Chromosomal level genome of Ilex asprella and insight into antiviral triterpenoid pathway

Ilex asprella is a widely used herbs in Traditional Chinese Medicine for treating viral infection and relieving inflammation. Due to the earlier fruiting period of I. asprella, it is the major food source for frugivores in summer. Despite its pharmacological and ecological importance, a reference ge...

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Published in:Genomics (San Diego, Calif.) Calif.), 2022-05, Vol.114 (3), p.110366-110366, Article 110366
Main Authors: Kong, Bobby Lim-Ho, Nong, Wenyan, Wong, Kwan-Ho, Law, Sean Tsz-Sum, So, Wai-Lok, Chan, Johnson Jor-Shing, Zhang, Jordan, Lau, Tai-Wai David, Hui, Jerome Ho-Lam, Shaw, Pang-Chui
Format: Article
Language:English
Subjects:
Antiviral Agents - pharmacology
Chromosomal genome
Functional genomics
Genome assembly
Ilex
Ilex - genetics
Ilex - metabolism
Plant Roots - metabolism
Saponins - metabolism
TCM
Transcriptome
Triterpenes - metabolism
Triterpenoids
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Summary:Ilex asprella is a widely used herbs in Traditional Chinese Medicine for treating viral infection and relieving inflammation. Due to the earlier fruiting period of I. asprella, it is the major food source for frugivores in summer. Despite its pharmacological and ecological importance, a reference genome for I. asprella is lacking. By using Illumina, stLFR and Omni-C sequencing data, we present the first chromosomal-level assembly for I. asprella. The genome assembly size is 804 Mbp, with Benchmarking Universal Single-Copy Orthologs (BUSCO) score 94.4% for eudicotyledon single copy genes. Transcriptomes of leaves, stems, flowers, premature fruits and roots were analyzed, providing 39,215 gene models. The complete set of genes involved in the triterpenoids production is disclosed for the first time. We have also found the oxidosqualene cyclases (OSCs), CYP716s and UDP-glycosyltransferases (UGTs), which are responsible for the modification of triterpenoid backbones, resulting in the high variety of triterpenoid saponins. •Ilex asprella is an important medicinal plant in treating influenza.•The first chromosomal level genome of I. asprella is assembled by stLFR and Omni-C.•Complete set of genes for Ilex triterpenoids production are disclosed.•23 and 16 hypothetical proteins for OSCs and CYP716 enzymes are suggested for functional analysis.
ISSN:0888-7543
1089-8646
DOI:10.1016/j.ygeno.2022.110366