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Spatio-temporal mRNA tracking in the early zebrafish embryo
Early stages of embryogenesis depend on subcellular localization and transport of maternal mRNA. However, systematic analysis of these processes is hindered by a lack of spatio-temporal information in single-cell RNA sequencing. Here, we combine spatially-resolved transcriptomics and single-cell RNA...
Autores principales: | , , , , , , , , |
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Formato: | Online Artículo Texto |
Lenguaje: | English |
Publicado: |
Nature Publishing Group UK
2021
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Materias: | |
Acceso en línea: | https://www.ncbi.nlm.nih.gov/pmc/articles/PMC8184788/ https://www.ncbi.nlm.nih.gov/pubmed/34099733 http://dx.doi.org/10.1038/s41467-021-23834-1 |
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author | Holler, Karoline Neuschulz, Anika Drewe-Boß, Philipp Mintcheva, Janita Spanjaard, Bastiaan Arsiè, Roberto Ohler, Uwe Landthaler, Markus Junker, Jan Philipp |
author_facet | Holler, Karoline Neuschulz, Anika Drewe-Boß, Philipp Mintcheva, Janita Spanjaard, Bastiaan Arsiè, Roberto Ohler, Uwe Landthaler, Markus Junker, Jan Philipp |
author_sort | Holler, Karoline |
collection | PubMed |
description | Early stages of embryogenesis depend on subcellular localization and transport of maternal mRNA. However, systematic analysis of these processes is hindered by a lack of spatio-temporal information in single-cell RNA sequencing. Here, we combine spatially-resolved transcriptomics and single-cell RNA labeling to perform a spatio-temporal analysis of the transcriptome during early zebrafish development. We measure spatial localization of mRNA molecules within the one-cell stage embryo, which allows us to identify a class of mRNAs that are specifically localized at an extraembryonic position, the vegetal pole. Furthermore, we establish a method for high-throughput single-cell RNA labeling in early zebrafish embryos, which enables us to follow the fate of individual maternal transcripts until gastrulation. This approach reveals that many localized transcripts are specifically transported to the primordial germ cells. Finally, we acquire spatial transcriptomes of two xenopus species and compare evolutionary conservation of localized genes as well as enriched sequence motifs. |
format | Online Article Text |
id | pubmed-8184788 |
institution | National Center for Biotechnology Information |
language | English |
publishDate | 2021 |
publisher | Nature Publishing Group UK |
record_format | MEDLINE/PubMed |
spelling | pubmed-81847882021-06-09 Spatio-temporal mRNA tracking in the early zebrafish embryo Holler, Karoline Neuschulz, Anika Drewe-Boß, Philipp Mintcheva, Janita Spanjaard, Bastiaan Arsiè, Roberto Ohler, Uwe Landthaler, Markus Junker, Jan Philipp Nat Commun Article Early stages of embryogenesis depend on subcellular localization and transport of maternal mRNA. However, systematic analysis of these processes is hindered by a lack of spatio-temporal information in single-cell RNA sequencing. Here, we combine spatially-resolved transcriptomics and single-cell RNA labeling to perform a spatio-temporal analysis of the transcriptome during early zebrafish development. We measure spatial localization of mRNA molecules within the one-cell stage embryo, which allows us to identify a class of mRNAs that are specifically localized at an extraembryonic position, the vegetal pole. Furthermore, we establish a method for high-throughput single-cell RNA labeling in early zebrafish embryos, which enables us to follow the fate of individual maternal transcripts until gastrulation. This approach reveals that many localized transcripts are specifically transported to the primordial germ cells. Finally, we acquire spatial transcriptomes of two xenopus species and compare evolutionary conservation of localized genes as well as enriched sequence motifs. Nature Publishing Group UK 2021-06-07 /pmc/articles/PMC8184788/ /pubmed/34099733 http://dx.doi.org/10.1038/s41467-021-23834-1 Text en © The Author(s) 2021 https://creativecommons.org/licenses/by/4.0/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/ (https://creativecommons.org/licenses/by/4.0/) . |
spellingShingle | Article Holler, Karoline Neuschulz, Anika Drewe-Boß, Philipp Mintcheva, Janita Spanjaard, Bastiaan Arsiè, Roberto Ohler, Uwe Landthaler, Markus Junker, Jan Philipp Spatio-temporal mRNA tracking in the early zebrafish embryo |
title | Spatio-temporal mRNA tracking in the early zebrafish embryo |
title_full | Spatio-temporal mRNA tracking in the early zebrafish embryo |
title_fullStr | Spatio-temporal mRNA tracking in the early zebrafish embryo |
title_full_unstemmed | Spatio-temporal mRNA tracking in the early zebrafish embryo |
title_short | Spatio-temporal mRNA tracking in the early zebrafish embryo |
title_sort | spatio-temporal mrna tracking in the early zebrafish embryo |
topic | Article |
url | https://www.ncbi.nlm.nih.gov/pmc/articles/PMC8184788/ https://www.ncbi.nlm.nih.gov/pubmed/34099733 http://dx.doi.org/10.1038/s41467-021-23834-1 |
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