ArticleNature communications2021
Chromosome-level genome assembly of Ophiorrhiza pumila reveals the evolution of camptothecin biosynthesis.
Article in Nature communications, 2021. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 62 papers.
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62 citing papers in PubMed.
- Cell-Specific Expression and Cellular Compartmental Regulation in Camptothecin Biosynthesis.Plant biotechnology journal · 2026Article
- Identification and Characterization of Genes Associated With Wood Property Traits via Genome Sequencing in Fast-Growing Species of GenusEvolutionary applications · 2026Article
- DIMORPH: an integrated multi-omics resource for camptothecin-producing plants.Molecular horticulture · 2026Article
- The Structure of Carboxyl Methyltransferase Provides Insights Into the Substrate Specificity and Divergent Evolution of Iridoid.Plant biotechnology journal · 2026Article
- Identification and Optimization of Kratom Strictosidine Pathway Enabled by Yeast Multiplex Engineering.bioRxiv : the preprint server for biology · 2026Article
- Orthologue inference-based enzyme mining for diversification of the anti-cancer evodiamine scaffold.Communications chemistry · 2026Article
- Chromosome-level genome assembly of the medicinal plant Ophiorrhiza japonica Blume.Scientific data · 2026Article
- Genomic architecture and evolution of heterostyly: new insights from Cordia subcordata (Boraginaceae).Molecular biology and evolution · 2026Article
- Ancient gene clusters govern the initiation of monoterpenoid indole alkaloid biosynthesis and C3 stereochemistry inversion.Nature communications · 2025Article
- A chromosome-level Mitragyna parvifolia genome unveils spirooxindole alkaloid diversification and mitraphylline biosynthesis.The Plant cell · 2025Article
- Article
- From data to discovery: leveraging big data in plant natural products biosynthesis research.The Plant journal : for cell and molecular biology · 2025Review
- Multi-omics analysis reveals tissue-specific biosynthesis and accumulation of diterpene alkaloids in Aconitum japonicum.Journal of natural medicines · 2025Article
- Multi-Omics Analysis Decodes Biosynthesis of Specialized Metabolites Constituting the Therapeutic Terrains ofInternational journal of molecular sciences · 2025Article
- A near-complete genome assembly of Cinchona calisaya.Scientific data · 2025Article
- Development of phytochemical genomics: From decoding metabolome to functional genomics and biotechnology of plant metabolism.Proceedings of the Japan Academy. Series B, Physical and biological sciences · 2025Review
- Genome-based discovery of pachysiphine synthases in Tabernaemontana elegans.The Plant journal : for cell and molecular biology · 2024Article
- Genome mining of metabolic gene clusters in the Rubiaceae family.Computational and structural biotechnology journal · 2024Article
- Evolution and Domestication of a Novel Biosynthetic Gene Cluster Contributing to the Flavonoid Metabolism and High-Altitude Adaptability of Plants in the Fagopyrum Genus.Advanced science (Weinheim, Baden-Wurttemberg, Germany) · 2024Article
- Insights from the first chromosome-level genome assembly of the alpine gentian Gentiana straminea Maxim.DNA research : an international journal for rapid publication of reports on genes and genomes · 2024Article
2 more citing papers are in PubMed but not listed here.
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19 authors.
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Abstract
Plant genomes remain highly fragmented and are often characterized by hundreds to thousands of assembly gaps. Here, we report chromosome-level reference and phased genome assembly of Ophiorrhiza pumila, a camptothecin-producing medicinal plant, through an ordered multi-scaffolding and experimental validation approach. With 21 assembly gaps and a contig N50 of 18.49 Mb, Ophiorrhiza genome is one of the most complete plant genomes assembled to date. We also report 273 nitrogen-containing metabolites, including diverse monoterpene indole alkaloids (MIAs). A comparative genomics approach identifies strictosidine biogenesis as the origin of MIA evolution. The emergence of strictosidine biosynthesis-catalyzing enzymes precede downstream enzymes' evolution post γ whole-genome triplication, which occurred approximately 110 Mya in O. pumila, and before the whole-genome duplication in Camptotheca acuminata identified here. Combining comparative genome analysis, multi-omics analysis, and metabolic gene-cluster analysis, we propose a working model for MIA evolution, and a pangenome for MIA biosynthesis, which will help in establishing a sustainable supply of camptothecin.
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