Prospective isolation and global gene expression analysis of definitive and visceral endoderm
Open accessAbstract
In spite of the therapeutic importance of endoderm derivatives such as the pancreas, liver, lung, and intestine, there are few molecular markers specific for early endoderm. In order to identify endoderm-specific genes as well as to define transcriptional differences between definitive and visceral endoderm, we performed microarray analysis on E8.25 definitive and visceral endoderm. We have developed an early endoderm gene expression signature, and clarified the transcriptional similarities and differences between definitive and visceral endoderm. Additionally, we have developed methods for flow cytometric isolation of definitive and visceral endoderm. These results shed light on the mechanism of endoderm formation and should facilitate investigation of endoderm formation from embryonic stem cells.
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Despite identification of several endoderm enriched genes, no novel DE specific genes were identified.
“Despite the identification of several endoderm enriched genes, no novel DE specific genes were identified.”
From A systematic screen for genes expressed in definitive endoderm by Serial Analysis of Gene Expression (SAGE) (2007) · cites this paper as [25]
CXCR4 is not an ideal marker for DE as it is widely expressed in the gastrulation stage mouse embryo.
“Although useful, CXCR4 is not an ideal marker for the DE as it is widely expressed in the gastulation stage mouse embryo (Table 1 and [5,25]).”
From A systematic screen for genes expressed in definitive endoderm by Serial Analysis of Gene Expression (SAGE) (2007) · cites this paper as [25]
Several groups have carried out screens for novel genes expressed in the endoderm of Xenopus and mouse embryos using microarray or cDNA hybridization.
“Several groups have carried out screens for novel genes expressed in the endoderm of Xenopus and mouse embryos using microarray or cDNA hybridization [25-29].”
From A systematic screen for genes expressed in definitive endoderm by Serial Analysis of Gene Expression (SAGE) (2007) · cites this paper as [25]
Cxcr4 was expressed in both endoderm and ectoderm libraries.
“The exception is Cxcr4, which although used as a DE marker, was expressed in both endoderm and ectoderm, reaffirming it as widely expressed [25].”
From A systematic screen for genes expressed in definitive endoderm by Serial Analysis of Gene Expression (SAGE) (2007) · cites this paper as [25]
Previous studies have used cDNA cloning or microarray analysis to screen for novel endoderm genes.
“Previous studies focusing on screening for novel endoderm genes have used cDNA cloning or microarray analysis [25-29,40].”
From A systematic screen for genes expressed in definitive endoderm by Serial Analysis of Gene Expression (SAGE) (2007) · cites this paper as [25]
The high functional similarity between visceral and definitive endoderm suggests that these tissues have highly related transcriptomes.
“Furthermore, the high functional similarity between visceral and definitive endoderm suggests that these tissues have highly related transcriptomes [25].”
From A systematic screen for genes expressed in definitive endoderm by Serial Analysis of Gene Expression (SAGE) (2007) · cites this paper as [25]
Sherwood et al. used fluorescent activated cell sorting to isolate definitive and visceral endoderm cell populations for microarray analysis.
“Sherwood et al. recently used fluorescent activated cell sorting to isolate definitive and visceral endoderm cell populations for microarray analysis [25].”
From A systematic screen for genes expressed in definitive endoderm by Serial Analysis of Gene Expression (SAGE) (2007) · cites this paper as [25]
Sherwood et al. defined a pan-endodermal signature composed of 22 novel and known genes preferentially expressed in definitive and visceral endoderm.
“They defined a pan-endodermal signature composed of 22 novel and known genes that is preferentially expressed in definitive and visceral endoderm.”
From A systematic screen for genes expressed in definitive endoderm by Serial Analysis of Gene Expression (SAGE) (2007) · cites this paper as [25]
Sherwood et al. identified 18 out of 27 (67%) novel genes whose expression was enriched in endoderm.
“They identified 18 out of 27 (67%) novel genes whose expression was enriched in endoderm.”
From A systematic screen for genes expressed in definitive endoderm by Serial Analysis of Gene Expression (SAGE) (2007) · cites this paper as [25]
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Transcriptional dynamics of endodermal organ formation
Sherwood, R. I., Chen, T. A., & Melton, D. A. (2009) · Developmental Dynamics · doi:10.1002/dvdy.21810 · Cited by 191 · see citing works
Self-citationBMP signaling induces visceral endoderm differentiation of XEN cells and parietal endoderm
Paca, A., Séguin, C. A., Clements, M., Ryczko, M., Rossant, J., Rodriguez, T. A., & Kunath, T. (2012) · Developmental Biology · doi:10.1016/j.ydbio.2011.10.013 · Cited by 87 · see citing works
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“Furthermore, the high functional similarity between visceral and definitive endoderm suggests that these tissues have highly related transcriptomes [25].”
BackgroundMethodInfluentialPeng, G., Cui, G., Ke, J., & Jing, N. (2020) · Annual Review of Genomics and Human Genetics · doi:10.1146/annurev-genom-120219-083220 · Cited by 42 · see citing works
Formation of the Murine Endoderm
Tremblay, K. D. (2010) · Progress in Molecular Biology and Translational Science · doi:10.1016/b978-0-12-381280-3.00001-4 · Cited by 21 · see citing works
- Authors
- Sherwood, R. I., Jitianu, C., Cleaver, O., Shaywitz, D. A., Lamenzo, J. O., Chen, A. E., Golub, T. R., & Melton, D. A.
- Affiliations
- Harvard University (US)
- Broad Institute (US)
- Howard Hughes Medical Institute (US)
- Corresponding author
- Sherwood, Richard I.
- Melton, Douglas A.
- Venue
- Developmental Biology
- Publisher
- Elsevier BV
- Published
- 2007-04
- Volume
- 304
- Issue
- 2
- Pages
- 541-555
- ISSN
- 0012-1606 (ISSN-L)
- OpenAlex
- W2001429836
- Cited by
- 122
- References
- 2
- Citations by year
- 2025: 1 · 2024: 1 · 2023: 1 · 2021: 4 · 2020: 4 · 2019: 1 · 2018: 5 · 2017: 1 · 2016: 5 · 2015: 6 · 2014: 9 · 2013: 6 · 2012: 9
- FWCI
- 6.75
- Type
- journal article
- Language
- en
- Open access
- bronze
- doi.org
- Licence
- www.elsevier.com/tdm/userlicense/1.0/ (tdm)
- www.elsevier.com/legal/tdmrep-license (tdm)
- www.elsevier.com/open-access/userlicense/1.0/ (vor, 2330 d)
- doi.org/10.15223/policy-017 (stm-asf)
- doi.org/10.15223/policy-037 (stm-asf)
- doi.org/10.15223/policy-012 (stm-asf)
- doi.org/10.15223/policy-029 (stm-asf)
- doi.org/10.15223/policy-004 (stm-asf)
- Locations
- Developmental Biology (publishedVersion)
- PubMed (publishedVersion)
- Topics
- Life Sciences › Biochemistry, Genetics and Molecular Biology › Molecular Biology › Developmental Biology and Gene Regulation
- Life Sciences › Biochemistry, Genetics and Molecular Biology › Molecular Biology › Pluripotent Stem Cells Research
- Life Sciences › Biochemistry, Genetics and Molecular Biology › Molecular Biology › Renal and related cancers
- Keywords
- definitive endoderm, visceral endoderm, transcriptional differences, endoderm formation, embryonic stem cells, mouse embryo
- MeSH terms
- Animals, Cell Differentiation, Cells, Cultured, Endoderm, Mesoderm, Mice, Transgenic, Viscera, Gene Expression, Oligonucleotide Array Sequence Analysis, Multipotent Stem Cells, Mice, Embryonic Stem Cells
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