| 项目编号 |
PRJCA011425 |
| 项目标题 |
Spatiotemporal transcriptomic atlas of planarian characterizes spatial dynamics of regeneration |
| 涉及领域 |
Model organism |
| 数据类型 |
Raw sequence reads
|
| 物种名称 |
Schmidtea mediterranea
|
| 描述信息 |
The whole-body regeneration of planarian is a natural wonder that remains elusive. Spatially resolved transcriptomic (ST) technologies are promising tools to solve this mystery. Here, we presented the comprehensive three-dimensional (3D) spatiotemporal transcriptome landscape of planarian regeneration with distinct spatial sub-structures. The spatial distribution of cells during regeneration helps to understand the heterogeneity of planarian cells and identify a variety of gene expression modules. We identified 64 cell subpopulations and a novel pluripotent neoblast subtype with osr2 and 2dbd expression. Depletion of this novel neoblast made planarian more susceptible to sub-lethal radiation than that of the control group. Furthermore, we unveiled the gene modules that affect specific tissue development, including anterior, posterior polarity and neoblast-enriched modules. Moreover, functional analysis of hub genes identified by ST modules, such as plk1 and hes2, confirmed their important role in regeneration and demonstrated a powerful tool for screening novel regeneration-related and homeostasis genes. Last but not least, we compiled a publicly available online spatiotemporal analysis resource of planarian regeneration to facilitate further work. |
| 样品范围 |
Spatial transcriptome |
| 发布日期 |
2023-04-27 |
| 出版信息 |
| PubMed ID |
文章标题 |
杂志名称 |
Doi |
发表年份 |
| 37268637
|
Spatiotemporal transcriptomic atlas reveals the dynamic characteristics and key regulators of planarian regeneration
|
Nature Communications
|
10.1038/s41467-023-39016-0
|
2023
|
| 39439006
|
STASCAN deciphers fine-resolution cell distribution maps in spatial transcriptomics by deep learning
|
Genome Biology
|
10.1186/s13059-024-03421-5
|
2024
|
| 41370630
|
STIFT: spatiotemporal transcriptomics integration through spatially informed multi-timepoint bridging
|
Briefings in Bioinformatics
|
10.1093/bib/bbaf644
|
2025
|
|
|
| 项目资金来源 |
| 机构 |
项目类型 |
授权项目ID |
授权项目名称 |
| No funding support
|
|
|
|
|
|
| 提交者 |
yang
ying (yingyang@big.ac.cn)
|
| 提交单位 |
Beijing Institute of Genomics |
| 提交日期 |
2022-08-24 |
