Heterogeneous genomic molecular clocks in primates

被引:75
作者
Kim, Seong-Ho
Elango, Navin
Warden, Charles
Vigoda, Eric
Yi, Soojin V. [1 ]
机构
[1] Georgia Inst Technol, Sch Biol, Atlanta, GA 30332 USA
[2] Georgia Inst Technol, Coll Comp, Atlanta, GA 30332 USA
来源
PLOS GENETICS | 2006年 / 2卷 / 10期
关键词
D O I
10.1371/journal.pgen.0020163
中图分类号
Q3 [遗传学];
学科分类号
071007 ; 090102 ;
摘要
Using data from primates, we show that molecular clocks in sites that have been part of a CpG dinucleotide in recent past ( CpG sites) and non-CpG sites are of markedly different nature, reflecting differences in their molecular origins. Notably, single nucleotide substitutions at non-CpG sites show clear generation-time dependency, indicating that most of these substitutions occur by errors during DNA replication. On the other hand, substitutions at CpG sites occur relatively constantly over time, as expected from their primary origin due to methylation. Therefore, molecular clocks are heterogeneous even within a genome. Furthermore, we propose that varying frequencies of CpG dinucleotides in different genomic regions may have contributed significantly to conflicting earlier results on rate constancy of mammalian molecular clock. Our conclusion that different regions of genomes follow different molecular clocks should be considered when inferring divergence times using molecular data and in phylogenetic analysis.
引用
收藏
页码:1527 / 1534
页数:8
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