Transcriptome analysis of mouse stem cells and early embryos

Alexei A. Sharov, Yulan Piao, Ryo Matoba, Dawood B. Dudekula, Yong Qian, Vincent VanBuren, Geppino Falco, Patrick R. Martin, Carole A. Stagg, Uwem C. Bassey, Yuxia Wang, Mark G. Carter, Toshio Hamatani, Kazuhiro Aiba, Hidenori Akutsu, Lioudmila Sharova, Tetsuya S. Tanaka, Wendy L. Kimber, Toshiyuki Yoshikawa, Saied A. JaradatSerafino Pantano, Ramaiah Nagaraja, Kenneth R. Boheler, Dennis Taub, Richard J. Hodes, Dan L. Longo, David Schlessinger, Jonathan Keller, Emily Klotz, Garnett Kelsoe, Akihiro Umezawa, Angelo L. Vescovi, Janet Rossant, Tilo Kunath, Brigid L M Hogan, Anna Curci, Michele D'Urso, Janet Kelso, Winston Hide, Minoru Ko

Research output: Contribution to journalArticle

142 Citations (Scopus)

Abstract

Understanding and harnessing cellular potency are fundamental in biology and are also critical to the future therapeutic use of stem cells. Transcriptome analysis of these pluripotent cells is a first step towards such goals. Starting with sources that include oocytes, blastocysts, and embryonic and adult stem cells, we obtained 249,200 high-quality EST sequences and clustered them with public sequences to produce an index of approximately 30,000 total mouse genes that includes 977 previously unidentified genes. Analysis of gene expression levels by EST frequency identifies genes that characterize preimplantation embryos, embryonic stem cells, and adult stem cells, thus providing potential markers as well as clues to the functional features of these cells. Principal component analysis identified a set of 88 genes whose average expression levels decrease from oocytes to blastocysts, stem cells, postimplantation embryos, and finally to newborn tissues. This can be a first step towards a possible definition of a molecular scale of cellular potency. The sequences and cDNA clones recovered in this work provide a comprehensive resource for genes functioning in early mouse embryos and stem cells. The nonrestricted community access to the resource can accelerate a wide range of research, particularly in reproductive and regenerative medicine.

Original languageEnglish
JournalPLoS Biology
Volume1
Issue number3
DOIs
Publication statusPublished - 2003
Externally publishedYes

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Gene Expression Profiling
Stem cells
transcriptomics
stem cells
embryo (animal)
Blastocyst
Stem Cells
Embryonic Structures
Genes
Adult Stem Cells
Expressed Sequence Tags
embryonic stem cells
mice
Embryonic Stem Cells
blastocyst
Oocytes
oocytes
genes
Reproductive Medicine
Regenerative Medicine

ASJC Scopus subject areas

  • Agricultural and Biological Sciences(all)

Cite this

Sharov, A. A., Piao, Y., Matoba, R., Dudekula, D. B., Qian, Y., VanBuren, V., ... Ko, M. (2003). Transcriptome analysis of mouse stem cells and early embryos. PLoS Biology, 1(3). https://doi.org/10.1371/journal.pbio.0000074

Transcriptome analysis of mouse stem cells and early embryos. / Sharov, Alexei A.; Piao, Yulan; Matoba, Ryo; Dudekula, Dawood B.; Qian, Yong; VanBuren, Vincent; Falco, Geppino; Martin, Patrick R.; Stagg, Carole A.; Bassey, Uwem C.; Wang, Yuxia; Carter, Mark G.; Hamatani, Toshio; Aiba, Kazuhiro; Akutsu, Hidenori; Sharova, Lioudmila; Tanaka, Tetsuya S.; Kimber, Wendy L.; Yoshikawa, Toshiyuki; Jaradat, Saied A.; Pantano, Serafino; Nagaraja, Ramaiah; Boheler, Kenneth R.; Taub, Dennis; Hodes, Richard J.; Longo, Dan L.; Schlessinger, David; Keller, Jonathan; Klotz, Emily; Kelsoe, Garnett; Umezawa, Akihiro; Vescovi, Angelo L.; Rossant, Janet; Kunath, Tilo; Hogan, Brigid L M; Curci, Anna; D'Urso, Michele; Kelso, Janet; Hide, Winston; Ko, Minoru.

In: PLoS Biology, Vol. 1, No. 3, 2003.

Research output: Contribution to journalArticle

Sharov, AA, Piao, Y, Matoba, R, Dudekula, DB, Qian, Y, VanBuren, V, Falco, G, Martin, PR, Stagg, CA, Bassey, UC, Wang, Y, Carter, MG, Hamatani, T, Aiba, K, Akutsu, H, Sharova, L, Tanaka, TS, Kimber, WL, Yoshikawa, T, Jaradat, SA, Pantano, S, Nagaraja, R, Boheler, KR, Taub, D, Hodes, RJ, Longo, DL, Schlessinger, D, Keller, J, Klotz, E, Kelsoe, G, Umezawa, A, Vescovi, AL, Rossant, J, Kunath, T, Hogan, BLM, Curci, A, D'Urso, M, Kelso, J, Hide, W & Ko, M 2003, 'Transcriptome analysis of mouse stem cells and early embryos', PLoS Biology, vol. 1, no. 3. https://doi.org/10.1371/journal.pbio.0000074
Sharov AA, Piao Y, Matoba R, Dudekula DB, Qian Y, VanBuren V et al. Transcriptome analysis of mouse stem cells and early embryos. PLoS Biology. 2003;1(3). https://doi.org/10.1371/journal.pbio.0000074
Sharov, Alexei A. ; Piao, Yulan ; Matoba, Ryo ; Dudekula, Dawood B. ; Qian, Yong ; VanBuren, Vincent ; Falco, Geppino ; Martin, Patrick R. ; Stagg, Carole A. ; Bassey, Uwem C. ; Wang, Yuxia ; Carter, Mark G. ; Hamatani, Toshio ; Aiba, Kazuhiro ; Akutsu, Hidenori ; Sharova, Lioudmila ; Tanaka, Tetsuya S. ; Kimber, Wendy L. ; Yoshikawa, Toshiyuki ; Jaradat, Saied A. ; Pantano, Serafino ; Nagaraja, Ramaiah ; Boheler, Kenneth R. ; Taub, Dennis ; Hodes, Richard J. ; Longo, Dan L. ; Schlessinger, David ; Keller, Jonathan ; Klotz, Emily ; Kelsoe, Garnett ; Umezawa, Akihiro ; Vescovi, Angelo L. ; Rossant, Janet ; Kunath, Tilo ; Hogan, Brigid L M ; Curci, Anna ; D'Urso, Michele ; Kelso, Janet ; Hide, Winston ; Ko, Minoru. / Transcriptome analysis of mouse stem cells and early embryos. In: PLoS Biology. 2003 ; Vol. 1, No. 3.
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AU - Sharov, Alexei A.

AU - Piao, Yulan

AU - Matoba, Ryo

AU - Dudekula, Dawood B.

AU - Qian, Yong

AU - VanBuren, Vincent

AU - Falco, Geppino

AU - Martin, Patrick R.

AU - Stagg, Carole A.

AU - Bassey, Uwem C.

AU - Wang, Yuxia

AU - Carter, Mark G.

AU - Hamatani, Toshio

AU - Aiba, Kazuhiro

AU - Akutsu, Hidenori

AU - Sharova, Lioudmila

AU - Tanaka, Tetsuya S.

AU - Kimber, Wendy L.

AU - Yoshikawa, Toshiyuki

AU - Jaradat, Saied A.

AU - Pantano, Serafino

AU - Nagaraja, Ramaiah

AU - Boheler, Kenneth R.

AU - Taub, Dennis

AU - Hodes, Richard J.

AU - Longo, Dan L.

AU - Schlessinger, David

AU - Keller, Jonathan

AU - Klotz, Emily

AU - Kelsoe, Garnett

AU - Umezawa, Akihiro

AU - Vescovi, Angelo L.

AU - Rossant, Janet

AU - Kunath, Tilo

AU - Hogan, Brigid L M

AU - Curci, Anna

AU - D'Urso, Michele

AU - Kelso, Janet

AU - Hide, Winston

AU - Ko, Minoru

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