Applications of Machine Learning Methods to Genomic Selection in Breeding Wheat for Rust Resistance

The Plant Genome
J M González-CamachoJose Crossa

Abstract

New methods and algorithms are being developed for predicting untested phenotypes in schemes commonly used in genomic selection (GS). The prediction of disease resistance in GS has its own peculiarities: a) there is consensus about the additive nature of quantitative adult plant resistance (APR) genes, although epistasis has been found in some populations; b) rust resistance requires effective combinations of major and minor genes; and c) disease resistance is commonly measured based on ordinal scales (e.g., scales from 1-5, 1-9, etc.). Machine learning (ML) is a field of computer science that uses algorithms and existing samples to capture characteristics of target patterns. In this paper we discuss several state-of-the-art ML methods that could be applied in GS. Many of them have already been used to predict rust resistance in wheat. Others are very appealing, given their performance for predicting other wheat traits with similar characteristics. We briefly describe the proposed methods in the Appendix.

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Citations

Sep 20, 2019·G3 : Genes - Genomes - Genetics·Christina B AzodiShin-Han Shiu
Oct 6, 2020·The Plant Genome·Paulino Pérez-RodríguezJosé Crossa
Jan 19, 2019·International Journal of Molecular Sciences·Liqiang HeFrank M You
Apr 8, 2020·Animal Frontiers : the Review Magazine of Animal Agriculture·Anita SeidelGeorg Thaller
Oct 23, 2020·Journal of Animal Breeding and Genetics = Zeitschrift Für Tierzüchtung Und Züchtungsbiologie·Mang LiangHuijiang Gao
Nov 20, 2020·Scientific Reports·Alexandre Hild AonoReginaldo Massanobu Kuroshu
Dec 4, 2019·G3 : Genes - Genomes - Genetics·Sai Krishna ArojjuMarty J Faville
Jan 2, 2021·Journal of Plant Physiology·Hao Tong, Zoran Nikoloski
Jan 21, 2021·Frontiers in Plant Science·Karansher S SandhuArron H Carter
Mar 3, 2021·Heredity·Abelardo Montesinos-LópezJosé Crossa
Oct 16, 2020·International Journal of Molecular Sciences·Magdalena GóralskaBeata Myśków
Mar 23, 2021·Frontiers in Genetics·Mang LiangHuijiang Gao
Jun 3, 2021·International Journal of Molecular Sciences·Antonia MoresDaniela Marone
Aug 24, 2021·Frontiers in Plant Science·Lance F MerrickArron H Carter

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