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PubMed · 9237210

Hamming chromatography.

A Schwienhorst·A Schober·R Günther·P F Stadler
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Abstract

Selection of molecules with desired properties from random pools of biopolymers has become a powerful tool in biotechnology. On designing an evolution experiment, a certain knowledge of the concomitant fitness landscape is clearly helpful to set up the optimal experimental conditions. The correlation function is a useful means of characterizing a given landscape, since it can be efficiently measured if one has a method of separating a pool of random sequences according to their Hamming distance from a moderately small number of test sequences. In this paper we describe a special type of hybridization chromatography, where a mixture of oligomers (partially) complementary to a given test sequence is hybridized to the test sequence, covalently bound to a matrix. DNA oligomers are eluted in an 'effective temperature gradient' using conditions that minimize the differences of effects of GC versus AT pairs on the melting temperatures. This method should be a means to quickly separate error classes and thus be the crucial step in characterizing fitness landscapes of biopolymers through an experimental approach. It would also be a useful tool to design sequence pools with a bias towards desired mutant spectra.

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Bacteriophage T7Base SequenceChromatographyCloning, MolecularDNADNA, ViralDirected Molecular EvolutionNucleic Acid HybridizationPromoter Regions, GeneticRNA, Transfer, PheJournal ArticleResearch Support, Non-U.S. Gov't

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A Schwienhorst, A Schober, R Günther, P F Stadler. 1996. Hamming chromatography.. https://doi.org/10.1007/bf01544957

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