Telomeric RNAs mark sex chromosomes in stem cells

Genetics

Volumn 182, Issue 3, 2009, Pages 685-698

  Zhang, Li Feng ^a   Ogawa, Yuya ^b   Ahn, Janice Y ^b   Namekawa, Satoshi H ^b   Silva, Susana S ^b   Lee, Jeannie T ^b  

^a NANYANG TECHNOLOGICAL UNIVERSITY   (Singapore)

^b NONE

Author keywords

[No Author keywords available]

Indexed keywords

DICER; RNA; TELOMERASE; DEAD BOX PROTEIN; DICER1 PROTEIN, MOUSE; RIBONUCLEASE;

ANIMAL CELL; ARTICLE; CELL DIFFERENTIATION; CELL STRESS; CONTROLLED STUDY; FEMALE; FLUORESCENCE IN SITU HYBRIDIZATION; GENE EXPRESSION; GENE LOCATION; HETEROCHROMATIN; MALE; MOUSE; NEOPLASM; NONHUMAN; PLURIPOTENT STEM CELL; PRIORITY JOURNAL; RNA INTERFERENCE; SEX CHROMOSOME; STEM CELL; TELOMERE; X CHROMOSOME; Y CHROMOSOME; ANIMAL; CELL LINE; CYTOLOGY; EMBRYONIC STEM CELL; GENETICS; HELA CELL; HUMAN; METABOLISM; METHODOLOGY; MOUSE MUTANT; NORTHERN BLOTTING; TUMOR CELL LINE; X CHROMOSOME INACTIVATION;

ANIMALS; BLOTTING, NORTHERN; CELL LINE; CELL LINE, TUMOR; DEAD-BOX RNA HELICASES; EMBRYONIC STEM CELLS; ENDORIBONUCLEASES; FEMALE; HELA CELLS; HUMANS; IN SITU HYBRIDIZATION, FLUORESCENCE; MALE; MICE; MICE, KNOCKOUT; RNA; SEX CHROMOSOMES; STEM CELLS; TELOMERE; X CHROMOSOME; X CHROMOSOME INACTIVATION; Y CHROMOSOME;

EID: 70349310022     PISSN: 00166731     EISSN: 00166731     Source Type: Journal    
DOI: 10.1534/genetics.109.103093     Document Type: Article

References (53)

1. ADEWUMI, O., B. AFLATOONIAN, L. AHRLUND-RICHTER, M. AMIT, P. W. ANDREWS et al., 2007 Characterization of human embryonic stem cell lines by the International Stem Cell Initiative. Nat. Biotechnol. 25: 803-816.
2. AZZALIN, C. M., P. REICHENBACK, L. KHORIAULI, E. GIULOTTO and J. LINGNER, 2007 Telomeric repeat containing RNA and RNA surveillance factors at mammalian chromosome ends. Science 318: 798-801.
3. BACHER, C. P., M. GUGGIARI, B. BRORS, S. AUGUI, P. CLERC et al., 2006 Transient colocalization of X-inactivation centres accompanies the initiation of X inactivation. Nat. Cell Biol. 8: 293-299.
4. BAUR, J. A., Y. ZOU, J. W. SHAY and W. E. WRIGHT, 2001 Telomere position effect in human cells. Science 292: 2075-2077. (Pubitemid 32691573)
5. BIRNEY, E., J. A. STAMATOYANNOPOULOS, A. DUTTA, R. GUIGO, T. R. GINGERAS et al., 2007 Identification and analysis of functional elements in 1% of the human genome by the ENCODE pilot project. Nature 447: 799-816.
6. BLACKBURN, E. H., C. W. GREIDER and J. W. SZOSTAK, 2006 Telomeres and telomerase: the path from maize, Tetrahymena and yeast to human cancer and aging. Nat. Med. 12: 1133-1138.
7. BORSANI, G., R. TONLORENZI, M.C. SIMMLER, L. DANDOLO, D. ARNAUD et al., 1991 Characterization of a murine gene expressed from the inactive X chromosome. Nature 351: 325.
8. BROCKDORFF, N., A. ASHWORTH, G. F. KAY, P. COOPER, S. SMITH et al., 1991 Conservation of position and exclusive expression of mouse Xist from the inactive X chromosome. Nature 351: 329.
9. BROWN, C. J., A. BALLABIO, J. L. RUPERT, R. G. LAFRENIERE, M. GROMPE et al., 1991 A gene from the region of the human X inactivation centre is expressed exclusively from the inactive X chromosome. Nature 349: 38.
10. DE LANGE, T., 2004 T-loops and the origin of telomeres. Nat. Rev. Mol. Cell. Biol. 5: 323-329.
11. DHARA, S. K., and N. BENVENISTY, 2004 Gene trap as a tool for genome annotation and analysis of X chromosome inactivation in human embryonic stem cells. Nucleic Acids Res. 32: 3995-4002.
12. ENVER, T., S. SONEJI, C. JOSHI, J. BROWN, F. IBORRA et al., 2005 Cellular differentiation hierarchies in normal and culture-adapted human embryonic stem cells. Hum. Mol. Genet. 14: 3129-3140.
13. FELDSER, D. M., and C. W. GREIDER, 2007 Short telomeres limit tumor progression in vivo by inducing senescence. Cancer Cell 11: 461-469.
14. GINGERAS, T. R., 2007 Origin of phenotypes: genes and transcripts. Genome Res. 17: 682-690.
15. GOTTSCHLING, D. E., O. M. APARICIO, B. L. BILLINGTON and V. A. ZAKIAN, 1990 Position effect at S. cerevisiae telomeres: reversible repression of Pol II transcription. Cell 63: 751-762.
16. GREWAL, S. I., and S. C. ELGIN, 2007 Transcription and RNA interference in the formation of heterochromatin. Nature 447: 399-406. (Pubitemid 46816745)
17. HALL, L. L., M. BYRON, J. BUTLER, K. A. BECKER, A. NELSON et al., 2008 X-inactivation reveals epigenetic anomalies in most hESC but identifies sublines that initiate as expected. J. Cell. Physiol. 216: 445-452.
18. HALL, L. L., M. BYRON, K. SAKAI, L. CARREL, H. F. WILLARD et al., 2002 An ectopic human XIST gene can induce chromosome inactivation in postdifferentiation human HT-1080 cells. Proc. Natl. Acad. Sci. USA 99: 8677-8682.
19. HARLEY, C. B., A. B. FUTCHER and C. W. GREIDER, 1990 Telomeres shorten during ageing of human fibroblasts. Nature 345: 458-460. (Pubitemid 20178256)
20. HEARD, E., F. MONGELARD, D. ARNAUD, C. CHUREAU, C. VOURC'H et al., 1999 Human XIST yeast artificial chromosome transgenes show partial X inactivation center function in mouse embryonic stem cells. Proc. Natl. Acad. Sci. USA 96: 6841-6846.
21. HOFFMAN, L. M., L. HALL, J. L. BATTEN, H. YOUNG, D. PARDASANI et al., 2005 X-inactivation status varies in human embryonic stem cell lines. Stem Cells 23: 1468-1478. (Pubitemid 41740996)
22. HUYNH, K. D., and J. T. LEE, 2003 Inheritance of a pre-inactivated paternal X chromosome in early mouse embryos. Nature 426: 857.
23. KANELLOPOULOU, C., S. A. MULJO, A. L. KUNG, S. GANESAN, R. DRAPKIN et al., 2005 Dicer-deficient mouse embryonic stem cells are defective in differentiation and centromeric silencing. Genes Dev. 19: 489-501.
24. KELLEY, R., and M. KURODA, 2000 Noncoding RNA genes in dosage compensation and imprinting. Cell 29: 9-12.
25. KIPLING, D., and H. J. COOKE, 1990 Hypervariable ultra-long telomeres in mice. Nature 347: 400-402.
26. LAU, N. C., L. P. LIM, E. G. WEINSTEIN and D. P. BARTEL, 2001 An abundant class of tiny RNAs with probable regulatory roles in Caenorhabditis elegans. Science 294: 858-862.
27. LEE, J. T., 2002 Homozygous Tsix mutant mice reveal a sex-ratio distortion and revert to random X-inactivation. Nat. Genet. 32: 195-200.
28. LEE, J. T., 2005 Regulation of X-chromosome counting by Tsix and Xite sequences. Science 309: 768-771.
29. LEE, J. T., and R. JAENISCH, 1997 Long-range cis effects of ectopic X-inactivation centres on a mouse autosome. Nature 386: 275-279.
30. LEE, J. T., and N. LU, 1999 Targeted mutagenesis of Tsix leads to nonrandom X inactivation. Cell 99: 47-57.
31. LEE, J. T., N. LU and Y. HAN, 1999 Genetic analysis of the mouse X inactivation center defines an 80-kb multifunction domain. Proc. Natl. Acad. Sci. USA 96: 3836-3841.
32. MAKAROV, V. L., Y. HIROSE and J. P. LANGMORE, 1997 Long G tails at both ends of human chromosomes suggest a C strand degradation mechanism for telomere shortening. Cell 88: 657-666.
33. MCEACHERN, M. J., A. KRAUSKOPF and E. H. BLACKBURN, 2000 Telomeres and their control. Annu. Rev. Genet. 34: 331-358.
34. MURCHISON, E. P., J. F. PARTRIDGE, O. H. TAM, S. CHELOUFI and G. J. HANNON, 2005 Characterization of Dicer-deficient murine embryonic stem cells. Proc. Natl. Acad. Sci. USA 102: 12135-12140.
35. NAVARRO, P., S. PICHARD, C. CIAUDO, P. AVNER and C. ROUGEULLE, 2005 Tsix transcription across the Xist gene alters chromatin conformation without affecting Xist transcription: implications for X-chromosome inactivation. Genes Dev. 19: 1474-1484.
36. OGAWA, Y., B. K. SUN and J. T. LEE, 2008 Intersection of the RNA interference and X-inactivation pathways. Science 320: 1336-1341.
37. OSAFUNE, K., L. CARON, M. BOROWIAK, R. J. MARTINEZ, C. S. FITZ-GERALD et al., 2008 Marked differences in differentiation propensity among human embryonic stem cell lines. Nat. Biotechnol. 26: 313-315.
38. PANNING, B., J. DAUSMAN and R. JAENISCH, 1997 X chromosome inactivation is mediated by Xist RNA stabilization. Cell 90: 907-916. (Pubitemid 27381629)
39. PHEASANT, M., and J. S. MATTICK, 2007 Raising the estimate of functional human sequences. Genome Res. 17: 1245-1253.
40. RUDENKO, G., and L. H. VAN DER PLOEG, 1989 Transcription of telomere repeats in protozoa. EMBO J. 8: 2633-2638.
41. SADO, T., Y. HOKI and H. SASAKI, 2005 Tsix silences Xist through modification of chromatin structure. Dev. Cell 9: 159-165.
42. SCHOEFTNER, S., and M. A. BLASCO, 2008 Developmentally regulated transcription of mammalian telomeres by DNA-dependent RNA polymerase II. Nat. Cell Biol. 10: 228-236.
43. SHEARDOWN, S. A., S. M. DUTHIE, C. M. JOHNSTON, A. E. T. NEWALL, E. J. FORMSTONE et al., 1997 Stabilization of Xist RNA mediate initiation of X chromosome inactivation. Cell 91: 99-107. (Pubitemid 27431316)
44. SHEN, Y., Y. MATSUNO, S. D. FOUSE, N. RAO, S. ROOT et al., 2008 X-inactivation in female human embryonic stem cells is in a non-random pattern and prone to epigenetic alterations. Proc. Natl. Acad. Sci. USA 105: 4709-4714.
45. SILVA, S. S., R. K. ROWNTREE, S. MEKHOUBAD and J. T. LEE, 2008 X-chromosome inactivation and epigenetic fluidity in human embryonic stem cells. Proc. Natl. Acad. Sci. USA 105: 4820-4825.
46. SOLOVEI, I., E. R. GAGINSKAYA and H. C. MACGREGOR, 1994 The arrangement and transcription of telomere DNA sequences at the ends of lampbrush chromosomes of birds. Chromosome Res. 2: 460-470.
47. SUN, B. K., A. M. DEATON and J. T. LEE, 2006 A transient heterochromatic state in Xist preempts X inactivation choice without RNA stabilization. Mol. Cell 21: 617-628.
48. THAM, W. H., and V. A. ZAKIAN, 2002 Transcriptional silencing at Saccharomyces telomeres: implications for other organisms. Oncogene 21: 512-521.
49. VEGA, L. R., M. K. MATEYAK and V. A. ZAKIAN, 2003 Getting to the end: telomerase access in yeast and humans. Nat. Rev. Mol. Cell. Biol. 4: 948-959.
50. WUTZ, A., 2003 RNAs templating chromatin structure for dosage compensation in animals. BioEssays 25: 434-442.
51. XU, N., C. L. TSAI and J. T. LEE, 2006 Transient homologous chromosome pairing marks the onset of X inactivation. Science 311: 1149-1152.
52. ZAMORE, P. D., and B. HALEY, 2005 Ribo-gnome: the big world of small RNAs. Science 309: 1519-1524. (Pubitemid 41266468)
53. ZHANG, L. F., K. D. HUYNH and J. T. LEE, 2007 Perinucleolar targeting of the inactive X during S phase: evidence for a role in the maintenance of silencing. Cell 129: 693-706.