Entropy 2011, 13(10), 1882-1903; doi:10.3390/e13101882

On the Growth Rate of Non-Enzymatic Molecular Replicators

1,2,* email and 1,3
Received: 27 September 2011; Accepted: 13 October 2011 / Published: 21 October 2011
(This article belongs to the Special Issue Emergence in Chemical Systems)
This is an open access article distributed under the Creative Commons Attribution License which permits unrestricted use, distribution, and reproduction in any medium, provided the original work is properly cited.
Abstract: It is well known that non-enzymatic template directed molecular replicators X + nO -> 2X exhibit parabolic growth d[X]/dt -> k[X]1/2. Here, we analyze the dependence of the effective replication rate constant k on hybridization energies, temperature, strand length, and sequence composition. First we derive analytical criteria for the replication rate k based on simple thermodynamic arguments. Second we present a Brownian dynamics model for oligonucleotides that allows us to simulate their diffusion and hybridization behavior. The simulation is used to generate and analyze the effect of strand length, temperature, and to some extent sequence composition, on the hybridization rates and the resulting optimal overall rate constant k. Combining the two approaches allows us to semi-analytically depict a replication rate landscape for template directed replicators. The results indicate a clear replication advantage for longer strands at lower temperatures in the regime where the ligation rate is rate limiting. Further the results indicate the existence of an optimal replication rate at the boundary between the two regimes where the ligation rate and the dehybridization rates are rate limiting.
Keywords: non-enzymatic molecular replication; minimal replicators; protocell; growthrates; product inhibition; reaction kinetics; Brownian dynamics
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MDPI and ACS Style

Fellermann, H.; Rasmussen, S. On the Growth Rate of Non-Enzymatic Molecular Replicators. Entropy 2011, 13, 1882-1903.

AMA Style

Fellermann H, Rasmussen S. On the Growth Rate of Non-Enzymatic Molecular Replicators. Entropy. 2011; 13(10):1882-1903.

Chicago/Turabian Style

Fellermann, Harold; Rasmussen, Steen. 2011. "On the Growth Rate of Non-Enzymatic Molecular Replicators." Entropy 13, no. 10: 1882-1903.

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