ArticleHorticulture research2020
High-quality de novo assembly of the Eucommia ulmoides haploid genome provides new insights into evolution and rubber biosynthesis.
Article in Horticulture research, 2020. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 29 papers.
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Who cites it
29 citing papers in PubMed.
- Positive regulatory role of EuWRKY1 in the biosynthesis of Eucommia ulmoides rubber.Functional & integrative genomics · 2026Article
- Type-B authentic response regulators regulate natural rubber biosynthesis by targeting small rubber particle proteins in rubber-producing plants.Functional & integrative genomics · 2026Article
- Induction of Embryogenic Callus, Protoplast Isolation, and PEG-Mediated Transformation Protocols inPlants (Basel, Switzerland) · 2026Article
- Discovery of iridoid cyclase completes the iridoid pathway in asterids.Nature plants · 2025Article
- The haplotype-resolved telomere-to-telomere genome and OMICS analyses reveal genetic responses to tapping in rubber tree.Nature communications · 2025Article
- Roles of rubber elongation factor and small rubber particle protein in rubber particles.Plant molecular biology · 2025Review
- The first complete mitochondrial genome of Eucommia ulmoides: a multi-chromosomal architecture and controversial phylogenetic relationship in asterids.BMC plant biology · 2025Article
- Genome-wide identification and comprehensive analysis ofFrontiers in plant science · 2025Article
- Qu-1: a transformation-and regeneration-amenable doubled haploid cell line with a reference genome sequence for genetic and functional studies inForestry research · 2025Article
- Haplotype-resolved chromosome-level genome assembly of Ehretia macrophylla.Scientific data · 2024Article
- Genome-Wide Identification and Expression Analysis of Growth-Regulating Factors inPlants (Basel, Switzerland) · 2024Article
- Whole-genome sequencing in medicinal plants: current progress and prospect.Science China. Life sciences · 2024Review
- Genomic insight into domestication of rubber tree.Nature communications · 2023Article
- Quantitative Detection of Natural Rubber Content inMolecules (Basel, Switzerland) · 2023Article
- Article
- Genome-wide identification and expression analysis of MADS-box transcription factors reveal their involvement in sex determination of hardy rubber tree (Frontiers in genetics · 2023Article
- The chromosome-level genome ofFrontiers in plant science · 2023Article
- The NAC transcription factor family inFrontiers in plant science · 2023Article
- De novo genome assembly of the medicinal plant Gentiana macrophylla provides insights into the genomic evolution and biosynthesis of iridoids.DNA research : an international journal for rapid publication of reports on genes and genomes · 2022Article
- High-Depth Transcriptome Reveals Differences in Natural HaploidInternational journal of molecular sciences · 2022Article
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11 authors.
Funding
Abstract
We report the acquisition of a high-quality haploid chromosome-scale genome assembly for the first time in a tree species, Eucommia ulmoides, which is known for its rubber biosynthesis and medicinal applications. The assembly was obtained by applying PacBio and Hi-C technologies to a haploid that we specifically generated. Compared to the initial genome release, this one has significantly improved assembly quality. The scaffold N50 (53.15 MB) increased 28-fold, and the repetitive sequence content (520 Mb) increased by 158.24 Mb, whereas the number of gaps decreased from 104,772 to 128. A total of 92.87% of the 26,001 predicted protein-coding genes identified with multiple strategies were anchored to the 17 chromosomes. A new whole-genome duplication event was superimposed on the earlier γ paleohexaploidization event, and the expansion of long terminal repeats contributed greatly to the evolution of the genome. The more primitive rubber biosynthesis of this species, as opposed to that in Hevea brasiliensis, relies on the methylerythritol-phosphate pathway rather than the mevalonate pathway to synthesize isoprenyl diphosphate, as the MEP pathway operates predominantly in trans-polyisoprene-containing leaves and central peels. Chlorogenic acid biosynthesis pathway enzymes were preferentially expressed in leaves rather than in bark. This assembly with higher sequence contiguity can foster not only studies on genome structure and evolution, gene mapping, epigenetic analysis and functional genomics but also efforts to improve E. ulmoides for industrial and medical uses through genetic engineering.
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