文献类型：期刊文献

英文题名：Large-volume fully automated cell reconstruction generates a cell atlas of plant tissues

作者：Hu, Zijian[1] Liu, Jiazheng[2,3] Shen, Shiya[1] Wu, Weiqian[1] Yuan, Jingbin[2] Shen, Weiwei[1] Ma, Lingyu[4] Wang, Guangchao[1] Yang, Shunyao[1] Xu, Xiuping[5] Cui, Yaning[1] Li, Zhenchen[2,3] Shen, Lijun[2] Li, Linlin[2] Bian, Jiahui[1] Zhang, Xi[1] Han, Hua[2,3] Lin, Jinxing[1]

第一作者：Hu, Zijian

通信作者：Zhang, X[1];Lin, JX[1];Han, H[2];Han, H[3]

机构：[1]Beijing Forestry Univ, Coll Biol Sci & Technol, Natl Engn Res Ctr Tree Breeding & Ecol Restorat, State Key Lab Tree Genet & Breeding,State Key Lab, Beijing 100083, Peoples R China;[2]Chinese Acad Sci, Inst Automat, Key Lab Brain Cognit & Brain Inspired Intelligence, Beijing 100190, Peoples R China;[3]Univ Chinese Acad Sci, Sch Future Technol, Sch Artificial Intelligence, Beijing 101408, Peoples R China;[4]Chinese Acad Forestry, Res Inst Wood Ind, Beijing 100091, Peoples R China;[5]Chinese Acad Sci, Inst Bot, Beijing 100093, Peoples R China

年份：2024

卷号：36

期号：12

起止页码：4840-4861

外文期刊名：PLANT CELL

收录：;Scopus(收录号：2-s2.0-85214681302);WOS:【SCI-EXPANDED(收录号:WOS:001334994600001)】；

基金：This work was supported by grants from the National Natural Science Foundation of China (32030010), STI 2030-Major Projects (2022ZD0401605), Fundamental Research Funds for the Central Universities (QNTD202301), Beijing Municipal Natural Science Foundation (5232016), the National Natural Science Foundation of China (32000558, 32171461, and 32370740), Beijing Nova Program (20230484251), the Program of Introducing Talents of Discipline to Universities (111 project, B13007), Scientific Research Instrument and Equipment Development Project of Chinese Academy of Sciences (YJKYYQ20210022), 5.5 Engineering Research & Innovation Team Project of Beijing Forestry University (BLRC2023C06), and Biological Breeding-National Science and Technology Major Project (2023ZD04069).

语种：英文

摘要：The geometric shape and arrangement of individual cells play a role in shaping organ functions. However, analyzing multicellular features and exploring their connectomes in centimeter-scale plant organs remain challenging. Here, we established a set of frameworks named large-volume fully automated cell reconstruction (LVACR), enabling the exploration of 3D cytological features and cellular connectivity in plant tissues. Through benchmark testing, our framework demonstrated superior efficiency in cell segmentation and aggregation, successfully addressing the inherent challenges posed by light sheet fluorescence microscopy imaging. Using LVACR, we successfully established a cell atlas of different plant tissues. Cellular morphology analysis revealed differences of cell clusters and shapes in between different poplar (Populus simonii Carr. and Populus canadensis Moench.) seeds, whereas topological analysis revealed that they maintained conserved cellular connectivity. Furthermore, LVACR spatiotemporally demonstrated an initial burst of cell proliferation, accompanied by morphological transformations at an early stage in developing the shoot apical meristem of Pinus tabuliformis Carr. seedlings. During subsequent development, cell differentiation produced anisotropic features, thereby resulting in various cell shapes. Overall, our findings provided valuable insights into the precise spatial arrangement and cellular behavior of multicellular organisms, thus enhancing our understanding of the complex processes underlying plant growth and differentiation. Large-volume fully automated cell reconstruction establishes a 3D cell atlas of poplar seeds, revealing the precise arrangement and topological organization of different cell types.