The promise and deceit of genomic selection component analyses

Author:

Kelly John K.1ORCID

Affiliation:

1. Department of Ecology and Evolutionary Biology, University of Kansas, Lawrence, KS, USA

Abstract

Selection component analyses (SCA) relate individual genotype to fitness components such as viability, fecundity and mating success. SCA are based on population genetic models and yield selection estimates directly in terms of predicted allele frequency change. This paper explores the statistical properties of gSCA: experiments that apply SCA to genome-wide scoring of SNPs in field sampled individuals. Computer simulations indicate that gSCA involving a few thousand genotyped samples can detect allele frequency changes of the magnitude that has been documented in field experiments on diverse taxa. To detect selection, imprecise genotyping from low-level sequencing of large samples of individuals provides much greater power than precise genotyping of smaller samples. The simulations also demonstrate the efficacy of ‘haplotype matching’, a method to combine information from a limited collection of whole genome sequence (the reference panel) with the much larger sample of field individuals that are measured for fitness. Pooled sequencing is demonstrated as another way to increase statistical power. Finally, I discuss the interpretation of selection estimates in relation to the Beavis effect, the overestimation of selection intensities at significant loci.

Funder

National Science Foundation

National Institute of Health

Publisher

The Royal Society

Subject

General Agricultural and Biological Sciences,General Environmental Science,General Immunology and Microbiology,General Biochemistry, Genetics and Molecular Biology,General Medicine

Reference55 articles.

1. Arnold SJ. 1994 Multivariate inheritance and evolution: a review of concepts. In Quantitative genetic studies of behavioral evolution (ed. CRB Boake), pp. 17-48. Chicago, IL: University of Chicago Press.

2. PREDICTING MICROEVOLUTIONARY RESPONSES TO DIRECTIONAL SELECTION ON HERITABLE VARIATION

3. Understanding and using quantitative genetic variation

4. Selection component analysis of natural polymorphisms using population samples including mother-offspring combinations

5. Allard RW, Kahler AL, Clegg MT. 1977 Estimation of mating cycle components of selection in plants. In Measuring selection in natural populations (eds FB Christiansen, TM Fenchel). Berlin, Heidelberg: Springer.

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1. Defining Fitness in Evolutionary Ecology;International Journal of Plant Sciences;2024-05-01

2. Taking quantitative genomics into the wild;Proceedings of the Royal Society B: Biological Sciences;2022-12-21

3. The promise and deceit of genomic selection component analyses;Proceedings of the Royal Society B: Biological Sciences;2021-10-27

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