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Retrospective cell lineage reconstruction in humans by using short tandem repeats
Cell lineage analysis aims to uncover the developmental history of an organism back to its cell of origin. Recently, novel in vivo methods utilizing genome editing enabled important insights into the cell lineages of animals. In contrast, human cell lineage remains restricted to retrospective approa...
Autores principales: | , , , , , , , , , , , , , , , , , , , , , |
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Formato: | Online Artículo Texto |
Lenguaje: | English |
Publicado: |
Elsevier
2021
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Materias: | |
Acceso en línea: | https://www.ncbi.nlm.nih.gov/pmc/articles/PMC8313865/ https://www.ncbi.nlm.nih.gov/pubmed/34341783 http://dx.doi.org/10.1016/j.crmeth.2021.100054 |
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author | Tao, Liming Raz, Ofir Marx, Zipora Ghosh, Manjusha S. Huber, Sandra Greindl-Junghans, Julia Biezuner, Tamir Amir, Shiran Milo, Lilach Adar, Rivka Levy, Ron Onn, Amos Chapal-Ilani, Noa Berman, Veronika Ben Arie, Asaf Rom, Guy Oron, Barak Halaban, Ruth Czyz, Zbigniew T. Werner-Klein, Melanie Klein, Christoph A. Shapiro, Ehud |
author_facet | Tao, Liming Raz, Ofir Marx, Zipora Ghosh, Manjusha S. Huber, Sandra Greindl-Junghans, Julia Biezuner, Tamir Amir, Shiran Milo, Lilach Adar, Rivka Levy, Ron Onn, Amos Chapal-Ilani, Noa Berman, Veronika Ben Arie, Asaf Rom, Guy Oron, Barak Halaban, Ruth Czyz, Zbigniew T. Werner-Klein, Melanie Klein, Christoph A. Shapiro, Ehud |
author_sort | Tao, Liming |
collection | PubMed |
description | Cell lineage analysis aims to uncover the developmental history of an organism back to its cell of origin. Recently, novel in vivo methods utilizing genome editing enabled important insights into the cell lineages of animals. In contrast, human cell lineage remains restricted to retrospective approaches, which still lack resolution and cost-efficient solutions. Here, we demonstrate a scalable platform based on short tandem repeats targeted by duplex molecular inversion probes. With this human cell lineage tracing method, we accurately reproduced a known lineage of DU145 cells and reconstructed lineages of healthy and metastatic single cells from a melanoma patient who matched the anatomical reference while adding further refinements. This platform allowed us to faithfully recapitulate lineages of developmental tissue formation in healthy cells. In summary, our lineage discovery platform can profile informative somatic mutations efficiently and provides solid lineage reconstructions even in challenging low-mutation-rate healthy single cells. |
format | Online Article Text |
id | pubmed-8313865 |
institution | National Center for Biotechnology Information |
language | English |
publishDate | 2021 |
publisher | Elsevier |
record_format | MEDLINE/PubMed |
spelling | pubmed-83138652021-07-31 Retrospective cell lineage reconstruction in humans by using short tandem repeats Tao, Liming Raz, Ofir Marx, Zipora Ghosh, Manjusha S. Huber, Sandra Greindl-Junghans, Julia Biezuner, Tamir Amir, Shiran Milo, Lilach Adar, Rivka Levy, Ron Onn, Amos Chapal-Ilani, Noa Berman, Veronika Ben Arie, Asaf Rom, Guy Oron, Barak Halaban, Ruth Czyz, Zbigniew T. Werner-Klein, Melanie Klein, Christoph A. Shapiro, Ehud Cell Rep Methods Report Cell lineage analysis aims to uncover the developmental history of an organism back to its cell of origin. Recently, novel in vivo methods utilizing genome editing enabled important insights into the cell lineages of animals. In contrast, human cell lineage remains restricted to retrospective approaches, which still lack resolution and cost-efficient solutions. Here, we demonstrate a scalable platform based on short tandem repeats targeted by duplex molecular inversion probes. With this human cell lineage tracing method, we accurately reproduced a known lineage of DU145 cells and reconstructed lineages of healthy and metastatic single cells from a melanoma patient who matched the anatomical reference while adding further refinements. This platform allowed us to faithfully recapitulate lineages of developmental tissue formation in healthy cells. In summary, our lineage discovery platform can profile informative somatic mutations efficiently and provides solid lineage reconstructions even in challenging low-mutation-rate healthy single cells. Elsevier 2021-07-26 /pmc/articles/PMC8313865/ /pubmed/34341783 http://dx.doi.org/10.1016/j.crmeth.2021.100054 Text en © 2021 The Authors https://creativecommons.org/licenses/by/4.0/This is an open access article under the CC BY license (http://creativecommons.org/licenses/by/4.0/). |
spellingShingle | Report Tao, Liming Raz, Ofir Marx, Zipora Ghosh, Manjusha S. Huber, Sandra Greindl-Junghans, Julia Biezuner, Tamir Amir, Shiran Milo, Lilach Adar, Rivka Levy, Ron Onn, Amos Chapal-Ilani, Noa Berman, Veronika Ben Arie, Asaf Rom, Guy Oron, Barak Halaban, Ruth Czyz, Zbigniew T. Werner-Klein, Melanie Klein, Christoph A. Shapiro, Ehud Retrospective cell lineage reconstruction in humans by using short tandem repeats |
title | Retrospective cell lineage reconstruction in humans by using short tandem repeats |
title_full | Retrospective cell lineage reconstruction in humans by using short tandem repeats |
title_fullStr | Retrospective cell lineage reconstruction in humans by using short tandem repeats |
title_full_unstemmed | Retrospective cell lineage reconstruction in humans by using short tandem repeats |
title_short | Retrospective cell lineage reconstruction in humans by using short tandem repeats |
title_sort | retrospective cell lineage reconstruction in humans by using short tandem repeats |
topic | Report |
url | https://www.ncbi.nlm.nih.gov/pmc/articles/PMC8313865/ https://www.ncbi.nlm.nih.gov/pubmed/34341783 http://dx.doi.org/10.1016/j.crmeth.2021.100054 |
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