文献类型：期刊文献

英文题名：Single-cell RNA sequencing reveals a high-resolution cell atlas of xylem in Populus

作者：Li, Hui[1] Dai, Xinren[1] Huang, Xiong[1,2] Xu, Mengxuan[1] Wang, Qiao[1,2] Yan, Xiaojing[1] Sederoff, Ronald R.[3] Li, Quanzi[1]

通信作者：Li, QZ[1]

机构：[1]Chinese Acad Forestry, State Key Lab Tree Genet & Breeding, Beijing 100091, Peoples R China;[2]Chinese Acad Forestry, Res Inst Forestry, Beijing 100091, Peoples R China;[3]North Carolina State Univ, Dept Forestry & Environm Resources, Forest Biotechnol Grp, Raleigh, NC 27695 USA

年份：2021

卷号：63

期号：11

起止页码：1906-1921

外文期刊名：JOURNAL OF INTEGRATIVE PLANT BIOLOGY

收录：;WOS:【SCI-EXPANDED(收录号:WOS:000703210900001)】；

基金：We thank Guangzhou Genedenovo Biotechnology for assisting in sequencing and bioinformatics analysis. This work was supported by grants from Fundamental Research Funds of Chinese Academy of Forestry (CAFYBB2018ZY001-5 and CAFYBB2017ZY001) and the National Natural Science Foundation of China (31670667).

语种：英文

外文关键词：differentiating trajectory; differentiating xylem; marker genes; Populus alba x Populus glandulosa; single-cell RNA-seq; wood formation

摘要：High-throughput single-cell RNA sequencing (scRNA-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 x Populus glandulosa. The scRNA-seq profiled 9,798 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.