Single-cell RNA sequencing reveals a high-resolution cell atlas of xylem in Populus  

作　　者：Hui Li Xinren Dai Xiong Huang Mengxuan Xu Qiao Wang Xiaojing Yan Ronald R.Sederoff Quanzi Li 

机构地区：[1]State Key Laboratory of Tree Genetics and Breeding,Chinese Academy of Forestry,Beijing 100091,China [2]Research Institute of Forestry,Chinese Academy of Forestry,Beijing 100091,China [3]Forest Biotechnology Group,Department of Forestry and Environmental Resources,North Carolina State University,Raleigh,NC 27695,USA

出　　处：《Journal of Integrative Plant Biology》2021年第11期1906-1921,共16页植物学报（英文版）

基　　金：This work was supported by grants from Fundamental Research Funds of Chinese Academy of Forestry(CAFYBB2018ZY001-5 and CAFYBB2017ZY001);the National Natural Science Foundation of China(31670667)。

摘　　要：High-throughputsingle-cellRNAsequencing(sc RNA-seq) has advantages over traditional RNA-seq to explore spatiotemporal information on gene dynamic expressions in heterogenous tissues. We performed Drop-seq, a method for the dropwise sequestration of single cells for sequencing, on protoplasts from the differentiating xylem of Populus alba × Populus glandulosa. The sc RNA-seq profiled9,798 cells, which were grouped into 12 clusters.Through characterization of differentially expressed genes in each cluster and RNA in situ hybridizations,we identified vessel cells, fiber cells, ray parenchyma cells and xylem precursor cells. Diffusion pseudotime analyses revealed the differentiating trajectory of vessels, fiber cells and ray parenchyma cells and indicated a different differentiation process between vessels and fiber cells, and a similar differentiation process between fiber cells and ray parenchyma cells. We identified marker genes for each cell type(cluster) and key candidate regulators during developmental stages of xylem cell differentiation. Our study generates a high-resolution expression atlas of wood formation at the single cell level and provides valuable information on wood formation.

关 键 词：differentiating trajectory differentiating xylem marker genes Populus alba×Populus glandulosa single-cell RNA-seq wood formation 

分 类 号：S792.11[农业科学—林木遗传育种]