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GWAS-Assisted Genomic Prediction to Predict Resistance to Septoria Tritici Blotch in Nordic Winter Wheat at Seedling Stage

Odilbekov, Firuz and Armoniené, Rita and Koc, Alexander and Svensson, Jan and Chawade, Aakash (2019). GWAS-Assisted Genomic Prediction to Predict Resistance to Septoria Tritici Blotch in Nordic Winter Wheat at Seedling Stage. Frontiers in Genetics. 10 , 1224
[Journal article]

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Abstract

Septoria tritici blotch (STB) disease caused by Zymoseptoria tritici is one of the most damaging diseases of wheat causing significant yield losses worldwide. Identification and employment of resistant germplasm is the most cost-effective method to control STB. In this study, we characterized seedling stage resistance to STB in 175 winter wheat landraces and old cultivars of Nordic origin. The study revealed significant (p < 0.05) phenotypic differences in STB severity in the germplasm. Genome-wide association analysis (GWAS) using five different algorithms identified ten significant markers on five chromosomes. Six markers were localized within a region of 2 cM that contained seven candidate genes on chromosome 1B. Genomic prediction (GP) analysis resulted in a model with an accuracy of 0.47. To further improve the prediction efficiency, significant markers identified by GWAS were included as fixed effects in the GP model. Depending on the number of fixed effect markers, the prediction accuracy improved from 0.47 (without fixed effects) to 0.62 (all non-redundant GWAS markers as fixed effects), respectively. The resistant genotypes and single-nucleotide polymorphism (SNP) markers identified in the present study will serve as a valuable resource for future breeding for STB resistance in wheat. The results also highlight the benefits of integrating GWAS with GP to further improve the accuracy of GP.

Authors/Creators:Odilbekov, Firuz and Armoniené, Rita and Koc, Alexander and Svensson, Jan and Chawade, Aakash
Title:GWAS-Assisted Genomic Prediction to Predict Resistance to Septoria Tritici Blotch in Nordic Winter Wheat at Seedling Stage
Series Name/Journal:Frontiers in Genetics
Year of publishing :2019
Volume:10
Article number:1224
Number of Pages:10
Publisher:FRONTIERS MEDIA SA
ISSN:1664-8021
Language:English
Publication Type:Journal article
Article category:Scientific peer reviewed
Version:Published version
Copyright:Creative Commons: Attribution 4.0
Full Text Status:Public
Subjects:(A) Swedish standard research categories 2011 > 4 Agricultural Sciences > 404 Agricultural Biotechnology > Genetics and Breeding
Keywords:GWAS - genome-wide association study, genomic prediction (GP), genomic selection (GS), wheat, Septoria tritici blotch (STB), Quantitative trait loci (QTL)
URN:NBN:urn:nbn:se:slu:epsilon-p-109318
Permanent URL:
http://urn.kb.se/resolve?urn=urn:nbn:se:slu:epsilon-p-109318
Additional ID:
Type of IDID
DOI10.3389/fgene.2019.01224
Web of Science (WoS)000587358700001
ID Code:19765
Faculty:LTV - Fakulteten för landskapsarkitektur, trädgårds- och växtproduktionsvetenskap
Department:(LTJ, LTV) > Department of Plant Breeding (from 130101)
Deposited By: SLUpub Connector
Deposited On:23 Dec 2020 07:43
Metadata Last Modified:23 Dec 2020 07:51

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