Extracting Characteristic Properties of Fitness Landscape from In Vitro Molecular Evolution: A Case Study on Infectivity of fd Phage to E.coli.
スポンサーリンク
概要
- 論文の詳細を見る
We have developed a methodology for extracting characteristic properties of a fitness landscape of interest by analyzing fitness data on an in vitro molecular evolution. The in vitro evolution is required to be conducted as the following '' adaptive walk '': a single parent sequence generates N mutant sequences as its offsprings, and the fittest individual among the N offsprings will become a new parent in the next generation. N is the library size of mutants to be screened in a single generation. Our theory of the adaptive walk on the '' NK landscape '' suggests the following: the adaptive walker starting from a random sequence climbs the landscape easily in an early stage, and then reaches a stationary phase in which the mutation-selection-random drift balance sets in. The stationary fitness value is nearly proportional to root In N. Our analysis is performed from the following points: (1) stationary fitness values, (2) time series of fitness in the transitional state, (3) mutant's fitness distribution, and (4) the strength of selection pressure. Applying our methodology, we analyzed experimental data on the in vitro evolution of a random polypeptide (139 amino acids) toward acquiring infectivity (= ability to infect) of fd phage. As a result, we estimated that k is about 27 in this system, indicating that an arbitrary residue in a sequence is affected from other 23% residues. In this article, we demonstrated that the experimental data is consistent with our theoretical equations quantitatively, and that our methodology for extracting characteristic properties of a fitness landscape may be effective. (C) 2007 Elsevier Ltd. All rights reserved.
- ACADEMIC PRESS LTD ELSEVIER SCIENCE LTDの論文
ACADEMIC PRESS LTD ELSEVIER SCIENCE LTD | 論文
- Quantitative assessment of people-oriented forestry in Bangladesh: A case study in the Tangail forest division
- Factors influencing the sustained participation of farmers in participatory forestry: a case study in central Sal forests in Bangladesh
- Statistical formulae of the energy distribution among a globular protein structure ensemble
- Extracting Characteristic Properties of Fitness Landscape from In Vitro Molecular Evolution: A Case Study on Infectivity of fd Phage to E.coli.