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Mol Biol Evol. 2012 Aug;29(8):1943-55. PubMed; doi 10.1093/molbev/mss071

Heterogeneity of the transition/transversion ratio in Drosophila and Hominidae genomes.

Seplyarskiy, V. B.; Kharchenko, P.; Kondrashov, A. S.; Bazykin, G. A.

Mutation rate varies between sites in the genome. Part of this variation can be explained by well-recognized short nucleotide contexts, but a large component of this variation remains cryptic. We used data on interspecies divergence and intraspecies polymorphism in Drosophila and Hominidae to analyze variation of the average rate of the 12 possible kinds of single-nucleotide mutations and in the transition/transversion ratio kappa at single-nucleotide resolution. Both the average mutation rate and kappa vary by a factor of ~3 between nucleotide sites. The characteristic scale of variation in kappa is up to at least ~30 nucleotides in Drosophila and ~5 nucleotides in Hominidae. Genome segments with locally elevated mutation rates possess lower values of kappa; however, a substantial fraction of variation in kappa cannot be directly explained by the local mutation rates.



 


  Московский Государственный Университет имени М.В.Ломоносова



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Московского Государственного Университета имени М.В.Ломоносова


 





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