A large-scale pedigree resource of wheat reveals evidence for adaptation and selection by breeders

PLoS Biology
Nick FradgleyIan J Mackay

Abstract

Information on crop pedigrees can be used to help maximise genetic gain in crop breeding and allow efficient management of genetic resources. We present a pedigree resource of 2,657 wheat (Triticum aestivum L.) genotypes originating from 38 countries, representing more than a century of breeding and variety development. Visualisation of the pedigree enables illustration of the key developments in United Kingdom wheat breeding, highlights the wide genetic background of the UK wheat gene pool, and facilitates tracing the origin of beneficial alleles. A relatively high correlation between pedigree- and marker-based kinship coefficients was found, which validated the pedigree and enabled identification of errors in the pedigree or marker data. Using simulations with a combination of pedigree and genotype data, we found evidence for significant effects of selection by breeders. Within crosses, genotypes are often more closely related than expected by simulations to one of the parents, which indicates selection for favourable alleles during the breeding process. Selection across the pedigree was demonstrated on a subset of the pedigree in which 110 genotyped varieties released before the year 2000 were used to simulate the distributi...Continue Reading

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Citations

Jan 10, 2020·TAG. Theoretical and applied genetics. Theoretische und angewandte Genetik·Beatrice CorsiJames Cockram
Oct 14, 2020·TAG. Theoretical and applied genetics. Theoretische und angewandte Genetik·Min LinMorten Lillemo
Nov 27, 2020·Nature·Sean WalkowiakCurtis J Pozniak
Feb 3, 2021·Nature Plants·Alexandra M Przewieslik-AllenKeith J Edwards
Mar 27, 2021·Biochemical Society Transactions·Nick S FradgleyStéphanie M Swarbreck
Mar 28, 2021·G3 : Genes - Genomes - Genetics·Dominique D A PincotSteven J Knapp
Aug 9, 2021·Journal of Genetics and Genomics = Yi Chuan Xue Bao·Junyu ChenLiangyong Ma
Jul 22, 2021·Plant Biotechnology Journal·Michael C U Hammond-KosackKim E Hammond-Kosack
Nov 16, 2021·TAG. Theoretical and applied genetics. Theoretische und angewandte Genetik·Rajiv SharmaIan J Mackay
Nov 26, 2021·TAG. Theoretical and applied genetics. Theoretische und angewandte Genetik·Laura BouvetJames Cockram
Nov 28, 2021·TAG. Theoretical and applied genetics. Theoretische und angewandte Genetik·Laura BouvetJames Cockram
Dec 14, 2021·G3 : Genes - Genomes - Genetics·Oluwaseyi ShorinolaCristobal Uauy

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Methods Mentioned

BETA
genotyping

Software Mentioned

RGT
Pedigree Viewer
Helium
R
Ensign
Genedrop
Maris
Cyber
kinship2
Pedimap

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