| Literature DB >> 33452249 |
Amit Rai1,2,3, Hideki Hirakawa4, Ryo Nakabayashi5, Shinji Kikuchi6,7, Koki Hayashi8, Megha Rai8, Hiroshi Tsugawa5,9, Taiki Nakaya8, Tetsuya Mori5, Hideki Nagasaki4, Runa Fukushi7, Yoko Kusuya10, Hiroki Takahashi6,10, Hiroshi Uchiyama11, Atsushi Toyoda12, Shoko Hikosaka6,7, Eiji Goto6,7, Kazuki Saito8,6,5, Mami Yamazaki13,14.
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.Entities:
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Year: 2021 PMID： 33452249 PMCID： PMC7810986 DOI： 10.1038/s41467-020-20508-2
Source DB: PubMed Journal: Nat Commun ISSN： 2041-1723 Impact factor: 14.919