Files and links (2)
Published (Version of record)Genome-wide association studies for yield component traits in a macadamia breeding populationCC BY V4.0, Open Access
Published (Version of record)CC BY V4.0, Open
Journal article
Genome-wide association studies for yield component traits in a macadamia breeding population
BMC Genomics, Vol.21, 199
04/03/2020
PMID: 32131725
Metrics
27 File views/ downloads
64 Record Views
UN Sustainable Development Goals (SDGs)
This output has contributed to the advancement of the following goals:
Source: InCites
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 suggested that some SNPs were detecting the same QTL. There were 44 significant SNPs identified for TC although multiple regression suggested detection of 16 separate QTLs. These findings have important implications for macadamia breeding, and highlight the difficulties of heterozygous populations with rapid LD decay. By coupling validated marker-trait associations detected through GWAS with MAS, genetic gain could be increased by reducing the selection time for economically important nut characteristics. Genomic selection may be a more appropriate method to predict complex traits like tree size and yield.
Details
- Title
- Genome-wide association studies for yield component traits in a macadamia breeding population
- Creators
- Katie O'Connor (Corresponding Author) - Queensland Department of Agriculture and FisheriesBen Hayes - University of QueenslandCraig M Hardner - University of QueenslandCatherine Jane Nock - Southern Cross UniversityAbdul K M Baten - Southern Cross UniversityMobashwer Alam - University of QueenslandRobert J Henry - University of QueenslandBruce L Topp - University of Queensland
- Publication Details
- BMC Genomics, Vol.21, 199
- Publisher
- BMC (part of Springer Nature)
- Identifiers
- 991012862796802368
- Academic Unit
- Faculty of Science and Engineering; Science; Southern Cross Plant Science
- Language
- English
- Resource Type
- Journal article