Single-Cell RNA Sequencing Technology and Its Application in Embryonic Development

2021 ◽  
Vol 11 (02) ◽  
pp. 113-119
Author(s):  
华 林
2021 ◽  
Vol 0 (0) ◽  
pp. 0-0
Author(s):  
Lian He ◽  
Anjing Lu ◽  
Lin Qin ◽  
Qianru Zhang ◽  
Hua Ling ◽  
...  

eLife ◽  
2020 ◽  
Vol 9 ◽  
Author(s):  
Abbas Jariani ◽  
Lieselotte Vermeersch ◽  
Bram Cerulus ◽  
Gemma Perez-Samper ◽  
Karin Voordeckers ◽  
...  

Current methods for single-cell RNA sequencing (scRNA-seq) of yeast cells do not match the throughput and relative simplicity of the state-of-the-art techniques that are available for mammalian cells. In this study, we report how 10x Genomics’ droplet-based single-cell RNA sequencing technology can be modified to allow analysis of yeast cells. The protocol, which is based on in-droplet spheroplasting of the cells, yields an order-of-magnitude higher throughput in comparison to existing methods. After extensive validation of the method, we demonstrate its use by studying the dynamics of the response of isogenic yeast populations to a shift in carbon source, revealing the heterogeneity and underlying molecular processes during this shift. The method we describe opens new avenues for studies focusing on yeast cells, as well as other cells with a degradable cell wall.


Genomics ◽  
2020 ◽  
Vol 112 (6) ◽  
pp. 4547-4551
Author(s):  
Yu Shangguan ◽  
Chunhong Li ◽  
Hua Lin ◽  
Minglin Ou ◽  
Donge Tang ◽  
...  

2019 ◽  
Vol 107 (4) ◽  
pp. 613-623 ◽  
Author(s):  
Gang Xu ◽  
Yang Liu ◽  
Hanjie Li ◽  
Lei Liu ◽  
Shuye Zhang ◽  
...  

2020 ◽  
Vol 12 (6) ◽  
pp. 438-447
Author(s):  
Guan Zheng ◽  
Zhong-Yu Xie ◽  
Peng Wang ◽  
Yan-Feng Wu ◽  
Hui-Yong Shen

Blood ◽  
2018 ◽  
Vol 132 (Supplement 1) ◽  
pp. 5086-5086
Author(s):  
Brandon Hadland ◽  
Barbara Varnum-Finney ◽  
Stacey Dozono ◽  
Dana Jackson ◽  
Shahin Rafii ◽  
...  

Abstract Hematopoietic stem cells (HSC) are generated during a transient window of embryonic development from endothelial-like hemogenic precursors within specific arterial vessels such as the aorta of the AGM (aorta-gonad-mesonephros region). During HSC emergence, hemogenic precursors must acquire and maintain HSC-defining properties such as the ability to self-renew, home, and provide multilineage hematopoiesis, properties which distinguish rare HSC from a multitude of other hematopoietic progenitors arising simultaneously in the developing embryo. However, the precise niche-derived signals necessary and sufficient to support the acquisition and maintenance of these properties remains poorly defined. Toward identification of these signals, we generated a platform consisting of endothelial cells from the embryonic AGM (AGM-EC) which supports the specification and self-renewal of engrafting HSC from clonal embryo-derived hemogenic precursors in vitro. Using this platform to assay functional HSC potential at the single cell level, we determined a phenotype (VE-Caderin+CD61+EPCRhigh) that encompasses the population of hemogenic precursors during their asynchronous transition to HSC between E9.5 and E11.5 in murine embryonic development. To elucidate the transcriptional changes associated with the emergence of HSC from hemogenic precursors, we analyzed the global transcriptional profiles of FACS-purified VE-Caderin+CD61+EPCRhigh cells at various stages of embryonic development by single cell RNA-sequencing and reconstructed their developmental trajectory in "pseudotime" based on incremental changes in their transcriptional profiles. Complementary analysis of AGM-EC by bulk and single cell RNA-sequencing revealed a unique transcriptional profile of niche endothelial cells supporting HSC development enriched for immune/inflammatory signals. Combining the transcriptional profiles of emerging HSC with niche AGM-EC, we have identified candidate ligand-receptor pairs regulating intercellular interactions during HSC specification and self-renewal and have begun to validate the functional importance of these interactions in supporting HSC generation from hemogenic precursors in vitro. We expect these studies will enhance our understanding of the unique signal pathways necessary for the development of functional HSC, a critical step toward engineering HSC in vitro for clinical applications in disease modeling, drug discovery, and gene modification to identify novel therapies for hematologic and immunologic disorders. Disclosures Rafii: Angiocrine Bioscience: Equity Ownership.


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