Figures (5)  Tables (1)

    • Figure 1. 

      Cell types of roots, stems, leaves, and shoot apexes. The dotted lines indicate the absence of reported studies in woody plants.

    • Figure 2. 

      Development history of single-cell sequencing technologies and spatial multiomics technologies.

    • Figure 3. 

      scRNA-seq data analysis pipeline.

    • Figure 4. 

      scRNA-seq studies of poplar stem. The balls of different colors represent different types of cells and the arrows point to the direction of cell differentiation.

    • Figure 5. 

      Future application of single-cell transcriptomics, single-cell epigenetics, and spatial transcriptomics in woody plants.

    • SpeciesTissueCell typeSequencing method/
      platform      		Reference
      Populus alba × Populus glandulosaXylemXylem precursor cells, fiber cells, vessels cells, and ray parenchyma cells10× Genomics[68]
      Populus alba var.
      pyramidalis      		StemPhotosynthetic cells, cambium cells, phloem parenchyma cells, xylem cells, xylem mother cells, phloem mother cells, endodermal cells, xylem parenchyma cells, cork cells, epidermal cells, companion cells, cortex/endodermal cells, cortex/endodermis initial cells, and sieve elements10× Genomics[69]
      Populus trichocarpaXylemVessel cells, ray parenchyma cells, phloem cells, cambium cells, and fiber cells10× Genomics[70]
      Populus trichocarpaXylemFusiform organizer, fusiform early precursor, fusiform intermediate precursor, vessel cells, fiber cells, ray organizer, ray precursor, and ray parenchyma cells10× Genomics and MARS-seq2.0[89]
      Eucalyptus grandisXylemFusiform organizer, fusiform early precursor, fusiform intermediate precursor, vessel cells, fiber cells, ray organizer, ray precursor, and ray parenchyma cells
      Trochodendron aralioidesXylemFusiform organizer, fusiform early precursor, fusiform intermediate precursor, tracheid cells, ray organizer, ray precursor, and ray parenchyma cells
      Liriodendron chinenseXylemFusiform organizer, fusiform early precursor, fusiform intermediate precursor, vessel cells, fiber cells, ray organizer, ray precursor, and ray parenchyma cells
      Populus euramericana cv. ‘Nanlin895’StemPhloem precursor, xylem precursor, cambium, vessel, cortex and pith, ray, epidermis, sieve-companion, xylem fiber, and phloem parenchyma10× Genomics[90]
      Camellia sinensisLeafVascular bundle, protoxylem cells, protophloem cells, phloem cells, procambium cells, proliferating cells, epidermis cells, mesophyll cells, palisade mesophyll, and spongy mesophyll10× Genomics[71]
      Reyan73397(Hevea brasiliensis)LeafMeristem cells, latex cells, xylem cells, phloem cells, hydathode cells, bundle sheath cells, epidermis cells, and mesophyll cells10× Genomics[72]
      Bombax ceibaInner wall of the ovaryInitiated fiber cells and epidermal cells in the inner wall of the ovary10× Genomics[95]
      Populus tremula × albaShoot apex vascular systemTrichomes, mesophyll cells, epidermal cells, shoot meristematic cells, proliferating cells, vascular cells, companion cells, and ground meristem cells10× Genomics[101]
      Taxus maireiStemXylem parenchyma cells, xylem cells, epidermal cells, photosynthetic cells, vascular cells, xylem mother cells, companion cells, phloem cells, endodermal cells, cambium cells, and sieve elements10× Genomics[73]
      Taxus maireiLeafBundle sheath cells, mesophyll cells, stomatal complex cells, guard cells, epidermal cells, vascular cells, procambium cells, and pavement cells10× Genomics[74]
      The cotton Lint-Fuzz (Xu142_LF)Ovule outer integumentFiber, epidermis and outer pigment layer10× Genomics[91]
      G. hirsutum cv.
      Xuzhou 142      		Ovule outer integumentFiber and epidermis10× Genomics[92]
      Gland cotton 'CCRI12'
      and glandless cotton
      'CCRI12gl'      		CytoledonSpongy mesophyll cells, palisade mesophyll cells, epidermal cells, primordial cells, guard cells, xylem cells, parenchyma cells, phloem cells, pigment gland cells10× Genomics[94]
      Gossypium bickiiCytoledonMesophyll cells, pigment gland cells, epidermal cells, guard cells, xylem cells, procambium cells, phloem parenchyma cells, and companion cells10× Genomics[93]

      Table 1. 

      Application of scRNA-seq/snRNA-seq technologies in woody plants.