ArticlePlant & cell physiology2013
Coupling deep transcriptome analysis with untargeted metabolic profiling in Ophiorrhiza pumila to further the understanding of the biosynthesis of the anti-cancer alkaloid camptothecin and anthraquinones.
Article in Plant & cell physiology, 2013. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 33 papers.
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33 citing papers in PubMed, 89 citations in OpenAlex.
- DIMORPH: an integrated multi-omics resource for camptothecin-producing plants.Molecular horticulture · 2026Article
- 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
- Transcriptomic divergence of the Rheum palmatum complex derived from top-geoherb and non-geoherb areas provides the insights into geoherbalism properties of rhubarb.BMC genomics · 2024Article
- Transcriptome and metabolome profiling of the medicinal plantFrontiers in genetics · 2023Article
- Biotechnology for micropropagation and camptothecin production in Ophiorrhiza sp.Applied microbiology and biotechnology · 2022Review
- De Novo Transcriptome Analysis Reveals Putative Genes Involved in Anthraquinone Biosynthesis inGenes · 2022Article
- Allelopathy as an evolutionary game.Plant direct · 2022Article
- Comparative transcriptome analysis of different tissues of Rheum tanguticum Maxim. ex Balf. (Polygonaceae) reveals putative genes involved in anthraquinone biosynthesis.Genetics and molecular biology · 2022Article
- Identification of WRKY transcription factors involved in regulating the biosynthesis of the anti-cancer drug camptothecin inHorticulture research · 2022Article
- Biotechnology of camptothecin production in Nothapodytes nimmoniana, Ophiorrhiza sp. and Camptotheca acuminata.Applied microbiology and biotechnology · 2021Review
- Tissue-specific transcriptome forPhysiology and molecular biology of plants : an international journal of functional plant biology · 2021Article
- Divergent camptothecin biosynthetic pathway in Ophiorrhiza pumila.BMC biology · 2021Article
- A high-quality genome assembly of Morinda officinalis, a famous native southern herb in the Lingnan region of southern China.Horticulture research · 2021Article
- Review
- Chromosome-level genome assembly of Ophiorrhiza pumila reveals the evolution of camptothecin biosynthesis.Nature communications · 2021Article
- Hairy root culture technology: applications, constraints and prospect.Applied microbiology and biotechnology · 2021Review
- Comparative transcriptome analysis to identify candidate genes involved in 2-methoxy-1,4-naphthoquinone (MNQ) biosynthesis in Impatiens balsamina L.Scientific reports · 2020Article
- Article
- Transcriptome Analysis of Different Tissues Reveals Key Genes Associated With Galanthamine Biosynthesis inFrontiers in plant science · 2020Article
- Ethanol extract ofChinese medicine · 2020Article
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17 authors at 5 institutions in 3 countries.
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Abstract
The Rubiaceae species, Ophiorrhiza pumila, accumulates camptothecin, an anti-cancer alkaloid with a potent DNA topoisomerase I inhibitory activity, as well as anthraquinones that are derived from the combination of the isochorismate and hemiterpenoid pathways. The biosynthesis of these secondary products is active in O. pumila hairy roots yet very low in cell suspension culture. Deep transcriptome analysis was conducted in O. pumila hairy roots and cell suspension cultures using the Illumina platform, yielding a total of 2 Gb of sequence for each sample. We generated a hybrid transcriptome assembly of O. pumila using the Illumina-derived short read sequences and conventional Sanger-derived expressed sequence tag clones derived from a full-length cDNA library constructed using RNA from hairy roots. Among 35,608 non-redundant unigenes, 3,649 were preferentially expressed in hairy roots compared with cell suspension culture. Candidate genes involved in the biosynthetic pathway for the monoterpenoid indole alkaloid camptothecin were identified; specifically, genes involved in post-strictosamide biosynthetic events and genes involved in the biosynthesis of anthraquinones and chlorogenic acid. Untargeted metabolomic analysis by Fourier transform ion cyclotron resonance mass spectrometry (FT-ICR-MS) indicated that most of the proposed intermediates in the camptothecin biosynthetic pathway accumulated in hairy roots in a preferential manner compared with cell suspension culture. In addition, a number of anthraquinones and chlorogenic acid preferentially accumulated in hairy roots compared with cell suspension culture. These results suggest that deep transcriptome and metabolome data sets can facilitate the identification of genes and intermediates involved in the biosynthesis of secondary products including camptothecin in O. pumila.
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