ArticleGenome biology2021
High-quality reference genome sequences of two coconut cultivars provide insights into evolution of monocot chromosomes and differentiation of fiber content and plant height.
Article in Genome biology, 2021. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 33 papers.
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33 citing papers in PubMed, 72 citations in OpenAlex.
- Genetic Characterization of RNA Recognition Motif (RRM)-Containing Genes in Coconut Palm.Plants (Basel, Switzerland) · 2026Article
- Comparative genomics approach to infer ancestral cell karyotypes and reconstruct the evolutionary trajectories of plant chromosomes.Nature protocols · 2025Review
- Evolutionary Insights and Flowering Regulation ofPlants (Basel, Switzerland) · 2025Article
- Conserved stress-responsive genes involved in the early development of Euterpe Edulis.Scientific reports · 2025Article
- Haplotype-resolved genome reveals haplotypic variation and the biosynthesis of medicinal ingredients in Areca catechu L.Molecular horticulture · 2025Article
- Genetic Characterization ofPlants (Basel, Switzerland) · 2025Article
- Integrative Multi-Omics Approaches for Identifying and Characterizing Biological Elements in Crop Traits: Current Progress and Future Prospects.International journal of molecular sciences · 2025Review
- Based on two coconut (Frontiers in plant science · 2025Article
- Chromosome scale genome assembly and annotation of coconut cultivar Chowghat Green Dwarf.Scientific reports · 2024Article
- Evolution of plant metabolism: the state-of-the-art.Philosophical transactions of the Royal Society of London. Series B, Biological sciences · 2024Review
- Genome-Wide Identification and Expression Analysis of MYB Transcription Factor Family in Response to Various Abiotic Stresses in Coconut (International journal of molecular sciences · 2024Article
- Characterization of active transposable elements and their new insertions in tuber propagated greater yam (Dioscorea alata).BMC genomics · 2024Article
- Proteomic Profiling ofInternational journal of molecular sciences · 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
- A reference genome of Commelinales provides insights into the commelinids evolution and global spread of water hyacinth (Pontederia crassipes).GigaScience · 2024Article
- Comparative transcriptome and metabolome analysis of sweet potato (Frontiers in plant science · 2024Article
- Proteomic and metabolomic insights into the impact of topping treatment on cigar tobacco.Frontiers in plant science · 2024Article
- The haplotype-resolved telomere-to-telomere carnation (Horticulture research · 2024Article
- CRISPR/Cas9 -based genome editing to expedite the genetic improvement of palms: challenges and prospects.Frontiers in plant science · 2024Article
- High-density linkage to physical mapping in a unique Tall × Dwarf coconut (Frontiers in plant science · 2024Article
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Authors and funding
24 authors at 7 institutions in 2 countries.
Funding
No grant is acknowledged in the PubMed record.
Abstract
backgroundCoconut is an important tropical oil and fruit crop whose evolutionary position renders it a fantastic species for the investigation of the evolution of monocot chromosomes and the subsequent differentiation of ancient plants.
resultsHere, we report the assembly and annotation of reference-grade genomes of Cn. tall and Cn. dwarf, whose genome sizes are 2.40 Gb and 2.39 Gb, respectively. The comparative analysis reveals that the two coconut subspecies diverge about 2-8 Mya while the conserved Arecaceae-specific whole-genome duplication (ω WGD) occurs approximately 47-53 Mya. It additionally allows us to reconstruct the ancestral karyotypes of the ten ancient monocot chromosomes and the evolutionary trajectories of the 16 modern coconut chromosomes. Fiber synthesis genes in Cn. tall, related to lignin and cellulose synthesis, are found at a higher copy number and expression level than dwarf coconuts. Integrated multi-omics analysis reveals that the difference in coconut plant height is the result of altered gibberellin metabolism, with both the GA20ox copy number and a single-nucleotide change in the promoter together leading to the difference in plant height between Cn. tall and Cn. dwarf.
conclusionWe provide high-quality coconut genomes and reveal the genetic basis of trait differences between two coconuts through multi-omics analysis. We also reveal that the selection of plant height has been targeted for the same gene for millions of years, not only in natural selection of ancient plant as illustrated in coconut, but also for artificial selection in cultivated crops such as rice and maize.
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