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Identification of a neural crest stem cell niche by Spatial Genomic Analysis
The neural crest is an embryonic population of multipotent stem cells that form numerous defining features of vertebrates. Due to lack of reliable techniques to perform transcriptional profiling in intact tissues, it remains controversial whether the neural crest is a heterogeneous or homogeneous po...
Autores principales: | , , , , |
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Formato: | Online Artículo Texto |
Lenguaje: | English |
Publicado: |
Nature Publishing Group UK
2017
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Materias: | |
Acceso en línea: | https://www.ncbi.nlm.nih.gov/pmc/articles/PMC5705662/ https://www.ncbi.nlm.nih.gov/pubmed/29184067 http://dx.doi.org/10.1038/s41467-017-01561-w |
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author | Lignell, Antti Kerosuo, Laura Streichan, Sebastian J. Cai, Long Bronner, Marianne E. |
author_facet | Lignell, Antti Kerosuo, Laura Streichan, Sebastian J. Cai, Long Bronner, Marianne E. |
author_sort | Lignell, Antti |
collection | PubMed |
description | The neural crest is an embryonic population of multipotent stem cells that form numerous defining features of vertebrates. Due to lack of reliable techniques to perform transcriptional profiling in intact tissues, it remains controversial whether the neural crest is a heterogeneous or homogeneous population. By coupling multiplex single molecule fluorescence in situ hybridization with machine learning algorithm based cell segmentation, we examine expression of 35 genes at single cell resolution in vivo. Unbiased hierarchical clustering reveals five spatially distinct subpopulations within the chick dorsal neural tube. Here we identify a neural crest stem cell niche that centers around the dorsal midline with high expression of neural crest genes, pluripotency factors, and lineage markers. Interestingly, neural and neural crest stem cells express distinct pluripotency signatures. This Spatial Genomic Analysis toolkit provides a straightforward approach to study quantitative multiplex gene expression in numerous biological systems, while offering insights into gene regulatory networks via synexpression analysis. |
format | Online Article Text |
id | pubmed-5705662 |
institution | National Center for Biotechnology Information |
language | English |
publishDate | 2017 |
publisher | Nature Publishing Group UK |
record_format | MEDLINE/PubMed |
spelling | pubmed-57056622017-12-02 Identification of a neural crest stem cell niche by Spatial Genomic Analysis Lignell, Antti Kerosuo, Laura Streichan, Sebastian J. Cai, Long Bronner, Marianne E. Nat Commun Article The neural crest is an embryonic population of multipotent stem cells that form numerous defining features of vertebrates. Due to lack of reliable techniques to perform transcriptional profiling in intact tissues, it remains controversial whether the neural crest is a heterogeneous or homogeneous population. By coupling multiplex single molecule fluorescence in situ hybridization with machine learning algorithm based cell segmentation, we examine expression of 35 genes at single cell resolution in vivo. Unbiased hierarchical clustering reveals five spatially distinct subpopulations within the chick dorsal neural tube. Here we identify a neural crest stem cell niche that centers around the dorsal midline with high expression of neural crest genes, pluripotency factors, and lineage markers. Interestingly, neural and neural crest stem cells express distinct pluripotency signatures. This Spatial Genomic Analysis toolkit provides a straightforward approach to study quantitative multiplex gene expression in numerous biological systems, while offering insights into gene regulatory networks via synexpression analysis. Nature Publishing Group UK 2017-11-28 /pmc/articles/PMC5705662/ /pubmed/29184067 http://dx.doi.org/10.1038/s41467-017-01561-w Text en © The Author(s) 2017 Open Access This article is licensed under a Creative Commons Attribution 4.0 International License, which permits use, sharing, adaptation, distribution and reproduction in any medium or format, as long as you give appropriate credit to the original author(s) and the source, provide a link to the Creative Commons license, and indicate if changes were made. The images or other third party material in this article are included in the article’s Creative Commons license, unless indicated otherwise in a credit line to the material. If material is not included in the article’s Creative Commons license and your intended use is not permitted by statutory regulation or exceeds the permitted use, you will need to obtain permission directly from the copyright holder. To view a copy of this license, visit http://creativecommons.org/licenses/by/4.0/. |
spellingShingle | Article Lignell, Antti Kerosuo, Laura Streichan, Sebastian J. Cai, Long Bronner, Marianne E. Identification of a neural crest stem cell niche by Spatial Genomic Analysis |
title | Identification of a neural crest stem cell niche by Spatial Genomic Analysis |
title_full | Identification of a neural crest stem cell niche by Spatial Genomic Analysis |
title_fullStr | Identification of a neural crest stem cell niche by Spatial Genomic Analysis |
title_full_unstemmed | Identification of a neural crest stem cell niche by Spatial Genomic Analysis |
title_short | Identification of a neural crest stem cell niche by Spatial Genomic Analysis |
title_sort | identification of a neural crest stem cell niche by spatial genomic analysis |
topic | Article |
url | https://www.ncbi.nlm.nih.gov/pmc/articles/PMC5705662/ https://www.ncbi.nlm.nih.gov/pubmed/29184067 http://dx.doi.org/10.1038/s41467-017-01561-w |
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