ArticleNature communications2020
Gene clustering and copy number variation in alkaloid metabolic pathways of opium poppy.
Article in Nature communications, 2020. The graph could read no effect estimate from its abstract, so it casts no vote on the map. An erratum has been issued. Cited by 41 papers.
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Who cites it
41 citing papers in PubMed, 78 citations in OpenAlex.
- Systematic prioritization of candidate genes in camptothecin biosynthesis using multi-omics and deep learning.The plant genome · 2026Article
- Structural Variation and Its Roles in Plant Genomes.Plants (Basel, Switzerland) · 2026Review
- Advances in Functional Genomics and Biotechnology for Enhancing Therapeutic Potential of Medicinal Plants.International journal of molecular sciences · 2026Review
- Uncovering the molecular basis of high morphinan product efficiency in opium poppy through Multi-omics integrated analysis with multi-capsules.Plant molecular biology · 2026Article
- Article
- Ancient gene clusters govern the initiation of monoterpenoid indole alkaloid biosynthesis and C3 stereochemistry inversion.Nature communications · 2025Article
- Network-based identification of hub transcription factors associated with benzylisoquinoline alkaloid biosynthesis inBiochemistry and biophysics reports · 2025Article
- Spatiotemporal dynamics of benzylisoquinoline alkaloid gene expression and co-expression networks during Papaver Somniferum developmental stages.Scientific reports · 2025Article
- From data to discovery: leveraging big data in plant natural products biosynthesis research.The Plant journal : for cell and molecular biology · 2025Review
- A Systematic Review of the Advances and New Insights into Copy Number Variations in Plant Genomes.Plants (Basel, Switzerland) · 2025Review
- The origins and spread of the opium poppy (Philosophical transactions of the Royal Society of London. Series B, Biological sciences · 2025Article
- Codeine 3-O-demethylase catalyzed biotransformation of morphinan alkaloids in Escherichia coli: site directed mutagenesis of terminal residues improves enzyme expression, stability and biotransformation yield.Journal of biological engineering · 2025Article
- DNA methylation orchestrates secondary metabolite biosynthesis and transport in Papaver somniferum.PloS one · 2025Article
- Genomic and cell-specific regulation of benzylisoquinoline alkaloid biosynthesis in opium poppy.Journal of experimental botany · 2025Review
- Bioinformatics deciphers the thebaine biosynthesis pathway in opium poppy: Hub genes, network analysis, and miRNA regulation.Journal, genetic engineering & biotechnology · 2024Article
- A developmental gradient reveals biosynthetic pathways to eukaryotic toxins in monocot geophytes.Cell · 2024Article
- The centromere landscapes of four karyotypically diverse Papaver species provide insights into chromosome evolution and speciation.Cell genomics · 2024Article
- Article
- Lineage-Specific CYP80 Expansion and Benzylisoquinoline Alkaloid Diversity in Early-Diverging Eudicots.Advanced science (Weinheim, Baden-Wurttemberg, Germany) · 2024Article
- Long-insert sequence capture detects high copy numbers in a defence-related beta-glucosidase gene βglu-1 with large variations in white spruce but not Norway spruce.BMC genomics · 2024Article
Corrections and comments
- Erratum issued
Authors and funding
11 authors at 1 institution in 2 countries.
Funding
No grant is acknowledged in the PubMed record.
Abstract
Genes in plant secondary metabolic pathways enable biosynthesis of a range of medically and industrially important compounds, and are often clustered on chromosomes. Here, we study genomic clustering in the benzylisoquinoline alkaloid (BIA) pathway in opium poppy (Papaver somniferum), exploring relationships between gene expression, copy number variation, and metabolite production. We use Hi-C to improve the existing draft genome assembly, yielding chromosome-scale scaffolds that include 35 previously unanchored BIA genes. We find that co-expression of BIA genes increases within clusters and identify candidates with unknown function based on clustering and covariation in expression and alkaloid production. Copy number variation in critical BIA genes correlates with stark differences in alkaloid production, linking noscapine production with an 11-gene deletion, and increased thebaine/decreased morphine production with deletion of a T6ODM cluster. Our results show that the opium poppy genome is still dynamically evolving in ways that contribute to medically and industrially important phenotypes.
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Read under generation 80e0d062 · epoch 390. Bibliography from PubMed, PubMed Central and OpenAlex; grants from NIH RePORTER; trial links from ClinicalTrials.gov; estimates, votes and beliefs from the OpenQuestion graph.