Accelerated sequence divergence of conserved genomic elements in Drosophila melanogaster

被引:16
作者
Holloway, Alisha K. [1 ,2 ]
Begun, David J. [1 ,2 ]
Siepel, Adam [3 ]
Pollard, Katherine S. [4 ,5 ]
机构
[1] Univ Calif Davis, Dept Ecol & Evolut, Davis, CA 95691 USA
[2] Univ Calif Davis, Ctr Populat Biol, Davis, CA 95691 USA
[3] Cornell Univ, Dept Biol Stat & Computat Biol, New York, NY 14853 USA
[4] Univ Calif Davis, UC Davis Genome Ctr, Davis, CA 95691 USA
[5] Univ Calif Davis, Dept Stat, Davis, CA 95691 USA
关键词
D O I
10.1101/gr.077131.108
中图分类号
Q5 [生物化学]; Q7 [分子生物学];
学科分类号
071010 ; 081704 ;
摘要
Recent genomic sequencing of 10 additional Drosophila genomes provides a rich resource for comparative genomics analyses aimed at understanding the similarities and differences between species and between Drosophila and mammals. Using a phylogenetic approach, we identified 64 genomic elements that have been highly conserved over most of the Drosophila tree, but that have experienced a recent burst of evolution along the Drosophila melanogaster lineage. Compared to similarly defined elements in humans, these regions of rapid lineage-specific evolution in Drosophila differ dramatically in location, mechanism of evolution, and functional properties of associated genes. Notably, the majority reside in protein-coding regions and primarily result from rapid adaptive synonymous site evolution. In fact, adaptive evolution appears to be driving substitutions to unpreferred codons. Our analysis also highlights interesting noncoding genomic regions, such as regulatory regions in the gene gooseberry-neuro and a putative novel miRNA.
引用
收藏
页码:1592 / 1601
页数:10
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