scholarly journals The origin of life: Oligomerization of RNA nucleotides on prebiotic Earth

2021 ◽  
Author(s):  
Ken Ohsaka

We propose a plausible oligomerization process of RNA nucleotides on prebiotic Earth. The process takes place at tideland and estuary where wet & dry cycle and pH fluctuation occur due to tide. The process proceeds with help of clay minerals that catalyze not only oligomerization but also cross complementary self-replication of RNA oligomers by lowering the activation energy of covalent bonding. The self-replication realizes transfer of molecular information and allows mutation and natural selection, essential steps of evolution of life.

2019 ◽  
Author(s):  
Ken Ohsaka

Difficulties to synthesize RNA nucleotides from their subunits in modern labs under simulated environments leads us to propose a possible process for the synthesis by cross complimentary self-replication with help of clay minerals, which might be operated on prebiotic Earth. Clay minerals are known to be good catalysts and certainly existed on prebiotic Earth. The self-replication of RNA nucleotides (monomers) may be considered as the origin of potential self-replication of some extant RNA polymers, and also the reason for homochirality of RNA molecules.


Author(s):  
Ken Ohsaka

Difficulties to synthesize RNA nucleotides from their subunits in modern labs under simulated environments leads us to propose a possible process for the synthesis by cross complimentary self-replication with help of clay minerals, which might be operated on prebiotic Earth. Clay minerals are known to be good catalysts and certainly existed on prebiotic Earth. The self-replication of RNA nucleotides (monomers) may be considered as the origin of potential self-replication of some extant RNA polymers, and also the reason for homochirality of RNA molecules.


Nanoscale ◽  
2020 ◽  
Vol 12 (12) ◽  
pp. 6691-6698 ◽  
Author(s):  
Noriyoshi Arai ◽  
Yusei Kobayashi ◽  
Kenji Yasuoka

The self-assembly was found to be more favoured in a vesicle-cell membrane, rather than in the bulk system. The result will contribute to a better understanding of the origin of life on the primitive Earth.


2020 ◽  
Vol 29 (4) ◽  
pp. 741-757
Author(s):  
Kateryna Hazdiuk ◽  
◽  
Volodymyr Zhikharevich ◽  
Serhiy Ostapov ◽  
◽  
...  

This paper deals with the issue of model construction of the self-regeneration and self-replication processes using movable cellular automata (MCAs). The rules of cellular automaton (CA) interactions are found according to the concept of equilibrium neighborhood. The method is implemented by establishing these rules between different types of cellular automata (CAs). Several models for two- and three-dimensional cases are described, which depict both stable and unstable structures. As a result, computer models imitating such natural phenomena as self-replication and self-regeneration are obtained and graphically presented.


Author(s):  
Thomas Glonek

AbstractHow life began still eludes science life, the initial progenote in the context presented herein, being a chemical aggregate of primordial inorganic and organic molecules capable of self-replication and evolution into ever increasingly complex forms and functions.Presented is a hypothesis that a mineral scaffold generated by geological processes and containing polymerized phosphate units was present in primordial seas that provided the initiating factor responsible for the sequestration and organization of primordial life’s constituents. Unlike previous hypotheses proposing phosphates as the essential initiating factor, the key phosphate described here is not a polynucleotide or just any condensed phosphate but a large (in the range of at least 1 kilo-phosphate subunits), water soluble, cyclic metaphosphate, which is a closed loop chain of polymerized inorganic phosphate residues containing only phosphate middle groups. The chain forms an intrinsic 4-phosphate helix analogous to its structure in Na Kurrol’s salt, and as with DNA, very large metaphosphates may fold into hairpin structures. Using a Holliday-junction-like scrambling mechanism, also analogous to DNA, rings may be manipulated (increased, decreased, exchanged) easily with little to no need for additional energy, the reaction being essentially an isomerization.A literature review is presented describing findings that support the above hypothesis. Reviewed is condensed phosphate inorganic chemistry including its geological origins, biological occurrence, enzymes and their genetics through eukaryotes, polyphosphate functions, circular polynucleotides and the role of the Holliday junction, previous biogenesis hypotheses, and an Eoarchean Era timeline.


Author(s):  
Francisco Prosdocimi ◽  
Savio Torres Farias ◽  
Marco V José

The origin of life was a cosmic event happened on primitive Earth. A critical problem to better understand the origins of life in Earth is to glimpse in which chemical scenarios the basic building blocks of biological molecules could be produced. Classic works in pre-biotic chemistry frequently considered early Earth as a homogeneous atmosphere constituted by chemical elements such as methane (CH4), ammonia (NH3), water (H2O), hydrogen (H2) and hydrogen sulfide (H2S). Under that scenario, Stanley Miller was capable to produce amino acids and solved the question about the origin of proteins. Conversely, the origin of nucleic acids has tricked scientists for decades as nucleotides are complex though necessary molecules to allow the existence of life. Here we review possible chemical scenarios that allowed not only the formation of nucleotides but also other significant biomolecules. We aim to provide a theoretical solution for the origin of biomolecules at specific sites named “Prebiotic Chemical Refugia”. A prebiotic chemical refugium should therefore be understood as a geographic site in prebiotic Earth on which certain chemical elements were accumulated in higher proportion than expected, facilitating the production of basic biomolecules. Plus, this higher proportion should not be understood as static, but dynamic; once the physicochemical conditions of our planet changed periodically. This different concentration of elements, together with geochemical and astronomical changes along days, synodic months and years provided somewhat periodic changes in temperature, pressure, electromagnetic fields, and conditions of humidity; among other features. Recent and classic works suggesting most likely prebiotic refugia on which the main building blocks of biological molecules might be accumulated are reviewed and discussed.


2020 ◽  
Vol 21 (19) ◽  
pp. 7410
Author(s):  
Tomas Sneideris ◽  
Mantas Ziaunys ◽  
Brett K.-Y. Chu ◽  
Rita P.-Y. Chen ◽  
Vytautas Smirnovas

Prion protein amyloid aggregates are associated with infectious neurodegenerative diseases, known as transmissible spongiform encephalopathies. Self-replication of amyloid structures by refolding of native protein molecules is the probable mechanism of disease transmission. Amyloid fibril formation and self-replication can be affected by many different factors, including other amyloid proteins and peptides. Mouse prion protein fragments 107-143 (PrP(107-143)) and 89-230 (PrP(89-230)) can form amyloid fibrils. β-sheet core in PrP(89-230) amyloid fibrils is limited to residues ∼160–220 with unstructured N-terminus. We employed chemical kinetics tools, atomic force microscopy and Fourier-transform infrared spectroscopy, to investigate the effects of mouse prion protein fragment 107-143 fibrils on the aggregation of PrP(89-230). The data suggest that amyloid aggregates of a short prion-derived peptide are not able to seed PrP(89-230) aggregation; however, they accelerate the self-replication of PrP(89-230) amyloid fibrils. We conclude that PrP(107-143) fibrils could facilitate the self-replication of PrP(89-230) amyloid fibrils in several possible ways, and that this process deserves more attention as it may play an important role in amyloid propagation.


2002 ◽  
Vol 11 ◽  
pp. 179-194
Author(s):  
David W. Deamer

Movies are the myths of late-20th century western culture. Because of the power of films likeETto capture our imagination, we are more likely than past generations to accept the possibility that life exists elsewhere in our galaxy. Such a myth can be used to sketch the main themes of this chapter, which concern the origin of life on the Earth.


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