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Article|01 Jun 2023|OPEN
Single-cell transcriptome atlas reveals spatiotemporal developmental trajectories in the basal roots of moso bamboo (Phyllostachys edulis)
Zhanchao Cheng1 ,† , Changhong Mu1 ,† , Xiangyu Li1 ,† , Wenlong Cheng1 , Miaomiao Cai1 , Chongyang Wu1 , Jutang Jiang1 , Hui Fang1 , Yucong Bai1 , Huifang Zheng1 , Ruiman Geng1 , Junlei Xu1 , Yali Xie1 , Yuping Dou1 , Juan Li1 , Shaohua Mu1 and Jian Gao,1 ,
1Key Laboratory of National Forestry and Grassland Administration/Beijing for Bamboo & Rattan Science and Technology, International Center for Bamboo and Rattan, Beijing 100102, China
*Corresponding author. E-mail:
Zhanchao Cheng,Changhong Mu and Xiangyu Li contributed equally to the study.

Horticulture Research 10,
Article number: uhad122 (2023)
Views: 95

Received: 08 Jan 2023
Accepted: 01 Jun 2023
Published online: 01 Jun 2023


Roots are essential for plant growth and development. Bamboo is a large Poaceae perennial with 1642 species worldwide. However, little is known about the transcriptional atlas that underpins root cell-type differentiation. Here, we set up a modified protocol for protoplast preparation and report single-cell transcriptomes of 14 279 filtered single cells derived from the basal root tips of moso bamboo. We identified four cell types and defined new cell-type-specific marker genes for the basal root. We reconstructed the developmental trajectories of the root cap, epidermis, and ground tissues and elucidated critical factors regulating cell fate determination. According to in situ hybridization and pseudotime trajectory analysis, the root cap and epidermis originated from a common initial cell lineage, revealing the particularity of bamboo basal root development. We further identified key regulatory factors for the differentiation of these cells and indicated divergent root developmental pathways between moso bamboo and rice. Additionally, PheWOX13a and PheWOX13b ectopically expressed in Arabidopsis inhibited primary root and lateral root growth and regulated the growth and development of the root cap, which was different from WOX13 orthologs in Arabidopsis. Taken together, our results offer an important resource for investigating the mechanism of root cell differentiation and root system architecture in perennial woody species of Bambusoideae.