Theories of the origin of the genetic code: Strong corroboration for the coevolution theory
Biosystems. 2024 Apr 24;239:105217. doi: 10.1016/j.biosystems.2024.105217. Online ahead of print.ABSTRACTI analyzed all the theories and models of the origin of the genetic code, and over the years, I have considered the main suggestions that could explain this origin. The conclusion of this analysis is that the coevolution theory of the origin of the genetic code is the theory that best captures the majority of observations concerning the organization of the genetic code. In other words, the biosynthetic relationships between amino acids would have heavily influenced the origin of the organization of the genetic code, as ...
Source: Biosystems - April 25, 2024 Category: Biotechnology Authors: Massimo Di Giulio Source Type: research
Theories of the origin of the genetic code: Strong corroboration for the coevolution theory
Biosystems. 2024 Apr 24;239:105217. doi: 10.1016/j.biosystems.2024.105217. Online ahead of print.ABSTRACTI analyzed all the theories and models of the origin of the genetic code, and over the years, I have considered the main suggestions that could explain this origin. The conclusion of this analysis is that the coevolution theory of the origin of the genetic code is the theory that best captures the majority of observations concerning the organization of the genetic code. In other words, the biosynthetic relationships between amino acids would have heavily influenced the origin of the organization of the genetic code, as ...
Source: Biosystems - April 25, 2024 Category: Biotechnology Authors: Massimo Di Giulio Source Type: research
Theories of the origin of the genetic code: strong corroboration for the coevolution theory
Biosystems. 2024 Apr 23:105217. doi: 10.1016/j.biosystems.2024.105217. Online ahead of print.ABSTRACTI analyzed all the theories and models of the origin of the genetic code, and over the years, I have considered the main suggestions that could explain this origin. The conclusion of this analysis is that the coevolution theory of the origin of the genetic code is the theory that best captures the majority of observations concerning the organization of the genetic code. In other words, the biosynthetic relationships between amino acids would have heavily influenced the origin of the organization of the genetic code, as supp...
Source: Biosystems - April 25, 2024 Category: Biotechnology Authors: Massimo Di Giulio Source Type: research
Theories of the origin of the genetic code: strong corroboration for the coevolution theory
Biosystems. 2024 Apr 23:105217. doi: 10.1016/j.biosystems.2024.105217. Online ahead of print.ABSTRACTI analyzed all the theories and models of the origin of the genetic code, and over the years, I have considered the main suggestions that could explain this origin. The conclusion of this analysis is that the coevolution theory of the origin of the genetic code is the theory that best captures the majority of observations concerning the organization of the genetic code. In other words, the biosynthetic relationships between amino acids would have heavily influenced the origin of the organization of the genetic code, as supp...
Source: Biosystems - April 25, 2024 Category: Biotechnology Authors: Massimo Di Giulio Source Type: research
Unsolved morphogenesis problems and the hidden order
Biosystems. 2024 Apr 21:105218. doi: 10.1016/j.biosystems.2024.105218. Online ahead of print.ABSTRACTIn this work, the morphogenesis mechanisms are considered from the complexity perspective. It is shown that both morphogenesis and the functioning of organs should be unstable in the case of short-range interaction potentials. The repeatability of forms during evolution is a strong argument for its directionality. The formation of organs during evolution can occur only in the presence of a priori information about the structure of such an organ. The focus of the discussion is not merely on constraining potential possibiliti...
Source: Biosystems - April 23, 2024 Category: Biotechnology Authors: A V Melkikh Source Type: research
Unsolved morphogenesis problems and the hidden order
Biosystems. 2024 Apr 21:105218. doi: 10.1016/j.biosystems.2024.105218. Online ahead of print.ABSTRACTIn this work, the morphogenesis mechanisms are considered from the complexity perspective. It is shown that both morphogenesis and the functioning of organs should be unstable in the case of short-range interaction potentials. The repeatability of forms during evolution is a strong argument for its directionality. The formation of organs during evolution can occur only in the presence of a priori information about the structure of such an organ. The focus of the discussion is not merely on constraining potential possibiliti...
Source: Biosystems - April 23, 2024 Category: Biotechnology Authors: A V Melkikh Source Type: research
The emergence of theoretical biology: Two fundamental works of Ervin Bauer (1890-1938) in English translation
Biosystems. 2024 Apr 18:105201. doi: 10.1016/j.biosystems.2024.105201. Online ahead of print.ABSTRACTErvin Bauer (1890-1938) outlined the paradigm of theoretical biology from the perspective of biophysics and bioenergetics. His molecular-based biological theory is centered on the principle of sustainable non-equilibrium, which is continuously produced and maintained by all biological systems throughout their life. Ervin Bauer became the victim of Stalin's Great Terror. Here we present two of the fundamental works of Ervin Bauer in English translation: the paper "The definition of the living being on the basis of its thermo...
Source: Biosystems - April 20, 2024 Category: Biotechnology Authors: Mikl ós Müller Abir U Igamberdiev Source Type: research
Bio-analog dissipative structures and principles of biological behavior
Biosystems. 2024 Apr 18;239:105214. doi: 10.1016/j.biosystems.2024.105214. Online ahead of print.ABSTRACTThe place of living organisms in the natural world is a nearly perennial question in philosophy and the sciences; how can inanimate matter yield animate beings? A dominant answer for several centuries has been to treat organisms as sophisticated machines, studying them with the mechanistic physics and chemistry that have given rise to technology and complex machines. Since the early 20th century, many scholars have sought instead to naturalize biology through thermodynamics, recognizing the precarious far-from-equilibri...
Source: Biosystems - April 20, 2024 Category: Biotechnology Authors: Benjamin De Bari Dilip K Kondepudi Ashwin Vaidya James A Dixon Source Type: research
The Net of Life, a short story: Intricate patterns of gene flows across hundreds of extant genomes, all the way to LUCA
Biosystems. 2024 Apr 17:105199. doi: 10.1016/j.biosystems.2024.105199. Online ahead of print.ABSTRACTOver the past quarter-century, the field of evolutionary biology has been transformed by the emergence of complete genome sequences and the conceptual framework known as the 'Net of Life.' This paradigm shift challenges traditional notions of evolution as a tree-like process, emphasizing the complex, interconnected network of gene flow that may blur the boundaries between distinct lineages. In this context, gene loss, rather than horizontal gene transfer, is the primary driver of gene content, with vertical inheritance play...
Source: Biosystems - April 19, 2024 Category: Biotechnology Authors: Christos A Ouzounis Source Type: research
Circular code in introns
Biosystems. 2024 Apr 17;239:105215. doi: 10.1016/j.biosystems.2024.105215. Online ahead of print.ABSTRACTA massive statistical analysis based on the autocorrelation function of the circular code X observed in genes is performed on the (eukaryotic) introns. Surprisingly, a circular code periodicity 0 modulo 3 is identified in 5 groups of introns: birds, ascomycetes, basidiomycetes, green algae and land plants. This circular code periodicity, which is a property of retrieving the reading frame in (protein coding) genes, may suggest that these introns have a coding property. In a well-known way, a periodicity 1 modulo 2 is ob...
Source: Biosystems - April 19, 2024 Category: Biotechnology Authors: Christian J Michel Source Type: research
The history of Ervin Bauer's publications on the theory of life
Biosystems. 2024 Apr 16:105212. doi: 10.1016/j.biosystems.2024.105212. Online ahead of print.ABSTRACTErvin Bauer (1890-1938) made historical contributions to contemporary biology, provided a new definition of life, defined the contents of theoretical biology. He worked in different countries, perturbed by deep historical events. These historical events necessarily impacted his fate and finally led to the violent loss of his life and the life of his wife. His work and with it his theory of life had a no less complicated history than the history of his personal life. Bauer's main work "Theoretical Biology" was published in 1...
Source: Biosystems - April 18, 2024 Category: Biotechnology Authors: Mikl ós Müller G ábor Elek Source Type: research
The history of Ervin Bauer's publications on the theory of life
Biosystems. 2024 Apr 16:105212. doi: 10.1016/j.biosystems.2024.105212. Online ahead of print.ABSTRACTErvin Bauer (1890-1938) made historical contributions to contemporary biology, provided a new definition of life, defined the contents of theoretical biology. He worked in different countries, perturbed by deep historical events. These historical events necessarily impacted his fate and finally led to the violent loss of his life and the life of his wife. His work and with it his theory of life had a no less complicated history than the history of his personal life. Bauer's main work "Theoretical Biology" was published in 1...
Source: Biosystems - April 18, 2024 Category: Biotechnology Authors: Mikl ós Müller G ábor Elek Source Type: research
The Cluster Model of Energy Transduction in Biological Systems
Biosystems. 2024 Apr 12:105213. doi: 10.1016/j.biosystems.2024.105213. Online ahead of print.ABSTRACTThe central problem in transduction is to explain how the energy caught from sunlight by chloroplasts becomes biological work. Or to express it in different terms: how does the energy remain trapped in the biological network and not get lost through thermalization into the environment? The pathway consists of an immensely large number of steps crossing hierarchical levels - some upwards, to larger assemblies, others downwards into energy rich molecules - before fuelling an action potential or a contracting cell. Accepting t...
Source: Biosystems - April 14, 2024 Category: Biotechnology Authors: John Grant Watterson Source Type: research
The Cluster Model of Energy Transduction in Biological Systems
Biosystems. 2024 Apr 12:105213. doi: 10.1016/j.biosystems.2024.105213. Online ahead of print.ABSTRACTThe central problem in transduction is to explain how the energy caught from sunlight by chloroplasts becomes biological work. Or to express it in different terms: how does the energy remain trapped in the biological network and not get lost through thermalization into the environment? The pathway consists of an immensely large number of steps crossing hierarchical levels - some upwards, to larger assemblies, others downwards into energy rich molecules - before fuelling an action potential or a contracting cell. Accepting t...
Source: Biosystems - April 14, 2024 Category: Biotechnology Authors: John Grant Watterson Source Type: research
Editorial: Systems Bioinformatics for Medicine
Biosystems. 2024 Apr 11:105211. doi: 10.1016/j.biosystems.2024.105211. Online ahead of print.NO ABSTRACTPMID:38614277 | DOI:10.1016/j.biosystems.2024.105211 (Source: Biosystems)
Source: Biosystems - April 13, 2024 Category: Biotechnology Authors: Yoshiyuki Asai Masahiko Nakatsui Hiroshi Matsuno Source Type: research
