The RING finger/B-box factor TAM-1 and a retinoblastoma-like protein LIN-35 modulate context-dependent gene silencing in Caenorhabditis elegans

Genes and Development

Volumn 13, Issue 22, 1999, Pages 2958-2970

  Hsieh, Jenny ^a,b   Liu, Jing ^c,d   Kostas, Stephen A ^a,b   Chang, Chieh ^c   Sternberg, Paul W ^c   Fire, Andrew ^a  

^a GEOPHYSICAL LABORATORY   (United States)

^b JOHNS HOPKINS UNIVERSITY   (United States)

^c CALIFORNIA INSTITUTE OF TECHNOLOGY   (United States)

^d STANFORD UNIVERSITY SCHOOL OF MEDICINE   (United States)

Author keywords

C. elegans; Chromatin Silencing; RAS Pathway; Rb; RING finger; TAM 1

Indexed keywords

NUCLEAR PROTEIN; RETINOBLASTOMA PROTEIN;

ARTICLE; CAENORHABDITIS ELEGANS; GENE ACTIVITY; GENE MUTATION; GENE SILENCING; MODULATION; NONHUMAN; PRIORITY JOURNAL; TRANSGENE;

CAENORHABDITIS ELEGANS;

EID: 0032710188     PISSN: 08909369     EISSN: None     Source Type: Journal    
DOI: 10.1101/gad.13.22.2958     Document Type: Article

References (71)

1. Assaad, F., K. Tucker, and E. Signet. 1993. Epigenetic repeat-induced gene silencing (RIGS) in Arabidopsis. Plant Mol. Biol. 22: 1067-1085.
2. Bang, D., R. Verhage, N. Goosen, J. Brouwer, and P. van de Putte. 1992. Molecular cloning of RAD16, a gene involved in differential repair in Saccharomyces cerevisiae. Nucleic Acids Res. 20:3925-3931.
3. Bellini, M., J. Lacroix, and J. Gall. 1993. A putative zinc-binding protein on lampbrush chromosome loops. EMBO J. 12: 107-114.
4. Brenner, S. 1974. The genetics of Caenorhabditis elegans. Genetics 77: 71-94.
5. Brunk, B., E. Martin, and P. Adler. 1991. Drosophila genes Posterior Sex Combs and Suppressor Two of Zeste encode proteins with homology to the murine bmi-1 oncogene. Nature 353:351-353.
6. C. elegans Sequencing Consortium. 1998. Genome sequence of the nematode C. elegans: A platform for investigating biology. The C. elegans Sequencing Consortium. Science 282: 2012-2018.
7. Cambareri, E., B. Jensen, E. Schabtach, and E. Selker. 1989. Repeat-induced G-C to A-T mutations in Neurospora. Science 244: 1571-1575.
8. Cao, T., K. Borden, P. Freemont, and L. Etkin. 1997. Involvement of the rfp tripartite motif in protein-protein interactions and subcellular distribution. J. Cell. Sci. 110: 1563-1571.
9. Chan, E., J. Hamel, J. Buyon, and E. Tan. 1991. Molecular definition and sequence motifs of the 52-kD component of human SS-A/Ro autoantigen. J. Clin. Invest. 87:68-76.
10. Chang, C., A. Newman, and P. Sternberg. 1999. Reciprocal EGF signaling back to the uterus from the induced C. elegans vulva coordinates morphogenesis of epithelia. Curr. Biol. 9: 237-246.
11. Clark, S., X. Lu, and H. Horvitz. 1994. The Caenorhabditis elegans locus lin-15, a negative regulator of a tyrosine kinase signaling pathway, encodes two different proteins. Genetics 137: 987-997.
12. Clark, D., D. Suleman, K. Beckenbach, E. Gilchrist, and D. Baillie. 1995. Molecular cloning and characterization of the dpy-20 gene of C. elegans. Mol. Gen. Genet. 247: 367-378.
13. Dorer, D. and S. Henikoff. 1994. Expansions of transgene repeats cause heterochromatin formation and gene silencing in Drosophila. Cell 77: 993-1002.
14. _. 1997. Transgene repeat arrays interact with distant heterochromatin and cause silencing in cis and trans. Genetics 147: 1181-1190.
15. Epstein, H., R. Waterston, and S. Brenner. 1974. A mutant affecting the heavy chain of myosin in Caenorhabditis elegans. J. Mol. Biol. 90: 291-300.
16. Ferguson, E. and H. Horvitz. 1985. Identification and characterization of 22 genes that affect the vulval cell lineages of the nematode Caenorhabditis elegans. Genetics 110: 17-72.
17. _. 1989. The multivulva phenotype of certain Caenorhabditis elegans mutants results from defects in two functionally redundant pathways. Genetics 123: 109-121.
18. Fire, A., W. Kelly, M. Hsu, S. Xu, J. Ahnn, B. Harfe, S. Kostas, and J. Hsieh. 1998a. The uses of green fluorescent protein in Caenorhabditis elegans. In Green fluorescent protein: Properties, applications, and protocols (ed. M. Chalfie and S. Kane), pp. 153-168. Wiley-Liss, Inc., New York, NY.
19. Fire, A., S. Xu, M. Montgomery, S. Kostas, S. Driver, and C. Mello. 1998b. Potent and specific genetic interference by double-stranded RNA in Caenorhabditis elegans. Nature 391:806-811.
20. Freyd, G. 1991. Molecular analysis of the C. elegans cell lineage gene Lin-11. In Department of biology. Massachusetts Institute of Technology, Cambridge, MA.
21. Fridell, R., L. Harding, H. Bogerd, and B. Cullen. 1995. Identification of a novel human zinc finger protein that specifically interacts with the activation domain of lentiviral Tat proteins. Virology 209:347-357.
22. Garrick, D., S. Fiering, D. Martin, and E. Whitelaw. 1998. Repeat-induced gene silencing in mammals. Nat. Genet. 18: 56-59.
23. Goyon, C. and G. Faugeron. 1989. Targeted transformation of Ascobolus immersus and de novo methylation of the resulting duplicated DNA sequences. Mol. Cell. Biol. 7: 2818-2827.
24. Grewal, S., M. Bonaduce, and A. Klar. 1998. Histone deacetylase homologs regulate epigenetic inheritance of transcriptional silencing and chromosome segregation in fission yeast. Genetics 150: 563-576.
25. Grunstein, M. 1998. Yeast heterochromatin: Regulation of its assembly and inheritance by histones. Cell 93:325-328.
26. Haber, J. 1998. Mating-type gene switching in Saccharomyces cerevisiae. Annu. Rev. Genet. 32: 561-599.
27. Han, M. and P. Stemberg. 1990. let-60, a gene that specifies cell fates during C. elegans vulval induction, encodes a RAS protein. Cell 63:, 921-931.
28. Han, M., A. Golden, Y.M. Han, and P.W. Sternberg. 1993. C. elegans lin-45 raf gene participates in let-60 RAS-stimulated vulval differentiation. Nature 363: 133-140.
29. Harfe, B., C. Branda, M. Krause, M. Stem, and A. Fire. 1998. MyoD and the specification of muscle and non-muscle fates during postembryonic development of the C. elegans mesoderm. Development 125: 2479-2488.
30. Hemenway, C., B. Halligan, and L. Levy. 1998. The Bmi-1 oncoprotein interacts with dinG and MPh2: The role of RING finger domains. Oncogene 16: 2541-2547.
31. Henikoff, S. 1998. Conspiracy of silence among repeated transgenes. BioEssays 20: 532-535.
32. Hill, R. and P. Sternberg. 1992. The gene lin-3 encodes an inductive signal for vulval development in C. elegans. Nature 358: 470-476.
33. Horvitz, H. and J. Sulston. 1980. Isolation and genetic characterization of cell-lineage mutants of the nematode Caenorhabditis elegans. Genetics 96: 435-454.
34. Huang, L., P. Tzou, and P. Sternberg. 1994. The lin-15 locus encodes two negative regulators of Caenorhabditis elegans vulval development. Mol. Biol. Cell 5: 395-411.
35. Hunter, C., J. Harris, J. Maloof, and C. Kenyon. 1999. Hox gene expression in a single Caenorhabditis elegans cell is regulated by a caudal homolog and intercellular signals that inhibit Wnt signaling. Development 126: 805-814.
36. Ishida, A., H. Asano, M. Hasegawa, H. Koseki, T. Ono, M. Yoshida, M. Taniguchi, and M. Kanno. 1993. Cloning and chromosome mapping of the human Mel-18 gene which encodes a DNA-binding protein with a new 'RING-finger' motif. Gene 129: 249-255.
37. Jones, J., S. Weber, and L. Prakash. 1988. The Saccharomyces cerevisiae RAD18gene encodes a protein that contains potential zinc finger domains for nucleic acid binding and a putative nucleotide binding sequence. Nucleic Acids Res. 16: 7119-7131.
38. Kastner, P., A. Perez, Y. Lutz, C. Rochette-Egly, M. Gaub, B. Durand, M. Lanotte, R. Berger, and P. Chambon. 1992. Structure, localization and transcriptional properties of two classes of retinoic acid receptor alpha fusion proteins in acute promyelocytic leukemia (APL): Structural similarities with a new family of oncoproteins. EMBO J. 11: 629-642.
39. Katz, W., G. Lesa, D. Yannoukakos, T. Clandinin, J. Schlessinger, and P. Sternberg. 1996. A point mutation in the extracellular domain activates LET-23, the Caenorhabditis elegans epidermal growth factor receptor homolog. Mol. Cell. Biol. 16: 529-537.
40. Kelly, W., S. Xu, M. Montgomery, and A. Fire. 1997. Distinct requirements for somatic and germline expression of a generally expressed Caenorhabditis elegans gene. Genetics 146: 227-238.
41. Krause, M., A. Fire, S. Harrison, J. Priess, and H. Weintraub. 1990. CeMyoD accumulation defines the body wall muscle cell fate during C. elegans embryogenesis. Cell 63: 907-919.
42. Krause, M., S. Harrison, S. Xu, L. Chen, and A. Fire. 1994. Elements regulating cell- and stage-specific expression of the C. elegans MyoD family homolog hlh-1. Dev. Biol. 166: 133-148.
43. Kuo, M. and C. Allis. 1998. Roles of histone acetyltransferases and deacetylases in gene regulation. BioEssays 20: 615-626.
44. Le Douarin, B., C. Zechel, J. Gamier, Y. Lutz, L. Tora, P. Pierrat, D. Heery, H. Gronemeyer, P. Chambon, and R. Losson. 1995. The N-terminal part of TIF1, a putative mediator of the ligand-dependent activation function (AF-2) of nuclear receptors, is fused to B-raf in the oncogenic protein T18. EMBO J. 14: 2020-2033.
45. Levitan, D., L. Boyd, C. Mello, K. Kemphues, and D. Stinchcomb. 1994. par-2, a gene required for blastomere asymmetry in Caenorhabditis elegans, encodes zinc-finger and ATP-binding motifs. Proc. Natl. Acad. Sci. 91: 6108-6112.
46. Lu, X. and H. Horvitz. 1998. lin-35 and lin-53, two genes that antagonize a C. elegans Ras pathway, encode proteins similar to Rb and its binding protein RbAp48. Cell 95: 981-991.
47. Luo, R., A. Postigo, and D. Dean. 1998. Rb interacts with histone deacetylase to repress transcription. Cell 92: 463-473.
48. Maduro, M. and D. Pilgrim. 1995. Identification and cloning of unc-119, a gene expressed in the Caenorhabditis elegans nervous system. Genetics 141: 977-988.
49. Mello, C. and A. Fire. 1995. DNA transformation. Methods Cell Biol. 48:451-482.
50. Mello, C., J. Kramer, D. Stinchcomb, and V. Ambros. 1991. Efficient gene transfer in C. elegans: Extrachromosomal maintenance and integration of transforming sequences. EMBO J. 10: 3959-3970.
51. Miki, T., T. Fleming, M. Crescenzi, C. Molloy, S. Blam, S. Reynolds, and S. Aaronson. 1991. Development of a highly efficient expression cDNA cloning system: Application to oncogene isolation. Proc. Natl. Acad. Sci. 88: 5167-5171.
52. Miki, Y., I. Swensen, D. Shattuck-Eidens, P. Futreal, K. Harshman, S. Tavtigian, Q. Liu, C. Cochran, L. Bennett, W. Ding et al. 1994. A strong candidate for the breast and ovarian cancer susceptibility gene BRCA1. Science 266: 66-71.
53. Miller, D. and D. Shakes. 1995. Immunofluorescence microscopy. Methods Cell. Biol. 48: 365-394.
54. Okkema, P., S. Harrison, V. Plunger, A. Aryana, and A. Fire. 1993. Sequence requirements for myosin gene expression and regulation in Caenorhabditis elegans. Genetics 135: 385-404.
55. Park, E. and H. Horvitz. 1986. Mutations with dominant effects on the behavior and morphology of the nematode Caenorhabditis elegans. Genetics 113:821-852.
56. Patarca, R., G. Freeman, J. Schwartz, R. Singh, Q. Kong, E. Murphy, Y. Anderson, F. Sheng, P. Singh, K. Johnson et al. 1988. rpt-1, an intracellular protein from helper/inducer T cells that regulates gene expression of interleukin 2 receptor and human immunodeficiency virus type 1. Proc. Natl. Acad. Sci. 85: 2733-2737.
57. Perrin, K. and J. Lacroix. 1998. XL43 and XL75: two novel RING finger-containing genes expressed during oogenesis and embryogenesis in Xenopus laevis. Gene 210: 127-134.
58. Reddy, B., M. Kloc, and L. Etkin. 1991. The cloning and characterization of a maternally expressed novel zinc finger nuclear phosphoprotein (xnf7) in Xenopus laevis. Dev. Biol. 148: 107-116.
59. Riggs, A. and T. Porter. 1996. X-Chromosome Inactivation and Epigenetic Mechanisms. In Epigenetic mechanisms of gene regulation (ed. V. Russo, R. Martienssen, and A. Riggs), pp. 231-248. Cold Spring Harbor Laboratory Press, Cold Spring Harbor, NY.
60. Rossignol, J. and G. Faugeron. 1994. Gene inactivation triggered by recognition between DNA repeats. Experientia 50: 307-317.
61. Satijn, D., M. Gunster, J. van der Vlag, K. Hamer, W. Schul, M. Alkema, A. Saurin, P. Freemont, R. van Driel, and A. Otte. 1997. RING1 is associated with the polycomb group protein complex and acts as a transcriptional represser. Mol. Cell. Biol. 17:4105-4113.
62. Saurin, A., K. Borden, M. Boddy, and P. Freemont. 1996. Does this have a familiar RING? Trends Biochem. Sci. 21:208-214.
63. Selker, E. 1997. Epigenetic phenomena in filamentous fungi: Useful paradigms or repeat-induced confusion? Trends Genet. 13:296-301.
64. Selker, E., E. Cambareri, B. Jensen, and K. Haack. 1987. Rearrangement of duplicated DNA in specialized cells of Neurospora. Cell 51: 741-752.
65. Shimozawa, N., T. Tsukamoto, Y. Suzuki, T. Orii, Y. Shirayoshi, T. Mori, and Y. Fujiki. 1992. A human gene responsible for Zellweger syndrome that affects peroxisome assembly. Science 255: 1132-1134.
66. Smith, D. and K. Johnson. 1988. Single-step purification of polypeptides expressed in Escherichia coli as fusions with glutathione S-transferase. Gene 67: 31-40.
67. Stinchcomb, D., J. Shaw, S. Carr, and D. Hirsh. 1985. Extrachromosomal DNA transformation of Caenorhabditis elegans. Mol. Cell Biol. 5: 3484-3496.
68. Thomas, J.H. and H.R. Horvitz. 1999. The C. elegans gene lin-36 acts cell autonomously in the lin-35 Rb pathway. Development 126: 3449-3459.
69. Waterston, R. 1989. The minor myosin heavy chain, mhcA, of Caenorhabditis elegans is necessary for the initiation of thick filament assembly. EMBO J. 8: 3429-3436.
70. Ye, F. and E. Signer. 1996. RIGS (repeat-induced gene silencing) in Arabidopsis is transcriptional and alters chromatin configuration. Proc. Natl. Acad. Sci. 93: 10881-10886.
71. Zhou, S., Y. Yang, M. Scott, A. Pannuti, K. Fehr, A. Eisen, E. Koonin, D. Fouts, R. Wrightsman, J. Manning et al. 1995. Male-specific lethal 2, a dosage compensation gene of Drosophila, undergoes sex-specific regulation and encodes a protein with a RING finger and a metallothionein-like cysteine cluster. EMBO J. 14: 2884-2895.