NDLI: Association between divergence and interspersed repeats in mammalian noncoding genomic DNA

Content Provider	PubMed Central
Author	Chiaromonte, Francesca Yang, Shan Laura, Elnitski Yap, Von Bing Miller, Webb Hardison, Ross C.
Copyright Year	2001
Abstract	The amount of noncoding genomic DNA sequence that aligns between human and mouse varies substantially in different regions of their genomes, and the amount of repetitive DNA also varies. In this report, we show that divergence in noncoding nonrepetitive DNA is strongly correlated with the amount of repetitive DNA in a region. We investigated aligned DNA in four large genomic regions with finished human sequence and almost or completely finished mouse sequence. These regions, totaling 5.89 Mb of DNA, are on different chromosomes and vary in their base composition. An analysis based on sliding windows of 10 kb shows that the fraction of aligned noncoding nonrepetitive DNA and the fraction of repetitive DNA are negatively correlated, both at the level of an entire region and locally within it. This conclusion is strongly supported by a randomization study, in which repetitive elements are removed and randomly relocated along the sequences. Thus, regions of noncoding genomic DNA that accumulated fewer point mutations since the primate–rodent divergence also suffered fewer retrotransposition events. These results indicate that some regions of the genome are more “flexible” over the time scale of mammalian evolution, being able to accommodate many point mutations and insertions, whereas other regions are more “rigid” and accumulate fewer changes. Stronger conservation is generally interpreted as indicating more extensive or more important function. The evidence presented here of correlated variation in the rates of different evolutionary processes across noncoding DNA must be considered in assessing such conservation for evidence of selection.
Related Links	http://dx.doi.org/10.1073/pnas.251423898
Ending Page	14508
Page Count	6
Starting Page	14503
File Format	PDF
ISSN	00278424
e-ISSN	10916490
Journal	Proceedings of the National Academy of Sciences of the United States of America
Issue Number	25
Volume Number	98
Language	English
Publisher	The National Academy of Sciences
Publisher Date	2001-12-04
Access Restriction	Open
Rights Holder	The National Academy of Sciences
Subject Keyword	General Research in Higher Education
Content Type	Text
Resource Type	Article
Subject	Multidisciplinary

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