Skip to main content

Research Repository

Advanced Search

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

Kwong, Qi Bin; Ong, Ai Ling; Teh, Chee Keng; Chew, Fook Tim; Tammi, Martti; Mayes, Sean; Kulaveerasingam, Harikrishna; Yeoh, Suat Hui; Harikrishna, Jennifer Ann; Appleton, David Ross

Authors

Qi Bin Kwong

Ai Ling Ong

Chee Keng Teh

Fook Tim Chew

Martti Tammi

SEAN MAYES SEAN.MAYES@NOTTINGHAM.AC.UK
Associate Professor

Harikrishna Kulaveerasingam

Suat Hui Yeoh

Jennifer Ann Harikrishna

David Ross Appleton



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.

Citation

Kwong, Q. B., Ong, A. L., Teh, C. K., Chew, F. T., Tammi, M., Mayes, S., …Appleton, D. R. (in press). Genomic selection in commercial perennial crops: applicability and improvement in oil palm (Elaeis guineensis Jacq.). Scientific Reports, 7, https://doi.org/10.1038/s41598-017-02602-6

Journal Article Type Article
Acceptance Date Apr 13, 2017
Online Publication Date Jun 6, 2017
Deposit Date Jun 13, 2017
Publicly Available Date Jun 13, 2017
Journal Scientific Reports
Print ISSN 2045-2322
Electronic ISSN 2045-2322
Publisher Nature Publishing Group
Peer Reviewed Peer Reviewed
Volume 7
Article Number 2872
DOI https://doi.org/10.1038/s41598-017-02602-6
Public URL http://eprints.nottingham.ac.uk/id/eprint/43533
Publisher URL http://www.nature.com/articles/s41598-017-02602-6
Copyright Statement Copyright information regarding this work can be found at the following address: http://creativecommons.org/licenses/by/4.0

Files


Kwong et al. 2017.pdf (1.7 Mb)
PDF

Copyright Statement
Copyright information regarding this work can be found at the following address: http://creativecommons.org/licenses/by/4.0





You might also like



Downloadable Citations