Characterization of the polycomb group response elements of the Drosophila melanogaster invected locus

Molecular and Cellular Biology

Volumn 30, Issue 3, 2010, Pages 820-828

  Cunningham, Melissa D ^a   Brown, J Lesley ^a   Kassis, Judith A ^a  

^a EUNICE KENNEDY SHRIVER NATIONAL INSTITUTE OF CHILD HEALTH AND HUMAN DEVELOPMENT   (United States)

Author keywords

[No Author keywords available]

Indexed keywords

BETA GALACTOSIDASE; DNA; POLYCOMB GROUP PROTEIN;

ANIMAL TISSUE; ARTICLE; BINDING SITE; CONTROLLED STUDY; DNA BINDING; DNA RESPONSIVE ELEMENT; DNA SEQUENCE; DROSOPHILA MELANOGASTER; EMBRYO; GENE LOCUS; GENE SILENCING; NONHUMAN; PRIORITY JOURNAL; PROTEIN ANALYSIS; PROTEIN BINDING; PROTEIN EXPRESSION; REGULATORY DNA SEQUENCE; REPORTER GENE;

ANIMALS; COMPUTATIONAL BIOLOGY; DROSOPHILA MELANOGASTER; DROSOPHILA PROTEINS; ELECTROPHORETIC MOBILITY SHIFT ASSAY; GENE EXPRESSION REGULATION, DEVELOPMENTAL; GENES, REPORTER; HOMEODOMAIN PROTEINS; PROMOTER REGIONS, GENETIC; REPRESSOR PROTEINS; RESPONSE ELEMENTS; TRANSCRIPTION FACTORS;

DROSOPHILA MELANOGASTER;

EID: 75149197487     PISSN: 02707306     EISSN: None     Source Type: Journal    
DOI: 10.1128/MCB.01287-09     Document Type: Article

References (45)

1. Americo, J., M. Whiteley, J. L. Brown, M. Fujioka, J. B. Jaynes, and J. A. Kassis. 2002. A complex array of DNA-binding proteins required for pairing-sensitive silencing by a polycomb group response element from the Drosophila engrailed gene. Genetics 160:1561-1571.
2. Blastyak, A., R. K. Mishra, F. Karch, and H. Gyurkovics. 2006. Efficient and specific targeting of Polycomb group proteins requires cooperative interaction between Grainyhead and Pleiohomeotic. Mol. Cell. Biol. 26:1434-1444.
3. Brown, J. L., C. Fritsch, J. Müller, and J. A. Kassis. 2003. The Drosophila pho-like gene encodes a YY1-related DNA binding protein that is redundant with pleiohomeotic in homeotic gene silencing. Development 130:285-294.
4. Brown, J. L., D. J. Grau, S. K. DeVido, and J. A. Kassis. 2005. An Sp1/KLF binding site is important for the activity of a Polycomb group response element from the Drosophila engrailed gene. Nucleic Acids Res. 33:5181-5189.
5. Brown, J. L., D. Mucci, M. Whiteley, M. L. Dirksen, and J. A. Kassis. 1998. The Drosophila Polycomb group gene pleiohomeotic encodes a DNA binding protein with homology to the transcription factor YY1. Mol. Cell 1:1057-1064.
6. Coleman, K. G., S. J. Poole, M. P. Weir, W. C. Soeller, and T. Kornberg. 1987. The invected gene of Drosophila: sequence analysis and expression studies reveal a close kinship to the engrailed gene. Genes Dev. 1:19-28.
7. Comet, I., E. Savitskaya, B. Schuettengruber, N. Negre, S. Lavrov, A. Parshikov, F. Juge, E. Gracheva, P. Georgiev, and G. Cavalli. 2006. PREmediated bypass of two Su(Hw) insulators targets PcG proteins to a downstream promoter. Dev. Cell 11:117-124.
8. Decoville, M., E. Giacomello, M. Leng, and D. Locker. 2001. DSP1, an HMG-like protein, is involved in the regulation of homeotic genes. Genetics 157:237-244.
9. Dejardin, J., A. Rappailles, O. Cuvier, C. Grimaud, M. Decoville, D. Locker, and G. Cavalli. 2005. Recruitment of Drosophila Polycomb group proteins to chromatin by DSP1. Nature 434:533-538.
10. DeVido, S. K., D. Kwon, J. L. Brown, and J. A. Kassis. 2008. The role of Polycomb-group response elements in regulation of engrailed transcription in Drosophila. Development 135:669-676.
11. DiNardo, S., J. M. Kuner, J. Theis, and P. H. O'Farrell. 1985. Development of embryonic pattern in D. melanogaster as revealed by accumulation of the nuclear engrailed protein. Cell 43:59-69.
12. Dynlacht, B. D., L. D. Attardi, A. Admon, M. Freeman, and R. Tjian. 1989. Functional analysis of NTF-1, a developmentally regulated Drosophila transcription factor that binds neuronal cis elements. Genes Dev. 3:1677-1688.
13. Fiedler, T., and M. Rehmsmeier. 2006. jPREdictor: a versatile tool for the prediction of cis-regulatory elements. Nucleic Acids Res. 34:W546-W550.
14. Fritsch, C., J. L. Brown, J. A. Kassis, and J. Müller. 1999. The DNA-binding polycomb group protein Pleiohomeotic mediates silencing of a Drosophila homeotic gene. Development 126:3905-3913.
15. Fujioka, M., G. L. Yusibova, J. Zhou, and J. B. Jaynes. 2008. The DNAbinding Polycomb-group protein Pleiohomeotic maintains both active and repressed transcriptional states through a single site. Development 135: 4131-4139.
16. Gehring, W. J. 1970. A recessive lethal (l(4)29) with a homeotic effect in D. melanogaster. Drosoph. Inf. Serv. 45:103.
17. Goldsborough, A. S., and T. B. Kornberg. 1994. Allele-specific quantification of Drosophila engrailed and invected transcripts. Proc. Natl. Acad. Sci. U. S. A. 91:12696-12700.
18. Gustavson, E., A. S. Goldsborough, Z. Ali, and T. B. Kornberg. 1996. The Drosophila engrailed and invected genes: partners in regulation, expression and function. Genetics 142:893-906.
19. Horard, B., C. Tatout, S. Poux, and V. Pirrotta. 2000. Structure of a polycomb response element and in vitro binding of polycomb group complexes containing GAGA factor. Mol. Cell. Biol. 20:3187-3197.
20. Hur, M. W., J. D. Laney, S. H. Jeon, J. Ali, and M. D. Biggin. 2002. Zeste maintains repression of Ubx transgenes: support for a new model of Polycomb repression. Development 129:1339-1343.
21. Hyde-DeRuyscher, R. P., E. Jennings, and T. Shenk. 1995. DNA binding sites for the transcriptional activator/repressor YY1. Nucleic Acids Res. 23:4457-4465.
22. Kassis, J. A. 1994. Unusual properties of regulatory DNA from the Drosophila engrailed gene: three "pairing-sensitive" sites within a 1.6-kb region. Genetics 136:1025-1038.
23. Kassis, J. A. 2002. Pairing-sensitive silencing, Polycomb group response elements, and transposon homing in Drosophila. Adv. Genet. 46:421-438.
24. Kassis, J. A., E. P. VanSickle, and S. M. Sensabaugh. 1991. A fragment of engrailed regulatory DNA can mediate transvection of the white gene in Drosophila. Genetics 128:751-761.
25. Klymenko, T., B. Papp, W. Fischle, T. Kocher, M. Schelder, C. Fritsch, B. Wild, M. Wilm, and J. Müller. 2006. A Polycomb group protein complex with sequence-specific DNA-binding and selective methyl-lysine-binding activities. Genes Dev. 20:1110-1122.
26. Kozma, G., W. Bender, and L. Sipos. 2008. Replacement of a Drosophila Polycomb response element core, and in situ analysis of its DNA motifs. Mol. Genet. Genomics 279:595-603.
27. Kwong, C., B. Adryan, I. Bell, L. Meadows, S. Russell, J. R. Manak, and R. White. 2008. Stability and dynamics of polycomb target sites in Drosophila development. PLoS Genet. 4:e1000178.
28. Lehmann, M., T. Siegmund, K. G. Lintermann, and G. Korge. 1998. The Pipsqueak protein of Drosophila melanogaster binds to GAGA sequences through a novel DNA-binding domain. J. Biol. Chem. 273:28504-28509.
29. Mihaly, J., R. K. Mishra, and F. Karch. 1998. A conserved sequence motif in Polycomb-response elements. Mol. Cell 1:1065-1066.
30. Mishra, R. K., J. Mihaly, S. Barges, A. Spierer, F. Karch, K. Hagstrom, S. E. Schweinsberg, and P. Schedl. 2001. The iab-7 polycomb response element maps to a nucleosome-free region of chromatin and requires both GAGA and pleiohomeotic for silencing activity. Mol. Cell. Biol. 21:1311-1318.
31. Mohd-Sarip, A., F. Venturini, G. E. Chalkley, and C. P. Verrijzer. 2002. Pleiohomeotic can link polycomb to DNA and mediate transcriptional repression. Mol. Cell. Biol. 22:7473-7483.
32. Müller, J., and J. A. Kassis. 2006. Polycomb response elements and targeting of Polycomb group proteins in Drosophila. Curr. Opin. Genet. Dev. 16:476-484.
33. Müller, J., and P. Verrijzer. 2009. Biochemical mechanisms of gene regula-tion by Polycomb group protein complexes. Curr. Opin. Genet. Dev. 19:150-158.
34. Oktaba, K., L. Gutierrez, J. Gagneur, C. Girardot, A. K. Sengupta, E. E. Furlong, and J. Muller. 2008. Dynamic regulation by polycomb group protein complexes controls pattern formation and the cell cycle in Drosophila. Dev. Cell 15:877-889.
35. Poux, S., D. McCabe, and V. Pirrotta. 2001. Recruitment of components of Polycomb group chromatin complexes in Drosophila. Development 128:75-85.
36. Ringrose, L., M. Rehmsmeier, J. M. Dura, and R. Paro. 2003. Genome-wide prediction of Polycomb/Trithorax response elements in Drosophila melanogaster. Dev. Cell 5:759-771.
37. Saurin, A. J., Z. Shao, H. Erdjument-Bromage, P. Tempst, and R. E. Kingston. 2001. A Drosophila Polycomb group complex includes Zeste and dTAFII proteins. Nature 412:655-660.
38. Schwartz, Y. B., T. G. Kahn, D. A. Nix, X. Y. Li, R. Bourgon, M. Biggin, and V. Pirrotta. 2006. Genome-wide analysis of Polycomb targets in Drosophila melanogaster. Nat. Genet. 38:700-705.
39. Schwartz, Y. B., and V. Pirrotta. 2008. Polycomb complexes and epigenetic states. Curr. Opin. Cell Biol. 20:266-273.
40. Shimell, M. J., A. J. Peterson, J. Burr, J. A. Simon, and M. B. O'Connor. 2000. Functional analysis of repressor binding sites in the iab-2 regulatory region of the abdominal-A homeotic gene. Dev. Biol. 218:38-52.
41. Shrivastava, A., and K. Calame. 1994. An analysis of genes regulated by the multi-functional transcriptional regulator Yin Yang-1. Nucleic Acids Res. 22:5151-5155.
42. Soto, M. C., T. B. Chou, and W. Bender. 1995. Comparison of germline mosaics of genes in the Polycomb group of Drosophila melanogaster. Genetics 140:231-243.
43. Strutt, H., G. Cavalli, and R. Paro. 1997. Co-localization of Polycomb protein and GAGA factor on regulatory elements responsible for the maintenance of homeotic gene expression. EMBO J. 16:3621-3632.
44. Wang, L., J. L. Brown, R. Cao, Y. Zhang, J. A. Kassis, and R. S. Jones. 2004. Hierarchical recruitment of Polycomb group silencing complexes. Mol. Cell 14:637-646.
45. Yant, S. R., W. Zhu, D. Millinoff, J. L. Slightom, M. Goodman, and D. L. Gumucio. 1995. High affinity YY1 binding motifs: identification of two core types (ACAT and CCAT) and distribution of potential binding sites within the human beta globin cluster. Nucleic Acids Res. 23:4353-4362.