ArticlePlant biotechnology journal2024
Spatiotemporal transcriptomic atlas of rhizome formation in Oryza longistaminata.
Article in Plant biotechnology journal, 2024. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 9 papers.
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Who cites it
9 citing papers in PubMed, 18 citations in OpenAlex.
- Genomic Footprints of Historical Introgression Between Ancient Lineages of Wild Oryza AA-Genome Species With Widely Separated Contemporary Distributions.Genome biology and evolution · 2026Article
- Single-cell insights into plant growth, adaptation, and evolution.Journal of integrative plant biology · 2026Review
- The genetic and developmental enigma of rhizomes: crucial traits with limited understanding.TAG. Theoretical and applied genetics. Theoretische und angewandte Genetik · 2026Review
- Structural variation drives rhizome innovation and adaptive divergence in sister Medicago species.Journal of integrative plant biology · 2026Article
- Genome-wide analysis of the CesA gene family in Brassica napus under abiotic stress and functional study of in root growth.BMC plant biology · 2026Article
- The transcriptional landscape and dynamics regulating organ differentiation and dormancy in Curcuma alismatifolia.Plant physiology · 2025Article
- Spatio-Temporal Regulation of Gibberellin Biosynthesis Contributes to Optimal Rhizome Bud Development.Rice (New York, N.Y.) · 2025Article
- A single-cell and spatial wheat root atlas with cross-species annotations delineates conserved tissue-specific marker genes and regulators.Cell reports · 2025Article
- Bud shapes dictate tiller-rhizome transition in African perennial rice (Oryza longistaminata).TAG. Theoretical and applied genetics. Theoretische und angewandte Genetik · 2024Article
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Authors and funding
18 authors at 2 institutions in 1 country.
Funding
Abstract
Rhizomes are modified stems that grow underground and produce new individuals genetically identical to the mother plant. Recently, a breakthrough has been made in efforts to convert annual grains into perennial ones by utilizing wild rhizomatous species as donors, yet the developmental biology of this organ is rarely studied. Oryza longistaminata, a wild rice species featuring strong rhizomes, provides a valuable model for exploration of rhizome development. Here, we first assembled a double-haplotype genome of O. longistaminata, which displays a 48-fold improvement in contiguity compared to the previously published assembly. Furthermore, spatiotemporal transcriptomics was performed to obtain the expression profiles of different tissues in O. longistaminata rhizomes and tillers. Two spatially reciprocal cell clusters, the vascular bundle 2 cluster and the parenchyma 2 cluster, were determined to be the primary distinctions between the rhizomes and tillers. We also captured meristem initiation cells in the sunken area of parenchyma located at the base of internodes, which is the starting point for rhizome initiation. Trajectory analysis further indicated that the rhizome is regenerated through de novo generation. Collectively, these analyses revealed a spatiotemporal transcriptional transition underlying the rhizome initiation, providing a valuable resource for future perennial crop breeding.
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