Doublet frequencies and codon weighting in the DNA of Escherichia coli and its phages.
A compilation of nucleic acid sequences from E. coli and its phages has been analysed for the frequency of occurrence of nearest neighbour base doublets and codons. Several statistically significant deviations from random are found in both doublet and codon frequencies. The deviations in E. coli also appear to occur in lambda and in the coat protein gene of MS2, whereas T4 and other parts of the MS2 genome show different sequence properties. These and other findings are discussed in relation to the hypothesis that rapidity of translation of mRNAs in the E. coli system is dependent on doublet frequency and codon usage patterns.
D001483:Base Sequence; D003062:Codon; D003090:Coliphages / Q000378:metabolism*; D004269:DNA, Bacterial / Q000378:metabolism*; D004279:DNA, Viral / Q000378:metabolism*; D004926:Escherichia coli / Q000378:metabolism*; D005787:Gene Frequency; D011336:Probability; D012333:RNA, Messenger; D012486:Salmonella typhimurium / Q000378:metabolism
D003062:Codon; D004269:DNA, Bacterial; D004279:DNA, Viral; D012333:RNA, Messenger