Genetics, Vol. 160, 493-507, February 2002, Copyright © 2002

Patterns of Genetic Variation at a Chromosome 4 Locus of Drosophila melanogaster and D. simulans

Mark A. Jensena, Brian Charleswortha, and Martin Kreitmana
a Department of Ecology and Evolution, University of Chicago, Chicago, Illinois 60637-1573

Corresponding author: Brian Charlesworth, Animal and Population Biology, University of Edinburgh, W. Mains Rd., Edinburgh EH9 3JT, United Kingdom., brian.charlesworth{at}ed.ac.uk (E-mail)

Communicating editor: W. STEPHAN

DNA sequence surveys of Drosophila melanogaster populations show a strong positive correlation between the recombination rate experienced by a locus and its level of nucleotide polymorphism. In particular, surveys of the fourth chromosome gene ciD show greatly reduced levels of nucleotide variation; this observation was originally interpreted in terms of selective sweeps occurring on the nonrecombining fourth chromosome. Subsequent theoretical work has, however, uncovered several other selective processes that can reduce variation. In this study, we revisit the Drosophila fourth chromosome, investigating variation in 5–6 kb of the gene ankyrin in D. melanogaster and D. simulans. Silent nucleotide site diversity is ~5 x 10-4 for both species, consistent with the previous observations of low variation at ciD. Given the observed frequency spectra at ankyrin, coalescent simulations indicate that reduced diversity in the region is unlikely to be due to a selective sweep alone. We find evidence for recombinational exchange at this locus, and both species appear to be fixed for an insertion of the transposable element HB in an intron of ankyrin.




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