ArticlePlant communications2024
Single-cell transcriptome atlases of soybean root and mature nodule reveal new regulatory programs that control the nodulation process.
Article in Plant communications, 2024. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 40 papers.
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Who cites it
40 citing papers in PubMed.
- Single-Cell RNA-Sequencing in Nodulated Roots of Medicago truncatula.Methods in molecular biology (Clifton, N.J.) · 2027Article
- Unlocking the full potential of spatial omics in plants: practical challenges, solutions, and a path forward.The Plant cell · 2026Review
- Peptide hormones in shaping root system architecture and environmental adaptation: Current advances and translational perspectives.Plant communications · 2026Review
- Decoding the landscape of cell-type-specific co-expressed transcription factors in soybean.Nature plants · 2026Article
- A recently evolved Nodulin recruited by NIN for root hair rhizobial infection in Medicago truncatula.The New phytologist · 2026Article
- Single-Cell Transcriptomics Reveals the FA9-VAP Module Regulating Fatty Acid Accumulation in Soybean Seeds.Plant biotechnology journal · 2026Article
- Integrating single-cell omic techniques to resolve the spatio-temporal complexity of arbuscular mycorrhizal symbiosis.Journal of experimental botany · 2026Review
- Sample Preparation for Imaging-Based Spatial Transcriptomics in Rigid Plant Tissues (Roots, Shoots).Bio-protocol · 2026Article
- Single-cell insights into plant growth, adaptation, and evolution.Journal of integrative plant biology · 2026Review
- Symbiotic peptides modulate rhizobial physiology without terminal differentiation.Science advances · 2026Article
- Toward telomere-to-telomere genomics in Fabaceae: Unlocking comparative and functional insights into symbiotic nitrogen fixation.Cell genomics · 2026Review
- Hooked hairs: A cellular key adaptation aiding seedling survival in nutrient-limited and drought conditions.Science advances · 2026Article
- Breeding Climate-Resilient Soybeans for 2050 and Beyond: Leveraging Novel Technologies to Mitigate Yield Stagnation and Climate Change Impacts.Plants (Basel, Switzerland) · 2026Review
- Advances in single-cell and spatial omics for studying symbiotic nitrogen fixation: comparative cellular and evolutionary perspectives.Genome biology · 2026Review
- CRISPR-induced knockouts reveal a dual role for the soybean NFR5α gene in symbiotic nitrogen fixation and root hair development.The plant genome · 2026Article
- Integrating Single-Cell and Spatial Multi-Omics to Decode Plant-Microbe Interactions at Cellular Resolution.Microorganisms · 2026Review
- The CELL NUMBER REGULATOR SlFWL5 protein regulates aerial vegetative growth in tomato, by promoting cell expansion.Journal of experimental botany · 2026Article
- Integrated single cell transcriptomics analysis for unraveling heterogeneity and plasticity of root cells for sustainable and regenerative agriculture.Frontiers in plant science · 2026Review
- The differential subcellular localization of soybean transcripts, an additional regulatory mechanism of gene activity.Genome biology · 2025Article
- Why "Where" Matters as Much as "How Much": Single-Cell and Spatial Transcriptomics in Plants.International journal of molecular sciences · 2025Review
Corrections and comments
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Authors and funding
17 authors.
Funding
Abstract
The soybean root system is complex. In addition to being composed of various cell types, the soybean root system includes the primary root, the lateral roots, and the nodule, an organ in which mutualistic symbiosis with N-fixing rhizobia occurs. A mature soybean root nodule is characterized by a central infection zone where atmospheric nitrogen is fixed and assimilated by the symbiont, resulting from the close cooperation between the plant cell and the bacteria. To date, the transcriptome of individual cells isolated from developing soybean nodules has been established, but the transcriptomic signatures of cells from the mature soybean nodule have not yet been characterized. Using single-nucleus RNA-seq and Molecular Cartography technologies, we precisely characterized the transcriptomic signature of soybean root and mature nodule cell types and revealed the co-existence of different sub-populations of B. diazoefficiens-infected cells in the mature soybean nodule, including those actively involved in nitrogen fixation and those engaged in senescence. Mining of the single-cell-resolution nodule transcriptome atlas and the associated gene co-expression network confirmed the role of known nodulation-related genes and identified new genes that control the nodulation process. For instance, we functionally characterized the role of GmFWL3, a plasma membrane microdomain-associated protein that controls rhizobial infection. Our study reveals the unique cellular complexity of the mature soybean nodule and helps redefine the concept of cell types when considering the infection zone of the soybean nodule.
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