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Topic: Evaluation of neo-Darwinian Theory with Avida Simulations

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posted 01. July 2004 14:23

Evaluation of neo-Darwinian Theory with Avida Simulations

*Note that an earlier version of this paper was posted at ISCID on January 23rd, 2004.

by Royal Truman

Abstract: Avida is a computer software platform designed to test neo-Darwinian scenarios including speciation, evolution of novel complex functions, and genetic drift. A large number of parameter settings are available to the researcher. We evaluate here published tests and intrinsic Avida characteristics in an attempt to extrapolate towards real biological organisms. Computer based models and simulations must capture enough realism to facilitate valid decisions. Neglect of key factors or unrealistic parameter settings permit conclusions to be claimed which merely reflect what the decision maker intended a priori.

The long-term effect on genetic systems of random insertions, deletions and point mutations over deep time may be degradation of function and specificity; or the generation of true biological novelty. Competing factors are involved and only detailed quantitative analysis with real world experiments can firm up our opinions in this matter. In Part 1 we examine some of these issues and in Part 2 explore some more quantitative details based on Avida runs.

It was found in this two part series that reports which demonstrate rapid increase in complex, genetically coded novel functions are an artefact intrinsic to how the Avida computer runs are planned and some neglected details constraints found in nature.

Using biologically realistic parameter settings and including neglected factors led to the opposite view, both theoretically and when using Avida experiments. Mutations plus natural selection in rapidly reproducing, asexual, small genomes fails to explain the original of ever increasing cellular functionality, including molecular machines.

Read part 1 of this essay.
Read part 2 of this essay.

To discuss these papers, click here.

[ 01. July 2004, 14:55: Message edited by: Moderator ]

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posted 01. July 2004 14:33

Figures for Part 2

Figure 1
Figure 2
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posted 01. July 2004 14:35

Tables for Part 2

Table 1
Table 2
Table 3
Table 4
Table 5
Table 6
Table 7
Table 8
Table 9
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Table 12
Table 13

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