Data for: Single-cell multi-omics in the medicinal plant Catharanthus roseus

Advances in omics technologies now permit the generation of highly
contiguous genome assemblies, detection of transcripts and metabolites at
the level of single cells and high-resolution determination of gene
regulatory features. Here, using a complementary, multi-omics approach, we
interrogated the monoterpene indole alkaloid (MIA) biosynthetic pathway
in Catharanthus roseus, a source of leading anticancer drugs. We
identified clusters of genes involved in MIA biosynthesis on the
eight C. roseus chromosomes and extensive gene
duplication of MIA pathway genes. Clustering was not limited to the linear
genome, and through chromatin interaction data, MIA pathway genes were
present within the same topologically associated domain, permitting the
identification of a secologanin transporter. Single-cell RNA-sequencing
revealed sequential cell-type-specific partitioning of the leaf MIA
biosynthetic pathway that, when coupled with a single-cell metabolomics
approach, permitted the identification of a reductase that yields the
bis-indole alkaloid anhydrovinblastine. We also revealed
cell-type-specific expression in the root MIA pathway.