity in a wide variety of species, including earthworms, shrimp, fish, chicken, rats, rabbits, guinea pigs, sheep, pigs, cattle, and, last but not least, humans. Based on these results, it has been concluded that β-glucan represents a type of immunostimulanting molecule that is actively spanning full evolutionary spectrum. Some experiments also show that β-glucan can help even in the protection of plants. β-Glucan is therefore…

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Biophotonics, glycobiology, quantized biodiversity (2)

From Fertilization to Adult Sexual Behavior (1996) In our section on Molecular epigenetics, we wrote: Small intranuclear proteins also participate in generating alternative splicing techniques of pre-mRNA and, by this mechanism, contribute to sexual differentiation in at least two species, Drosophila melanogaster and Caenorhabditis elegans (Adler and Hajduk, 1994; de Bono, Zarkower, and Hodgkin, 1995; Ge, Zuo, and Manley, 1991; Green, 1991; Parkhurst and Meneely, 1994; Wilkins, 1995; Wolfner, 1988). That similar proteins perform functions in humans suggests the possibility…

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  • What Darwin proved: there’s no such thing as a species
    GENETICS As Animals Mingle, a Baffling Genetic Barrier A short stretch of DNA is challenging what it means to be a species. By: Emily Singer August 5, 2014 Excerpt: “Scientists have dubbed such regions of the genome “islands of speciation.” The persistence of such islands is a phenomenon that has been observed in a variety of […]
  • Randomness and Divine Providence
    A Q&A on randomness and God’s providence …the main goal is to really put together a collection of scholarly studies of these issues: physicists, biologists, mathematicians, statisticians, philosophers and theologians. replaced: Randomness and Divine Providence Supported by the John Templeton...Read more