The ``Hitchhiking Effect'' Revisited

INVESTIGATIONS

The ``Hitchhiking Effect'' Revisited

N. L. Kaplan, R. R. Hudson and C. H. Langley
Statistics and Biomathematics Branch, National Institute of Environmental Health Sciences, Research Triangle Park, North Carolina 27709

The number of selectively neutral polymorphic sites in a random sample of genes can be affected by ancestral selectively favored substitutions at linked loci. The degree to which this happens depends on when in the history of the sample the selected substitutions happen, the strength of selection and the amount of crossing over between the sampled locus and the loci at which the selected substitutions occur. This phenomenon is commonly called hitchhiking. Using the coalescent process for a random sample of genes from a selectively neutral locus that is linked to a locus at which selection is taking place, a stochastic, finite population model is developed that describes the steady state effect of hitchhiking on the distribution of the number of selectively neutral polymorphic sites in a random sample. A prediction of the model is that, in regions of low crossing over, strongly selected substitutions in the history of the sample can substantially reduce the number of polymorphic sites in a random sample of genes from that expected under a neutral model.

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				P. Andolfatto Hitchhiking effects of recurrent beneficial amino acid substitutions in the Drosophila melanogaster genome Genome Res., December 1, 2007; 17(12): 1755 - 1762. [Abstract] [Full Text] [PDF]

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				J. D. Jensen, V. L. Bauer DuMont, A. B. Ashmore, A. Gutierrez, and C. F. Aquadro Patterns of Sequence Variability and Divergence at the diminutive Gene Region of Drosophila melanogaster: Complex Patterns Suggest an Ancestral Selective Sweep Genetics, October 1, 2007; 177(2): 1071 - 1085. [Abstract] [Full Text] [PDF]

				T. L. Turner and M. W. Hahn Locus- and Population-Specific Selection and Differentiation between Incipient Species of Anopheles gambiae Mol. Biol. Evol., September 1, 2007; 24(9): 2132 - 2138. [Abstract] [Full Text] [PDF]

				C. Tang, C. Toomajian, S. Sherman-Broyles, V. Plagnol, Y.-L. Guo, T. T. Hu, R. M. Clark, J. B. Nasrallah, D. Weigel, and M. Nordborg The Evolution of Selfing in Arabidopsis thaliana Science, August 24, 2007; 317(5841): 1070 - 1072. [Abstract] [Full Text] [PDF]

				J. D. Jensen, K. R. Thornton, C. D. Bustamante, and C. F. Aquadro On the Utility of Linkage Disequilibrium as a Statistic for Identifying Targets of Positive Selection in Nonequilibrium Populations Genetics, August 1, 2007; 176(4): 2371 - 2379. [Abstract] [Full Text] [PDF]

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				K. Zeng, S. Mano, S. Shi, and C.-I Wu Comparisons of Site- and Haplotype-Frequency Methods for Detecting Positive Selection Mol. Biol. Evol., July 1, 2007; 24(7): 1562 - 1574. [Abstract] [Full Text] [PDF]

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				D. J. Orengo and M. Aguade Genome Scans of Variation and Adaptive Change: Extended Analysis of a Candidate Locus Close to the phantom Gene Region in Drosophila melanogaster Mol. Biol. Evol., May 1, 2007; 24(5): 1122 - 1129. [Abstract] [Full Text] [PDF]

				G. McVean The Structure of Linkage Disequilibrium Around a Selective Sweep Genetics, March 1, 2007; 175(3): 1395 - 1406. [Abstract] [Full Text] [PDF]

				T. Wiehe, V. Nolte, D. Zivkovic, and C. Schlotterer Identification of Selective Sweeps Using a Dynamically Adjusted Number of Linked Microsatellites Genetics, January 1, 2007; 175(1): 207 - 218. [Abstract] [Full Text] [PDF]

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