#78. My Thinking on Evolutionary Psychology: Summary to Date

👫👪👹👬👄💣👷😜💂🙏

EP

Red, theory; black, fact.

The behavioral innovations occurring in the evolutionary sequence leading to ourselves may have been, in chronological order:

• H. habilis:  tool manufacturing and gender roles.
• H. erectus: systemic refugee production, gay-trans sex concealment, dispersal, ethnicity, and language.
• Early H. sapiens: warfare, shelter building, and tricksterism.
• Late H. sapiens: siege mentality and religion.

General hypotheses: 1) The earlier the innovation, the less modifiable it will be; 2) The dominant neuromodulators that organize the innovations emerging post-H. habilis will be noradrenalin (primordial organizer of responses to intraspecific competition) and serotonin (primordial organizer of responses to predation).

#77. The Anorthosite Problem [chemistry]

Labradorite facade on Bank Street, Ottawa, ON

CH

Red, theory; black, fact.

The “anorthosite problem” is a problem in geology. Anorthosite is a rock made mostly of a calcium-rich type of feldspar. Labradorite is a well-known example. The moon rocks from the lunar highlands are anorthosites. 

When a magma chamber far below the surface cools and solidifies into rock, it does so very slowly because of the insulation provided by the overlying rocks. Slow cooling leads to big mineral grains in the eventual rock because each grain is a crystal of some mineral, and there is plenty of time for crystal growth.

As the temperature slowly falls, one type of mineral after another comes out of the magma, in a fixed sequence. The iron-rich minerals fall to the bottom of the chamber and collect there, while the calcium and sodium types of feldspar float to the top of the chamber and collect there. 

Anyway, that’s the theory. It predicts that anorthosites will be underlain by iron-rich rocks like gabbro, peridotite, amphibolite, and serpentinite, some of which are called greenstones.

The problem is that immense deposits of anorthosite are not found in association with any iron-rich rocks. 

Interestingly, the biggest of these are the oldest, dating from the Archean and Proterozoic eras of geological history.  And thereon, I believe, hangs a tale.

Radioactive isotopes can be expected to have been much more abundant in the distant past than now if we extrapolate their exponential decay curves backwards in time to those eras. 

Moreover, all these elements (potassium, thorium, and uranium) are incompatible with the crystal lattices of the main rock-forming minerals crystallizing around when anorthosite does. So they will stay in the melt and get concentrated there as the rock-formers leave. The energy of their radiation will get converted into additional heat in the dense magma before the radiation can escape. 

Therefore, the radioactive self-heating of the residual magma will become progressively stronger until the cooling process almost stalls, leading to a long-lasting plateau in the cooling curve of the magma. (I don’t think it actually blows up.)

During the plateau, the loss of the iron-rich minerals has time to run to completion, resulting in a large magma emplacement that forms only granite, a low-iron rock. The iron-rich greenstones will be under that, and nowhere near the anorthosite at the very top. This is the sequence we actually observe.

Therefore, the early anorthosite deposits, however massive, will have no iron-rich rocks in sight.

QED.

P.S. The crystals forming during the plateau phase will be notably large due to the especially slow cooling. This may be the origin of the large crystals categorized as “megacrysts.”

A megacryst of microcline, a type of potassium feldspar.

#76. Next Niche [evolution]

EV

Red, theory; black, fact

Safdie’s Habitat 67 in Montreal 

In terms of our evolution, where did Homo sapiens come from and where are we going? The fossil evidence shows that we evolved from a wandering big-game hunter called Homo erectus. Where are we going? What shall be our next ecological niche? 

Reef former.

Examples of reef formers are the species of coral polyp that built the Great Barrier Reef in Australia. Think of such a structure transposed to a land environment and covered in solar panels like the leaves on a tree, and that, I think, is our distant future. The overall form would be designed to maximize the sum of wind and solar energy harvested.

Multiple works of science fiction have predicted something like this, such as Asimov’s pre-collapse Trantor, or the world of JG Ballard’s “Build-Up.” 

However, a reef does not cover an entire planet as in those imaginings, only those places where all its necessities of life are available. The non-reef-forming descendants of H. sapiens would occupy some or all of the remaining land area.

Photo by philippe collard on Unsplash

#75. Ideas that May Become Posts [mostly evolutionary psychology]

EP

[Quotes indicate metaphor.]

• Organized religion is a counter-adaptation to the anti-invasion adaptations of a neighboring, powerful country; one anti-invasion adaptation may be to weaken all neighboring countries. For the Abrahamic religions, that powerful but geographically vulnerable country would be ancient Egypt. For the Eastern religions, the powerful but vulnerable neighbor would be ancient China.

• People are "amphibians": each of us has a collectivist part existing in genetic superposition with an individualistic part. In systems that officially celebrate the former, the latter cannot be owned and must be pushed into the Jungian Shadow. And vice versa. In Freudian terms, the unacceptable wishes emerge in disguised form: religion in individual-celebrating systems, and hero worship in collective-celebrating systems.

• The longstanding debate in philosophy between rationalism and empiricism is a false dichotomy resulting from a narrow focus on one or the other of the two legs by which scientific knowledge advances: theory and experiment.

• If religion is the last protoscience, then the corresponding science that is to come could be called security science. 

• The incredible disunity of Protestantism could mean that Protestantism is the laboratory of Christianity.

• The crucial step in going from a protoscience to a science appears not to have been experimentation, but quantification. Examples of early quantifiers were Tycho Brae (astronomy) and Antoine Lavoisier (chemistry). If religion is a protoscience, what would its quantification look like? “Reminder: It’s time to bring up your prayer checklist, tick the boxes that apply under each heading (Adoration, Confession, Thanksgiving, and Supplication), and upload it to the diocesan office. The results of statistical analysis will be announced at Vestry, at which time parishioners may suggest further research questions. This activity parallels and does not replace traditional prayer. All submissions are protected by best-practice data security.”

• The first step in graduating to security science may be compiling a glossary of religious terms and their non-supernatural, parallel interpretations. For example, the Jewish ban on eating pork can be interpreted in this spirit as a measure to prevent trichinosis (a disease transmitted by eating under-cooked pork or wild game). As another example, the four prayer headings enumerated above could be identified in terms of a longitudinal study as control, exposure, favourable outcomes at followup, and adverse outcomes at followup. As a third example, the three persons of the Trinity could map onto the three sources of security science: study of the individual, the society, and the evolutionary history of both (Son, Holy spirit, and Father, respectively).

• Science has to be for everyone.

• We don't have free will in the big things; we have free will in the little things. However, one of the little things can be "planting a seed" that may one day grow into one of those big things and be more to our liking than the big things we see now.

#74. Protein Batteries and Protein Misfolding Diseases [biochemistry]

CH

Red, theory; black, fact

The commonest protein misfolding disease, Alzheimer’s, features an accumulation of insoluble proteins as amyloid plaques that damage neurons and lead to dementia and death. 

The amyloid precipitates from a solution of amyloid beta protein, which forms by a two-step proteolysis of amyloid precursor protein (APP), an integral membrane protein of neurons.

APP is thought to play a role in the initial stage of synaptic plasticity and contains a copper binding site. Oxidation of the coordinated copper upon insertion of nascent APP in the plasma membrane could shift the coordination geometry of the copper ion from planar-triangular to pyramidal, with huge changes in the preferred bond angles. If the coordinating protein cannot accommodate these changes without input of activation energy, the result would be a “protein battery”: a protein carrying a metastable “charge” of conformational strain energy. A set mousetrap would be a familiar example of this. The local availability of this energy cache may be necessary to allow brief pre-and-postsynaptic electrical coincidences to be rapidly captured as preliminary synaptic morphological changes. The calcium-binding site next to the copper binding site (growth factor-like domain) may be the electric field sensor. Coincidence detection would involve same-molecule binding of APP molecules on opposite sides of the synaptic cleft, triggered by propagation of unleashed conformational changes from the copper site into the main extracellular domain, called the heparan-binding domain. (Better known parts of the coincidence detecting system are the NMDA receptor and CAM kinase II).

Protein misfolding diseases of the brain are powered by a short circuiting of the APP energy caches, or analogous caches in proteins subserving other functions. One of those other functions could be replenishing the supply of docked synaptic vesicles in response to a sudden increase in the average neuron firing rate. In that case, the relevant battery protein would be alpha synuclein, which is implicated in Parkinson’s Disease. Local energy caches are also present in humanly engineered electronic circuits, where they are called decoupling capacitors.

The secretases implicated in Alzheimer’s etiology would serve to degrade the discharged APP molecules. Secretase alpha would act rapidly to clear action-potential-discharged APP that did not make a cross link, and secretase beta would act slowly to clear cross links. Secretase gamma completes the cleavage in both cases. Secretase alpha would have a recognition site for discharged APPs and secretase beta would have an allosteric recognition site for cross links. Secretase beta action releases amyloid beta, the battery part of APP. The stored energy in amyloid beta would drive the polymerization process that leads to amyloid formation. This energy release would involve a conformational change, consistent with the finding that amyloid protein is misfolded. The conformational change could expose hydrophobic residues on the surface of the protein, an energy-requiring step that could lead directly to precipitation due to hydrophobic bonding among the amyloid beta molecules.

This action is easier to imagine for the central hydrophobic domain of alpha synuclein, the immediate effect being not precipitation but pulling two arbitrary ligands on different alpha synuclein molecules into closer proximity for a faster reaction between them. The trigger appears to be phosphorylation of alpha synuclein, not electric field change.

By mischance, the soluble amyloid beta oligomers that form as intermediates along the amyloid-generating pathway are able to spoof APP cross links, thereby driving ectopic secretase beta activity and closing a feedback loop. This feedback leads to an out-of-control production of amyloid beta that produces Alzheimer’s disease.

#73. The Self-exciting Small-world Network in Behavioral States and Disease [biochemistry]

NE CH

Red, theory; black, fact

Seen at the Red Roots Trading Co. 

The refractoriness of cancer (its treatment resistance) is thought by a few authors I read forty years ago to be due to a kind of in-body evolutionary process made possible by the high mutation rate characteristic of these cells. The anticancer drugs we apply to kill the cancer exert an evolutionary selection pressure on the individualistic cancer cells, killing most of them but leaving a residue of accidentally resistant cells that happen to have mutations conferring resistance. These resistant cells then grow back the cancer in a relapse, even harder to kill than before. And so it goes through treatment after treatment until the patient is dead.

But what if that’s wrong?

An alternative explanation of cancer refractoriness seems possible, in terms of a “cancer state” that is sustained by re-entrant (circulating) metabolic signaling pathways that form a small-world network (SWN). Curing the cancer requires extinguishing the reentrant activity, but this is difficult because of the robustness of the SWN. If one node in the network is pharmacologically ablated, the signaling can always flow around it by alternative pathways through the network. Thus, robustness becomes refractoriness.

The robustness of SWNs depends on their hub nodes—nodes with an unusually large number of connections. The state theory of cancer articulated here therefore directs us to pharmacologically target the hub nodes for greatest therapeutic efficacy. However, a practical therapy also requires selectivity. If we make the leap to assuming that all cellular actions involve entering and leaving states, that all states are identifiable with particular re-entrant SWNs, and that due to the parsimony of evolution, there is much overlap among SWNs and sharing of nodes, it seems possible that the set of hub nodes of a particular SWN can be used as a biochemical address for that SWN, leading to the desired selectivity. The other overlapping SWNs in the treated cell can survive the loss of only one or two hub nodes due to treatment, but not the targeted SWN, which loses all of them.

However, these ideas predict zero response to a single drug, not a large but temporary response. Progress in resolving this will involve consideration of state-trait relationships. For example, a predilection for entering a particular state could be a genetically determined trait, and some states could exist that suppress DNA repair, leading to increasing genetic diversity. Lack of selectivity of anticancer drugs could also be a factor, so that the same drug could delete multiple hub nodes but not all of them.

Behavioral states such as aggression and siege mentality (the foibles of, respectively, capitalism and communism) also show refractoriness that may have the same cause. In these cases, some likely hub nodes are the neuromodulatory cell groups of the brainstem. An example is the locus ceruleus (LC), which distributes noradrenalin widely in the brain. (Noradrenalin is also the postganglionic transmitter of most of the sympathetic nervous system.) The existence of disciplines such as meditation suggests that some of the SWNs incorporating the LC also incorporate hub nodes in cerebral regions accessible to consciousness, probably including the brain’s language areas. More visceral hub nodes such as blood sugar level are probably also included.

The need to treat multiple hub nodes simultaneously to extinguish maladaptive reentrant signaling may have been stated before, but in proto-scientific terms:

“Put on the whole armour of God…”

Saint Paul

#72. The Restricted Weathering Theory of Abiogenesis [chemistry, evolution]

 CH   EV

Red, theory; black, fact

When the early Earth, which was initially molten, had cooled sufficiently to acquire a solid crust and allow liquid water to accumulate on the surface, the formation of the oceans presumably began.

Seawater forms from steam outgassing from volcanic vents, which simultaneously emit acid gasses such as hydrochloric acid. Therefore, the first rain would have been highly acidic. In the normal course of events, volcanic rain falls on surface rocks that contain sufficient alkalinity to completely neutralize the acid, contributing cations such as sodium in the process and producing salt water. However, shortly after the formation of the Earth’s crust, the surface rocks were mostly encapsulated in carbonaceous pyrolysis residues, basically barbecue gunk, originating from carbon-bearing gasses in the atmosphere. How is the acid rain supposed to get to the rocks?

I postulate that sometimes it did, and sometimes it didn’t, leading to a scenario of nascent crust covered in interconnected puddles in which a broad range of pHs were simultaneously represented. At the connecting points, a pH gradient would have existed, which recalls the pH gradient across the mitochondrial membrane that powers ATP synthesis. 

More simply, a lump of lava coated in a capsule of pyrolysis residue and immersed in acid rainwater will have a proton gradient across the capsule with the correct direction to model the inner mitochondrial membrane with its enclosed matrix.

The carbon-bearing gasses in the atmosphere would have been methane and the result of methane combination with water (formaldehyde),  nitrogen (cyanide and cyanogen), and sulfur (DMSO, only plausible), all triggered by solar ultraviolet. This suggests that the pyrolysis residues will contain sulfur, oxygen, and nitrogen heteroatoms, as does coal. An imaginary pore through the capsule will be lined with such heteroatoms, which are candidates for playing the role of the arginine, lysine, aspartate, and glutamate residues in the ATP synthase catalytic site. Protonation-deprotonation reactions would be available for powering the formation of polyphosphate (a plausible ATP precursor) from orthophosphate. The conformational changes so important in the modern ATP synthase do not appear to be available in this primordial system, so we need to demonstrate the presence of an equivalent. Conceivably, the phosphorus-rich species diffuse up and down in the pore, producing proton transport as they do so that is linked to phosphate condensation reactions. Judging by the modern ATP synthase, coordination of phosphate to magnesium ions may also be part of the mechanism. Mafic rocks such as lava are rich in magnesium.

The flux of acid through the pore will dissolve orthophosphate out of some minerals in the rock such as apatite. If we suppose that the pore is lined with carboxylic acid groups modelling glutamate and aspartate side chains, then at some depth in the pore the pH in the pH gradient will equal the pKa of the acid, and the acid groups will spend half their time protonated and half ionized, resulting in general acid-base catalysis in a narrow zone in the pore. Magnesium-complexed orthophosphate will be catalytically converted to an equilibrium mixture containing some pyrophosphate in this zone and then proceed to diffuse out the exterior opening of the pore before it can be converted back. As a result, the condensing agent pyrophosphate will be available in the early oceans for catalyzing the formation of organic macromolecules such as early proteins and nucleic acids, which are forerunners of important building blocks of modern life forms. 

The efficiency of the pyrophosphate synthesis would be enhanced by a high phosphate concentration, which would be due to the restricted, under-film spaces in which the weathering processes were occurring.

The gradual expansion of the under-film weathered pockets eventually undermines the local pyrolysis film, causing a flake to detach. The remaining rock surface will be largely coated in the first organic polymers created by condensing agents at low temperature. The process then repeats, leading to successive generations of biofilm creation and detachment. At this point, an evolution-like biofilm selection process can be postulated. Polymer chain elongation from outer layer to inner layer would be likely. The outermost sub-layer will be at acidic pHs, which will cleave the outermost polymer into fragments. Some of these fragments will diffuse inward to the polymerization zone and influence events there, leading to a crude form of heredity. The programmed insertion of abscission points would have been an early development, and these may have prefigured the base pairing of modern polynucleotides. The sand produced as a byproduct of rock weathering will end up enmeshed in the polymer and will come off at abscission.