Article

Combining Directed Evolution with Machine Learning Enables Accurate Genotype-to-Phenotype Predictions

2025-01-29

Abstract excerpt

Linking sequence variation to phenotypic effects is critical for efficient exploitation of large genomic datasets. Here we present a novel approach combining directed evolution with protein language modeling to characterize naturally-evolved variants of a rice immune receptor. Using high-throughput directed evolution, we engineered the rice immune receptor Pik-1 to bind and recognize the fungal proteins Avr-PikC...

Topics

Open a Topic to create a Post that cites this publication.

Identifiers and source

Literature Corpus work: 3d0c995e-5005-5faf-816e-7ddfc41af8d8
DOI: 10.1101/2025.01.27.635131

Open publication

Related research

Semantic proximity does not establish scientific evidence.

Click a neighbor to travelStep 1 · 12 closest

Combining Directed Evolution with Machine Learning Enables Accurate Genotype-to-Phenotype PredictionsDOI 10.1101/2025.01.27.635131Read

Deep learning facilitates precise identification of disease-resistance genes in plantsSemantic proximity Read

Effector target-guided engineering of an integrated domain expands the disease resistance profile of a rice NLR immune receptorSemantic proximity Read

The allelic rice immune receptor Pikh confers extended resistance to strains of the blast fungus through a single polymorphism in the effector binding interfaceSemantic proximity Read

Computational design of <i>de novo</i> integrated domains enables rational control of pathogen effector recognition in plant NLR immune receptorsSemantic proximity Read

Bioengineering a plant NLR immune receptor with a robust binding interface towards a conserved fungal pathogen effectorSemantic proximity Read

Protein engineering expands the effector recognition profile of a rice NLR immune receptorSemantic proximity Read

Arms race co-evolution of Magnaporthe oryzae AVR-Pik and rice Pik genes driven by their physical interactions.Semantic proximity Read

The allelic rice immune receptor Pikh confers extended resistance to strains of the blast fungus through a single polymorphism in the effector binding interface.Semantic proximity Read

Two NLR immune receptors acquired high-affinity binding to a fungal effector through convergent evolution of their integrated domain.Semantic proximity Read

Allelic compatibility in plant immune receptors facilitates engineering of new effector recognition specificitiesSemantic proximity Read

Inverse folding of protein complexes with a structure-informed language model enables unsupervised antibody evolutionSemantic proximity Read

Identification of a key gain-of-function residue for effector binding by <i>in vitro</i> shuffling of barley <i>Mla NLR</i> genesSemantic proximity Read