Genome-wide association studies for yield component traits in a macadamia breeding population

BMC Genomics
Katie O'ConnorBruce Topp

Abstract

Breeding for new macadamia cultivars with high nut yield is expensive in terms of time, labour and cost. Most trees set nuts after four to five years, and candidate varieties for breeding are evaluated for at least eight years for various traits. Genome-wide association studies (GWAS) are promising methods to reduce evaluation and selection cycles by identifying genetic markers linked with key traits, potentially enabling early selection through marker-assisted selection. This study used 295 progeny from 32 full-sib families and 29 parents (18 phenotyped) which were planted across four sites, with each tree genotyped for 4113 SNPs. ASReml-R was used to perform association analyses with linear mixed models including a genomic relationship matrix to account for population structure. Traits investigated were: nut weight (NW), kernel weight (KW), kernel recovery (KR), percentage of whole kernels (WK), tree trunk circumference (TC), percentage of racemes that survived from flowering through to nut set, and number of nuts per raceme. Seven SNPs were significantly associated with NW (at a genome-wide false discovery rate of < 0.05), and four with WK. Multiple regression, as well as mapping of markers to genome assembly scaffolds sugge...Continue Reading

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Citations

Jan 15, 2021·Current Opinion in Plant Biology·Showkat Ahmad GanieGoetz Hensel
Aug 5, 2020·G3 : Genes - Genomes - Genetics·Catherine J NockGraham J King

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Datasets Mentioned

BETA
ERS2953073

Methods Mentioned

BETA
genotyping

Software Mentioned

ASReml
MAS
R
DArT

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