- Natural Genome Editing from a Biocommunicative Perspective.Guenther Witzany -2011 -Biosemiotics 4 (3):349-368.details
Natural genome editing from a biocommunicative perspective is the competent agent-driven generation and integration of meaningful nucleotide sequences into pre-existing genomic content arrangements, and the ability to (re-)combine and (re-)regulate them according to context-dependent (i.e. adaptational) purposes of the host organism. Natural genome editing integrates both natural editing of genetic code and epigenetic marking that determines genetic reading patterns. As agents that edit genetic code and epigenetically mark genomic structures, viral and subviral agents have been suggested because they may be (...) evolutionarily older than cellular life. This hypothesis that viruses and viral-like agents edit genetic code is developed according to three well investigated examples that represent key evolutionary inventions in which non-lytic viral swarms act symbiotically in a persistent lifestyle within cellular host genomes: origin of eukaryotic nucleus, adaptive immunity, placental mammals. Additionally an abundance of various RNA elements cooperate in a variety of steps and substeps as regulatory and catalytic units with multiple competencies to act on the genetic code. Most of these RNA agents such as transposons, retroposons and small non-coding RNAs act consortially and are remnants of persistent viral infections that now act as co-opted adaptations in cellular key processes. (shrink)
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Communication as the Main Characteristic of Life.Guenther Witzany -2019 - In M. Kolb Vera,Handbook of Astrobiology. CrC Press. pp. 91-105.details | |
That is life: communicating RNA networks from viruses and cells in continuous interaction.Guenther Witzany -2019 -Annals of the New York Academy of Sciences:1-16.detailsAll the conserved detailed results of evolution stored in DNA must be read, transcribed, and translated via an RNAmediated process. This is required for the development and growth of each individual cell. Thus, all known living organisms fundamentally depend on these RNA-mediated processes. In most cases, they are interconnected with other RNAs and their associated protein complexes and function in a strictly coordinated hierarchy of temporal and spatial steps (i.e., an RNA network). Clearly, all cellular life as we know it (...) could not function without these key agents of DNA replication, namely rRNA, tRNA, and mRNA. Thus, any definition of life that lacks RNA functions and their networks misses an essential requirement for RNA agents that inherently regulate and coordinate (communicate to) cells, tissues, organs, and organisms. The precellular evolution of RNAs occurred at the core of the emergence of cellular life and the question remained of how both precellular and cellular levels are interconnected historically and functionally. RNA-networks andRNA-communication can interconnect these levels.With the reemergence of virology in evolution, it became clear that communicating viruses and subviral infectious genetic parasites are bridging these two levels by invading, integrating, coadapting, exapting, and recombining constituent parts in host genomes for cellular requirements in gene regulation and coordination aims. Therefore, a 21st century understanding of life is of an inherently social process based on communicating RNA networks, in which viruses and cells continuously interact. (shrink) | |
Life is physics and chemistry and communication.Gunther Witzany -2015 - In Guenther Witzany,DNA Habitats and Their RNA Inhabitants. pp. 1-9.detailsManfred Eigen extended Erwin Schroedinger’s concept of “life is physics and chemistry” through the introduction of information theory and cybernetic systems theory into “life is physics and chemistry and information.” Based on this assumption, Eigen developed the concepts of quasispecies and hypercycles, which have been dominant in molecular biology and virology ever since. He insisted that the genetic code is not just used metaphorically: it represents a real natural language.However, the basics of scientific knowledge changed dramatically within the second half (...) of the 20th century.Unfortunately, Eigen ignored the results of the philosophy of science discourse on essential features of natural languages and codes: a natural language or code emerges from populations of living agents that communicate. This contribution will look at some of the highlights of this historical development and the results relevant for biological theories about life. (shrink) | |
The Addiction Module as a Social Force.Luis P. Villarreal -2012 - In Witzany Guenther,Viruses: Essential Agents of Life. Dordrecht: Springer. pp. 107--145.details | |
Evolution of Genetic Information without Error Replication.Guenther Witzany -2020 - InTheoretical Information Studies. Singapur: pp. 295-319.detailsDarwinian evolutionary theory has two key terms, variations and biological selection, which finally lead to survival of the fittest variant. With the rise of molecular genetics, variations were explained as results of error replications out of the genetic master templates. For more than half a century, it has been accepted that new genetic information is mostly derived from random error-based events. But the error replication narrative has problems explaining the sudden emergence of new species, new phenotypic traits, and genome innovations (...) as a sudden single event. Meanwhile, it is recognized that errors cannot explain the evolution of genetic information, genetic novelty, and complexity. Now, empirical evidence establishes the crucial role of non-random genetic content editors, such as viruses, diversity generating retroelements, and other RNA networks, to produce new genetic information, complex regulatory control, inheritance vectors, genetic identity, immunity, new sequence space, evolution of complex organisms, and evolutionary transitions. (shrink) | |
From Molecular Entities to Competent Agents: Viral Infection-Derived Consortia Act as Natural Genetic Engineers.Günther Witzany -2012 - In Witzany Guenther,Viruses: Essential Agents of Life. Dordrecht: Springer. pp. 407--419.details | |
From Viruses to Genes: Syncytins.Philippe Pérot,Pierre-Adrien Bolze &François Mallet -2012 - In Witzany Guenther,Viruses: Essential Agents of Life. Dordrecht: Springer. pp. 325--361.details | |
Revolutionary Struggle for Existence: Introduction to Four Intriguing Puzzles in Virus Research.Matti Jalasvuori -2012 - In Witzany Guenther,Viruses: Essential Agents of Life. Dordrecht: Springer. pp. 1--19.details | |
Scratching the Surface of Biology's Dark Matter.Merry Youle,Matthew Haynes &Forest Rohwer -2012 - In Witzany Guenther,Viruses: Essential Agents of Life. Dordrecht: Springer. pp. 61--81.details | |
Endogenous Retroviruses and the Epigenome.Andrew B. Conley &I. King Jordan -2012 - In Witzany Guenther,Viruses: Essential Agents of Life. Dordrecht: Springer. pp. 309--323.details | |
Salutary contributions of viruses to medicine and public health.Stephen T. Abedon -2012 - In Witzany Guenther,Viruses: Essential Agents of Life. Dordrecht: Springer. pp. 389--405.details | |
On Viruses, Bats and Men: A Natural History of Food-Borne Viral Infections.Harald Brüssow -2012 - In Witzany Guenther,Viruses: Essential Agents of Life. Dordrecht: Springer. pp. 245--267.details | |
The Concept of Virus in the Post-Megavirus Era.Jean-Michel Claverie &Chantal Abergel -2012 - In Witzany Guenther,Viruses: Essential Agents of Life. Dordrecht: Springer. pp. 187--202.details | |
Megavirales Composing a Fourth Domain of Life: Mimiviridae and Marseilleviridae.Philippe Colson &Didier Raoult -2012 - In Witzany Guenther,Viruses: Essential Agents of Life. Dordrecht: Springer. pp. 217--244.details | |
Viral Integration and Consequences on Host Gene Expression.Sébastien Desfarges &Angela Ciuffi -2012 - In Witzany Guenther,Viruses: Essential Agents of Life. Dordrecht: Springer. pp. 147--175.details | |
Unpacking the baggage: origin and evolution of giant viruses.Jonathan Filée &Michael Chandler -2012 - In Witzany Guenther,Viruses: Essential Agents of Life. Dordrecht: Springer. pp. 203--216.details | |
The Origin of Virions and Virocells: The Escape Hypothesis Revisited.Patrick Forterre &Mart Krupovic -2012 - In Witzany Guenther,Viruses: Essential Agents of Life. Dordrecht: Springer. pp. 43--60.details | |
Persistent Plant Viruses: Molecular Hitchhikers or Epigenetic Elements?Marilyn J. Roossinck -2012 - In Witzany Guenther,Viruses: Essential Agents of Life. Dordrecht: Springer. pp. 177--186.details | |
Koala Retrovirus Endogenisation in Action.Rachael E. Tarlinton -2012 - In Witzany Guenther,Viruses: Essential Agents of Life. Dordrecht: Springer. pp. 283--291.details | |
Two genetic codes: Repetitive syntax for active non-coding RNAs; non-repetitive syntax for the DNA archives.Witzany Guenther -2017 -Communicative and Integrative Biology 10 (2):e1297352-1 - e1297352-12.detailsCurrent knowledge of the RNA world indicates 2 different genetic codes being present throughout the living world. In contrast to non-coding RNAs that are built of repetitive nucleotide syntax, the sequences that serve as templates for proteins share—as main characteristics—a non-repetitive syntax. Whereas non-coding RNAs build groups that serve as regulatory tools in nearly all genetic processes, the coding sections represent the evolutionarily successful function of the genetic information storage medium. This indicates that the differences in their syntax structure are (...) coherent with the differences of the functions they represent. Interestingly, these 2 genetic codes resemble the function of all natural languages, i.e., the repetitive non-coding sequences serve as appropriate tool for organization, coordination and regulation of group behavior, and the nonrepetitive coding sequences are for conservation of instrumental constructions, plans, blueprints for complex protein-body architecture. This differentiation may help to better understand RNA group behavioral motifs. (shrink) | |