Plants consist of various types of cells, and their growth and development depend on the diversity of gene expression among cells with various functions. Comparisons between different subspecies of the same plant species or between different species in terms of morphological appearance and biological trait characteristics are essential in germplasm research. However, this subspecies heterogeneity is usually not detected by traditional bulk RNA sequencing (RNA-seq) analysis because the expression of specific genes in one cell may be masked by the transcriptome of other cells. With the development and application of single-cell RNA sequencing (scRNA-seq) technology, this technique allows parallel sequencing of the transcriptomes of different functional cells. Subsequently, computational analysis can reveal the identity of individual cells.

Fig.1. The similarities and differences in transcriptomes between leaf and root cell types. (Wang Y, et al., 2021)

What We Offer

Lifeasible provides professional plant conserved and differential analysis of single-cell solutions to map the plant single-cell transcriptome between different subspecies of the same species. Our solution reveals the differences and conserved developmental trajectories of different subspecies by comparing them across subspecies. It helps to provide insight into the response mechanisms of different subspecies in response to external environmental stimuli.

Our technical team is committed to developing a computational method to assign cell types to cell clusters based on the identity of each cell. The cell type of each cell is first determined, and then the cell type is assigned to the cluster to be queried based on the majority. Based on this computational approach, we can accurately map transcriptional profiles at a cellular resolution between different subspecies of the same plant species, including:

• Leaf cell types: initial cell, pulp, epidermis, mesophyll sheath, bast, proto formative layer, and xylem.
• Root cell types: bast, proto-forming layer, and endothelial cortex initial cells.

In addition, we provide proposed chronological analyses to characterize the conservation of developmental trajectories among different subspecies. We provide functional enrichment analysis to explore differentially expressed genes related to environmental responses for each cell type of plant subspecies, aiming to help our clients understand the differential response mechanisms of different plant subspecies when subjected to external environmental stimuli.

Based on scRNA-seq, we aim to characterize differentially expressed genes among different subspecies of the same species of plants from the single-cell level. Our solution contributes to the deep mining and understanding of heterogeneity among cells, tissues, and species in multiple levels, perspectives, and directions and provides new insights into the molecular mechanisms of plant development. If you are interested in our services or have some questions, please feel free to contact us or make an online inquiry.

Reference

1. Wang Y, Huan Q, Li K, et al. Single-cell transcriptome atlas of the leaf and root of rice seedlings[J]. Journal of Genetics and Genomics, 2021, 48(10): 881-898.

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