Genomic selection in commercial perennial crops: applicability and improvement in oil palm (Elaeis guineensis Jacq.)

Kwong, Qi Bin and Ong, Ai Ling and Teh, Chee Keng and Chew, Fook Tim and Tammi, Martti and Mayes, Sean and Kulaveerasingam, Harikrishna and Yeoh, Suat Hui and Harikrishna, Jennifer Ann and Appleton, David Ross (2017) Genomic selection in commercial perennial crops: applicability and improvement in oil palm (Elaeis guineensis Jacq.). Scientific Reports, 7 . 2872/1-2872/9. ISSN 2045-2322

[img]
Preview
PDF - Requires a PDF viewer such as GSview, Xpdf or Adobe Acrobat Reader
Available under Licence Creative Commons Attribution.
Download (1MB) | Preview

Abstract

Genomic selection (GS) uses genome-wide markers to select individuals with the desired overall combination of breeding traits. A total of 1,218 individuals from a commercial population of Ulu Remis x AVROS (UR x AVROS) were genotyped using the OP200K array. The traits of interest included: shellto- fruit ratio (S/F, %), mesocarp-to-fruit ratio (M/F, %), kernel-to-fruit ratio (K/F, %), fruit per bunch (F/B, %), oil per bunch (O/B, %) and oil per palm (O/P, kg/palm/year). Genomic heritabilities of these traits were estimated to be in the range of 0.40 to 0.80. GS methods assessed were RR-BLUP, Bayes A (BA), Cπ (BC), Lasso (BL) and Ridge Regression (BRR). All methods resulted in almost equal prediction accuracy. The accuracy achieved ranged from 0.40 to 0.70, correlating with the heritability of traits. By selecting the most important markers, RR-BLUP B has the potential to outperform other methods. The marker density for certain traits can be further reduced based on the linkage disequilibrium (LD). Together with in silico breeding, GS is now being used in oil palm breeding programs to hasten parental palm selection.

Item Type: Article
Schools/Departments: University of Nottingham, UK > Faculty of Science > School of Biosciences
Identification Number: 10.1038/s41598-017-02602-6
Depositing User: Eprints, Support
Date Deposited: 13 Jun 2017 11:13
Last Modified: 13 Oct 2017 00:13
URI: http://eprints.nottingham.ac.uk/id/eprint/43533

Actions (Archive Staff Only)

Edit View Edit View