Chromosomal-scale genome assembly of Eleutherococcus senticosus provides insights into chromosome evolution in Araliaceae.
cold adaptation
genome assembly
karyotype evolution
triterpene saponin biosynthesis
whole-genome duplication
Journal
Molecular ecology resources
ISSN: 1755-0998
Titre abrégé: Mol Ecol Resour
Pays: England
ID NLM: 101465604
Informations de publication
Date de publication:
Oct 2021
Oct 2021
Historique:
revised:
29
03
2021
received:
04
08
2020
accepted:
15
04
2021
pubmed:
24
4
2021
medline:
18
9
2021
entrez:
23
4
2021
Statut:
ppublish
Résumé
Siberian ginseng (Eleutherococcus senticosus, also known as ciwujia) belongs to the Araliaceae family, which contains more than 1,500 species in 41 genera with diverse chromosome numbers and genome sizes. General consensus posits that ancient whole-genome duplication events and rapid evolutionary radiation are the driving forces for this variation in genome properties. In an attempt to generate more genomic information for the Araliaceae family, we report a 1.30 Gb high-quality draft genome assembly (contig N50 = 309.43 kb) of E. senticosus via PacBio long reads and Hi-C chromatin interaction maps. We found that transposable elements accounted for 72.82% of the genome and a total of 36,372 protein-coding genes were predicted. Comparative analyses of the E. senticosus, Panax notoginseng and Daucus carota genomes revealed a burst expansion of Tekay chromoviral elements in Araliaceae after its divergence with Apiaceae. We also found that E. senticosus underwent a lineage-specific whole-genome duplication event Es-α and a whole-genome duplication event Araliaceae-β that was probably shared by all Araliaceae species. Even though the rediploidization of the E. senticosus genome is evident, pathway analyses show that these two whole-genome duplication events may have contributed to the adaptation of E. senticosus to a cold environment. Taken together, the high-quality genome assembly of E. senticosus provides a valuable genomic resource for future research on the evolution of Araliaceae.
Identifiants
pubmed: 33891787
doi: 10.1111/1755-0998.13403
doi:
Types de publication
Journal Article
Langues
eng
Sous-ensembles de citation
IM
Pagination
2204-2220Subventions
Organisme : China Agriculture Research System
ID : CARS-21
Organisme : "Guangxi Bagui Scholars" and Research Innovation Team Project
ID : 2019005
Organisme : National Public Welfare Special Project of China "Quality Guarantee system of Chinese herbal medicines"
ID : 201507002
Organisme : National Key R&D Program of China
ID : 2019YFC1711100
Organisme : Guangxi Science and Technology Project
ID : AD17129044
Organisme : Yunnan Provincial Key Programs of Yunnan Eco-friendly Food International Cooperation Research Center Project
ID : 2019ZG00908
Organisme : Guangxi Innovation-Driven Development Project
ID : AA18242040
Informations de copyright
© 2021 John Wiley & Sons Ltd.
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