ArticleHorticulture research2021
Haplotype-resolved genome assembly and allele-specific gene expression in cultivated ginger.
Article in Horticulture research, 2021. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 38 papers.
What it found
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Who cites it
38 citing papers in PubMed, 63 citations in OpenAlex.
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- A whole-genome assembly of St. Augustinegrass and visualizing diversity within the species.The plant genome · 2026Article
- Phylogenomic profile of exon-intron organization across angiosperms, their relationships with protein domains, and functional implications.Nature communications · 2026Article
- A chromosome-level genome assembly of Alpinia officinarum Hance sheds new light on its evolution and flavonoid biosynthesis.Molecular horticulture · 2025Article
- Ginger genome reveals the SMPED1 gene causing sex-phase synchrony and outcrossing in a flowering plant.Nature plants · 2025Article
- Unravelling genomic drivers of speciation in Musa through genome assemblies of wild banana ancestors.Nature communications · 2025Article
- Article
- The giant genome of lily provides insights into the hybridization of cultivated lilies.Nature communications · 2025Article
- Comprehensive SSR study of 14 Zingiberaceae species based on microsatellite capture sequencing (MiCAPs).Frontiers in plant science · 2025Article
- High-quality haplotype-resolved chromosome assembly provides evolutionary insights and targeted steviol glycosides (SGs) biosynthesis in Stevia rebaudiana Bertoni.Plant biotechnology journal · 2024Article
- Haplotype-resolved nonaploid genome provides insights intoHorticulture research · 2024Article
- Comparative Chloroplast Genome Study ofGenes · 2024Article
- Inversions encounter relaxed genetic constraints and balance birth and death of TPS genes in Curcuma.Nature communications · 2024Article
- Haplotype-resolved T2T genome assemblies and pangenome graph of pear reveal diverse patterns of allele-specific expression and the genomic basis of fruit quality traits.Plant communications · 2024Article
- Molecular and genetic regulation of petal number variation.Journal of experimental botany · 2024Review
- A haplotype-resolved genome provides insight into allele-specific expression in wild walnut (Juglans regia L.).Scientific data · 2024Article
- Whole-genome sequencing in medicinal plants: current progress and prospect.Science China. Life sciences · 2024Review
- IMP: bridging the gap for medicinal plant genomics.Nucleic acids research · 2024Article
- A reference genome of Commelinales provides insights into the commelinids evolution and global spread of water hyacinth (Pontederia crassipes).GigaScience · 2024Article
Corrections and comments
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Authors and funding
26 authors at 5 institutions in 5 countries.
Funding
Abstract
Ginger (Zingiber officinale) is one of the most valued spice plants worldwide; it is prized for its culinary and folk medicinal applications and is therefore of high economic and cultural importance. Here, we present a haplotype-resolved, chromosome-scale assembly for diploid ginger anchored to 11 pseudochromosome pairs with a total length of 3.1 Gb. Remarkable structural variation was identified between haplotypes, and two inversions larger than 15 Mb on chromosome 4 may be associated with ginger infertility. We performed a comprehensive, spatiotemporal, genome-wide analysis of allelic expression patterns, revealing that most alleles are coordinately expressed. The alleles that exhibited the largest differences in expression showed closer proximity to transposable elements, greater coding sequence divergence, more relaxed selection pressure, and more transcription factor binding site differences. We also predicted the transcription factors potentially regulating 6-gingerol biosynthesis. Our allele-aware assembly provides a powerful platform for future functional genomics, molecular breeding, and genome editing in ginger.
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Registered trials
Read under generation 80e0d062 · epoch 390. Bibliography from PubMed, PubMed Central and OpenAlex; grants from NIH RePORTER; trial links from ClinicalTrials.gov; estimates, votes and beliefs from the OpenQuestion graph.