The Influence of Specific Neighboring Bases on Substitution Bias in Noncoding Regions of the Plant Chloroplast Genome

摘要: Substitutions occurring in noncoding sequences of the plant chloroplast genome violate independence sites that is assumed by substitution models molecular evolution. The probability a at site transversion, as opposed to transition, increases significantly with increasing A + T content two adjacent nucleotides. In present study, this dependency substitutions on local context examined further number regions from members grass family (Poaceae). Two features were examined; influence specific neighboring bases, general content, transversion proportion and an nucleotides other than immediately substitution. both cases, significant effect was found. case nucleotides, higher pyrimidine 5′ either strand. type YNR, where N substitution, have highest rate transversion. This secondary such that, terms are transversions, ranked > C G their when they immediate neighbors, dynamics observed bases and/or T. Thus, primarily, but not exclusively, influenced composition adjacent. These results indicate pattern evolution extremely complex result variety inter-site dependencies.