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Nucleic Acids Research, 1989, Vol. 17, No. 5 1839-1843
© 1989

MOLECULAR BIOLOGY

Codon usage and secondary structure of MS2 phage RNA

Michael Bulmer

Departmet of Statistic 1 South Parks Road, Oxford OX1 3TG, UK

Received October 20, 1988. Revised February 14, 1989. MS2 is an RNA bacteriophage (3569 bases). The secondaty structure of the RNA has been determined, and is known to play an important role in regulating translation. Paired regions of the genome have a higher G + C content than unpaired regions. It has been suggested that this reflects selection for high G + C content to encourage pairing, but a re-analysis of the data together with computer simulation suggest that it is an automatic consequence in any RNA sequence of the way it folds up to minimise its free energy. It has also been suggested that the three registers in which pairing can occur in a coding region are used differentially to optimise the use of the redundancy of the genetic code, but re-analysis of the data shows only weak statistical support for this hypothesis.


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