Molecular Biology and Evolution, Vol 16, 724-731, Copyright © 1999 by Society for Molecular Biology and Evolution
JA Labate, CH Biermann and WF Eanes
Intra- and interspecific nucleotide variation for the major developmental
gene runt in Drosophila was studied in D. melanogaster and D. simulans. The
1.5-kb protein-coding region and the 0.4-kb intron of the runt gene were
sequenced for 11 alleles in each species. The D. melanogaster alleles
originated from east Africa. Estimated parameters of intraspecific
variation in D. melanogaster (exons: theta = 0.018, pi = 0.018; intron:
theta = 0.014, pi = 0.014) and D. simulans (exons: theta = 0.007, pi =
0.005; intron: theta = 0.008, pi = 0.005) were below average for other
X-linked genes, while divergence between species (exons: D = 0.094; intron:
D = 0.069) fell within the normal range for both silent and replacement
changes. This estimate for runt, along with published values for three
other genes in regions of normal recombination, show east African D.
melanogaster to be roughly twice as polymorphic as D. simulans. The
majority of nucleotide variation, silent and replacement, in both species
was found to be selectively neutral using various statistical tests (HKA,
McDonald-Kreitman, Tajima, and Fu and Li tests). Monte Carlo simulations of
the coalescent process significantly rejected a Wright-Fisher model with
respect to an amino acid polymorphism and the distribution of polymorphic
sites among the D. simulans lines. This indicated an old lineage and may
reflect ancestral population substructuring in D. simulans.
ORIGINAL ARTICLE
Nucleotide variation at the runt locus in Drosophila melanogaster and Drosophila simulans
Department of Ecology and Evolution, State University of New York at Stony Brook, USA. jlabate@iastate.edu
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