The evolution of isochores: Evidence from SNP frequency distributions

M J Lercher, N G C Smith, A Eyre-Walker, L D Hurst

Research output: Contribution to journalArticlepeer-review

47 Citations (Scopus)

Abstract

The large-scale systematic variation in nucleotide composition along mammalian and avian genomes has been a focus of the debate between neutralist and selectionist views of molecular evolution. Here we test whether the compositional variation is due to mutation bias using two new tests, which do not assume compositional equilibrium. In the first test we assume a standard population genetics model, but in the second we make no assumptions about the underlying population genetics. We apply the tests to single nucleotide polymorphism data from noncoding regions of the human genome. Both models of neutral mutation bias fit the frequency distributions of SNPs segregating in low- and medium-GC-content regions of the genome adequately, although both suggest compositional nonequilibrium. However, neither model fits the frequency distribution of SNPs from the high-GC-content regions. In contrast, a simple population genetics model that incorporates selection or biased gene conversion cannot be rejected. The results suggest that mutation biases are not solely responsible for the compositional biases found in noncoding regions.
Original languageEnglish
Pages (from-to)1805-1810
Number of pages6
JournalGenetics
Volume162
Issue number4
Publication statusPublished - 2002

Fingerprint Dive into the research topics of 'The evolution of isochores: Evidence from SNP frequency distributions'. Together they form a unique fingerprint.

Cite this