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Massively parallel single cell lineage tracing using CRISPR/Cas9 induced genetic scars

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Item Type:Preprint
Title:Massively parallel single cell lineage tracing using CRISPR/Cas9 induced genetic scars
Creators Name:Spanjaard, B. and Hu, B. and Mitic, N. and Junker, J.P.
Abstract:A key goal of developmental biology is to understand how a single cell transforms into a full-grown organism consisting of many different cell types. Single-cell RNAsequencing (scRNA-seq) has become a widely-used method due to its ability to identify all cell types in a tissue or organ in a systematic manner(1-3). However, a major challenge is to organize the resulting taxonomy of cell types into lineage trees revealing the developmental origin of cells. Here, we present a strategy for simultaneous lineage tracing and transcriptome profiling in thousands of single cells. By combining scRNAseq with computational analysis of lineage barcodes generated by genome editing of transgenic reporter genes, we reconstruct developmental lineage trees in zebrafish larvae and adult fish. In future analyses, LINNAEUS (LINeage tracing by Nuclease-Activated Editing of Ubiquitous Sequences) can be used as a systematic approach for identifying the lineage origin of novel cell types, or of known cell types under different conditions.
Source:bioRxiv
Publisher:Cold Spring Harbor Laboratory (U.S.A.)
Article Number:205971
Date:19 October 2017
Official Publication:https://doi.org/10.1101/205971

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