Jump to ContentJump to Main Navigation
A Primer of Molecular Population Genetics$
Users without a subscription are not able to see the full content.

Asher D. Cutter

Print publication date: 2019

Print ISBN-13: 9780198838944

Published to Oxford Scholarship Online: August 2019

DOI: 10.1093/oso/9780198838944.001.0001

Show Summary Details
Page of

PRINTED FROM OXFORD SCHOLARSHIP ONLINE (www.oxfordscholarship.com). (c) Copyright Oxford University Press, 2019. All Rights Reserved. An individual user may print out a PDF of a single chapter of a monograph in OSO for personal use. date: 14 December 2019

Molecular deviants

Molecular deviants

Sequence signatures of selection and demography

Chapter:
(p.159) Chapter 8 Molecular deviants
Source:
A Primer of Molecular Population Genetics
Author(s):

Asher D. Cutter

Publisher:
Oxford University Press
DOI:10.1093/oso/9780198838944.003.0008

Chapter 8, “Molecular deviants: sequence signatures of selection and demography,” dives into the logic and mechanics of some of the most common tests of neutrality to show how and why data can reveal differences from the predictions of the standard neutral model. It introduces approaches based on skewed patterns of polymorphism alone, including Tajima’s D test, and on differentiation or divergence alone, like the Lewontin-Krakauer, Population Branch Statistic (PBS), and KA / KS relative-rates tests. Chapter 8 also covers tests of neutrality that integrate information from both within and between species, including the HKA-test and McDonald-Kreitman (MK) test. The logic for other tests of neutrality also is introduced, including ABBA-BABA, Composite Likelihood Ratio (CLR), Extended Haplotype Homozygosity (EHH), and other approaches. Practical implications of ancestral polymorphism and slightly deleterious polymorphisms are discussed, for example, in calculating and interpreting the neutrality index and fraction of positively selected sites (α‎). The goal of this chapter is to explain the logic of methods applied to molecular population genetic data to read the story of evolutionary history from the genome.

Keywords:   tests of neutrality, skewed frequency spectra, KA / KS ratios, population differentiation, admixture, HKA test, MK test

Oxford Scholarship Online requires a subscription or purchase to access the full text of books within the service. Public users can however freely search the site and view the abstracts and keywords for each book and chapter.

Please, subscribe or login to access full text content.

If you think you should have access to this title, please contact your librarian.

To troubleshoot, please check our FAQs , and if you can't find the answer there, please contact us .