In this thesis, I discuss the organism's self-organization from the perspective of relational ontology. I critically examine scientific and philosophical sources that appeal to the concept of self-organization. By doing this, I aim to carry out a thorough investigation into the underlying reasons of emergent order within the ontogeny of the organism. Moreover, I focus on the relation between universal dynamics of organization and the organization of living systems. I provide a historical review of the development of modern ideas related (...) to self-organization. These ideas have been developed in relation to various research areas including thermodynamics, molecular biology, developmental biology, systems theory, and so on. In order to develop a systematic understanding of the concept, I propose a conceptual distinction between transitional self-organization and regulative self-organization. The former refers to the spontaneous emergence of order, whereas the latter refers to the self-maintaining characteristic of the living systems. I show the relation between these two types of organization within biological processes. I offer a critical analysis of various theories within the organizational approach. Several ideas and notions in these theories originate from the early studies in cybernetics. More recently, autopoiesis and the theory of biological autonomy asserted certain claims that were critical toward the ideas related to self-organization. I advocate a general theory of self-organization against these criticisms. I also examine the hierarchical nature of the organism's organization, as this is essential to understand regulative self-organization. I consider the reciprocal relation between bottom-up and top-down dynamics of organization as the basis of the organism's individuation. To prove this idea, I appeal to biological research on molecular self-assembly, pattern formation (including reaction-diffusion systems), and the self-organized characteristic of the immune system. Finally, I promote the idea of diachronic emergence by drawing support from biological self-organization. I discuss the ideas related to constraints, potentiality, and dynamic form in an attempt to reveal the emergent nature of the organism. To demonstrate the dynamicity of form, I examine research into biological oscillators. I draw the following conclusions: synchronic condition of the organism is irreducibly processual and relational, and this is the basis of the organism's potentiality for various organizational states. (shrink)

In this paper, I discuss the neo-Aristotelian approaches, which usually reinterpret Aristotle’s ideas on form and/or borrow the notion of formal cause without engaging with the broader implications of Aristotle’s metaphysics. In opposition to these approaches, I claim that biosemiotics can propose an alternative view on life’s form. Specifically, I examine the proposals to replace the formal cause with gene-centrism, functionalism, and structuralism. After critically addressing these approaches, I discuss the problems of reconciling Aristotelianism with the modern view of life’s (...) organization. I claim that the notion of the final cause proposes a cosmological hierarchy and that this is the main problem with applying the formal cause to biology. An alternative categorization of conceptualizing life’s form involves the processual identity, relational property clusters, and context-dependent transmission of representational units. The third category points to a semiotic basis of the form of life. In this context, I offer to readjust the focus of the problem of matter-form duality by pointing out that form is primarily an issue of the subject-object relation. Biosemiotics helps to understand the constructive role of symbolic representation in living systems, which is crucial to extend the analysis of the form from cognitive representations to external phenomena. Emergence of subjectivity and perspectivity of interactions are key elements to bridge the form and actual processes within a non-hylomorphic account. To demonstrate transitions from the physical influence of shapes to the organic recognition of forms, I address the biological studies on the synchronization of coincidental inputs and enzyme specificity. (shrink)

Bu makalede, Erwin Schrödinger’in kuramsal biyolojiye önemli bir katkıda bulunan Yaşam Nedir? adlı kitabındaki fikirlerini ve bu kitabın da etkisiyle gelişen gen-merkezci yaklaşımı eleştirel olarak değerlendirmeyi amaçlıyorum. Schrödinger’in canlılık konusundaki entelektüel mirasının tartışmaya açılması moleküler biyolojinin yaşam bilimlerinde hakim hale gelişinin ve yaşamın organizasyona dayalı temelinin anlaşılması açısından özel bir önem taşıyor. Yayınlandığından beri biyoloji felsefesinde önemli tartışmaları beraberinde getiren Yaşam Nedir? kitabı, yaşamı termodinamiğin yasaları doğrultusunda ele alması açısından biyolojide organizasyonu vurgular. Bununla birlikte Schrödinger’in canlılığın kodu olarak tasavvur ettiği (...) aperiyodik kristal kavramı gen-merkezciliği destekleyen öncül fikirleri barındırmaktadır. Schrödinger, canlı varlıkların doğadaki entropi artışı eğilimiyle baş etmesi gereken nitelikte olması gerektiğini savundu ve bu görüş, canlılığa dair temel bir ilke olarak yaygın kabul gördü. Schrödinger’in yaşamın düzenliliğini mikro düzeyde aperiyodik kristal hipotezi ile açıklama girişimi ise nispeten daha tartışmalıdır. Makalede, bu tartışmalı konuları aydınlatmak amacıyla Schrödinger ve ardından gelişen gen-merkezci yaklaşımlara yönelik eleştirileri ele alıyorum. Ardından, gen-merkezciliğin sınırlılıklarına karşı yaşamın organizasyonunun organizma seviyesinde ele alınması değerlendiriyorum. Bu görüş, Kant’ın self-organizasyon kavramıyla tanımladığı, parça-bütün ilişkilerindeki karşılıklılığı temel alır. Son olarak, yaşamın organizasyonuna dair felsefî yaklaşımları ve entropinin buradaki rolünü tartışıyorum. Organizma düzeyinde ve organizma-çevre ilişkisindeki çoklu etmenlerin geri-besleme ilişkilerine dayanan ağ yapısı, gen-merkezciliğin indirgemeci yaklaşımına karşı kapsayıcı bir alternatif sunmaktadır. (shrink)