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Mok, G. F. 
ORCID: https://orcid.org/0000-0002-5202-9062, Turner, S., Smith, E. L., Mincarelli, L., Lister, A., Lipscombe, J., Uzun, V., Haerty, W. ORCID: https://orcid.org/0000-0003-0111-191X, Macaulay, I. C. and Münsterberg, A. E. ORCID: https://orcid.org/0000-0002-4577-4240
(2024)
Single cell RNA-sequencing and RNA-tomography of the avian embryo extending body axis.
Frontiers in Cell and Developmental Biology, 12.
ISSN 2296-634X
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Abstract
Introduction: Vertebrate body axis formation initiates during gastrulation and continues within the tail bud at the posterior end of the embryo. Major structures in the trunk are paired somites, which generate the musculoskeletal system, the spinal cord—forming part of the central nervous system, and the notochord, with important patterning functions. The specification of these different cell lineages by key signalling pathways and transcription factors is essential, however, a global map of cell types and expressed genes in the avian trunk is missing. Methods: Here we use high-throughput sequencing approaches to generate a molecular map of the emerging trunk and tailbud in the chick embryo. Results and Discussion: Single cell RNA-sequencing (scRNA-seq) identifies discrete cell lineages including somites, neural tube, neural crest, lateral plate mesoderm, ectoderm, endothelial and blood progenitors. In addition, RNA-seq of sequential tissue sections (RNA-tomography) provides a spatially resolved, genome-wide expression dataset for the avian tailbud and emerging body, comparable to other model systems. Combining the single cell and RNA-tomography datasets, we identify spatially restricted genes, focusing on somites and early myoblasts. Thus, this high-resolution transcriptome map incorporating cell types in the embryonic trunk can expose molecular pathways involved in body axis development.
| Item Type: | Article |
|---|---|
| Additional Information: | Data availability statement: The data presented in the study are deposited in the European Nucleotide Archive repository, accession number PRJEB74465 https://www.ebi.ac.uk/ena/browser/view/PRJEB74465. Funding information: The author(s) declare that financial support was received for the research, authorship, and/or publication of this article. The authors acknowledge support from the Biotechnology and Biological Sciences Research Council (BBSRC), part of UK Research and Innovation, BBSRC Core Strategic Programme Grant (Genomes to Food Security) BB/CSP1720/1 and the National Capability BBS/E/T/000PR9816 (NC1—Supporting EI’s ISPs and the UK Community with Genomics and Single Cell Analysis). WH was additionally supported by the BBSRC Grant BBS/E/T/000PR9818. IM was supported by a BBSRC New Investigator Grant BB/P022073/1. ST was supported by the JIC/NRP International Undergraduate Summer School programme. AM acknowledges BBSRC funding (BB/N007034/1) and a NRPDTP studentship for ES. |
| Uncontrolled Keywords: | rna-tomography,axis extension,chick embryo,single cell rna-sequencing,somites,developmental biology,cell biology ,/dk/atira/pure/subjectarea/asjc/1300/1309 |
| Faculty \ School: | Faculty of Science > School of Biological Sciences Faculty of Science |
| UEA Research Groups: | Faculty of Medicine and Health Sciences > Research Centres > Norwich Institute for Healthy Aging Faculty of Science > Research Groups > Cells and Tissues |
| Related URLs: | |
| Depositing User: | LivePure Connector |
| Date Deposited: | 29 Aug 2024 14:30 |
| Last Modified: | 01 Oct 2024 01:57 |
| URI: | https://ueaeprints.uea.ac.uk/id/eprint/96399 |
| DOI: | 10.3389/fcell.2024.1382960 |
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