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Evolution and Selection of Quantitative Traits$
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Bruce Walsh and Michael Lynch

Print publication date: 2018

Print ISBN-13: 9780198830870

Published to Oxford Scholarship Online: September 2018

DOI: 10.1093/oso/9780198830870.001.0001

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Using Molecular Data to Detect Selection: Signatures from Recent Single Events

Using Molecular Data to Detect Selection: Signatures from Recent Single Events

(p.265) 9 Using Molecular Data to Detect Selection: Signatures from Recent Single Events
Evolution and Selection of Quantitative Traits

Bruce Walsh

Michael Lynch

Oxford University Press

Different types and phases of a selective sweep (hard, soft, partial, polygenic) generate different patterns of departures from neutrality, and hence require different tests. It is thus not surprising that a large number of tests have been proposed that use sequence information to detect ongoing, or very-recently completed, episodes of selection. This chapter critically reviews over 50 such tests, which use information on allele-frequency change, linkage disequilibrium patterns, spatial allele-frequency patterns, site-frequency spectrum data, allele-frequency spectrum data, and haplotype structure. This chapter discusses the domain of applicability for each test, and their strengths and weaknesses. Finally, this chapter examines application of these methods in the search for recent, or ongoing, selection in humans and for genes involved in the domestication process in plants and animals.

Keywords:   ABBA-test, CLRT-GOF test, domestication, Fisher-Ford test, Fst-based tests, H12 test, haplotype-based tests, Lewontin-Krakauer tests, LFMM test, marker-based tests of selection, SDS test, site-frequency spectrum tests, Tajima's D, XP-CLR test, XP-EHH test

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