0783 The first concession to make is that the incident where a fallen tree appears to be a bear fits nicely into the author’s model.

The model is a bear.  Or, a bear is the model.

0784 When the author uses the term, “gestalt”, to describe the congruence of model and semiosis, the author means that the entire relation comes into being as a whole.  The sign-relation is not a sum of dyadic causes [and] effects.  The sign is an indivisible, purely relational being.

Matter enters into the being through existential (as SV), representational (as SO) and interpretive (as SI) portals or “dimensions”.

0785 Of course, I tend to work with a very different looking picture of sign-relations.  A category-based nested form is one of the simpler triadic relations.  Thirdness bring secondness into relation with firstness.  Normal context₃ brings actuality₂ into relation with the possibility of ‘something’₁.

The category-based nested form is fractal.  An interscope is a category-based nested form composed of category-based nested forms.  Perspective_c brings situation_b into relation with the potential of content_a.

In the framework of category-based nested forms, a sign-relation crosses levels of an interscope.  The specifying sign-relation crosses from content (SV_s) to situation (SI_s and SO_s).  The exemplar sign-relation crosses from situation (SV_e) to perspective (SI_e and SO_e).

0786 The problem is that an interscope containing specifying and exemplar sign-relations is not available to science.  It is sort of like a model.  And, triumphalist scientists love to place successful models into the slot for the noumenon in the Positivist’s judgment.  Then, the model (as a substitute for the noumenon) [can be objectified by] its phenomena.  That is the nature of the laboratory sciences.  The goal is to replace the noumenon with a successful model.  The model becomes as real as the noumenon, the thing itself.

0787 Compare a tree falling in a forest and the concept of gravity.

Which is more real?

0788 Now, look at the above figure and see how it models why I turn around in my hike when I think I see a bear on the path in the distance.

Which is more real, me seeing a bear or the sign-relation of a log way ahead?

0789 Now comes the amoeba business.

The sign-relation depicted above is a specifying sign-relation.

The specifying and exemplar sign relations are incorporated into Sharov and Tonnessen’s noumenal overlay.

0790 One of the benefits of engulfing the morsel of Sebeok and Danesi’s concept of “model” as a sign-vehicle that stands for the matter at hand is that I arrive (through two steps, conversion into a situation-level nested form and re-arrangement of the actuality into a dyad similar to Aristotle’s hylomorphe) at a familiar label for the contiguity between the real elements of actuality_2b.  Instead of [&], the contiguity is [presence].

0792 This raises two questions.

0793 One, in S&T’s noumenal overlay, the sign-vehicles and sign objects support phenomena and the sign-interpretants are what needs to be modeled by biosemioticians.  So, an explicit scientific “model” is not the same as the semiotic “model” of [SI_s] or [SI_e].

The question takes off from there, asking, “If the sign-interpretants that need to be modeled are contiguities in semiotic agency, and if [presence] is the contiguity between SO_s and SV_e, does [p] need to be explained as well?”

My abbreviation for “presence” is [p].

0794 Two, I thought that “presence” associated to the entire situation-level actuality, {SO_s [&] SV_e}_2b and now “presence” replaces [&].  Then, what about the “message” for the content-level actuality, {SV_s}_2a, and what about “meaning” for the perspective-level actuality, {SO_e}_2c?

Where are the contiguities [mg] for “message” and [mn] for “meaning”?

0795 Those are two good questions.

Section 17.3 offers a clue in how to address the second question.  The author produces a figure for the growth of signs by fractal extension of each corner of a sign-triangle.

0796 Here is my version of Figure 17.2.

0797 At the top, a specifying sign interpretant branches into the situation-level category-based nested form, reflecting how the sign-interpretant anchors into both thirdness and firstness.  This corresponds to the representative dimension.  Because normal contexts₃ and potentials₁ are not actualities₂, they_3b((1b)) cannot be observed and measured.  They_3b((1b)) are not phenomena.  So, they_3b((1b)) must be explained.  Plus, they_3b((1b)) scaffold back into the one interscope as elements on the situation level.

0799 For the corner on the right, the situation-level actuality stands as a dyad, SO_s [presence] SV_e.  This occurs in the interpretive dimension.  SV_e stands for its SO_e in regards to its SI_e.  Both the SO_e and the SI_e are located on the perspective level. The SI_e branches into the perspective-level normal context_3c and potential_1c.  These_3c((1c)) scaffold back into the one interscope as elements on the perspective level.

0800 For the corner on the left, the content-level actuality should stand as a dyad, SO_? [message] SV_s.  Unfortunately, fractal extension of the specifying sign-relation implicates a sign-relation that does not appear in semiotic agency.  And, this makes me want to start a conspiracy theory.  Exactly who owns and operates this missing sign-relation, if not semiotic agency?

0801 Just kidding.

This sign-relation may be missing, simply because it does not appear in semiotic agency.

And that makes me wonder, “What makes danger modeling so difficult?”

Oh, it must be because a sign-relation is in play that does not belong to semiotic agency.

0802 Hmmm.  Let me think about this.

This sign-relation has to be missing because it connects the perspective level and the content level of a three-level interscope.  That is definitely different from the specifying and exemplar sign-relations.

Another odd feature is that the missing sign-relation shares two contiguities, one with the specifying sign-vehicle on the content level (corresponding to [message, mg]) and one with the exemplar sign-object on the perspective level(corresponding to [meaning, mn]).

One more feature is that the missing sign-interpretant occurs on the content-level and so branches into the content-level normal context_3a and potential_1a.

0803 Finally, this missing sign-relation is located in the existential dimension.

0804 Yeah, “the existential dimension” sounds a lot more dangerous than “the representative or interpretive dimensions”. 

0805 Section 17.4 concerns danger modeling.

The author quotes a great reference.  According to Danesi, existential danger is (more or less) “any initiating real event that imperils the existence of things, if allowed to continue without refrain”.  For a biological living being, the “thing” is “me”.

For this examiner, danger starts with a real initiating (semiotic) event (SV_s).

0806 When Daisy and I, the leashed dog and her apparent pack-leader, round a corner on our morning walk, we come upon an unfamiliar dog, head buried in a pile of brown leaves.  Immediately, Daisy barks.  So much for stealth.

The unfamiliar dog stands erect, with the body of a big duck, a whirl of black and white feathers, in its mouth.  I quickly gather information_2b.  The dog is not much larger and more long-snouted than Daisy.  Is the dog growling?  It is hard to hear because Daisy is barking as she drags me forward.

0807 Here is Daisy’s exercise in semiotic agency, at this moment, as far as I can figure.

0808 The beautiful fat ornamental duck, a loner among the geese and the woodland ducks familiar to the neighborhood, was doomed from the start.  It lived two years without any other waterfowl of its breed.  Now, I suppose, the poor thing met its end by nesting in a pile of leaves where a car decided to park.  I wonder whether the driver heard its cries of distress?

Well, at this time of the morning, the car is gone and this dog from some other neighborhood has found a treat to scavenge.  Daisy wants a bite of the treat.  But, I am not sure that she appreciates what satisfaction of that desire entails.

I do.

0809 I yank Daisy’s chain so hard that she yelps.  Then, I drag her in the opposite direction, from whence we came.

0810 In doing so, I exercise my semiotic agency.  In the dimension of representation, I specify information_2b about what this means to me and Daisy.  I do this through the specifying sign.  In the dimension of interpretation, I exemplify what a human pack-leader might do in the face of this type of danger.  I do this through the exemplar sign-relation.

0811 At the same time, I face an existential interventional sign-relation.  A real initiating event imperils the existence of Daisy, and perhaps me, if Daisy continues without restrain.

0812 As we retrace our steps, I wonder, “Why is that unfamiliar dog snarfing a recently deceased ornamental duck there in the first place?”

I suspect that the unfamiliar dog wonders the same after our rude interruption of its joy of discovery, so worthy of protection, since the corpse is already in mouth.

0813 To me, the unfamiliar dog intervenes in our morning walk.  To that stranger’s dog, Daisy and I intervene in his unanticipated discovery.

To me, the exemplar sign-object (SO_e) is “take Daisy on her morning walk”.  To the roving dog, the SO_e is “chomp down on something both dead and delicious”.

0814 Then, a real initiating (semiotic) event (SV_s) occurs.  Information (SO_s) is specified, within the dimension of representation, then spun into an exemplar sign-object (SO_e) in the dimension of interpretation.

To me, the exemplar sign-object (SO_e) is “Daisy and I are in danger”.  To the roving dog, the SO_e is “this competitor is not going to take this treat our of my mouth without a fight”.

That is precisely where our semiotic agencies terminate.

“Terminus” is such a great word.  It comes from Latin and means, “an end-point”.

0816 Here is a picture of the three termini and their dimensions.

0817 In this case, the human agent, directly, as the pack-leader for Daisy and indirectly, for the unfamiliar dog who innately senses that humans are better pack-leaders than any creature walking on four legs, makes a meaningful decision.

If only that were true.

The subsequent action is an interventional sign-vehicle (SV_i) that must be regarded as an expression of intention (SO_i) in the normal context of canine pack-leader₃ as agent₃ and ‘final causality’₁ or ‘intention’₁ (SI_i).

0818 Both Daisy and the unfamiliar dog accept the message (SV_s) that my expression of intention (SO_i) extends.

Indeed, if one is not a semiotician, then my actions of pulling Daisy’s chain and force-marching a retreat (SV_i) constitutes the real (semiotic) event (SV_s) that initiates semiotic agency.

0403 Section 11.1 mentions codes and adaptors.

It makes me wonder about the solidity of the disciplinary language for codes.

In the above example of a bicycle lock, I ask, “Is the slot for the key an adaptor?  I suspect that the tumblers that give way in the face of key entrance are adaptors.  One particular configuration of that conformal change will no longer restrain the bolt.  Is the bolt an adaptor?  Yes, the curved bolt is precisely what binds my bicycle to the metal stand.

0404 World A is me with my bicycle key in my pocket.

World B is my bicycle locked to a public stand, like a steed awaiting my return.

0405 Section 11.2 notes several well-characterized organic codes in the biological literature.

The first is the genetic code.  The genetic code is primary.  I suppose that it is why it must be mentioned first.  I suppose that the genetic code is locked with that well-sequestered polymer, DNA.  I have a word for the potential of DNA.  I call it the “genotype”.

The second code mentioned is the DNA repair code.

That is not encouraging.

0406 Let me take a peek at this genotype business.

In order to make amino-acid proteins (world B), DNA is first transcribed into messenger-RNA.

Now, that is a story in itself.

Like how does some transcriber say, “I think that the section of DNA that I want to transcribe is located here.”, when “here”, looks like a spool of yarn that is held together with gum?

Unintended mishaps explain why the second-mentioned code stands ready-at-hand.  What a mess.

0407 So, instead of starting with DNA as world A, the author reasonably begins with m-RNA.

The code?

A nucleic acid triple (codon) located in a messenger-RNA (A) codes for a specific amino acid attached to a transfer-RNA by aminoacyl synthetase (B).

I suppose that I can say, “Codons in world A directly map amino acids in world B.”

0408 Two adaptors seem to be involved.

One, an aminoacyl synthetase attaches a specific amino-acid to a specific transfer-RNA.  The t-RNA is doubly specific.  On one hand, it is specific to an amino acid.  On the other hand, it carries the nucleic-acid complement to the codon that maps to that amino-acid.  The t-RNA complement codon hydrogen bonds to the m-RNA codon because of their complementary nucleic-acid geometries.

Two, a protein translation machine crawls along the strand of mRNA and chaperones the match between a t-RNA complementary codon and the currently exposed m-RNA codon.  If pairing is good enough, then the t-RNA’s amino acid gets added onto the forming peptide (amino-acid chain).

0409 Does this two point description fit into the idea of code and S&T’s noumenal overlay?

0410 The answer is yes.

And, that leads to this concern.

The S&T noumenal overlay seems like an afterthought.

All this nerve-wracking research in a genetics laboratory has come up with the two-point description stated above.  The rule of thumb is this: Every sentence in a senior college-level biochemistry text corresponds to a five-year doctoral thesis.  By extension, each item in the above two-point description corresponds to five or ten sentences in a biochemistry textbook.

Decades and decades of laboratory research goes into elucidating what Barbeiri calls the “genetic code”.

So what value does Barbeiri’s formalism offer?

0411 It offers a vision of the noumenon, the thing itself, that is not the same as taking this very complicated and successful model and placing it over the noumenon, as a triumphalist scientist is wont to do.

As soon as the triumphal scientist says, “The current model of the role of mRNA in peptide synthesis is the thing itself.”, then the biosemiotic connection is severed, and the research falls, like a leaf no longer connected to the tree of semiosis.

0412 The genetic code is not the only organic code mentioned in section 11.2.

Section 11.3 lists organic codes that control other organic codes.  

I wonder, “How can one code gain control over another?”

I can imagine two trajectories, starting with the following routinization of a S&T noumenal overlay.  Note how the two contiguities are replaced by codes corresponding to a sign-interpretant that operates on only one possibility.

In order to put the above figure in more familiar terms, the specificative code is habit and the exemplar code is salience.

0413 How does one code gain control of this semiotic agency?

It games it.

I have already presented the example of a wood-eating insect gaming a bacteria capable of latching onto exposed cellulose.

0414 One agent incorporates another agent into its semiotic agency.

The question is, “How?”

0415 Semiotic agency₂ is an actuality₂.  Actuality₂ belongs to Peirce’s category of secondness.  Secondness consists in two contiguous real elements.

Actuality₂ is contextualized by a normal context₃.  Normal context₃ belongs to Peirce’s category of thirdness. Thirdness is triadic.  Thirdness brings secondness into relation with firstness.

Actuality₂ is potentiated by ‘something’ in the realm of possibility₁.  The monadic realm of possibility₁ associates to firstness.

Hmmm.  One semiotic agency₂ can game another semiotic agency₂ by changing its normal context₃ and potential₁.

0416 Here is another way of looking at it.

The agent₃ of semiotic agency₂ is no longer the agent₃ that was present originally.  The new agent₃ effectively games an established semiotic agency₂ by changing its underlying signficance₁.  But, it is not an intentional change.  It is more like a subtle change in landscape that eventually alters the course of a river.

0417 So, coded semiotic agency₂ finds itself within the domain of a new agent₃ and potential₁ and the new domain is going to “game” the semiotic agency₂.

0418 Options?

Well, the original code can go out of business, to be replaced by semiotic agency₂ from the new management_3,1.

The original code can continue to operate irrespective of the semiotic agency₂ that the new management_3,1 is actualizing.  In this case, the new management_3,1 may use the original code as a functional component within a more comprehensive semiotic agency₂.

The original code that manifests as a functional component within a more comprehensive semiotic agency₂ may start to change, in response to its new normal context₃ and potential₁, through empedoclements.

0419 In short, modularity and hierarchy among semiotic agencies₂ may also be regarded as modularity and hierarchy among agents₃ and their significance₁.

Thus, the title of Prinz’s chapter is accounted for.

0420 Section 11.4 lists topics in neural codes.

Section 11.5 raises the question as to whether meaning is in or from codes.

Section 11.6 wonders how interpretation delivers meaning.

These sections all flow from Barbieri’s insights into the all-encompassing nature of codes.

And, codes are all-encompassing because the Sharov and Tonnessen’s noumenal overlay is all-encompassing.

0421 For neural codes, consider a human agent who sees an object on a sunny day.

Specular reflection of photons from a solid thing (SV_s) in the external world (A) stands for a thing with matter and form (SO_s) in regards to the functioning of pattern-recognizing specifiers in my occipital lobe (SI_s).

A thing with matter and form (SV_e) stands for an exemplar of ‘what it is’ (SO_e) in my world (B) according to specialized exemplar-recognizing modules outside of my occipital lobe (SI_e).

0422 I can ask, “How do I experience this?”

I can ask, “What is happening?”

A juxtaposition between the category-based nested form containing semiotic agency₂ and the content-level of the scholastic interscope for how humans think (appearing in Razie Mah’s blog for October, 2023, titled, Looking at John Deely’s Book (2010) “Semiotic Animal”) provides an interesting answer.

Does a comparison work?

0423 A human agent₃ asks, “What is happening?”

What is happening₃ is a content-level normal context_3a.

It_3a makes me wonder about the possibility that ‘something’ is happening_1a.

A neural code-based S&T noumenal overlay_2c presents an impression_2a of an exemplar sign-object_2c (SO_e).

The potential of vision_1a offers the possibility of identifying what it_2a (SV_s) is_1a.

So, maybe, in the above figure, the entire lower nested form fits into the actuality₂ of semiotic agency₂.

0424 Here is another example for neural codes.

0425 In the specifying sign-relation, formant frequencies uttered by a vocal tract (parole) (SV_s) in the external world (A) stands for a spoken word (langue, an item in a mental system of differences) (SO_s) in regards to rapid associations between parole and langue that occurs in specialized regions of the brain (SI_s).

In the exemplar sign-relation, a spoken word (langue) (SV_e) stands for an exemplar of ‘meaning, presence and message’ (“m.p.m.”; SO_e) in my world (B) according to definition (SI_e).

0426 Definition?

Is a definition₃ a normal context₃ like the content-level question, “What is happening?_3a“

Consider the following juxtaposition.

0427 The author provides one illustration, titled, “Box 1”, listing various definitions of words in classic dictionary style.  For the past few centuries, encyclopedists have labored to keep track of and pin down the meanings of spoken words.  The effort is crucial to constructing and maintaining scientific disciplinary languages.

0428 Consequently, I can imagine a similarity between the human agent₃ engaged in definition₃ and the stance of a human agent₃ asking the question, “What is happening?”_3a.

0429 But, there is a difference, as well.

The problem is that the former normal context may be called, “explicit abstraction”, and the latter may be called, “implicit abstraction”.

The difference between the potential of meaning, presence and message₁ and the possibility that ‘it is something’_1acannot be swept under the cognitive table.  One is counter-intuitive and the other is intuitive.

0430 I can take that lesson all the way to the core term in this chapter.

Barbieri’s signature book is titled, Code Biology: A New Science of Life (2015, Springer Dordecht).

0444 Still, the writing of Abir Igamberdiev stands before me.

So, let me run through how Aristotle’s four causes play out in the category-based nested form.

I start with material and efficient causalities.

0445 Material causes point to the contiguity between the two real elements.  If the elements are matter and form (as in Aristotle’s exemplar), then the material cause introduces some sort of contiguity between the two.  For example, molten bronze flows into a plaster hollow (created by covering a wax figure with plaster then melting the wax).  For Peirce, the contiguity expresses the character of scientific cause and effect.  An observable cause [produces] a measurable effect.  For chemistry, reagents [react and turn into] products.  Chemical notation is iconic in this regard.

0446 Efficient causes point to actuality₂ emerging from (and situating) possibility₁.

For example, in chemistry, spontaneous chemical reactions release free energy (heat and entropy).  A change in thermodynamic potential supports spontaneous chemical reactions.  With a special apparatus, one can measure the heat produced by a chemical reaction by recording the temperature increase of a water bath.  Efficient and instrumental causes support observations and measurements that contribute to scientific modeling of the contiguity between reagents and products.

0447 Material and instrumental causes are familiar to scientists.  They fall under the label, “physics”.  

The other two causes are ignored and disparaged by scientists.  They fall under the label, “metaphysics”.  Metaphysics introduces the normal context and potential as “causes”.

0448 Formal causes concern the ways that a normal context₃ contextualizes its actuality₂.  Typically, formal causes are confounded with material causes.  If material causes do not satisfy a formal requirement, then the actuality₂ may fail.  Indeed, when one thinks about it, the only material causes that are relevant tend to be those that are entangled with formal causes.

Final causes concern the potential underlying the coherence of the entire category-based nested form.  The firstness that supports efficient causes is instrumental.  Instrumental of what?  Oh, instrumental of efficacy.  Okay, there must be another potential, a more substantial potential, that explains why efficient causes are instrumental.  Thirdness brings secondness into relation with thirdness.  Firstness potentiates the operations of thirdness.  Final causes are often framed in terms of “intentionality” and “purpose”.

0449 Surely, all four of Aristotle’s causes are in play when one encounters a thing or event. 

Understanding teases out all four causes.

Scientific inquiry does not seek understanding.

Science seeks the truth to be found in models of observations and measurements of phenomena.

Scientific inquiry seeks utility and control.

Of what?

The noumenon or the model?

0450 Scientific inquiry starts with the inorganic world, where the normal context is not apparent.  Seventeenth century mechanical philosophers want to reduce inanimate things to mechanistic models.  This can only be done by using material causes shorn of formal causes and efficient causes shorn of final causes to build mathematical and mechanical models.

0451 Later, the biologically inclined heirs of the mechanical philosophers strive to reduce animate things to mechanistic models.

Later, the socially inclined heirs of the mechanical philosophers strain to reduce social and psychological things to mechanistic models.

Later, the psychometrically inclined heirs of the mechanical philosophers convert what people are willing to say into data, in order to build opportunities for empirio-normative domination.

0452 What does this imply?

Scientists have been elucidating the physical foreground of semiotic agency for four-hundred years, while at the same time remaining oblivious to its metaphysical background.  It’s funny in a horrifying sort of way.  Perhaps, we may be forgiven, for we know not what we do.  Without the causes associated to Aristotle’s metaphysics, we cannot even ascertain what an agent is.

Here is a picture, once again.

0453 An agent₃ brings semiotic agency₂ into relation with the potential of ‘final causality’₁.

Without the potential of teleology₁, the agent₃ cannot be recognized as the normal context for semiotic agency₂.

0454 In section 12.2, Igamberdiev introduces two distinctive terms.

To me, “ontolon” labels the coming together of a triadic relation.  A triadic relation is an ontological whole.  Ontology encompasses thirdness, secondness and firstness.  A single category-based nested form is an ontolon.

To me, “vortex” labels the swirling coming-to-fruition of a model, in conjunction with disciplinary language and the observations and measurements of phenomena.  In short, “vortex” labels an empirio-schematic judgment, as a triadic relation constellating in what ought to be (and secondness) in the Positivist’s judgment.

0455 In sum, Igamberdiev’s terms label the two sources of illumination in the Positivist’s judgment.

Uh-oh, where is the ontolon?

0456 Ontolons associate to noumena.

Vortexes associate to phenomena.

0457 Sharov and Tonnessen’s noumenal overlay identifies what phenomena can objectify the noumenal overlay.

Remember, triumphal science places a successful model over the noumenon, in order to create the situation where a model (veiling the noumenon) [can be objectified as] its phenomena.  Sharov and Tonnessen’s noumenal overlayperforms the same catharsis.  Yet, the performance cannot be complete, because Sharov and Tonnessen’s noumenal overlay is… um… noumenal.  Indeed, it contains what every biological system has in common: the specifying and exemplar sign-relations.

0458 The phenomena that Sharov and Tonnessen’s noumenal overlay identify may be observed and measured by biologists.

Why?

Humans recognize noumena.  That is one of the human adaptations into our niche of triadic relations.

So, sign-vehicles and sign-objects constitute phenomena that humans may observe (and on occasion, measure).  That data may then go into models (vortexes) that account for the contiguities in the S&T noumenal overlay.  These models do not overwrite the noumenon, they fill in the noumenon.  So, “vortex” is an excellent word that describes the way models fill in the elements of the noumenon that need to be explained.  Models enrich our appreciation of material and efficient causalities that are not divorced from formal and final causalities.

0459 What does this imply?

Sharov and Tonnessen’s noumenal overlay explains the character of what is for the biosemiotic version of the Positivist’s judgment.   S&T’s overlay [can be objectified by] its phenomena.

Yet, the nested form of agent₃ (an ontolon) cannot be fully objectified by the same phenomena.

Why?

Agent₃ is the normal context₃ and ‘final causalities’₁ is the potential₁ for all semiotic agencies₂.

Ah, now I see the ontolon and the vortex.

0486 Of course, I cannot ignore Aristotle when it comes to these phenomena.  The labels that I use as a biologist call to mind Aristotle’s metaphysical causes.

Surely, the phenomena of sensitivity, detection, assessment and archetypal behaviors are efficiently caused by subagents, whose operations are coordinated in concert with final causalities.

Also, the material aspects that I measure, what chemical (SV_s), what method of delivery and what concentration (SV_s), identifiable structural changes (SO_s and SV_e), followed by overt behavior of approaching or avoiding (SO_e), formally cohere to the normal context of the paramecium as agent₃.

0487 Yes, all four of Aristotle’s causes appear in the preceding paragraph.

However, for natural scientists, formal and final causation are not allowed, even in the observation and measurement of phenomena.  That is the rule of the positivist intellect, the relation within the Positivist’s judgment.

Okay, this rule must be… shall we say… enforced only theoretically, rather that practically, for biosemiotics.  After all, biosemiotics is the study of semiotic agency₂, an actuality₂ that cannot be comprehended without its normal context₃and potential₁.

0488 Formal cause links thirdness to secondness.  The agent₃ contextualizes semiotic agency₂.

Final cause bridges all three categories.  But, not in an obvious way.

Obviously, thirdness brings secondness into relation with firstness.  The normal context of agent₃ brings the actuality of semiotic agency₂ into relation with the possibilities inherent in ‘final causality’₁.  So, the formal cause is obvious, along with its sidekick, material causality.

Not so obviously, final causality₁ operates from the opposite station.  Final causes establish the potential₁ from which actuality₂ emerges within a particular normal context₃.  For the paramecium, the potential of ‘staying alive’₁ sustains the phenomena of sensitivity, detection, assessment and overt response₂ in the normal context of the paramecium as agent₃.

0489 What is the sidekick of final causality?

Efficient causality links secondness and firstness.

0490 Here is a picture of the metaphysical causalities in regards to phenomena for the paramecium as agent.

0491 What does this imply?

The human ability to recognize formal and final causalities allows the biosemiotician to attend to the phenomena associated to semiotic agency₂.  The biosemiotician is a scientist engaging in empirio-schematic inquiry under the auspices of a positivist intellect that accepts that metaphysics must be allowed in order for… well… the scientist to make observations and measurements of phenomena.

And yes, this applies to all the subagents within the paramecium as well.

0492 The reason why we (scientists) are able to establish the parameters for considering material and efficient causes(which a traditional positivist intellect only entertains) is because we (humans) intuitively know that the actuality₂ of concern is not recognizable without a normal context₃ and potential₁.

0493 How can I make this claim?

Well, for one, in chapter twelve of Pathways, covered earlier in points 0434 to 0470, Abir Igamberdiev says (according to this examiner) that the agent₃, as a normal context₃, arises from final causality, as potential₁.

0494 Does this imply that final causality₁, which cannot be directly observed and measured, is something that needs to be explained by biosemiotic models?

No, the agent₃ and the potential of ‘final causality’₁ are not explained by biosemiotic models, they are assumed by researchers in the course of empirio-schematic inquiry.  After all, semiotic agency₂ is incomprehensible without them.

0495 So, what is explained by biosemiotic models?

Ah, the contiguities, [SI_s] and [SI_e], corresponding to the sign-interpretants for the specifying and exemplar sign-relations, as well as [&], the contiguity between the specifying sign-object and the exemplar sign-vehicle.

Here is a picture.

0496 [&]?

[&] is the substance translating specified information_2b into exemplar relevance_2b (or more precisely, “relevant information_2b“).  {SO_s [&] SV_e}_2b occurs within information_2b.

[SI_s] consists of a situation-level normal context_3b and potential_1b.  In terms of biosemiotics, [SI_s] is self-governance_3boperating on potential courses of action_1b.

[SI_e] consists of a perspective-level normal context_3c and potential_1c.  In terms of biosemiotics, [SI_e] actualizes the goal_2c (SO_e) of the organism for this particular challenge (SV_e).

0497 The contiguities need to be explained by biosemiotic models.

But, there is another way to appreciate the specifying and exemplar sign-interpretants.

I can look at them in terms of the scholastic interscope for how humans think.

[SI_s] corresponds to the normal context_3b and potential_1b for the situation level.

[SI_e] corresponds to the normal context_3c and potential_1c for the perspective level.

0498 Here is a picture.

0499 So, I can look at the paramecium in the petri dish, the subject of my biological inquiry, and wonder, “What would I do if I were that poor thing?”, before releasing a small drop of nicotinic acid in its vicinity.

0500 If I had a more powerful microscope, then I could gaze upon the creature portrayed in Figure 10.1 of the text, and wonder whether any of the organelles are agents, each “saying alive” in its own way.

Consider the star-shaped contractile vacuole, portrayed in the figure as a circle with legs extending out into the interior of the cell.  I suppose that the legs go far enough to contact cell membrane in the furthest reaches of the cell.  When this agent activates, the cell squishes and sloshes, moving the other internal agents around.  Maybe, that is the way the paramecium says, “What the hell is that?”

After all, not all paramecium get treated to a dose of nicotinic acid.

0501 Perhaps, the star-shaped contractile vacuole was once an agent.  But, now it is a subagent within the agency of the paramecium.  Indeed, it is a reactionary subagent.

0502 Section 10.1 wraps up with multicellular holobionts, insect colony holobionts, and human institutional holobionts.  The pattern repeats on larger scales.  On every scale, an agent₃ flourishes on its own unique final causality₁.

0503 For example, when I go to work at the big, bureaucratic, institution that employs me, I imagine that one of my duties is to operate as a reactionary subagent, like the contractile vacuole.

So, I notice things going on (SV_s) and then think of comments to agitate my colleagues (SO_e).

Sometimes, my colleagues think that I act like a micronucleus or an anal pore, but the contractile vacuole is the best analogy.  As experts in paramecium biology say, “The contractile vacuole stirs the pot.”

0504 This brings me to section 10.2, concerning interactions among subagents.

The self-governance_3b that arises from possible courses of action_1b may be modeled on the basis of interactions among subagents.  The interactions may be direct (for example, the spindly legs of the contractile vacuole pulling at various membranes) or indirect (for example, the macronucleus secreting a hormone that calms the contractile vacuole down, while inducing the anal pore to release its contents).

0505 Here is a picture of how the contractile vacuole (CV) gets going in the first place (at least, during the current experiment that I am conducting).  “C.s.” stands for “cell surface”.

0506 Now, I translate this example of semiotic agency into me, as a contractile-vacuole-like subagent with the paramecium that is my large bureaucratic organization.

At work, my subagent-area does not really physically work.  It mentally works, if I can call it that.

There are many different people in my sector of cubicles.  One loves cabbage.  I don’t know why.

One of the byproducts of cabbage digestion is the flatulatory release of methane with a slightly sulfurous odor.

0507 When one of my colleagues (the cell-surface subagent) notices the scent, she writes a little note and leaves it on my desk.  The note says, “Cabbage”.  Don’t say it with an English accent, as if it is a vegetable.  Say it with a French accent, as if it is like a drop of nicotinic acid falling into a petri dish.

At this juncture, I (the contractile vacuole) saunter from my desk to the water cooler and say, with a tone of resignation, to whoever is present, “My it smells like someone ate too much cabbage yesterday.”

0508 The author notes that the aim of the subagent is not merely an isolated task.  Rather, the goal links back to the goals of the entire organism (the holobiont).

0509 If asked why I stir the pot, my answer would be… um… that my activities further the interests of my corporation by taking the attentions of my fellow workers away from the misery of serving as cogs in a soulless machine and towards making fun of and gossiping about one another.  It’s not enough to be “productive”.  We ought to enjoy working together as a “team”.

In short, my activities, like those of the contractile vacuole of the paramecium, are osmotic in nature.

0510 Of course, my boss, a figurative macronucleus, has different ideas about the matter.

0511 The author has a label for the multiplicity of final causations among subagents.  The term is “heterarchy”.  In heterarchy, the semiotic agencies of subagents can be ranked by the degree in which they match (or support) the goals of the organism.

Of course, any ranking is highly contingent.  I mean, for the paramecium, what happens when the anal pore goes on strike?  Surely, its mission goes to number one.  Or is it two?

0512 The author offers a list of the benefits of modularity (or subagents) besides being productive and having fun.  This list includes efficiency, reusability, robustness and adaptability.  The list applies to the holobiont.  The list also applies to the contiguities within the 
S&T noumenal overlay.

Each experiment that I perform on my petri-dish paramecium adds further details.

0513 Suppose, instead of pure nicotinic acid, I release one drop of a very concentrated solution of potassium chloride.  The paramecium’s environment has too much salt.  Water seeps out of the paramecium.  (The opposite happens when the environment has too little salt.  Then, water seeps into the paramecium.  But, I do not have a dropper bottle labeled, “Depletion of Potassium Chloride”.  So, I cannot conduct the experiment.)

0514 Either way, the contractile vacuole serves to keep the cell from shrinking or expanding due to osmotic disequilibrium.  The contractile vacuole can also stir the pot, just like I do at the water fountain.