淡水涡虫Dugesiajaponica维持着丰富的异质细胞群,称为新生细胞,其中包括成人多能干细胞。因此,它是干细胞和再生研究的优秀模式生物。最近,几种模式生物的许多单细胞RNA测序(scRNA-Seq)数据库,包括其他涡虫物种,已经公开可用;这些是搜索各种组织和细胞中基因表达的强大而有用的资源。然而,只有一个scRNA-Seq数据集对检测到的基因数量有限。在这里,我们收集了日本血吸虫细胞,并进行了scRNA-Seq分析。一部小说,自动,迭代细胞聚类策略产生了3,404个细胞数据集,根据基因表达谱可分为63种细胞类型。在本研究中,我们使用日本山梨介绍了scRNA-Seq数据集的两种使用示例。首先,该数据集提供了与先前研究一致的结果,以及新颖的功能相关见解,即,DjMTA和DjP2X-A基因在新生细胞中的表达,从而产生分化的细胞。第二,我们对接受照射的动物的scRNA-Seq数据集和时程批量RNA-Seq进行了综合分析,证明数据集可以帮助解释通过大量RNA-Seq捕获的差异表达基因。使用R包“Seurat”和GSE223927,研究人员可以轻松访问和利用此数据集。(215/250字)本文受版权保护。保留所有权利。
The freshwater planarian Dugesia japonica maintains an abundant heterogeneous cell population called neoblasts, which include adult pluripotent stem cells. Thus, it is an excellent model organism for stem cell and regeneration research. Recently, many single-cell RNA sequencing (scRNA-seq) databases of several model organisms, including other planarian species, have become publicly available; these are powerful and useful resources to search for gene expression in various tissues and cells. However, the only scRNA-seq dataset for D. japonica has been limited by the number of genes detected. Herein, we collected D. japonica cells, and conducted an scRNA-seq analysis. A novel, automatic, iterative cell clustering strategy produced a dataset of 3,404 cells, which could be classified into 63 cell types based on gene expression profiles. We introduced two examples for utilizing the scRNA-seq dataset in this study using D. japonica. First, the dataset provided results consistent with previous studies as well as novel functionally relevant insights, that is, the expression of DjMTA and DjP2X-A genes in neoblasts that give rise to differentiated cells. Second, we conducted an integrative analysis of the scRNA-seq dataset and time-course bulk RNA-seq of irradiated animals, demonstrating that the dataset can help interpret differentially expressed genes captured via bulk RNA-seq. Using the R package \"Seurat\" and GSE223927, researchers can easily access and utilize this dataset.