Abstract
Individuation and organization in complex living multi-level ecosystem occurs as dynamical processes from early ontogeny. The notion of living “holon” displaying dynamic self-assertion and integration is used here to explain the ecosystems dynamic processes. The update of the living holon state according to the continuous change of the dynamic system allows for its viability. This is interpreted as adaptation, selection and organization by the human that observes the system a posteriori from its level. Our model concerns the complex dynamics of the adaptive immune system, integrating holon-lymphocytes that collectively preserve the identity and integrity of the organism. Each lymphocyte individualizes as a dynamic holon-lymphocyte, with somatic gene individuation leading to an individual, singular antigen immunoreceptor type, promoting the self-assertion. In turn, the “Immunoception” allows for perception of the environmental antigenic context, thus integration of the holon in its environment. The self-assertion/integration of holon-lymphocyte starts from fetal stages and is influenced by mother Lamarckian acquired historicity transmissions, a requisite for the integrity of the holobiont-organism. We propose a dynamic model of the perception by holon-lymphocyte, and at the supra-clonal level of the immune system functions that sustain the identity and integrity of the holon-holobiont organism.
Similar content being viewed by others
Notes
G. Simondon, Communication et information 1962 « Être ou ne pas être information ne dépend pas seulement des caractères internes d'une structure; l'information n'est pas une chose, mais l'opération d'une chose arrivant dans un système et y produisant une transformation. L'information ne peut se définir en dehors de cet acte d'incidence transformatrice et de l'opération de réception ». Translated as “Being or not being information does not depend only on the internal characters of a structure; information is not a thing, but the operation of a thing arriving in a system and producing a transformation. The information can not be defined outside this transformational impact act and the receiving operation”.
Abbreviations
- DNA:
-
Deoxyribonucleic acid
- Ig:
-
Immunoglobulin
- CIS:
-
Central immune system
- PIS:
-
Peripheral immune system
References
Andrade L, Huetz F, Poncet P, Thomas-Vaslin V, Goodhardt M, Coutinho A (1991) Biased VH gene expression in murine CD5 B cells results from age-dependent cellular selection. Eur J Immunol 21:2017–2023. https://doi.org/10.1002/eji.1830210908
Ashby WR (1962) Principles of the self-organizing system. Transactions of the University of Illinois Symposium. Pergamon Press, London
Atlan H (1974) On a formal definition of organization. J Theor Biol 45:295–304
Atlan H, Cohen IR (1998) Immune information, self-organization and meaning. Int Immunol 10:711–717
Aubin JP, Bayen A, Saint-Pierre P (2011) Viability theory new directions, 2d edn. Springer, Berlin
Bach JF (2002) The effect of infection on susceptibility to autoimmune and allergic diseases. N Engl J Med 347:911–920
Bellier B, Thomas-Vaslin V, Saron MF, Klatzmann D (2003) Turning immunological memory into amnesia by depletion of dividing T cells. Proc Natl Acad Sci USA 100:15017–15022. https://doi.org/10.1073/pnas.1936194100
Bordenstein SR, Theis KR (2015) Host biology in light of the microbiome: ten principles of holobionts and hologenomes. PLoS Biol 13:e1002226. https://doi.org/10.1371/journal.pbio.1002226
Bourgine P, Stewart J (2004) Autopoiesis and cognition. Artif life 10:327–345
Brodin P, Davis MM (2017) Human immune system variation Nat Rev Immunol 17:21–29. https://doi.org/10.1038/nri.2016.125
Burnet MF (1957) A modification of Jerne’s theory of antibody production using the concept of clonal selection. Aust J Sci 20:67
Capra F, Luisi PL (2014) The systems view of life—a unified vision. Cambridge University Press, Cambridge
Casanova JL, Abel L (2015) Disentangling inborn and acquired immunity in human twins. Cell 160:13–15. https://doi.org/10.1016/j.cell.2014.12.029
Cohen IR (1992) The cognitive paradigm and the immunological homunculus. Immunol Today 13:490–494. https://doi.org/10.1016/0167-5699(92)90024-2
Cohen IR, Efroni S (2019) The immune system computes the state of the body: crowd wisdom, machine learning, and immune cell reference repertoires Help manage inflammation. Front Immunol 10:10. https://doi.org/10.3389/fimmu.2019.00010
Colon C (2016) Modeling economic resilience. Applied mathematics. Ecole polytechnique, Palaiseau
Conrad M (1983) Adaptability: the significance of variability from molecule to ecosystem. Plenum Press, New York and London. https://doi.org/10.1007/978-1-4615-8327-1
Corre G et al (2014) Stochastic fluctuations and distributed control of gene expression impact cellular memory. PLoS ONE 9:e115574. https://doi.org/10.1371/journal.pone.0115574
Coutinho A, Bandeira A (1989) Tolerize one, tolerize them all: on assertion versus ignorance of self as the basis for tolerance. Immunol Today 10:264–266
Coutinho A, Forni L, Holmberg D, Ivars F, Vaz N (1984) From an antigen-centered, clonal perspective of immune responses to an organism-centered, network perspective of autonomous activity in a self-referential immune system. Immunol Rev 79:151–168
Dominguez-Bello MG et al (2016) Partial restoration of the microbiota of cesarean-born infants via vaginal microbial transfer. Nat Med. https://doi.org/10.1038/nm.4039
Edelman GM, Gally JA (2001) Degeneracy and complexity in biological systems. Proc Natl Acad Sci USA 98:13763–13768. https://doi.org/10.1073/pnas.231499798
Ehresmann AC (2013) Modélisation ‘catégoricienne’ du vivant par émergence de monades multiformes, Actes du Colloque. Presses Universitaires de Namur, Namur
Ehresmann A, Vanbremeersch J-P (2007) Memory evolutive systems: hierarchy, emergence, cognition. Elsevier, Amsterdam
Fagan MB (2011) Waddington redux: models and explanation in stem cell and systems biology. Biol Philos 27:179–213. https://doi.org/10.1007/s10539-011-9294-y
Ferrell James E (2012) Bistability, Bifurcations, and Waddington’s Epigenetic Landscape. Curr Biol 22:R458–R466. https://doi.org/10.1016/j.cub.2012.03.045
Flajnik M, Dupasquier L (2004) Evolution of innate and adaptive immunity: can we draw a line? Trends Immunol 25:640–644
Flajnik MF, Kasahara M (2010) Origin and evolution of the adaptive immune system: genetic events and selective pressures. Nat Rev Genet 11:47–59. https://doi.org/10.1038/nrg2703
Freitas A et al (1989) B cell activities in normal unmanipulated mice. Contrib Microbiol Immunol 11:1–26
Fulop T, Le Page A, Fortin C, Witkowski JM, Dupuis G, Larbi A (2014) Cellular signaling in the aging immune system. Curr Opin Immunol 29C:105–111. https://doi.org/10.1016/j.coi.2014.05.007
Fung TC, Olson CA, Hsiao EY (2017) Interactions between the microbiota, immune and nervous systems in health and disease. Nat Neurosci 20:145–155. https://doi.org/10.1038/nn.4476
Hassiotou F, Geddes DT, Hartmann PE (2013) Cells in human milk: state of the science. J Hum Lact 29:171–182. https://doi.org/10.1177/0890334413477242
He M-X, McLeod IX, Jia W, He Y-W (2012) Macroautophagy in T lymphocyte development and function. Front Immunol 3:22
Heinzel S, Marchingo JM, Horton MB, Hodgkin PD (2018) The regulation of lymphocyte activation and proliferation. Curr Opin Immunol 51:32–38. https://doi.org/10.1016/j.coi.2018.01.002
Hemmer B, Vergelli M, Pinilla C, Houghten R, Martin R (1998) Probing degeneracy in T-cell recognition using peptide combinatorial libraries. Immunol Today 19:163–168
Hemmer B, Jacobsen M, Sommer N (2000) Degeneracy in T-cell antigen recognition—implications for the pathogenesis of autoimmune diseases. J Neuroimmunol 107:148–153
Hodgkin PD (2007) A probabilistic view of immunology: drawing parallels with physics. Immunol Cell Biol 85:295–299. https://doi.org/10.1038/sj.icb.7100061
Jacquemart F, Thomas-Vaslin V (2016) L’évaluation globale des technologies. In: Bocquet B (ed) La Fièvre de l’évaluation Les Nouveaux Rendez-vous d’Archimède. Presses Universitaires du Septentrion, Villeneuve d’Ascq cedex, p 196
Jerne NK (1955) The natural selection theory of antibody formation. Proc Nat Acad Sci USA 41:848
Jerne NK (1972) What precedes clonal selection? In: Porter R, Knight J (eds) Ciba foundation symposium 5: Ontogeny of acquired immunity. Amsterdam, Elsevier, p 1. ISBN 9780470719886
Jerne NK (1974) Towards a network theory of the immune system Ann Immunol 125:373–389
Jerne NK (1984) Idiotypic networks and other preconceived ideas. Immunol Rev 79:5
Jerne NK (1985) The generative grammar of the immune system. Science 229:1057
Khosrotehrani K, Bianchi DW (2005) Multi-lineage potential of fetal cells in maternal tissue: a legacy in reverse. J Cell Sci 118:1559–1563
Koestler A (1968) Beyond reductionism. In: Koestler A, Smythies JR. Proceedings of the Alpbach Symposium 1968-Holons and Holarchy of Arthur Koestler
Landmann S, Preuss N, Behn U (2017) Self-tolerance and autoimmunity in a minimal model of the idiotypic network. J Theor Biol 426:17–39. https://doi.org/10.1016/j.jtbi.2017.05.004
Lavelle C et al (2008) From molecules to organisms: towards multiscale integrated models of biological systems theoretical biology insights 1:13–22
Le Douarin N, Corbel C, Bandeira A, Thomas-Vaslin V, Modigliani Y, Coutinho A, Salaün J (1996) Evidence for a thymus-dependent form of tolerance that is not based on elimination or anergy of reactive T cells. Immunol Rev 149:35–53
Lemke H, Coutinho A, Lange H (2004) Lamarckian inheritance by somatically acquired maternal IgG phenotypes. Trends Immunol 25:180–186
Lietaer B, Ulanowicz R, Goerner SJ, McLaren N (2010) Is our monetary structure a systemic cause for financial instability? Evid Remedies Nat J Futures Stud 14:89–108
Longo G, Montévil M (2013) Extended criticality, phase spaces and enablement in biology. Chaos, Solition Fractals 55:64–79
Longo G, Montévil M, Kauffman S (2012) No entailing laws, but enablement in the evolution of the biosphere. Genet Evol Comput. https://doi.org/10.1145/2330784.2330946
Lorenz U (2009) SHP-1 and SHP-2 in T cells: two phosphatases functioning at many levels. Immunol Rev 228:342–359. https://doi.org/10.1111/j.1600-065x.2008.00760.x
Marcos MAR, Gutierrez JC, Huetz F, Martinez-A C, Dieterlen-Lievre F (1991) Waves of B-lymphopoiesis in the establishment of the mouse B-cell compartment. Scand J Immunol 34:129–135
Mason D (1998) A very high level of crossreactivity is an essential feature of the T-cell receptor. Immunol Today 19:395–404
Mason PH, Dominguez DJ, Winter B, Grignolio A (2015) Hidden in plain view: degeneracy in complex systems. Biosystems 128:1–8. https://doi.org/10.1016/j.biosystems.2014.12.003
Maturana HR (2002) Autopoiesis, structural coupling and cognition: a history of these and other notions in the biology of cognition. Cybern Hum Knowing 9:5–34
Maturana HR, Varela FJ (1980) Autopoiesis and cognition: the realization of the living, D Reidel Pub Co
McEwan CH, Bersini H, Klatzmann D, Thomas-Vaslin V, Six A (2011) Refitting Harel statecharts for systemic mathematical models in computational immunology. In: Paper presented at the 10th International conference on artificial immune systems (ICARIS), Cambridge
Mella P (2009) The holonic revolution: holons, holarchies and holonic networks the gosht in the production machine, vol 8. Pavia University Press, Strada Nuova
Menshikov I, Beduleva L, Frolov M, Abisheva N, Khramova T, Stolyarova E, Fomina K (2015) The idiotypic network in the regulation of autoimmunity: theoretical and experimental studies. J Theor Biol 375:32–39. https://doi.org/10.1016/j.jtbi.2014.10.003
Miquel P, Hwang S (2016) From physical to biological individuation. Prog Biophys Mol Biol 122:51–57
Modigliani Y, Thomas-Vaslin V, Bandeira A, Coltey M, Le Douarin NM, Coutinho A, Salaun J (1995) Lymphocytes selected in allogeneic thymic epithelium mediate dominant tolerance toward tissue grafts of the thymic epithelium haplotype. Proc Natl Acad Sci USA 92:7555–7559
Mossio M, Montevil M, Longo G (2016) Theoretical principles for biology: organization. Prog Biophys Mol Biol. https://doi.org/10.1016/j.pbiomolbio.2016.07.005
Muller V, de Boer RJ, Bonhoeffer S, Szathmary E (2018) An evolutionary perspective on the systems of adaptive immunity. Biol Rev Camb Philos Soc 93:505–528. https://doi.org/10.1111/brv.12355
Naess A (1973) The shallow and the deep, long-range ecology movement. a summary inquiry an interdisciplinary. J Philos 16:95–100. https://doi.org/10.1080/00201747308601682
Nunes-Neto N et al (2013) Function in ecology: an organizational approach. Biol Philos 29(1):123–141
Paton R (1996) Metaphors, models and bioinformation. Biosystems 38:155–162
Paton R (2002) Process, structure and context in relation to integrative biology. Special edition in memory of Michael Conrad. Biosystems 64:63–72
Perelson AS, Weisbuch G (1997) Immunology for physicists. Rev Mod Phys 69:1219–1267
Ramos GC, Vaz NM, Saalfeld K (2006) Wings for flying, lymphocytes for defense: spandrels, exaptation and specific immunity. Complexus 3:211–216. https://doi.org/10.1159/000095881
Root-Bernstein R (2016) Autoimmunity and the microbiome: T-cell receptor mimicry of “self” and microbial antigens mediates self tolerance in holobionts: the concepts of “holoimmunity” (TcR-mediated tolerance for the holobiont) and “holoautoimmunity” (loss of tolerance for the holobiont) are introduced. Bioessays 38:1068–1083. https://doi.org/10.1002/bies.201600083
Rosen R (1958) A relational theory of biological systems. Bull Math Biophys 20:245–260
Simeonov PL (2010) Integral biomathics: a post-Newtonian view into the logos of bios. Prog Biophys Mol Biol 102:85–121. https://doi.org/10.1016/j.pbiomolbio.2010.01.005
Simeonov PL, Ehresmann AC (2017) Some resonances between Eastern thought and Integral Biomathics in the framework of the WLIMES formalism for modelling living systems. Prog Biophys Mol Biol. https://doi.org/10.1016/j.pbiomolbio.2017.05.014
Sironi M, Clerici M (2010) The hygiene hypothesis: an evolutionary perspective. Microbes Infect 12:421–427. https://doi.org/10.1016/j.micinf.2010.02.002
Six A et al (2013) The past, present, and future of immune repertoire biology—the rise of next-generation repertoire. Anal Front Immunol 4:413. https://doi.org/10.3389/fimmu.2013.00413
Soto AM et al (2016) Toward a theory of organisms: three founding principles in search of a useful integration. Prog Biophys Mol Biol. https://doi.org/10.1016/j.pbiomolbio.2016.07.006
Stewart J (1993) Cognition without neurones adaptation, learning and memory in the immune system. Cognition 5:187–202
Stewart J (1994) The primordial VRM system and the evolution of vertebrate immunity. R.G.Landes, Georgetown
Tauber AI (1994) The immune self Theory or metaphor?. Cambridge University Press, Cambridge
Tauber AI (2013) Immunology’s theories of cognition Hist Philos. Life Sci 35:239–264
Tauber AI (2014) Reconceiving autoimmunity: An overview. J Theor Biol. https://doi.org/10.1016/j.jtbi.2014.05.029
Tauber A (2016) A hypothesis: establishing the microbiome through immune mimicry. BioEssays 38:1062. https://doi.org/10.1002/bies.201600083)
Thomas-Vaslin V (1990) (Influence de l'environnement cellulaire sur la dynamique et la sélection du répertoire des lymphocytes B chez la souris. Immunité adaptative. Université Pierre et Marie Curie (Paris 6). Français. 〈tel-01821761〉 https://hal.archives-ouvertes.fr/tel-01821761v1
Thomas-Vaslin V (2014) A complex immunological idiotypic network for maintenance of tolerance. Front Immunol 5:369. https://doi.org/10.3389/fimmu.2014.00369
Thomas-Vaslin V (2015) Complexité multi-échelle du système immunitaire: Evolution, du chaos aux fractales p 333–402. In: Le vivant critique et chaotique- (N. Glade, A. Stephanou, Dir). Editions Matériologiques ISBN 978-2-919694-93-8
Thomas-Vaslin V (2017) Le rôle des traces dans le système immunitaire: des anticorps au corps p 255–294. in L’Homme-trace- Des traces du corps au corps-trace Vol. 4 (B. Galinon-Mélénec Dir). Paris CNRS éditions. ISBN 978-2-271-11417-4
Thomas-Vaslin V, Feitas AA (1990) Population kinetics of peritoneal LPS-reactive B lymphocytes. Int Immunol 2:73–81
Thomas-Vaslin V, Freitas AA (1989) Lymphocyte population kinetics during the development of the immune system. B cell persistence and life-span can be determined by the host environment. Int Immunol 1:237–246
Thomas-Vaslin V, Andrade L, Freitas A, Coutinho A (1991) Clonal persistence of B lymphocytes in normal mice is determined by variable region-dependent selection. Eur J Immunol 21:2239–2246
Thomas-Vaslin V, Salaun J, Gajdos B, Le Douarin N, Coutinho A, Bandeira A (1995) Thymic epithelium induces full tolerance to skin and heart but not to B lymphocyte grafts. Eur J Immunol 25:438–445
Thomas-Vaslin V, Damotte D, Coltey M, Le Douarin NM, Coutinho A, Salaun J (1997a) Abnormal T cell selection on nod thymic epithelium is sufficient to induce autoimmune manifestations in C57BL/6 athymic nude mice. Proc Natl Acad Sci USA 94:4598–4603
Thomas-Vaslin V, Salaun J, Coltey M, Vaigot P, Fucs R (1997b) Kinetics and repertoire selection of T cells derived from the early waves of fetal thymus colonization after thymus grafting in allogeneic nude recipients. Scand J Immunol 45:482–486
Thomas-Vaslin V, Altes HK, de Boer RJ, Klatzmann D (2008) Comprehensive assessment and mathematical modeling of T cell population dynamics and homeostasis. J Immunol 180:2240–2250
Thomas-Vaslin V et al (2012) Immunodepression & Immunosuppression during aging. In: Portela MB (ed) Immunosuppression. InTech, Brazil, pp 125–146
Thomas-Vaslin V, Six A, Bellier B, Klatzmann D (2013a) Lymphocyte dynamics and repertoires, modeling. In: Dubitzky W, Wolkenhauer O, Cho K-H, Yokota H (eds) Encyclopedia of systems biology. Springer, New York, pp 1149–1152. https://doi.org/10.1007/978-1-4419-9863-7_96
Thomas-Vaslin V, Six A, Ganascia JG, Bersini H (2013b) Dynamical and mechanistic reconstructive approaches of T lymphocyte dynamics: using visual modeling languages to bridge the gap between immunologists, theoreticians and programmers. Front Immunol 4:300. https://doi.org/10.3389/fimmu.2013.00300
Ugur A, Conrad M (2002) Techniques for enhancing neuronal evolvability. Neurocomputing 42:239–265
van Panhuys N (2016) TCR Signal strength alters T-DC activation and interaction times and directs the outcome of differentiation. Front Immunol. https://doi.org/10.3389/fimmu.2016.00006
Vatanen T et al (2016) Variation in microbiome LPS immunogenicity contributes to autoimmunity in humans. Cell 165:842–853. https://doi.org/10.1016/j.cell.2016.04.007
Vaz N (2011) The specificity of immunologic observations. Construct Found 6:334–351
Vaz NM, Carvalho CR (2015) On the origin of immunopathology. J Theor Biol 375:61–70. https://doi.org/10.1016/j.jtbi.2014.06.006
Vaz NM, Ramos GC, Pordeus V, Carvalho CR (2006) The conservative physiology of the immune system. A non-metaphoric approach to immunological activity. Clin Dev Immunol 13:133–142. https://doi.org/10.1080/17402520600877216
Vecchi D, Miquel P, Hernandez I (2018) From biological determination to entangled causation. Acta Biotheor. https://doi.org/10.1007/s10441-018-9339-6
Vibert J, Thomas-Vaslin V (2017) Modelling T cell proliferation: Dynamics heterogeneity depending on cell differentiation, age, and genetic background. PLoS Comput Biol 13:1005417. https://doi.org/10.1371/journal.pcbi.1005417
Willis AJ (1997) The ecosystem: an evolving concept viewed historically. Funct Ecol 11(2):268–271
Yates FE (1994) Order and complexity in dynamical-systems—homeodynamics as a generalized mechanics for biology. Math Comput Model 19:49–74. https://doi.org/10.1016/0895-7177(94)90189-9
Zhang L, Williams RA, Gatherer D (2016) Rosen’s (M, R) system in unified modelling language. Biosystems 139:29–36. https://doi.org/10.1016/j.biosystems.2015.12.006
Acknowledgements
I thank P.A. Miquel and A. Ehresmann for helpful discussions.
Author information
Authors and Affiliations
Corresponding author
Additional information
Publisher's Note
Springer Nature remains neutral with regard to jurisdictional claims in published maps and institutional affiliations.
Rights and permissions
About this article
Cite this article
Thomas-Vaslin, V. Individuation and the Organization in Complex Living Ecosystem: Recursive Integration and Self-assertion by Holon-Lymphocytes. Acta Biotheor 68, 171–199 (2020). https://doi.org/10.1007/s10441-019-09364-w
Received:
Accepted:
Published:
Issue Date:
DOI: https://doi.org/10.1007/s10441-019-09364-w