Adrian A. Valli

This study evaluates scRNA-seq foundation models for plant perturbation response prediction, finding that performance varies significantly with evaluation protocol and that preserving gene identity improves generalization.

This study identifies common molecular determinants that enable potyvirus adaptation to new hosts and resistance breakdown across multiple Asteraceae species.

The paper identifies 47 new Potyviridae members, including two potential new genera, and discovers a lineage infecting fungi and oomycetes.

This study shows that Turnip mosaic virus selectively filters bacterial root microbiomes in Arabidopsis thaliana, with genotype-specific effects on community composition and network structure.

The paper shows that potyvirids can naturally lose their silencing suppressor coding sequences, reducing pathogenicity and enabling long-term plant-virus coexistence through genomic deletion.

The paper redefines programmed transcriptional slippage (PTS) in RNA viruses by showing it occurs more frequently and has broader implications than previously understood.

The paper shows that U/CBSV requires host-specific ITPase activity for infectivity in cassava but not in Nicotiana benthamiana, and that viral RdRP-ITPase binding optimizes fitness.

The paper generates a comprehensively annotated sRNA locus map for Chlamydomonas reinhardtii using machine learning, revealing both shared and distinct features compared to higher plants and animals.