MicroRNAs to Nanog, Oct4 and Sox2 coding regions modulate embryonic stem cell differentiation

Nature

Volumn 455, Issue 7216, 2008, Pages 1124-1128

  Tay, Yvonne ^a,d   Zhang, Jinqiu ^a   Thomson, Andrew M ^a   Lim, Bing ^a,b   Rigoutsos, Isidore ^c  

^a GENOME INSTITUTE OF SINGAPORE   (Singapore)

^b HARVARD MEDICAL SCHOOL   (United States)

^c IBM T J WATSON RESEARCH CENTER   (United States)

^d Agency for Science   (Singapore)

Author keywords

[No Author keywords available]

Indexed keywords

MICRORNA; OCTAMER TRANSCRIPTION FACTOR 4; RETINOIC ACID; TRANSCRIPTION FACTOR NANOG; TRANSCRIPTION FACTOR SOX2;

AMINO ACID; EMBRYO; GENE EXPRESSION; HOMINID; MORPHOLOGY; MUTATION; PHENOTYPE; RNA; RODENT;

AMINO ACID SEQUENCE; ARTICLE; CELL DIFFERENTIATION; CONTROLLED STUDY; DOWN REGULATION; EMBRYONIC STEM CELL; EXON; GENE ACTIVITY; GENE MUTATION; GENE SILENCING; GENETIC TRANSCRIPTION; GENOME; HUMAN; HUMAN CELL; MOUSE; NONHUMAN; PHENOTYPE; PRIORITY JOURNAL; PROMOTER REGION; UPREGULATION;

ANIMALS; BLOTTING, WESTERN; CELL DIFFERENTIATION; CELL LINE; DNA-BINDING PROTEINS; EMBRYONIC STEM CELLS; GENE EXPRESSION REGULATION, DEVELOPMENTAL; HMGB PROTEINS; HOMEODOMAIN PROTEINS; MICE; MICRORNAS; MUTATION; OCTAMER TRANSCRIPTION FACTOR-3; OPEN READING FRAMES; REVERSE TRANSCRIPTASE POLYMERASE CHAIN REACTION; TRANSCRIPTION FACTORS;

ANIMALIA;

EID: 54549108798     PISSN: 00280836     EISSN: 14764679     Source Type: Journal    
DOI: 10.1038/nature07299     Document Type: Article

References (30)

1. Bartel, D. P. MicroRNAs: genomics, biogenesis, mechanism, and function. Cell 116, 281-297 (2004).
2. Elbashir, S. M., Lendeckel, W. & Tuschl, T. RNA interference is mediated by 21-and 22-nucleotide RNAs. Genes Dev. 15, 188-200 (2001).
3. Hammond, S. M. Dicing and slicing: the core machinery of the RNA interference pathway. FEBS Lett. 579, 5822-5829 (2005).
4. Hannon, G. J. RNA interference. Nature 418, 244-251 (2002).
5. Lagos-Quintana, M., Rauhut, R., Lendeckel, W. & Tuschl, T. Identification of novel genes coding for small expressed RNAs. Science 294, 853-858 (2001).
6. Pillai, R. S., Bhattacharyya, S. N. & Filipowicz, W. Repression of protein synthesis by miRNAs: how many mechanisms? Trends Cell Biol. 17, 118-126 (2007).
7. Pillai, R. S. MicroRNA function: multiple mechanisms for a tiny RNA? RNA 11, 1753-1761 (2005).
8. Niwa, H., Miyazaki, J. & Smith, A. G. Quantitative expression of Oct-3/4 defines differentiation, dedifferentiation or self-renewal of ES cells. Nature Genet. 24, 372-376 (2000).
9. Okumura-Nakanishi, S., Saito, M., Niwa, H. & Ishikawa, F. Oct-3/4 and Sox2 regulate Oct-3/4 gene in embryonic stem cells. J. Biol. Chem. 280, 5307-5317 (2005).
10. Pan, G. & Thomson, J. A. Nanog and transcriptional networks in embryonic stem cell pluripotency. Cell Res. 17, 42-49 (2007).
11. Mitsui, K. et al. The homeoprotein Nanog is required for maintenance of pluripotency in mouse epiblast and ES cells. Cell 113, 631-642 (2003).
12. Slack, F. J. et al. The lin-41 RBCC gene acts in the C. elegans heterochronic pathway between the let-7 regulatory RNA and the LIN-29 transcription factor. Mol. Cell 5, 659-669 (2000).
13. Lee, R. C., Feinbaum, R. L. & Ambros, V. The C. elegans heterochronic gene lin-4 encodes small RNAs with antisense complementarity to lin-14. Cell 75, 843-854 (1993).
14. Easow, G., Teleman, A. A. & Cohen, S. M. Isolation of microRNA targets by miRNP immunopurification. RNA 13, 1198-1204 (2007).
15. Lytle, J. R., Yario, T. A. & Steitz, J. A. Target mRNAs are repressed as efficiently by microRNA-binding sites in the 59 UTR as in the 3́ UTR. Proc. Natl Acad. Sci. USA 104, 9667-9672 (2007).
16. Bentwich, I. Prediction and validation of microRNAs and their targets. FEBS Lett. 579, 5904-5910 (2005).
17. Rajewsky, N. microRNA target predictions in animals. Nature Genet. 38, S8-S13 (2006).
18. Miranda, K. C. et al. A pattern-based method for the identification of microRNA binding sites and their corresponding heteroduplexes. Cell 126, 1203-1217 (2006).
19. Kloosterman, W. P., Wienholds, E., Ketting, R. F. & Plasterk, R. H. Substrate requirements for let-7 function in the developing zebrafish embryo. Nucleic Acids Res. 32, 6284-6291 (2004).
20. Silva, J., Chambers, I., Pollard, S. & Smith, A. Nanog promotes transfer of pluripotency after cell fusion. Nature 441, 997-1001 (2006).
21. Loh, Y. H. et al. The Oct4 and Nanog transcription network regulates pluripotency in mouse embryonic stem cells. Nature Genet. 38, 431-440 (2006).
22. Chambers, I. et al. Functional expression cloning of Nanog, a pluripotency sustaining factor in embryonic stem cells. Cell 113, 643-655 (2003).
23. Tay, Y. M. et al. MicroRNA-134 modulates the differentiation of mouse embryonic stem cells, where it causes post-transcriptional attenuation of Nanog and LRH1. Stem Cells 26, 17-29 (2008).
24. Palmqvist, L. et al. Correlation of murine embryonic stem cell gene expression profiles with functional measures of pluripotency. Stem Cells 23, 663-680 (2005).
25. Duursma, A. M., Kedde, M., Schrier, M., le Sage, C. & Agami, R. miR-148 targets human DNMT3b protein coding region. RNA 14, 872-877 (2008).
26. INK4a translation suppressed by miR-24. PLoS ONE 3, e1864
27. Hobert, O. Gene regulation by transcription factors and microRNAs. Science 319, 1785-1786 (2008).
28. Floyd, S. K. & Bowman, J. L. Gene regulation: ancient microRNA target sequences in plants. Nature 428, 485-486 (2004).
29. Didiano, D. & Hobert, O. Perfect seed pairing is not a generally reliable predictor for miRNA-target interactions. Nat. Struct. Mol. Biol. 13, 849-851 (2006).
30. Thomson, A. M. et al. The acute box cis-element in human heavy ferritin mRNA 5′-untranslated region is a unique translation enhancer that binds poly(C)-binding proteins. J. Biol. Chem. 280, 30032-30045 (2005).