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Transcriptome analysis of chicken ES, blastodermal and germ cells reveals that chick ES cells are equivalent to mouse ES cells rather than EpiSC.

Jean C, Oliveira NM, Intarapat S, Fuet A, Mazoyer C, De Almeida I, Trevers K, Boast S, Aubel P, Bertocchini F, Stern CD, Pain B - Stem Cell Res (2014)

Bottom Line: To define these cell types more rigorously, we have performed comparative microarray analysis to describe a transcriptomic profile specific for each cell type.This is validated by real time RT-PCR and in situ hybridisation.We find that both cES and cBC cells express classic pluripotency-related genes (including cPOUV/OCT4, NANOG, SOX2/3, KLF2 and SALL4), whereas expression of DAZL, DND1, DDX4 and PIWIL1 defines a molecular signature for germ cells.

View Article: PubMed Central - PubMed

Affiliation: INSERM, U846, Stem Cell and Brain Research Institute, Bron, France; INRA, USC1361, Bron, France; Université de Lyon, Lyon 1, UMR S 846, Lyon, France.

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The cells analysed are molecularly different.a: PCA analysis, calculated on all probe sets, demonstrates that chicken embryonic fibroblasts (CEF), monocytic BM2 progenitor cells, chicken embryonic stem (cES) cells, primordial germ cells (PGC) and blastodermal cells from stage X (EG & K) chick embryos (cBC) are molecularly different cell types as none of them overlap either on the first or second axis. Each sample (circle) is plotted as well as the barycentre of the triplicate (square). The same color code was used all along the manuscript to help for a simple comparison between the different cell types.b: The Venn diagram presents genes that are differentially expressed between the tested cell types, including CEF, the monocytic BM2 progenitor cell, cES cells, PGC and cBC.
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f0005: The cells analysed are molecularly different.a: PCA analysis, calculated on all probe sets, demonstrates that chicken embryonic fibroblasts (CEF), monocytic BM2 progenitor cells, chicken embryonic stem (cES) cells, primordial germ cells (PGC) and blastodermal cells from stage X (EG & K) chick embryos (cBC) are molecularly different cell types as none of them overlap either on the first or second axis. Each sample (circle) is plotted as well as the barycentre of the triplicate (square). The same color code was used all along the manuscript to help for a simple comparison between the different cell types.b: The Venn diagram presents genes that are differentially expressed between the tested cell types, including CEF, the monocytic BM2 progenitor cell, cES cells, PGC and cBC.

Mentions: The transcriptomic landscape between different chicken stem cells and fibroblasts was established using the most recent version of commercially annotated microarrays. For each cell type, three independent samples were hybridised and a first PCA analysis obtained from all probe sets demonstrates the molecular differences between the cell types analysed (Fig. 1A). Using cutoffs of p-value ≤ 0.05 and Log2(FC) ≥ 2, genes presenting at least one difference in expression between the different cell types were selected (Table S2). The genes were classified as either up-regulated (U), down-regulated (D) or not differentially expressed (n) between the different cells. A total of 5944 differentially expressed unique identifiers (target IDs) were defined for CEF, 5942 for BM2 cells, 4550 for cES, 5465 for PGC and 5522 for cBC.


Transcriptome analysis of chicken ES, blastodermal and germ cells reveals that chick ES cells are equivalent to mouse ES cells rather than EpiSC.

Jean C, Oliveira NM, Intarapat S, Fuet A, Mazoyer C, De Almeida I, Trevers K, Boast S, Aubel P, Bertocchini F, Stern CD, Pain B - Stem Cell Res (2014)

The cells analysed are molecularly different.a: PCA analysis, calculated on all probe sets, demonstrates that chicken embryonic fibroblasts (CEF), monocytic BM2 progenitor cells, chicken embryonic stem (cES) cells, primordial germ cells (PGC) and blastodermal cells from stage X (EG & K) chick embryos (cBC) are molecularly different cell types as none of them overlap either on the first or second axis. Each sample (circle) is plotted as well as the barycentre of the triplicate (square). The same color code was used all along the manuscript to help for a simple comparison between the different cell types.b: The Venn diagram presents genes that are differentially expressed between the tested cell types, including CEF, the monocytic BM2 progenitor cell, cES cells, PGC and cBC.
© Copyright Policy - CC BY
Related In: Results  -  Collection

License
Show All Figures
getmorefigures.php?uid=PMC4305369&req=5

f0005: The cells analysed are molecularly different.a: PCA analysis, calculated on all probe sets, demonstrates that chicken embryonic fibroblasts (CEF), monocytic BM2 progenitor cells, chicken embryonic stem (cES) cells, primordial germ cells (PGC) and blastodermal cells from stage X (EG & K) chick embryos (cBC) are molecularly different cell types as none of them overlap either on the first or second axis. Each sample (circle) is plotted as well as the barycentre of the triplicate (square). The same color code was used all along the manuscript to help for a simple comparison between the different cell types.b: The Venn diagram presents genes that are differentially expressed between the tested cell types, including CEF, the monocytic BM2 progenitor cell, cES cells, PGC and cBC.
Mentions: The transcriptomic landscape between different chicken stem cells and fibroblasts was established using the most recent version of commercially annotated microarrays. For each cell type, three independent samples were hybridised and a first PCA analysis obtained from all probe sets demonstrates the molecular differences between the cell types analysed (Fig. 1A). Using cutoffs of p-value ≤ 0.05 and Log2(FC) ≥ 2, genes presenting at least one difference in expression between the different cell types were selected (Table S2). The genes were classified as either up-regulated (U), down-regulated (D) or not differentially expressed (n) between the different cells. A total of 5944 differentially expressed unique identifiers (target IDs) were defined for CEF, 5942 for BM2 cells, 4550 for cES, 5465 for PGC and 5522 for cBC.

Bottom Line: To define these cell types more rigorously, we have performed comparative microarray analysis to describe a transcriptomic profile specific for each cell type.This is validated by real time RT-PCR and in situ hybridisation.We find that both cES and cBC cells express classic pluripotency-related genes (including cPOUV/OCT4, NANOG, SOX2/3, KLF2 and SALL4), whereas expression of DAZL, DND1, DDX4 and PIWIL1 defines a molecular signature for germ cells.

View Article: PubMed Central - PubMed

Affiliation: INSERM, U846, Stem Cell and Brain Research Institute, Bron, France; INRA, USC1361, Bron, France; Université de Lyon, Lyon 1, UMR S 846, Lyon, France.

Show MeSH
Related in: MedlinePlus