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Genomic prediction and genomic heritability of grain yield and its related traits in a safflower genebank collection

journal contribution
posted on 14.12.2020, 21:56 by Huanhuan Zhao, Yongjun Li, Joanna Petkowski, Surya Kant, Matthew Hayden, Hans Daetwyler
Safflower, a minor oilseed crop, is gaining increased attention for food and industrial uses. Safflower genebank collections are an important genetic resource for crop enhancement and future breeding programs. In this study, we investigated the population structure of a safflower collection sourced from the Australian Grain Genebank and assessed the potential of genomic prediction (GP) to evaluate grain yield and related traits using single and multi-site models. Prediction accuracies (PA) of genomic best linear unbiased prediction (GBLUP) from single site models ranged from 0.21 to 0.86 for all traits examined and were consistent with estimated genomic heritability (h2 ), which varied from low to moderate across traits. We generally observed a low level of genome × environment interactions (g × E). Multi-site g × E GBLUP models only improved PA for accessions with at least some phenotypes in the training set. We observed that relaxing quality filtering parameters for genotype-by-sequencing (GBS), such as missing genotype call rate, did not affect PA but upwardly biased h2 estimation. Our results indicate that GP is feasible in safflower evaluation and is potentially a cost-effective tool to facilitate fast introgression of desired safflower trait variation from genebank germplasm into breeding lines.

Funding

This study was funded by Agriculture Victoria, GO Resources and the Australian Cooperative Research Centres., Grant/Award Number: CRC_P54024

History

School

  • School of Applied Systems Biology

Publication Date

02/11/2020

Journal

Plant Genome

Article Number

e20064

Pagination

15p. (p. 1-15)

Publisher

Wiley

ISSN

1940-3372

Rights Statement

The Author reserves all moral rights over the deposited text and must be credited if any re-use occurs. Documents deposited in OPAL are the Open Access versions of outputs published elsewhere. Changes resulting from the publishing process may therefore not be reflected in this document. The final published version may be obtained via the publisher’s DOI. Please note that additional copyright and access restrictions may apply to the published version.

Licence

Exports