ArticleGigaScience2020
Genome sequence of the agarwood tree Aquilaria sinensis (Lour.) Spreng: the first chromosome-level draft genome in the Thymelaeceae family.
Article in GigaScience, 2020. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 27 papers.
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27 citing papers in PubMed, 67 citations in OpenAlex.
- A haplotype-resolved gap-free chromosome assembly of the threatened plant Paradombeya sinensis.Scientific data · 2025Article
- Reticulate allopolyploidy and subsequent dysploidy drive evolution and diversification in the cotton family.Nature communications · 2025Article
- The Complete Chloroplast Genome of the Vietnamese Endemic SpeciesEcology and evolution · 2025Article
- Biocontrol Effect ofMicroorganisms · 2025Article
- Biosynthesis and Its Regulatory Mechanisms of 2-(2-Phenylethyl)chromones in Agarwood.Plants (Basel, Switzerland) · 2025Review
- De novo transcriptome assembly and analysis during agarwood induction in Gyrinops versteegii Gilg. seedling.Scientific reports · 2025Article
- Towards sustainable agarwood production: integrating microbial interactions, anatomical changes, and metabolite biosynthesis.Journal of industrial microbiology & biotechnology · 2024Review
- Chromosome-level genome assembly of Aquilaria yunnanensis.Scientific data · 2024Article
- Upgraded durian genome reveals the role of chromosome reshuffling during ancestral karyotype evolution, lignin biosynthesis regulation, and stress tolerance.Science China. Life sciences · 2024Article
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- Editorial: Plant natural resins: from formation mechanism to ecological significance.Frontiers in plant science · 2024Article
- 2-(2-Phenylethyl)chromones increase inFrontiers in plant science · 2024Article
- Haplotype-resolved chromosomal-level genome assembly of Buzhaye (Microcos paniculata).Scientific data · 2023Article
- Comprehensive Analysis ofInternational journal of molecular sciences · 2023Article
- Wound-Induced Temporal Reprogramming of Gene Expression during Agarwood Formation inPlants (Basel, Switzerland) · 2023Article
- Revealing the Roles of the JAZ Family in Defense Signaling and the Agarwood Formation Process inInternational journal of molecular sciences · 2023Article
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- Systematic evolution ofFrontiers in plant science · 2023Article
- Genome-wide analysis of respiratory burst oxidase homolog (Frontiers in plant science · 2023Article
- Repeated mechanical damage enhancedFrontiers in plant science · 2023Article
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Authors and funding
17 authors at 2 institutions in 2 countries.
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No grant is acknowledged in the PubMed record.
Abstract
backgroudAquilaria sinensis (Lour.) Spreng is one of the important plant resources involved in the production of agarwood in China. The agarwood resin collected from wounded Aquilaria trees has been used in Asia for aromatic or medicinal purposes from ancient times, although the mechanism underlying the formation of agarwood still remains poorly understood owing to a lack of accurate and high-quality genetic information.
findingsWe report the genomic architecture of A. sinensis by using an integrated strategy combining Nanopore, Illumina, and Hi-C sequencing. The final genome was ∼726.5 Mb in size, which reached a high level of continuity and a contig N50 of 1.1 Mb. We combined Hi-C data with the genome assembly to generate chromosome-level scaffolds. Eight super-scaffolds corresponding to the 8 chromosomes were assembled to a final size of 716.6 Mb, with a scaffold N50 of 88.78 Mb using 1,862 contigs. BUSCO evaluation reveals that the genome completeness reached 95.27%. The repeat sequences accounted for 59.13%, and 29,203 protein-coding genes were annotated in the genome. According to phylogenetic analysis using single-copy orthologous genes, we found that A. sinensis is closely related to Gossypium hirsutum and Theobroma cacao from the Malvales order, and A. sinensis diverged from their common ancestor ∼53.18-84.37 million years ago.
conclusionsHere, we present the first chromosome-level genome assembly and gene annotation of A. sinensis. This study should contribute to valuable genetic resources for further research on the agarwood formation mechanism, genome-assisted improvement, and conservation biology of Aquilaria species.
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