Gene clustering and copy number variation in alkaloid metabolic pathways of opium poppy.
Journal
Nature communications
ISSN: 2041-1723
Titre abrégé: Nat Commun
Pays: England
ID NLM: 101528555
Informations de publication
Date de publication:
04 03 2020
04 03 2020
Historique:
received:
08
08
2018
accepted:
10
02
2020
entrez:
6
3
2020
pubmed:
7
3
2020
medline:
27
6
2020
Statut:
epublish
Résumé
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.
Identifiants
pubmed: 32132540
doi: 10.1038/s41467-020-15040-2
pii: 10.1038/s41467-020-15040-2
pmc: PMC7055283
doi:
Substances chimiques
Benzylisoquinolines
0
Banques de données
Dryad
['10.5061/dryad.m0cfxpnz9']
Types de publication
Journal Article
Research Support, Non-U.S. Gov't
Langues
eng
Sous-ensembles de citation
IM
Pagination
1190Commentaires et corrections
Type : ErratumIn
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