Genomic surveillance urgently needed to control wheat blast pandemic spreading across continents

A new study in PLOS Biology highlights the alarming potential of a pandemic clone of wheat blast disease to evolve fungicide-insensitive variants and argues the urgent need for genomic surveillance and preemptive breeding of resistant wheat.

Funding: The author received funding from Wellcome Trust ISSF Springboard Fellowship (PSN105 to JR and 219551/Z/19/Z to JR). The funders had no role in study design, data collection and analysis, decision to publish, or preparation of the manuscript.
Competing interests: I have read the journal's policy and the authors of this manuscript have the following competing interests: The author has previous received an honorarium from Gilead Sciences for a seminar genomic surveillance system would therefore improve tracking and monitoring of Wheat Blast, enabling the identification of variants of concern soon after they emerge. This would subsequently enable implementation of management strategies, such as containment or quarantine, or "wheat holidays" where wheat cultivation in Wheat Blast-affected or vulnerable area is suspended [2].
Yet the value of the genomic data generated by Latorre and colleagues has been in the identification of effectors that can be targeted by the plant immune system. Since plant pathogens secrete effectors to cause infection, the host has used this same system to trigger plant immunity through avirulence activity. Previous research efforts have shown that the most predictive avirulence effector for Wheat Blast resistance is AVR-Rmg8, which carries the resistance gene Rmg8 and subsequently creating an immune response in the host [5]. By sequencing the genomes of pandemic B71 isolates, Latorre and colleagues have shown that these clonal strains are incapable of infecting wheat plants with Rmg8 because AVR-Rmg8 is conserved within this particular lineage. This offers a rare and promising opportunity to prevent massive food insecurity by breeding and distributing B71-resistant wheat varieties that carry Rmg8 to high-risk areas. Yet, as we are constantly in an "arms race" with pathogens, it is likely Wheat Blast would eventually evolve virulent strains. Therefore, breeding programs could combine Rmg8 with additional sources of resistance, such as other resistance genes including Rmg2, Rmg3, Rmg7, and RmgGR119 [2]. Resistance, or "R" genes with broad spectrum resistance, should also be considered. With the accumulation of more whole genome sequences, genome-wide association studies will also identify potential loci for Wheat Blast resistance.
Future breeding programs could utilize the versatile CRISPR/Cas genome editing systems in short time frame. The Cas9 system for DNA modification has recently been used to enhance disease resistance in rice against rice blast disease caused by M. oryzae [6], suggesting similar potential for wheat, too. More recently, the RNA editing Cas13 system also provides an avenue to explore to generate Wheat Blast-resistant wheat varieties [7]. However, these genome editing systems also enable manipulation of the M. oryzae genome, creating mutants with reduced growth, differential pathogenicity, or altered germination qualities. Ultimately, more longterm strategies should look into plant disease management via the targeting of plant disease resistance mechanisms as well as the potential for fungal genome editing using CRISPR/Cas systems. These strategies could be preferable to more extreme measures, such as quarantine or border control to prevent the spread of fungi via trade routes, which would ultimately disrupt the market and the capacity to create a spike in food prices.
While breeding and surveillance strategies may be more long-term solutions, in the short term, B71 isolates were also seen to be sensitive to strobilurin fungicides. However, we cannot heavily rely on fungicide treatment to mitigate the spread of the pandemic lineage, which is at risk of developing resistance via a nonsynonymous SNP causing a glycine to alanine shift (G1243C) in Cytochrome B (CYTB). Wheat Blast isolates are also capable of mating with prevailing finger miller blast isolates, which would potentially create more genetic diversity and drive the evolutionary potential of this pandemic lineage.
It is clear that M. oryzae is evolving quickly and could cause potentially disastrous crop losses and failures in various regions of the world, if its spread is allowed to continue. In order to prevent global food insecurity, it is vital we heed the findings in Latorre and colleagues and work together (as highlighted by their efforts through the OpenWheatBlast Community) to create a global effort to prevent any further destruction.