Nuclear domains enriched in RNA 3'-processing factors associate with coiled bodies and histone genes in a cell cycle-dependent manner

Molecular Biology of the Cell

Volumn 10, Issue 11, 1999, Pages 3815-3824

  Schul, Wouter ^a   Van Der Kraan, Ineke ^a   Matera, A Gregory ^b   Van Driel, Roel ^a   De Jong, Luitzen ^a  

^a UNIVERSITY OF AMSTERDAM   (Netherlands)

^b CASE WESTERN RESERVE UNIVERSITY SCHOOL OF MEDICINE   (United States)

Author keywords

[No Author keywords available]

Indexed keywords

HISTONE; RNA; SMALL NUCLEAR RNA;

ARTICLE; CELL CYCLE; CELL SYNCHRONIZATION; CONFOCAL LASER MICROSCOPY; GENE LOCUS; HUMAN; HUMAN CELL; MOLECULAR INTERACTION; PRIORITY JOURNAL; PROTEIN BINDING; PROTEIN DOMAIN; RNA PROCESSING;

EID: 0032695210     PISSN: 10591524     EISSN: None     Source Type: Journal    
DOI: 10.1091/mbc.10.11.3815     Document Type: Article

References (57)

1. Abbott, J., Marzluff, W.F., and Gall, J.G. (1999). The stem-loop binding protein (SLBP1) is present in coiled bodies of the Xenopus germinal vesicle. Mol. Biol. Cell 10, 487-499.
2. Albig, W., Drabent, B., Kunz, J., Kalff-Suske, M., Grzeschik, K.H., and Doenecke, D. (1993). All known human H1 histone genes except the H1(0) gene are clustered on chromosome 6. Genomics 16, 649-654.
3. Andrade, L.E., Tan, E.M., and Chan, E.K. (1993). Immunocytochemical analysis of the coiled body in the cell cycle and during cell proliferation. Proc. Natl. Acad. Sci. USA 90, 1947-1951.
4. Andrade, L.E.C., Chan, E.K.L., Raška, I., Peebles, C.L., Roos, G., and Tan, E.M. (1991). Human autoantibody to a novel protein of the nuclear coiled body: immunological characterization and cDNA cloning of p80-coilin. J. Exp. Med. 173, 1407-1419.
5. Bohmann, K., Ferreira, J.A., and Lamond, A.I. (1995). Mutational analysis of p80-coilin indicates a functional interaction between coiled bodies and the nucleolus. J. Cell Biol. 131, 817-831.
6. Callan, H.G., and Gall, J.G. (1991). Association of RNA with the B and C snurposomes of Xenopus oocytes nuclei. Chromosoma 101, 69-82.
7. Callan, H.G., Gall, J.G., and Murphy, C. (1991). Histone genes are located at the sphere loci of Xenopus lampbrush chromosomes. Chromosoma 101, 245-251.
8. Carmo-Fonseca, M., Ferreira, J., and Lamond, A.I. (1993). Assembly of snRNP-containing coiled bodies is regulated in interphase and mitosis - evidence that the coiled body is a kinetic nuclear structure. J. Cell Biol. 120, 841-852.
9. Carmo-Fonseca, M., Pepperkok, R., Carvalho, M.T., and Lamond, A.I. (1992). Transcription-dependent colocalization of the U1, U2, U4/U6 and U5 snRNPs in coiled bodies. J. Cell Biol. 117, 1-14.
10. de Jong, L., Grande, M.A., Mattern, K.A., Schul, W., and van Driel, R. (1996). Nuclear domains involved in RNA synthesis, RNA processing and replication. Crit. Rev. Eukaryot. Gene Expr. 6, 215-246.
11. Fakan, S., and Bernhard, W. (1971). Localization of rapidly and slowly labeled nuclear RNA as visualized by high resolution autoradiography. Exp. Cell Res. 67, 129-141.
12. Ferreira, J., Carmo-Fonseca, M., and Lamond, A.I. (1994). Differential interaction of splicing snRNPs with coiled bodies and interchromatin granules during mitosis and assembly of daughter cell nuclei. J. Cell Biol. 126, 11-23.
13. Fox, M.H., Read, R.A., and Bedford, J.S. (1987). Comparison of synchronized chinese hamster ovary cells obtained by mitotic shake-off, hydroxyurea, aphidicolin, or methotrexate. Cytometry 8, 315-320.
14. Frey, M.R., and Matera, A.G. (1995). Coiled bodies contain U7 small nuclear RNA and associate with specific DNA sequences in interphase human cells. Proc. Natl. Acad. Sci. USA 92, 5915-5919.
15. Gall, J.G., Stephenson, E.C., Erba, H.P., Diaz, M.O., and Barsacchi-Pilone, G. (1981). Histone genes are located at the sphere loci of newt lampbrush chromosomes. Chromosoma 84, 159-171.
16. Gall, J.G., Tsvetkov, A., Wu, Z., and Murphy, C. (1995). Is the sphere organelle/coiled body a universal nuclear component? Dev. Genet. 16, 25-35.
17. Gao, L., Frey, M.R., and Matera, A.G. (1997). Human genes encoding U3 snRNA associate with coiled bodies in interphase cells and are clustered on chromosome 17pq11.2 in a complex inverted repeat structure. Nucleic Acids Res. 25, 4740-4747.
18. Gick, O., Krämer, A., Vasserot, A., and Birnstiel, M.L. (1987). Heat-labile regulatory factor is requried for 3′ processing of histone precursor mRNAs. Proc. Natl. Acad. Sci. USA 84, 8937-8940.
19. Grande, M.A., van der Kraan, I., de Jong, L., and van Driel, R. (1997). Nuclear distribution of transcription factors in relation to sites of transcription and RNA polymerase II. J. Cell Sci. 110, 1781-1791.
20. Grdina, D.J., Meistrich, M.L., Meyn, R.E., Johnson, T.S., and White, R.A. (1984). Cell synchrony techniques. I. A comparison of methods. Cell Tissue Kinet. 17, 223-236.
21. Heintz, N. (1991). The regulation of histone gene expression during the cell cycle. Biochim. Biophys. Acta 1088, 327-339.
22. Hernandez-Verdun, D. (1986). Structural organization of the nucleolus in mammalian cells. Methods Achiev. Exp. Pathol. 12, 26-62.
23. Jiménez-García, L.F., Segura-Valdez, M. de L., Ochs, R.L., Rothblum, L.I., Hannan, R., and Spector, D.L. (1994). Nucleogenesis: U3 snRNA-containing prenucleolar bodies move to sites of active prerRNA transcription after mitosis. Mol. Biol. Cell 5, 955-966.
24. Jordan, P., Cunha, C., and Carmo-Fonseca, M. (1997). The cdk7-cyclin H-MAT1 complex associated with TFIIH is localized in coiled bodies. Mol. Biol. Cell 8, 1207-1217.
25. Krishan, A. (1975). Rapid flow cytofluorometric analysis of mammalian cell cycle by propidium iodine staining. J. Cell Biol. 66, 188-193.
26. Lamond, A.I., and Carmo-Fonseca, M. (1993). The coiled body. Trends. Cell. Biol. 3, 198-204.
27. Lamond, A.I., and Earnshaw, W.C. (1998). Structure and function in the nucleus. Science 280, 547-553.
28. Langer, P.R., Waldrop, A.A., and Ward, D.C. (1981). Enzymatic synthesis of biotin-labeled polynucleotides: novel nucleic acid affinity probes. Proc. Natl. Acad. Sci. USA 78, 6633-6637.
29. Liu, Q., and Dreyfuss, G. (1996). A novel nuclear structure containing the survival of motor neurons protein. EMBO J. 15, 3555-3565.
30. Manders, E.M.M., Stap, J., Brakenhoff, G.J., van Driel, R., and Aten, J.A. (1992). Dynamics of three-dimensional replication patterns during the S-phase, analyzed by double labeling of DNA and confocal microscopy. J. Cell Sci. 203, 857-862.
31. Meier, U.T., and Blobel, G. (1992). Nopp140 shuttles on tracks between nucleolus and cytoplasm. Cell 70, 127-138.
32. Melin, L., Soldati, D., Mital, R., Streit, A., and Schümperli, D. (1992). Biochemical demonstration of complex formation of histone premRNA with U7 small nuclear ribonucleoprotein and hairpin binding factors. EMBO J. 11, 691-697.
33. Misteli, T., and Spector, D.L. (1998). The cellular organization of gene expression. Curr. Opin. Cell Biol. 10, 323-331.
34. Monneron, A., and Bernhard, W. (1969). Fine structural organization of the interphase nucleus is some mammalian cells. J. Ultrastruct. Res. 27, 266-288.
35. Moreno Diaz de la Espina, S., Risueno, M., and Medina, F. (1982). Ultrastructural, cytochemical and autoradiographic characterization of coiled bodies in the plant cell nucleus. Biol. Cell 44, 229-238.
36. Raška, I., Andrade, L.E.C., Ochs, R.L., Chan, E.K.L., Chang, C.M., Roos, G., and Tan, E.M. (1991). Immunological and ultrastructural studies of the nuclear coiled body with autoimmune antibodies. Exp. Cell Res. 195, 27-37.
37. Raška, I., Ochs, R.L., Andrade, L.E.C., Chan, E.K.L., Burlingame, R., Peebles, C., Gruol, D., and Tan, E.M. (1990). Association between the nucleolus and the coiled body. J. Struct. Biol. 104, 120-127.
38. Rigby, P.W.J., Dieckmann, M., Rhodes, C., and Berg, P. (1977). Labeling DNA to high specific activity in vitro by nick translation with DNA polymerase I. J. Mol. Biol. 113, 237-251.
39. Schul, W., de Jong, L., and van Driel, R. (1998a). Nuclear neighbors: The spatial and functional organization of genes and nuclear domains. J. Cell. Biochem. 70, 159-171.
40. Schul, W., Groenhout, B., Koberna, K., Takagaki, Y., Jenny, A., Manders, E.M.M., Raška, I., van Driel, R., and de Jong, L. (1996). The RNA 3′ cleavage factors CstF 64 kDa and CPSF 100 kDa are concentrated in nuclear domains closely associated with coiled bodies and newly synthesized RNA. EMBO J. 15, 2883-2892.
41. Schul, W., van Driel, R., and de Jong, L. (1998b). Coiled bodies and U2 snRNA genes adjacent to coiled bodies are enriched in factors required for snRNA transcription. Mol. Biol. Cell 9, 1025-1036.
42. Smith, K.P., Carter, K.C., Johnson, C.V., and Lawrence, J.B. (1995). U2 and U1 snRNA gene loci associate with coiled bodies. J. Cell. Biochem. 59, 473-485.
43. Stein, G.S., Stein, J.L., van Wijnen, A.J., and Lian, J.B. (1994). Histone gene transcription: a model for responsiveness to an integrated series of regulatory signals mediating cell cycle control and proliferation/differentiation interrelationships. J. Cell. Biochem. 54, 393-404.
44. Takagaki, Y., Manley, J.L., MacDonald, C.C., Wilusz, J., and Shenk, T. (1990). A multisubunit factor, CstF, is required for polyadenylation of mammalian premRNAs. Genes & Dev. 3, 2112-2120.
45. Thiry, M. (1994). Cytochemical and immunocytochemical study of coiled bodies in different cultured cell lines. Chromosoma 103, 268-276.
46. Thiry, M. (1995). Nucleic acid compartmentalization within the cell nucleus by in situ transferase-immunogold techniques. Microsc. Res. Techn. 31, 4-21.
47. Tobey, R.A., Valdez, J.G., and Crissman, H.A. (1988). Synchronization of human diploid fibroblasts at multiple stages of the cell cycle. Exp. Cell Res. 179, 400-416.
48. Tripputi, P., Emanuel, B.S., Croce, C.M., Green, L.G., Stein, G.S., and Stein, J.L. (1986). Human histone genes map to multiple chromosomes. Proc. Natl. Acad. Sci. USA 83, 3185-3188.
49. Van Balen, R., ten Kate, T., Koelma, D., Mosterd, B., and Smeulders, A.W.M. (1994). Scilimage: a multi-layered environment for use and development of image processing software. In: Experimental Environments for Computer Vision and Image Processing, ed. H.I. Christensen and L.L. Crowley, Singapore: World Scientific Press, 107-126.
50. Van der Voort, H.T.M., and Straster, K. (1995). Restoration of confocal images for quantitative image analysis. J. Microsc. 178, 165-181.
51. Wahle, E., and Kühn, U. (1997). The mechanism of 3′ cleavage and polyadenylation of eukaryotic premRNA. Prog. Nucl. Acid Res. Mol. Biol. 57, 41-71.
52. Wang, Z.F., Whitfield, M.L., Ingledue, T.C., Dominski, Z., and Marzluff, W.F. (1996). The protein that binds the 3′ end of histone mRNA: a novel RNA-binding protein required for histone premRNA processing. Genes & Dev. 10, 3028-3040.
53. Wu, C.H.H., and Gall, J.G. (1993). U7 small nuclear RNA in C snurposomes of the Xenopus germinal vesicle. Proc. Natl. Acad. Sci. USA 90, 6257-6259.
54. Xing, Y., Carol, V.J., Dobner, P.R., and Lawrence, J.B. (1993). Higher level organization of individual gene transcription and RNA splicing. Science 259, 1326-1330.
55. Xing, Y., Johnson, C.V., Moen, P.T., McNeil, J.A., and Lawrence, J.B. (1995). Nonrandom gene organization: structural arrangements of specific premRNA transcription and splicing with SC-35 domains. J. Cell Biol. 131, 1635-1647.
56. Yannoni, Y.M., and White, K. (1997). Association of the neuron-specific RNA binding domain-containing protein ELAV with the coiled body in Drosophila neurons. Chromosoma 105, 332-341.
57. Zwanenburg, T.S.B. (1983). Standardized shake-off to synchronize cultured CHO cells. Mutat. Res. 120, 151-159.