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Review
. 2023 Jan 19:14:1092584.
doi: 10.3389/fpls.2023.1092584. eCollection 2023.

Digitalizing breeding in plants: A new trend of next-generation breeding based on genomic prediction

Donghyun Jeon  1 , Yuna Kang  2 , Solji Lee  2 , Sehyun Choi  2 , Yeonjun Sung  1 , Tae-Ho Lee  3 , Changsoo Kim  1   2
Affiliations
Review

Digitalizing breeding in plants: A new trend of next-generation breeding based on genomic prediction

Donghyun Jeon et al. Front Plant Sci. .

Abstract

As the world's population grows and food needs diversification, the demand for cereals and horticultural crops with beneficial traits increases. In order to meet a variety of demands, suitable cultivars and innovative breeding methods need to be developed. Breeding methods have changed over time following the advance of genetics. With the advent of new sequencing technology in the early 21st century, predictive breeding, such as genomic selection (GS), emerged when large-scale genomic information became available. GS shows good predictive ability for the selection of individuals with traits of interest even for quantitative traits by using various types of the whole genome-scanning markers, breaking away from the limitations of marker-assisted selection (MAS). In the current review, we briefly describe the history of breeding techniques, each breeding method, various statistical models applied to GS and methods to increase the GS efficiency. Consequently, we intend to propose and define the term digital breeding through this review article. Digital breeding is to develop a predictive breeding methods such as GS at a higher level, aiming to minimize human intervention by automatically proceeding breeding design, propagating breeding populations, and to make selections in consideration of various environments, climates, and topography during the breeding process. We also classified the phases of digital breeding based on the technologies and methods applied to each phase. This review paper will provide an understanding and a direction for the final evolution of plant breeding in the future.

Keywords: AI breeding; GWAS; MAS; QTLs; deep learning; genomic prediction; high throughput phenotyping; machine learning.

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Conflict of interest statement

The authors declare that the research was conducted in the absence of any commercial or financial relationships that could be construed as a potential conflict of interest.

Figures

Figure 1
Figure 1
Schematic diagram of plant breeding using molecular markers.
Figure 2
Figure 2
Schematic diagram of genomic selection.
Figure 3
Figure 3
Classification of GS statistical models.
Figure 4
Figure 4
Multilayer perceptron structure with 3 hidden layers.
Figure 5
Figure 5
The structure of the CNN topology.
See this image and copyright information in PMC

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