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Nucleic Acids Research, 1988, Vol. 16, No. 5 1715-1728
© 1988

Articles

A backtranslation method based on codon usage strategy

Graziano Pesole, Marcella Attimonelli and Sabino Liuni

Dipartimento di Biochimica e Biologia Molecolare, Centro Studi Mitocondri e Metabolismo Energetico (CNR), University of Bari Bari, Italy

Received August 17, 1987. Revised November 15, 1987. Accepted November 15, 1987.

This study describes a method for the backtranslation of an aminoacidic sequence, an extremely useful tool for various experimental approaches. It involves two computer programs CLUSTER and BACKTR written in Fortran 77 running on a VAX/VMS computer. CLUSTER generates a reliable codon usage table through a cluster analysis, based on a chi2-like distance between the sequences. BACKTR produces backtranslated sequences according to different options when use is made of the codon usage table obtained in addition to selecting the least ambiguous potential oligonucleotide probes within an aminoacidic sequence. The method was tested by applying it to 158 yeast genes.


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