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Review

Frontiers in Dissecting and Managing Brassica Diseases: From Reference-Based RGA Candidate Identification to Building Pan-RGAomes

School of Biological Sciences, The University of Western Australia, Perth 6009, Australia
*
Author to whom correspondence should be addressed.
These authors contributed equally to this work.
Int. J. Mol. Sci. 2020, 21(23), 8964; https://doi.org/10.3390/ijms21238964
Received: 5 November 2020 / Revised: 23 November 2020 / Accepted: 23 November 2020 / Published: 25 November 2020
The Brassica genus contains abundant economically important vegetable and oilseed crops, which are under threat of diseases caused by fungal, bacterial and viral pathogens. Resistance gene analogues (RGAs) are associated with quantitative and qualitative disease resistance and the identification of candidate RGAs associated with disease resistance is crucial for understanding the mechanism and management of diseases through breeding. The availability of Brassica genome assemblies has greatly facilitated reference-based quantitative trait loci (QTL) mapping for disease resistance. In addition, pangenomes, which characterise both core and variable genes, have been constructed for B. rapa, B. oleracea and B. napus. Genome-wide characterisation of RGAs using conserved domains and motifs in reference genomes and pangenomes reveals their clustered arrangements and presence of structural variations. Here, we comprehensively review RGA identification in important Brassica genome and pangenome assemblies. Comparison of the RGAs in QTL between resistant and susceptible individuals allows for efficient identification of candidate disease resistance genes. However, the reference-based QTL mapping and RGA candidate identification approach is restricted by the under-represented RGA diversity characterised in the limited number of Brassica assemblies. The species-wide repertoire of RGAs make up the pan-resistance gene analogue genome (pan-RGAome). Building a pan-RGAome, through either whole genome resequencing or resistance gene enrichment sequencing, would effectively capture RGA diversity, greatly expanding breeding resources that can be utilised for crop improvement. View Full-Text
Keywords: Brassica; RGA; reference-based QTL mapping; GWAS; RGASeq; pan-RGAome Brassica; RGA; reference-based QTL mapping; GWAS; RGASeq; pan-RGAome
MDPI and ACS Style

Zhang, Y.; Thomas, W.; Bayer, P.E.; Edwards, D.; Batley, J. Frontiers in Dissecting and Managing Brassica Diseases: From Reference-Based RGA Candidate Identification to Building Pan-RGAomes. Int. J. Mol. Sci. 2020, 21, 8964. https://doi.org/10.3390/ijms21238964

AMA Style

Zhang Y, Thomas W, Bayer PE, Edwards D, Batley J. Frontiers in Dissecting and Managing Brassica Diseases: From Reference-Based RGA Candidate Identification to Building Pan-RGAomes. International Journal of Molecular Sciences. 2020; 21(23):8964. https://doi.org/10.3390/ijms21238964

Chicago/Turabian Style

Zhang, Yueqi, William Thomas, Philipp E. Bayer, David Edwards, and Jacqueline Batley. 2020. "Frontiers in Dissecting and Managing Brassica Diseases: From Reference-Based RGA Candidate Identification to Building Pan-RGAomes" International Journal of Molecular Sciences 21, no. 23: 8964. https://doi.org/10.3390/ijms21238964

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