ArticleBMC developmental biology2007
A systematic screen for genes expressed in definitive endoderm by Serial Analysis of Gene Expression (SAGE).
Article in BMC developmental biology, 2007. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 31 papers.
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31 citing papers in PubMed, 58 citations in OpenAlex.
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- Generation and molecular characterization of human pluripotent stem cell-derived pharyngeal foregut endoderm.Developmental cell · 2023Article
- Single-Cell RNA Sequencing of Sox17-Expressing Lineages Reveals Distinct Gene Regulatory Networks and Dynamic Developmental Trajectories.Stem cells (Dayton, Ohio) · 2023Article
- Single-cell chromatin profiling of the primitive gut tube reveals regulatory dynamics underlying lineage fate decisions.Nature communications · 2022Article
- Single-cell patterning and axis characterization in the murine and human definitive endoderm.Cell research · 2021Article
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- Molecular recording of mammalian embryogenesis.Nature · 2019Article
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- Epithelial DNA methyltransferase-1 regulates cell survival, growth and maturation in developing prostatic buds.Developmental biology · 2019Article
- Defining murine organogenesis at single-cell resolution reveals a role for the leukotriene pathway in regulating blood progenitor formation.Nature cell biology · 2018Article
- Visualizing the structure of RNA-seq expression data using grade of membership models.PLoS genetics · 2017Article
- The Regulation of rRNA Gene Transcription during Directed Differentiation of Human Embryonic Stem Cells.PloS one · 2016Article
- Imprinted expression in cystic embryoid bodies shows an embryonic and not an extra-embryonic pattern.Developmental biology · 2015Article
- Endogenous WNT signals mediate BMP-induced and spontaneous differentiation of epiblast stem cells and human embryonic stem cells.Stem cell reports · 2015Article
- A regulatory network controls nephrocan expression and midgut patterning.Development (Cambridge, England) · 2014Article
- Mutually exclusive signaling signatures define the hepatic and pancreatic progenitor cell lineage divergence.Genes & development · 2013Article
- A molecular signature for purified definitive endoderm guides differentiation and isolation of endoderm from mouse and human embryonic stem cells.Stem cells and development · 2012Article
- BMP4 signaling directs primitive endoderm-derived XEN cells to an extraembryonic visceral endoderm identity.Developmental biology · 2012Article
- Smad1 signaling restricts hematopoietic potential after promoting hemangioblast commitment.Blood · 2011Article
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8 authors at 3 institutions in 1 country.
Funding
No grant is acknowledged in the PubMed record.
Abstract
backgroundThe embryonic definitive endoderm (DE) gives rise to organs of the gastrointestinal and respiratory tract including the liver, pancreas and epithelia of the lung and colon. Understanding how DE progenitor cells generate these tissues is critical to understanding the cause of visceral organ disorders and cancers, and will ultimately lead to novel therapies including tissue and organ regeneration. However, investigation into the molecular mechanisms of DE differentiation has been hindered by the lack of early DE-specific markers.
resultsWe describe the identification of novel as well as known genes that are expressed in DE using Serial Analysis of Gene Expression (SAGE). We generated and analyzed three longSAGE libraries from early DE of murine embryos: early whole definitive endoderm (0-6 somite stage), foregut (8-12 somite stage), and hindgut (8-12 somite stage). A list of candidate genes enriched for expression in endoderm was compiled through comparisons within these three endoderm libraries and against 133 mouse longSAGE libraries generated by the Mouse Atlas of Gene Expression Project encompassing multiple embryonic tissues and stages. Using whole mount in situ hybridization, we confirmed that 22/32 (69%) genes showed previously uncharacterized expression in the DE. Importantly, two genes identified, Pyy and 5730521E12Rik, showed exclusive DE expression at early stages of endoderm patterning.
conclusionThe high efficiency of this endoderm screen indicates that our approach can be successfully used to analyze and validate the vast amount of data obtained by the Mouse Atlas of Gene Expression Project. Importantly, these novel early endoderm-expressing genes will be valuable for further investigation into the molecular mechanisms that regulate endoderm development.
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