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A Quantitative Lineage-Tracing Approach to Understand Morphogenesis in Gut

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Programmed Morphogenesis

Part of the book series: Methods in Molecular Biology ((MIMB,volume 2258))

Abstract

Lineage-tracing experiments aim to identify and track the progeny and/or fate of cells. The use of inducible recombinases and fluorescent reporters has been instrumental in defining cellular hierarchies and allowing for the identification of stem cells in an unperturbed in vivo setting. The refinement of these approaches, labeling single cells, and the subsequent quantitative analysis of the clonal dynamics have allowed the comparison of different stem cell populations as well as establishing different mechanisms of cellular replenishment during steady-state homeostasis as well as during morphogenesis and disease. Utilizing this approach, it is now possible to establish the cellular hierarchy in a given tissue and the frequency of cell fate decisions on a population basis, thus providing a comprehensive analysis of cellular behavior in vivo. Although in this chapter we describe a protocol for lineage tracing of cells from fetal intestinal epithelium to the adult intestine, this approach can be widely applied to quantitatively assess the cell fate of any fetal cell during morphogenesis.

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Acknowledgments

We thank Dr. Kim B. Jensen and Jensen lab for his support, advice, and helpful discussion. We acknowledge Biorender.com as Figs. 1, 3, 4, and 6 were created with Biorender.com and exported under a paid subscription. This work was supported by MSCA-IF-2014-EF-656099. We thank CERCA Programme / Generalitat de Catalunya for institutional support.

Author information

Authors and Affiliations

  1. Biotech Research and Innovation Centre (BRIC), University of Copenhagen, Copenhagen, Denmark

    Svetlana Ulyanchenko & Jordi Guiu

  2. Cell Plasticity and Regeneration Group, Regenerative Medicine Program, Institut d’Investigació Biomèdica de Bellvitge – IDIBELL, L’Hospitalet de Llobregat, Llobregat, Spain

    Jordi Guiu

  3. Program for Advancing the Clinical Translation of Regenerative Medicine of Catalonia, P-CMR[C], L’Hospitalet de Llobregat, Llobregat, Spain

    Jordi Guiu

Authors
  1. Svetlana Ulyanchenko
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  2. Jordi Guiu
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Corresponding author

Correspondence to Jordi Guiu .

Editor information

Editors and Affiliations

  1. Department of Pathology, Division of Experimental Pathology, School of Medicine, University of Pittsburgh, Pittsburgh Liver Research Center, University of Pittsburgh, Department of Bioengineering Swanson School of Engineering, University of Pittsburgh, McGowan Institute for Regenerative Medicine, University of Pittsburgh, Pittsburgh, PA, USA

    Mo R. Ebrahimkhani

  2. Department of Bioengineering Swanson School of Engineering, Pittsburgh Liver Research Center, Department of Pathology, Division of Experimental Pathology, School of Medicine, University of Pittsburgh, Pittsburgh, PA, USA

    Joshua Hislop

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© 2021 The Editor(s) (if applicable) and The Author(s), under exclusive license to Springer Science+Business Media, LLC, part of Springer Nature

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Ulyanchenko, S., Guiu, J. (2021). A Quantitative Lineage-Tracing Approach to Understand Morphogenesis in Gut. In: Ebrahimkhani, M.R., Hislop, J. (eds) Programmed Morphogenesis. Methods in Molecular Biology, vol 2258. Humana, New York, NY. https://doi.org/10.1007/978-1-0716-1174-6_3

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  • DOI: https://doi.org/10.1007/978-1-0716-1174-6_3

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  • Publisher Name: Humana, New York, NY

  • Print ISBN: 978-1-0716-1173-9

  • Online ISBN: 978-1-0716-1174-6

  • eBook Packages: Springer Protocols

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