02/25/25

Can Biosemiotics Explain The Psychometric Sciences? (Part 4 of 4)

0248 Here is the interscope for the post-truth condition.

Take a look at the above figure and see whether you can identify what the noumenon must be.

Yes, the noumenon must be what I think2a.

0249 In the following figure, the noumenon is in red.

Its phenomena appear in green.

The resulting models appear in light blue.

0250 This raises a question, “How does a system, where experts3b situate scrappy players3a, substitute expert-determined values2b for the noumenon2a?”  

Sharov and Tonnessen answer in the first sentence of the abstract for chapter two of Semiotic Agency.  Signs are semiotic tools.

In this instance, a sign-vehicle residing on the perspective level (SVi) stands for a content-level sign-object (SOi) in regards to a content-level sign-interpretant (SIi).

Specifically, a system-generated empirio-normative judgment2c (SVi) stands for what I think2a (SOi) in regards to my (the scrappy player’s) intellect3a operating on my will1a (SIi).

0251 Here is a picture.

0251 What does this imply?

Well, a system-generated empirio-normative judgment2c (SVi) influences my reason3a,1a (SIi) in such a fashion as to impact my wishes, my habits and my choices2a (SOi).

I may not even realize that the interventional sign-relation is being used by some agent3c on the perspective level,taking the opportunity1c to project2c an expert-fashioned psychometric value2b my way.  I encounter the interventional sign-vehicle2c (SVi) without realizing that it is a semiotic tool, aiming to trigger my intellect3a and my will1a (SIi) in such a way as to alter what I think2a (SOi).

0252 How crazy is that?

But, that is not the implication that I am looking for.

The implication is this: What I think2a is a noumenon.  The empirio-normative judgement2c aims to influence my intellect3a and will1a in order to alter my wishes, habits and choices2a.  So, the dyad, choice [habit] wish, is a model that the perspective-level judgment2c tries to lay over what I think2a.

0253 The dyad, choice [habit] wish is a simplification of Sharov and Tonnessen’s noumenal overlay.  Its simplicity adds to its plausibility.  If I make a habit of treating my wishes as if they are my choices, the the model successfully substitutes for what I think2a.

And, what I say2a serves as phenomena for the psychometric sciences to observe and measure.

0254 Clearly, the psychometric sciences use the interventional sign-relation as a tool.

Biosemiotics says that signs are tools.

0255 One science accounts for the other.

In the process, two features of science come to consciousness.

The psychometric sciences represent the tendency of science to manipulate and control the subject of inquiry.

Reason3a,1a is the normal context of the intellect3a operating on the will1a.

Biosemiotics represents the tendency of science to pursue the truth.

Reason3a,1a is the normal context of the intellect3a seeking the truth1a.

02/24/25

Looking at Alexei Sharov and Morten Tonnessen’s Book (2021) “Semiotic Agency” (Part 23 of 24) 

0256 The book before me is Semiotic Agency: Science Beyond Mechanism, by biosemioticians Alexei Sharov and Morten Tonnnessen.  The book is published in 2021 by Springer and logs in at volume 25 of Springer’s Series in Biosemiotics.  Series editors have Razie Mah’s permission for use of the ongoing disquisition, with attribution of said blogger.

0257 At this juncture, I have covered Parts I and III of Semiotic Agency.

0258 These sections cover tremendous territory, in a sweeping fashion.  By far and away, the diagram of Sharov and Tonnessen’s noumenal overlay is the most striking accomplishment of this examination.  The S&T noumenal overlayframes biosemiotics as a historical branch of phenomenology.  The S&T noumenal overlay is what the noumenon should be if the biosemiotic noumenon is what all biological systems and processes have in common.  Finally, the S&T noumenal overlay embodies the specifying sign-relation.

0259 The task before me?

How am I to delineate a path forward?

0260 Plus, as always in such matters, a new development cannot be ignored.  Alexei Sharov publishes a new book in 2024.

0261 So, let me first attend to the remainder of Semiotic Agency.

0262 Part II consists in three chapters.  I list these chapters in reverse order.

Part IV consists in three chapters that complement the chapters in Part II.  I list these chapters in forward order.

0263 The last chapter anticipates the recent book, Pathways to the Origin and Evolution of Meanings in the Universe,edited by Alexei Sharov and George Mikhailovsky, published in 2024 by Scrivener Publishing (Beverly, MA) as a contribution to Astrobiology Perspectives on Life in the Universe Series (under the auspices of Wiley Press).

Here is a list of the four parts of this substantial book.

02/22/25

Looking at Alexei Sharov and Morten Tonnessen’s Book (2021) “Semiotic Agency” (Part 24 of 24) 

0264 What do I conclude?

By the time that the authors finish Parts II and IV of Semiotic Agency, the range of applications expands into Parts I-IV of Pathways to the Origin and Evolution of Meanings of the Universe.

0265 Is such an expansion warranted?

From my examination of Parts I and III of Semiotic Agency, I may say, “Yes.  Biosemiotics entails a re-articulation of biology and the social sciences.  Biosemiotics also reveals the nature of phenomenology, cybernetics and the psychometric sciences.”

0266 The re-articulation of biology and the social sciences in the light of biosemiotics is just beginning.  In looking at Part I and III of Semiotic Agency, I could sense the breadth of the project.

0267 The problem concerns the status of the noumenon.

Natural scientists never worry about the noumenon, because the noumenon should be obvious. Indeed, triumphalist scientists want to paper over each natural noumenon with a successful model.  Social scientists observe and measure social phenomena then pull the associated noumena from holes in the ground.  Phenomenologists promote intuitive methods for guessing what a noumenon must be.  Sharov and Tonnessen re-format the triadic specifying sign-relationinto a dyadic structure amenable to empirio-schematic inquiry.  I call their discovery, “the Sharov and Tonnessen noumenal overlay”.

0268 The authors call it “semiotic agency”.

0269 Semiotic agency, depicted as a dyad (agency) within a dyad (semiotic agency), forces scientists to re-examine all that has gone before.

And, that is quite an accomplishment.

0270 The task before me remains.  A sea of biosemiosis lies before me.  The question is how to traverse the waters. How to set sail?

In order to examine Parts II and IV of Semiotic Agency (2021) and Parts I, II, III and IV of Pathways (2024) I plan to take certain steps, listed in the following script.

This script allows me to examine here and there, like a bumbling bee in a spring field, not certain about a proper path, and inadvertently pollinating along the way.

I begin by looking at the chapters on the origins of life.

02/21/25

Biosemiotics and the Origins of Life on Earth (Part 1 of 8)

0271 What does biosemiotics have to say about abiogenesis, the origin of life from non-living matter?

0272 Two texts are before me.

0273 Semiotic Agency: Science Beyond Mechanism is written by biosemioticians Alexei Sharov and Morten Tonnessen.  Semiotic Agency is published in 2021 by Springer and logs in at volume 25 of Springer’s Series in Biosemiotics.  Series editors have Razie Mah’s permission for use of the following disquisition, with attribution of said blogger.

The text is open to chapter five, titled, “Origins of Life”, and is found on pages 123-149.  This chapter closes Part II of Semiotic Agency.  The title of Part II is “Agency in Organisms and Beyond.”

0274 Pathways to the Origin and Evolution of Meaning in the Universe is edited by Alexei Sharov and George Mikhailovsky (2024, Scrivener Press, Beverly MA).

The text is open to chapter nine, titled “Chemical Origins of Life, Agency and Meaning” (pages 189-210).  This chapter opens Part II, titled “Meanings in the Evolution of Life”.  The chapter’s author is Alexei Sharov.

0275 First and foremost, chemistry-based scenarios for the origins of life have proven futile.  Why?  For one, it is difficult to imagine a chemical system constituting a semiotic agent.  Sure, a biological agent can be reduced to a chemical soup, but a chemical soup cannot unreduced to a biological being.

Is this the reason why proposals of life emerging from a primordial soup consistently fail?

0276 The key word in the above paragraph is “emerging”.

0277 So why not turn to Mariusz Tabaczek, who writes two books, titled Emergence (2019) and Divine Action and Emergence (2021) that are reviewed in Razie Mah’s blog for April and May, 2024?  These and other examinations go into Razie Mah’s two-part e-book, Comments on Mariusz Tabaczek’s Arc of Inquiry (2019-2024), available at smashwords and other e-book venues.

0278 Tabaczek criticizes Terrence Deacon, even as he translates Deacon’s conceptual apparatus into a classical Aristotelian framework.  Why?  If Deacon borrows ideas from Aristotle and re-tools them for his own approach to emergent systems, then why not articulate Deacon’s approach using Aristotle’s terms?

0279 The answer turns out to be more than academic.

Recall the Positivist’s judgment for the natural sciences?

The noumenon (the thing itself) and the model (what ought to be for the empirio-schematic judgment) are two contending sources of illumination.  Deacon stands with the model, then uses modified versions of Aristotle’s vocabulary in order to project his model onto the noumenon.  In contrast, Tabaczek stands with the noumenon, where Aristotle’s terminology is at home.  He sees Deacon’s projection from the model back onto the noumenon and does not think too highly of the imposition.

02/20/25

Biosemiotics and the Origins of Life on Earth (Part 2 of 8)

0280 Tabaczek’s re-allocates Deacon’s treatment of emergence, without the benefit of Peirce’s category-based nested form.  Razie Mah examines Tabaczek’s re-allocation using two works, A Primer on the Category-Based Nested Formand A Primer on Sensible and Social Construction.

The result in the Deacon-Tabaczek interscope for emergence.

0281 What can I say?

Obviously, a three-level interscope is a nested form composed of nested forms.

In this interscope, Deacon’s terminology is used.

To begin, consider Deacon’s labels for the three levels.

0282 On the content-level, a thermodynamic process that tends towards equilibrium (in a spontaneous sort of way)3abrings the actuality of a contained circulation of ingredients2a, where reagents are separated so that some of the free-energy of their reaction can be captured, into relation with (a situationally induced) displacement from equilibrium1a.

For example, if a dam extracts the gravitational potential and kinetic energy released in a river flowing downstream, then the content-level is the adjusted spontaneous process of water flowing downstream.

0283 On the situation-level, a homeodynamic process capable of extracting the captured energy3b brings the actuality of the embodiment of the captured energy2b into relation with the potential of the various constraints and biases imposed on the content-level nested form1b.

For the example of the hydroelectric dam3b, water is channeled in such a fashion as to drive a turbine1b that produces alternate (and sometimes, direct) voltage in a wire cable2b.  The emergent being is electrical “current”2b.

0284 On the perspective-level, a morphodynamic process3c, capable of utilizing the energy captured by the emergent being1c, generates a persisting form2c.  The persistent form is like an end point of the emergence2c, because it2c not only dissipates the potential1c of the emergent being2b but it2c “forms” something2c in the process3c.  Here, Deacon’s terminology sounds oblique and, perhaps, misleading.  The dissipative power2c persists as a form2c, yet “dynamic form” labels the normal context3c.  Also, the potential of the emergent being1c is a “simplification”, of sorts.  But, is “simplification1c” a satisfying term?

For example, a morphodynamic process3c takes the potential of the alternative electric voltage… or is it current?… in a wire connected (however distantly) to the aforementioned turbine1c and performs some sort of work, such as heating my morning toast2b.

0285 Yes, the example sounds lame.  But, with butter and apricot jam, the emergence is really quite satisfying.

02/19/25

Biosemiotics and the Origins of Life on Earth (Part 3 of 8)

0286 An example that is closer to Tabaczek’s argument sounds much less lame.

Mitochondria produce ATP from sugar and oxygen.  I breathe in order to supply oxygen to my mitochondria.  I eat toast in order to supply the sugar.

0287 Outside the body, the reaction of sugar with oxygen is called “combustion”2a.

Inside the body, the degradation of sugar into carbon dioxide and water belongs to the Kreb’s cycle1b.  The combination of atomic hydrogen (released by the degradation of sugar) with molecular oxygen is called the mitochondrial electron transport chain1b.  These separated reactions both produce ATP2b, a high-energy molecule that, given enough time, will degrade back to ADP and Pi (inorganic phosphate).

0288 ATP2b is one of the currencies of the cell.  All sorts of biosynthetic routes and transportation mechanisms3c within a eukaryotic cell will take the ATP, which has three covalently bound phosphates, then pop off the last phosphate1b, and use the released energy to do biochemical or kinetic work2c.

0289 Here is a picture of the Deacon-Tabaczek interscope for mitochondria.

0290 On the adjusted thermodynamic or content level, the normal context of orthograde reactions3a brings the actuality of the transfer of electrons from sugar to oxygen2a (yielding water and carbon dioxide)2a into relation with the potential of ‘the chemistry of glucose and oxygen’1a.  

On the homeodynamic level, the normal context of cellular matrix and mitochondria2b bring the actuality of ATP (as an emergent being)2b into relation with the potential of ‘the Kreb’s cycle and the mitochondrial electron-transport chain’1b.

On the morphodynamic level, the normal context of staying alive3c brings the actuality of biosynthesis and cellular transport2c into relation with the potential of ‘utilizing the controlled degradation of ATP in order to do work’1c.

0291 Now, I turn to biosemiotics.

Recall that Sharov and Tonnessen’s noumenal overlay presents the triadic specifying sign-relation (connecting situation and content levels of an interscope)…

…as a dyadic relational structure.

0292 A specifying sign-relation also stands within the interscope for emergence.

The specifying sign-relation stands out when ATP2b, as an emergent being, associates to the specifying sign-object (SOs).  then, other elements of the interscope for mitochondrial respiration fall into slots in the S&T noumenal overlay.

02/18/25

Biosemiotics and the Origins of Life on Earth (Part 4 of 8)

0293 As it turns out, the interscope for emergence also contains the exemplar sign-relation.  Well, every three-level interscope contains an exemplar sign-relation.  So maybe, that is no surprise.  The exemplar sign-relation binds the situation and perspective levels.  A situation-level actuality2b (SVe) stands for a perspective-level actuality2c (SOe) in regards to the perspective-level normal context3c operating on a perspective-level potential1c (SIe).

“SV”, “SO” and “SI” label the sign-vehicle, sign-object and sign-interpretant. Subscript “s” denotes the specifying sign-relation.  Subscript “e” denotes the exemplar sign-relation.

0294 When I turn my gaze back to the S&T noumenal overlay, I note the following.

The three-level interscope depicting the production of ATP as an emergent being contains both specifying and exemplar sign relations.

The S&T noumenal overlay directly incorporates the specifying sign-relation.

When the full three-level interscope of emergence associates to the S&T noumenal overlay, the incorporation of the exemplar sign-relation becomes apparent.

0295 So, for emergence, the agency aspect of the S&T noumenal overlay should express the exemplar sign-relation.

Here is a picture.

0296 I recall that the agency aspect for the S&T noumenal overlay has simpler formulations.

Here is one that is worth comparing to the ongoing association.

0297 In mitochondrial respiration as emergence, ATP2b is the actuality2 on the situationb level.  Both actuality2 and situationb associate to Peirce’s category of secondness.  ATP2b is the actuality2 on the levelb associated with actuality.  Consequently, the observation and measurement of ATP2b in biological systems should be of interest for modeling the specifying character of [habit] as well as the exemplar character of [salience].

In this regard, ATP2b associates to information and information displays the way that the emergent being2b serves as both the sign-object of the specifying sign-relation (SOs) and the sign-vehicle of the exemplar sign-relation (SVe).

0298 The production of ATP2b is the specifying sign-object (SOs).

The dissipation of the energy (SOeembodied by ATP2b (SVe) represents a goal.

ATP2b (SVe) stands for the productive dissipation of its energy2c (SOe) in the normal context of dynamic form3coperating on the potential intracellular uses of ATP1c (SIe).

This application of emergence, appearing in Comments on Mariusz Tabaczek’s Arc of Inquiry (2019-2024), offers a promising start to look at Sharov’s carefully formulated model for the origin of life.

02/17/25

Biosemiotics and the Origins of Life on Earth (Part 5 of 8)

0299 Here is a three-level interscope for emergence, with the specifying and exemplar sign-relations noted.

0300 Emergence enters into S&T’s noumenal overlay.

Here are the results.

0301 When Sharov and Tonnessen confront the origin of life on Earth in chapter five of Semiotic Agency, associations with Mariusz Tabaczek’s formulation of emergence are not apparent.  The focus on inquiry is on chemical self-replication rather than structures that capture thermodynamic energy2a through an emergent2b then dissipate the emergent’s energy2cby building a persistent structure.

The eukaryotic cell’s metabolism of glucose and oxygen works by extracting energy released in the combustion of these reagents.

In combustion, oxygen gas directly takes electrons from glucose, without any homeodynamics.  Covalent bonds are broken.  Covalent bonds form.  Lots of free-energy is released and converted into heat.

In the eukaryotic cell, electrons produced by the oxidation of glucose (at one cellular location) are used to produce an emergent being, such as ATP, before going into the reduction of oxygen (at another cellular location), where more ATP is produced.  ATP2b is the emergent being, whose energy is dissipated on the morphodynamic level.

0302 So, where is a scientist supposed to start, when considering abiogenesis?

Researchers into the origins of life focus on the formation of covalent bonds that constitute polymers.  Polymeric molecules are persistent structures.  But, scientists have not identified an emergent, similar to ATP, whose concentration is low yet constant, because it is produced on the homeodynamic level and used up on the morphodynamic level.  Nor have researchers identified any thermodynamic processes amenable to exploitation by a homeodynamic level.

02/15/25

Biosemiotics and the Origins of Life on Earth (Part 6 of 8)

0302 In section 5.5 of Semiotic Agency and sections 9.4 and 9.5 of Pathways, Alexei Sharov presents a replicator-niche coupling model.  Several items are required: water, oil, pigments (in oil), light, and two complementary molecules that are separate in water, yet combine to form an active site when they attach to the surface of an oil droplet.

0304 Here is a picture.

0305 Let me start with the oil droplet.

Water tends to drive alkanes out of solution.  That is why alkanes form oil droplets in water.  These droplets are not really stable, because they are not held together because of mutual attraction, but are held in place by the fact that each water molecule networks with other water molecules so well that, if a molecule does not participate in water’s hydrogen-bond networks, it gets driven out of solution. That also applies to the pigment, which is oil-soluble and not water-soluble.

0306 What about the polymers?

Parts of complementary polymers are soluble in water.  Other parts are not as soluble.  So, parts are driven out of water and parts are pulled back into water.  These molecules collect on the surface of the oil droplet, then couple with one another, with the pigment and with an alkane, which is part of the oil droplet.

0307 There are no oxygen molecules in the picture.  Today, the Earth’s atmosphere is around 20% oxygen and 80% nitrogen.  In the early Earth’s atmosphere, reduced carbon compounds make the smaller fraction and nitrogen makes the large fraction.  More or less.  No scientist can go back in time and measure the composition of the atmosphere of the early Earth.

Reduced carbon in the atmosphere goes with the alkanes in the oil.  Much of the light of the early sun is absorbed by the carbon-rich atmosphere, but some makes it down to pigments in the oil droplet.  The pigment and complementary polymers conjoin in two locations in the figure below.

0308 Then, what happens?

The pigment absorbs a photon and becomes an electronically excited pigment.

Then, the energy captured by this pigment initiates a chemical reaction, where the alkane is oxidized to a fatty acid.  Oxidation releases electrons.  One among many possible oxidations is pictured above.  With a little more oomph, that carboxylic acid would pop off as carbon dioxide.  However, this reaction stops as an alkane chain with a carboxylic acid at the terminus.  I call this molecule a “fatty acid”.

In the following figure, the two processes are depicted as two dyads.  Each dyad exhibits the structure of reagents [turn into] products.

0309 Now, theoretically a reduction reaction is close at hand.  If the oil droplet is near a chemical that can accept the electrons, then a coordinated reduction can take place.  For example, the hydrogen ions and the electrons can combine to form 3H2(g).  Or, atmosphere nitrogen (N2) can be reduced to ammonia, 2NH3.

02/14/25

Biosemiotics and the Origins of Life on Earth (Part 7 of 8)

0310 What happens next?

The fatty acid serves as the emergent being2b, because the carboxylic-acid side tends to favor the water and the alkane side stays in the oil droplet.

0311 In short, fatty acid is the emergent being2b that has the potential of stabilizing oil droplets1c, allowing them to “feed off” or “absorb” oil from less stable oil droplets2c.

0312 Does Sharov’s scenario, as far as it goes, fit the Deacon-Tabaczek interscope?

Indeed, it does.

0313 Does this interscope associate to the S&T noumenal overlay?

Yes, it does.

0314 Well, so far so good.

Nevertheless, there is a long way to go to get to a prokaryotic cell (as noted in sections 5.8-5.10 of Semiotic Agency and 9.6-9.8 of Pathways).

For example, prokaryotic cells replicate themselves through cell division.  But, the replication is nothing like this oil droplet example.  That is because DNA plays a role in prokaryotic cell division.  Biologist call this type of replication, “template based”.

Also, there is the issue of the cell membrane.  The cell membrane is a lipid bilayer, consisting of phosphorylated fatty acids.  In other words, fatty acids may stabilize an oil droplet.  Once those fatty acids have a phosphate attached to them, then their phosphates love water so much that the alkane-portion of the molecule is excluded from the water so strongly that a bilayer is stable.

0315 Also, there is the formalization of pigments that capture sunlight in order to produce energy-rich sugar molecules.  Today, photosynthesis absorbs carbon dioxide (gas) and releases oxygen (gas).  In the early Earth, photosynthesis does the same.

Here is the balanced chemical reaction.