Emergent dynamics of adult stem cell lineages from single nucleus and single cell RNA-Seq of Drosophila testes.
Emergent dynamics of adult stem cell lineages from single nucleus and single cell RNA-Seq of Drosophila testes.
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DOI：
10.7554/elife.82201
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发表时间：
2023-02-16
期刊：
影响因子：
7.7
通讯作者：
Buszczak, Michael
中科院分区：
文献类型：
--
作者：
Raz, Amelie A.;Vida, Gabriela S.;Stern, Sarah R.;Mahadevaraju, Sharvani;Fingerhut, Jaclyn M.;Viveiros, Jennifer M.;Pal, Soumitra;Grey, Jasmine R.;Grace, Mara R.;Berry, Cameron W.;Li, Hongjie;Janssens, Jasper;Saelens, Wouter;Shao, Zhantao;Hu, Chun;Yamshita, Yukiko M.;Przytycka, Teresa;Oliver, Brian;Brill, Julie A.;Krause, Henry;Matunis, Erika L.;White-Cooper, Helen;DiNardo, Stephen;Fuller, Margaret T.;Buszczak, Michael
从生殖系干细胞中正确分化精子，对下一代的产生至关重要，需要基因表达的巨大变化，这驱动几乎所有细胞成分的重塑，从染色质到细胞器到细胞形状本身。在这里，我们提供了一个单核和单细胞RNA-seq资源，涵盖了果蝇中所有的精子发生，从深入分析来自Fly Cell Atlas（FCA）研究的成年睾丸单核RNA-seq（snRNA-seq）数据开始。通过分析超过44，000个细胞核和6000个细胞，这些数据提供了稀有细胞类型的鉴定，分化中间步骤的映射，以及鉴定影响生育力或控制生殖系和支持体细胞分化的新因素的潜力。我们证明分配的关键生殖系和体细胞类型的组合使用已知的标记，原位杂交和分析现存的蛋白陷阱。单细胞和单核数据集的比较证明特别揭示了种系分化中的动态发育转变。为了补充FCA托管的基于网络的数据分析门户，我们提供与常用软件（如Seurat和Monocle）兼容的数据集。这里提供的基础将使研究精子发生的社区能够询问数据集，以确定候选基因来测试体内功能。
Proper differentiation of sperm from germline stem cells, essential for production of the next generation, requires dramatic changes in gene expression that drive remodeling of almost all cellular components, from chromatin to organelles to cell shape itself. Here, we provide a single nucleus and single cell RNA-seq resource covering all of spermatogenesis in Drosophila starting from in-depth analysis of adult testis single nucleus RNA-seq (snRNA-seq) data from the Fly Cell Atlas (FCA) study. With over 44,000 nuclei and 6000 cells analyzed, the data provide identification of rare cell types, mapping of intermediate steps in differentiation, and the potential to identify new factors impacting fertility or controlling differentiation of germline and supporting somatic cells. We justify assignment of key germline and somatic cell types using combinations of known markers, in situ hybridization, and analysis of extant protein traps. Comparison of single cell and single nucleus datasets proved particularly revealing of dynamic developmental transitions in germline differentiation. To complement the web-based portals for data analysis hosted by the FCA, we provide datasets compatible with commonly used software such as Seurat and Monocle. The foundation provided here will enable communities studying spermatogenesis to interrogate the datasets to identify candidate genes to test for function in vivo.
影响因子：
11.8
作者：
Anllo, Lauren;DiNardo, Stephen
通讯作者：
DiNardo, Stephen