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Showing posts with label atoms. Show all posts
Showing posts with label atoms. Show all posts

Evolution: Pendulum Dance Between Laws of Thermodynamics

For years, I have pursued a purely thermodynamic definition of evolution.

My reasoning is informed by the observation that change is independent of domain, process, or the physical laws and behaviors upon which a system is based.  As the science of thermodynamics has itself matured (evolved), the boundaries of its applicable domain have expanded far beyond its original focus on heat.  It is generally accepted that the laws of thermodynamics apply to ANY system in which change occurs, that the laws of thermodynamics are agnostic to energy type or form.  Furthermore, scientists studying information/communication independently discovered laws that match almost perfectly, the laws of thermodynamics.  This mirroring of domains has thrilled logicians, physicists, mathematicians, and cosmologists who are no more and more convinced that information (configuration) and energy are symmetric with respect to change over time.

Even conservatively, the implications of this symmetry are nothing short of profound.  If true, it suggests that one can, for instance, calculate the amount of information it would take to get a certain mass to the moon and back, and it means that one can calculate how much energy it would take to compute the design a moon rocket.  It means that the much vaulted "E" in Einstein's Relativity equation can be exchanged with an "I" for information (with valid results).  It means, at some level, that information is relativistic and that gravity works as a metric of information.  Same goes for the rules and equations that govern quantum dynamics.

And this from an eyes-wide-open anti-post modernist!

At any event, the symmetric relationship between energy and information (at least with regard to change) provides a singular foundation for all of physics, and even perhaps for all of ANY possible physical system (equally applicable to other universes with other rules).

It would seem that thermodynamics would provide a more than solid base from which to define the process that allows for, limits, and possibly demands the (localized) accumulation of complexity – evolution!

The Zeroth and First Laws of Thermodynamics work to shape and parameterize action. Given the particular configuration immediately prior they insure that the next action is always and only the set of those possible actions that together will expend the most energy.  In colloquial terms, things fall down and things fall down as fast and as completely as is possible.  Falling down, is a euphemism for the process of seeking of equilibrium.  If the forces attracting two objects is greater than the forces keeping them apart, they will fall together.  If the forces keeping them apart is greater than the forces attracting them, they will fall apart.  Falling down reduces a system to a more stable state – a state in which less force is pushing because some force was released. Falling down catalyzes the maximum release of energy and results in a configuration of minimum tension.

The Second Law of thermodynamics dictates that all action results in a degradation of energy, or configurationally speaking, a reduction in density or organizational complexity.  Over time the universe becomes cooler, more spread out, and less ordered.

The falling down dictated by the the zeroth and first law result in particular types of chunking determined by a combination of the materials available and the energy reduced.  About a million years after the big bang, the energy and pressures of the big bang had dissipated such that the attractive forces effecting sub-atomic particles were finally stronger than the forces all around them.  The result was a precipitation of matter as hydrogen and helium atoms in plasma.  After a few hundred million years, the mass in these gasses exerted more attractive energy than the much cooler and less dense universe, and precipitated into clumps that became stars.  As the fusion cascade in these first stars radiated their energy out into an expanding and cooling universe, the attractive force of gravity within became greater than the repulsive forces of nuclear reaction and the starts imploded upon themselves with such force as to expel their electrons and precipitate again into all of the other elements.  These heavy elements were drawn by gravity again into a second generation of stars and planets of which earth is but one lonely example.

You will have noticed that each precipitatory event in our cosmological history resulted in a new aggregate class – energy, sub atomic particles, light atoms, stars, heavy atoms, stars and planets, life, sentience, language, culture, science, etc).  The first two laws of thermodynamics dictate the way previously created aggregate objects are combined to form new classes of aggregate objects.  The second law guarantees as a result of the most contemporary precipitation event, a coincidental lowering of energy/configurational density which allows still weaker forces to cause aggregates in the next precipitatory phase.

If you still aren't following me, it is probably because I have not been clear about the fact that the lower environmental energy density that is the result of each precipitatory cycle optimizes the resulting environmental conditions to the effects of the next weaker force or the next less stable configuration.

For instance, the very act of the strong force to create atomic nuclei, lowers the temperature and pressure to such an extent that the weak force and the electromagnetic force can now overcome environmental chaos and cause the formation of atoms in the next precipitatory event.

This ratcheted dance between the laws of thermodynamics is the why of evolution, and results in the layered grammars that sometimes or at least potentially describe ever greater stacked complexities that led to life and us and what might come as a result of our self same actions as the dance continues.

Stepping back to the basic foundation of causality, it is important to be re-reminded that a configuration of any kind always represents the maximum allowable complexity.  In recent years, much has been made of the black hole cosmologies that define the event horizon as the minimum allowable area on which all of the information within the black hole can be written as a one bit thick surface membrane of a sphere.  The actual physical mechanical reason that this black hole event horizon membrane can be described as a lossless "holographic" recording or description or compression of the full contents of the black hole is complex and binds quantum and relativistic physics.  Quantum because the energies are so great structure is reduced to the structural granularity of basic quantum bits.  Relativistic because at this maximally allowable density everything passing the event horizon has reached the speed of light,  freezing time itself… the event horizon effectively holds an informational record of everything that has passed.

The interesting and I think salient aspect of an event horizon is that is always exactly as big as it needs to be to hold all of the bits that have passed through it.  As the black whole attracts and eats up any mass unlucky enough to be within its considerable influence, the event horizon grows by exactly the bits necessary to describe it at the quantum level.

The cosmological community (including Sir Steven Hawking), was at first shocked by the sublime elegance of this theory and then by the audacious and unavoidable implication that black holes, like everything else, are beholding to the laws of thermodynamics.  The theory predicts black hole evaporation!  Seems black holes, like everything else, are entropically bound.  There is no free lunch. The collapse of matter into a black hole results in a degradation of energy and informational configuration, the self same entropy that demands that heat leak from a steam engine, demands that black holes will evaporate and that eventually, when this rate of evaporation exceeds the rate of stuff falling into it, a black whole will get smaller and ultimately, poof, be gone.

This is heady stuff.  The biggest and baddest things in the universe are limited!  But to me, the most profound aspect of this knowledge is not that event horizons can be describes as maximal causal configurations, but that we are shocked by this!  All systems are, at each moment, the maximal allowable configuration by which those forces and those materials can be arranged.  If they could be arranged any tighter, they would have already collapsed into that configuration.

To say this is to understand that time is not separable from configuration.  As Einstein showed, time is physically dependent upon and bounded by the interaction of mass, distance, energy, and change.  Cosmologists use limits to understand the universe.  The maximal warpage of space-time caused by a black hole's density effectively flattens the allowable granular complexity of the configurational grammar  to binary bits held in the minimally allowable physical embodiment.  But, lower energy configurations, configurations like dogs, planets, and the mechanism by which I am attempting to explain this concept, are bounded and limited by the exact same causal rules.

The difference between a black hole horizon and an idea?  Well it has to do with the stacking of grammatical systems (quarks, sub atomic particles, atoms, molecules, proteans, cells, organs, bodies, culture, language, etc.) that allows for complexities greater than the binary bits, the only stuff allowed to pass through an event horizon.  But these stacked grammars that allow us to be us are every bit as restricted to the same maximally allowable configuration rule that minimizes the size of a black hole's event horizon.  In a system configured by a stacked grammar, the minimum complexity rule is enforced at the transition boundary between each two grammatical layers.


Things fall, but only as fast as the stacked grammars that govern causal reality will allow.  This isn't a metaphor, the speed of diffusion, of degradation, of falling down, is always and in all situations, maxed-out.  The exact same physical topology that bounds the size of the a black hole event horizon contributes to the causal binding effecting the rate at which any system can change.  This is because at the deepest causal layer, all systems are bound by relativity and quantum dynamics.  The grammatical layers built successively on top of this lower binding only serve to further influence entropy's relentless race towards heat death.


[to be continued]

Randall Reetz

DNA replication…



Yes, this shit is so amazing that it makes a hardened evolution theorist like me cough up some creationist thoughts (don't worry, it will be a temporary affliction).




This animation shows the lagging strand replication process in greater detail. If you are wondering why the lagging strand should have to be built in reverse, it is because the other side of the helix is inverted which would have necessitated an exact molecular machine to have been evolved from scratch, but in reverse! This molecule, "polymerase", is composed of 8005 atoms. The ingenious workaround, to run the strand through the same molecule backwards, though mechanically awkward, is far more likely (less complicated) to have evolved than would have been a mirror image of the whole polymerase molecule (or its function). In fact, it is probable that such a molecule might not even be physically possible given the "handedness" (right/left) of the atoms molecules must be built of. Because of this, I consider the asymmetry of DNA replication machinery to be evidence of the least energy dictated meandering of the evolutionary process.

By pure chance, an particular arrangement of 8005 things would happen once every 8005 to the 8005th attempts (8005 factorial). Of course molecules don't assemble by pure chance. Even if you dumped the requisite atoms into a box and shook it up, the assembly wouldn't happen instantaneously, some atoms would form small groups, and those groups would clump together into larger groups, etc. The atoms of each element have unique properties that effect their aggregation.

But that isn't the full story either because the polymerase molecule is built atom by atom by DNA.

Motivation [anti-] matters...

Recently, I stumbled across a post to a public online science discussion group. But, it wasn't the subject of the post that interested me. The subject was speculation about the existence of anti-matter galaxies "at the fringes of the universe". What makes this person's post worth commenting upon is the almost immeasurable difference between scientific thinking and non-scientific thinking. So… it's worth an short examination.

First what we think we know about anti-matter:

Every empirically derived model of the universe (standard model included) shows almost no remaining antimatter after just a short percentage of its current age. The same models show an almost 50/50 split at the first moment… and then a quick period of mater-antimatter annihilation resulting in the current matter domination (with a whole mess of residual dark matter and dark energy). Remember, antimatter isn't nether-worldly, it's just matter that is in some fundamental way, symmetrically inverted. An antimatter electron would, for instance, have a positive charge. Thats all. No magic, no otherworldliness, anti-matter is still matter… is every bit "material".

Now the question of rhetoric:

What fascinates me when discussions like this erupt is the "why" that drives the original post. Contrarianism is a cornerstone of Scientific thought. But when the motives driving contrarian ideas are not scientific, you can expect scientists to assign the standard "crackpot" label. Every time I investigate such a claim, every time I ask and get an answer to the question "What drives your interest in making this contrarian claim?", I get an anti-scientific answer. I get an answer that reveals a spiritual world view that necessitates some fundamental strangeness at the base of a "theoretical" framework or "cosmology". The strangeness is necessary to support a "physical" explanation for the meta-physical emotional experiences and needs the contrarian finds personally satisfying. It is endlessly fascinating to me that anti-scientific thinkers seek constantly to justify their emotional-experiential world view atop some sort of awkward and illogical re-imagining of science derived knowledge. In contrast, you will never see a scientist go to spirituality in support of his theory or experimentally derived data set. No scientist has ever or will ever work a verse from the Bible, or a witticism attributed to Buddha, Mohammad, Krishna, Confucius, or L. Ron Hubbard into a proof or theory. The anti-symmetry of these two behaviors is worth a well intentioned pause for thought.

The inward apologetic focus of spirituality is the opposite the outward focus and motivations of science. Science (scientists) are motivated by a desire to understand the universe… as it is… for what it is. A scientist tries all day long to disregard what it feels like to think or want or need, expects that their own personal emotional gestalt is forever slanted by evolutionary selection towards culture, gender, species, and bio-centric mechanisms that are physically embedded and unavoidable. A scientist is motivated to see beyond personal experience to the fabric from which it is derived and of which, perspective is just a tailing, a side effect. It is important here to specify the scientific classification of the self and self-experience. Science is frequently accused of being anti-self. This is the farthest from the truth. To science, the self and subjective experience is every bit as existent as any thing else in this universe. But in the same way that Copernicus re-figured the ontology of the Solar system, placing the Sun in the center and demoting Earth to the less central and less exclusive role of Planet, science views the self and experience as non-special, as one of, as a physical manifestation of order and causality specific to place and time and circumstance. The self, to a scientist is effect. It is weather, not atmosphere. It is concerto not violin. It is road trip, not station wagon.

A scientist says "My mind is flawed. My mind tells me things that it wants to hear. How can I construct methods and means to see the difference between what is and what I experience?" A scientist doesn't seek physical justification for flawed thinking. A scientist just plain expects it, deals with it, looks beyond it. A scientist posits causality at base. Builds an inverted pyramid of causality. At the lowest point in this pyramid, this hierarchy of influence, are the most basic of physical processes. We humans and our thoughts appear high up at the top of this ever expanding pyramid of influence and causality… meaning, what we do and think is much more effect than cause. Scientists expect and accept this. We don't seek means of rearranging the structure that built us to fit our emotional experiential needs. We just look for what is.

So, I have asked the author of the originating post; "What motivates your interest in the existence of anti-matter galaxies?"

Note: A whole slew of fringe (mathematically consistent?) theoretical models have been introduced by legitimate scientists that allow for the existence of contemporary pockets of anti-matter in a matter dominated universe such as ours.  These alternative models (and far crazier ones as well) are introduced to test the validity of more dominant models, as a means of falsifying. But this process of constantly looking for error is motivated by an interest in discovery of the truth about what is. Again, this search for "What Is" is fundamentally different than a search for an explanation or justification for "What I Feel".

Randall

Some background information:

The early universe was opaque to light (for about 300 thousand years). The energies released (that still exist) were generally of a much higher frequency then visible light… gamma radiation. Plus, the universe was too hot and dense (millions of times hotter and denser than the first moment of an atomic bomb detonation) for atoms to form, so photons wouldn't stream past atoms as they do today, and instead interacted with the dense soup of nuclei and electrons. When the universe had expanded and cooled to the point necessary for atoms to form, photons (of all energies) were free to fly unimpeded as they do today… the universe was finally transparent. Then it was another 500 million years before stars were formed and ignited before the first location-specific photons began to flood out into the universe (the stuff we can see with our eyes, telescopes, and directional sensors).

Because of the expansion of the Universe the big bang (matter anti-matter) created gamma rays are now huge radio waves (many meters in wavelength). This is the cosmic background radiation… the hiss on your analog radio and TV.

Now, what an event horizon is, and what one can see, are two very different things. 

It is important to remind our selves that seeing isn't an active process. Seeing is a passive act. Sure, the photons that hit our retina are active, but the only thing active about our eyes is that they react to photons that hit them. We don't "look" out into the cosmos. We passively receive stray photons that were created or reflected off of stuff at some distance (which always translates to some time in the past)… and only photons, which happen to be streaming along exactly in a path that intersects one of our eyes. Our eyes don't suck information in, they just sit and wait for what ever comes their way. The best we can do is point them in a particular direction.

The event horizon is the theoretical spherical limit to how far anything can go within a given period of time from when it was released. Typically when we are talking about an event horizon we are talking about a boundary dictated by the fastest anything can travel in space-time, which is the speed that light travels in a vacuum. Given the fact that this universe began as a singularity (as one point of zero spacial diameter), we are (as is everything) always at the center of that first primordial point. That is the really great, if somewhat confusing, thing about an expanding universe… where ever you are, if you are within this universe, you are at the the exact epicenter of the big bang that started it all.

This rule is true no matter how fast you are going or when you started going that fast. Distance itself is an attribute of space-time and space-time was created by the big bang. There is nothing remotely detectible, like distance (or time for that matter), that is or ever will be, outside of space-time.

Even stranger, if Einstein was correct (and everything we have ever measured seems to say that he was), energy and matter are directly tied to and dependent upon space and time. Add or subtract from any of these four and you directly effect the quantity of at least one of the other three.

The photons that bring us information about things far away (long ago) left a universe that was less and less like the one we live in today the longer ago they were made. The limits to what we will ever be able to "see" no matter how good our telescopes get, are dictated by when the universe became transparent to light. This is when light became directional. There is radiation all around us that isn't directional… or rather it was created before the universe allowed radiation to stream unimpeded in a strait line. This radiation is considered "noise" as it is incoherent (each photon is unrelated to each other photon). In this sense, it is like temperature, you can know things about the average of all of the photons (average wave length and amplitude) but anything you can measure about any one photon is missing any information that would tell us anything about source location.

That is the bugaboo about knowing anything about the very earliest universe. There was a very long period of time right after creation (scientific semantics) that we can never know much about. We can derive quantities as averages, but we can not know anything about specific spacial events or trends. The moment the universe went transparent is a boundary, before which we can only guess at location-specific layout of the universe. For all practical purposes, in this universe, the moment of transparency (the moment the universe got cool enough to allow the formation of atoms) is the only "event horizon" of any interest. This photon transparency horizon (300 thousand years after the big bang) has nothing at all to do with the theorized matter anti-matter annihilation epoch which occurred between about 10^-32 and 10^-12 seconds after the big bang.

Note: It is calculated that the observable matter dominated universe (photons, neutrons, protons and electrons) is the result of a 1 part in 1 billion majority of matter to anti-matter. The statement made earlier to the effect that "electrons are supposed to be positively charged" is complete hooey. Anti-matter is created everywhere in the universe that energies are high enough for fusion (in stars, supernova, and at black hole horizons). Such newly created anti-matter is annihilated the moment it contacts matter and this produces photons in the x-ray spectrum.