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Understand plant single cells and understand the roots of Arabidopsis thaliana. Time: 2020-02-27


Single cell sequencing technology has been widely used in many biomedical fields, such as oncology, development, and neuroscience, and has shown broad prospects in medical research through multi group joint analysis. At the same time, with the introduction of single cell sequencing technology such as Smart-seq2, Drop-seq and SPLiT-seq, the emergence of BD Rhapsody and 10 Genomics commercial single cell sequencing platform, the flux and application scope of single cell sequencing are also deepening.

Due to the limitation of plant cell preparation, plant single cell research is a little later than animal field. However, since 2019, 7 single cell articles have been published in the plant field, which fully shows that single cell sequencing has begun to take root in the field of plants. In the near future, single cell sequencing technology will also shed more leaves in the field of plants and produce more vigorous and delicious fruits.

First, Document sharing

This period we will take The first single cell articles in China For example, we briefly introduce the progress of single cell transcriptome sequencing in plants.

In April 2019, the International Journal Molecular Plant published the research results of the Wang Jiawei research group of the Institute of molecular and Plant Sciences, the Chinese Academy of Sciences and the Institute of plant physiology and ecology. A Single-Cell RNA Sequencing Profiles the Developmental landscape of Arabidopsis Root "



experimental design

Species and materials: 85 Arabidopsis root tips (0.5cm long root tip area)

Material handling: Cellulase R-10, Macerozyme R-10

Single cell platform: 10 x Genomics

Sequencing platform: Illumina NovaSeq

Number of cells analyzed: 7695 Cells

Result display

Through the absorption and transportation of water and mineral elements, plant roots provide nutrition support for plant growth and development. The heterogeneity of plant root cell composition is the basis of plant root function.


Fig. 1. Heterogeneity of root cap cells in Arabidopsis thaliana


The researchers used single cell sequencing technology to successfully analyze the heterogeneity of root cap cells in Arabidopsis thaliana. We constructed the Arabidopsis root development map by tSNE and UMAP algorithm (Figure 1), identified 24 cell types, and determined the Marker genes of different root cells.


Fig. two uniqueness of intercellular ion assimilation and hormone response


Fig. three regulation of cytokinin on root and shoot of lateral roots

This study further utilized the display effect of UMAP (Fig. two), showing the difference between plant hormones and ionic assimilation in cell types. For example, IAA biosynthesis and brassin sterol synthesis (BR biosynthesis) are mainly concentrated in phloem and scabbard (cluster1 and Cluster7), and using fluorescence labeling (DR5 auxin response element, TCSn cytokinin response element) and mutant plants to verify the difference in distribution of auxin and cytokinin in root cells, demonstrating the importance of cytokinins in epidermal differentiation and lateral root crown development (Fig. three).

In general, this study used single cell sequencing technology to reconstruct the Arabidopsis root transcriptome, providing new ideas and methods for plant development research.


Document links: Https://doi.org/10.1016/j.molp.2019.04.004


Three. Article statistics

Xiaobian compiled and collated 7 single celled articles published in 2019 in the plant field. Background message "plant single cellphone articles" get the original text ~


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