Asymmetric subspecies-selection of an NLR-TF immune module and reconstruction of broad-spectrum disease resistance in rice

Artificial selection has greatly shaped crop agronomic traits; however, the mechanistic basis of immunity selection has remained elusive. This study identifies a new rice NLR XA48 and its downstream transcription factor OsVOZ1, which confer bacterial blight resistance. XA48 perceives an ancient pathogen effector, XopG, to activates effector-triggered immunity (ETI). The XA48-OsVOZ1 module has undergone subspecies-specific selection. Xa48 is retained in indica but functionally lost in japonica rice. OsVOZ1 has also diverged into two haplotypes, indica kept both OsVOZ1A/S alleles that match XA48; while japonica only inherited OsVOZ1A that greatly decreases yield when Xa48 is reintroduced into japonica, mechanistically explaining the Xa48 loss in japonica. We resurrected wild rice broad-spectrum resistance by stacking XA48-mediated ETI with XA21-mediated pattern-triggered immunity (PTI). Thus, our study reveals that the asymmetric selection of an NLR-TF module shapes both disease resistance and reproduction, and provides a paradigm for breeding crops by harnessing the immunity of wild relatives.