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- W2130147991 abstract "To identify potential selection pressures which lead to RNA sequence conservation, we examined the occurrence rates of dinucleotides in 64 singlestranded RNA virus genomes. These viruses may offer a particular insight into these pressures since their RNA-dependent RNA polymerases lack proofreading capability. This potentiates introduction of mutations into their genomes, yet unidentified selection processes conserve the genomes to a large degree. We report a strong inverse correlation between the C G content and the occurrence of the CpG dinucleotide (r = 0·71) in the RNA virus genomes, in contrast to earlier reports (Karlin et al., 1994, Journal of Virology 68, 2889–2897). We also detected significant suppression of UpA, correlating inversely with genomic U A content. These sup-pressions are coupled with over-representation of the complementary pair of dinucleotides, CpA and UpG. In addition, we highlight the fact that odds ratios for dinucleotides are not independent variables, a situation apparently not widely appreciated in the literature. This led us to view the over-representation of CpA and UpG as a consequential outcome of UpA and CpG suppression in the virus genomes. Potential factors influencing these disturbances are discussed. In addition, higher than random incidence was observed for ‘out-of-frame’ stop codons in the viral RNA genomes, with some preferences for individual codons being exhibited by certain virus groups. The UAG codon appeared more common in the M1 frame, the UGA in the 1 frame." @default.
- W2130147991 created "2016-06-24" @default.
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- W2130147991 date "1997-11-01" @default.
- W2130147991 modified "2023-10-11" @default.
- W2130147991 title "Dinucleotide and stop codon frequencies in single-stranded RNA viruses." @default.
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- W2130147991 doi "https://doi.org/10.1099/0022-1317-78-11-2859" @default.
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