Identification and characterization of polyhomeotic PREs and TREs

Developmental Biology

Volumn 261, Issue 2, 2003, Pages 426-442

  Bloyer, Sébastien ^a,b   Cavalli, Giacomo ^a   Brock, Hugh W ^b   Dura, Jean Maurice ^a  

^a INSTITUTE OF HUMAN GENETICS   (France)

^b UNIVERSITY OF BRITISH COLUMBIA   (Canada)

Author keywords

Drosophila; Polycomb; Polyhomeotic; PREs; Quantitative regulation; TREs; Trithorax

Indexed keywords

CIS ACTING ELEMENT; DNA; DROSOPHILA PROTEIN; HOMEODOMAIN PROTEIN; PROTEIN; PROTEIN PC G; UNCLASSIFIED DRUG;

ANIMAL CELL; ARTICLE; CELL CULTURE; CONTROLLED STUDY; DNA RESPONSIVE ELEMENT; GENE CONSTRUCT; GENE EXPRESSION REGULATION; GENE FUNCTION; GENE IDENTIFICATION; GENE LOCATION; GENE LOCUS; GENE SEQUENCE; GENE SILENCING; GENETIC ANALYSIS; HOMEOBOX; IMMUNOPRECIPITATION; MOLECULAR GENETICS; NONHUMAN; NUCLEOTIDE SEQUENCE; PRIORITY JOURNAL; PROMOTER REGION; TRANSCRIPTION REGULATION;

EID: 0042386676     PISSN: 00121606     EISSN: None     Source Type: Journal    
DOI: 10.1016/S0012-1606(03)00314-2     Document Type: Article

References (69)

1. Americo J., Whiteley M., Brown J.L., Fujioka M., Jaynes J.B., Kassis J.A. A complex array of DNA-binding proteins required for Pairing-Sensitive Silencing by a Polycomb group response element from the Drosophila engrailed gene. Genetics. 160:2002;1561-1571.
2. Beuchle D., Struhl G., Muller J. Polycomb group proteins and heritable silencing of Drosophila Hox genes. Development. 128:2001;993-1004.
3. Boivin A., Dura J.M. In vivo chromatin accessibility correlates with gene silencing in Drosophila. Genetics. 150:1998;1539-1549.
4. Boivin A., Fauvarque M.-O., Dura J.-M. One-to-one correspondence between the two genetic units and the tandemly duplicated transcriptional units of the polyhomeotic locus in Drosophila. Mol. Gen. Genet. 261:1999;196-200.
5. Breiling A., Turner B.M., Bianchi M.E., Orlando V. General transcription factors bind promoters repressed by Polycomb group proteins. Nature. 412:2001;651-655.
6. Brock H.W., van Lohuizen M. The Polycomb group - no longer an exclusive club? Curr. Opin. Genet. Dev. 11:2001;175-181.
7. Brown J.L., Mucci D., Whiteley M., Dirksen M.L., Kassis J.A. The Drosophila Polycomb group gene pleiohomeotic encodes a DNA binding protein with homology to the transcription factor YY1. Mol. Cell. 7:1998;1057-1064.
8. Busturia A., Lloyd A., Bejarano F., Zavortink M., Xin H., Sakonju S. The MCP silencer of the Drosophila Abd-B gene requires both Pleiohomeotic and GAGA factor for the maintenance of repression. Development. 128:2001;2163-2173.
9. Busturia A., Wightman C.D., Sakonju S. A silencer is required for maintenance of transcriptional repression throughout Drosophila development. Development. 124:1997;4343-4350.
10. Campbell R.B., Sinclair D.A., Couling M., Brock H.W. Genetic interactions and dosage effects of Polycomb group genes of Drosophila. Mol. Gen. Genet. 246:1995;291-300.
11. Cavalli G., Paro R. The Drosophila Fab-7 chromosomal element conveys epigenetic inheritance during mitosis and meiosis. Cell. 93:1998;505-518.
12. Cavalli G., Orlando V., Paro R. Mapping DNA target sites of chromatin- associated proteins by formaldehyde cross-linking in Drosophila embryos. Bickmore W.A. Chromosome Structural Analysis A Practical Approach . 1999;20-37 Oxford University Press, Oxford.
13. Chan C.S., Rastelli L., Pirrotta V. A Polycomb response element in the Ubx gene that determines an epigenetically inherited state of repression. EMBO J. 13:1994;2553-2564.
14. Chang Y.-L., King B.O., O'Connor M., Mazo A., Huang D.-H. Functional reconstruction of trans regulation of the Ultrabithorax promoter by the products of two antagonistic genes, Trithorax and Polycomb. Mol. Cell. Biol. 15:1995;6601-6612.
15. Cheng N.N., Sinclair D.A., Campbell R.B., Brock H.W. Interactions of polyhomeotic with Polycomb group genes of Drosophila melanogaster. Genetics. 138:1994;1151-1162.
16. Chiang A., O'Connor M.B., Paro R., Simon J., Bender W. Discrete Polycomb-binding sites in each parasegmental domain of the bithorax complex. Development. 121:1995;1681-1689.
17. Czermin B., Melfi R., McCabe D., Seitz V., Imhof A., Pirrotta V. Drosophila enhancer of Zeste/ESC complexes have a histone H3 methyltransferase activity that marks chromosomal Polycomb sites. Cell. 111:2002;185-196.
18. Deatrick J., Daly M., Randsholt N.B., Brock H.W. The complex genetic locus polyhomeotic in Drosophila melanogaster potentially encodes two homologous zinc-finger proteins. Gene. 105:1991;185-195.
19. DeCamillis M., Cheng N.S., Pierre D., Brock H.W. The polyhomeotic gene of Drosophila encodes a chromatin protein that shares polytene chromosome-binding sites with Polycomb. Genes Dev. 6:1992;223-232.
20. Dura J.M., Ingham P. Tissue- and stage specific control of homeotic and segmentation gene expression in Drosophila embryos by the polyhomeotic gene. Development. 103:1988;733-741.
21. Farkas G., Gausz J., Galloni M., Reuter G., Gyurkovics H., Karch F. The Trithorax-like gene encodes the Drosophila GAGA factor. Nature. 371:1994;806-808.
22. Fauvarque M.O., Dura J.M. polyhomeotic regulatory sequences induce developmental regulator-dependent variegation and targeted P-element insertions in Drosophila. Genes Dev. 7:1993;1508-1520.
23. Fauvarque M.O., Zuber V., Dura J.M. Regulation of polyhomeotic transcription may involve local changes in chromatin activity in Drosophila. Mech. Dev. 52:1995;343-355.
24. Fauvarque M.-O., Laurenti P., Boivin A., Bloyer S., Griffin-Shea R., Bourbon H.-M., Dura J.-M. Dominant modifiers of the polyhomeotic extra-sex-combs phenotype induced by marked P element insertional mutagenesis in Drosophila. Genet. Res. Camb. 78:2001;137-148.
25. Franke A., Messmer S., Paro R. Mapping functional domains of the polycomb protein of Drosophila melanogaster. Chromosome Res. 3:1995;351-360.
26. Fritsch C., Brown J.L., Kassis J.A., Muller J. The DNA binding polycomb group protein pleiohomeotic mediates silencing of a Drosophila homeotic gene. Development. 17:1999;3905-3913.
27. Gildea J.J., Lopez R., Shearn A. A screen for new trithorax group genes identified little imaginal discs, the Drosophila melanogaster homologue of human retinoblastoma binding protein 2. Genetics. 156:2000;645-663.
28. Gindhart J.G. Jr., Kaufman T.C. Identification of Polycomb and trithorax group responsive elements in the regulatory region of the Drosophila homeotic gene Sex combs reduced. Genetics. 139:1995;797-814.
29. Hagstrom K., Muller M., Schedl P. A Polycomb and GAGA dependent silencer adjoins the Fab-7 boundary in the Drosophila bithorax complex. Genetics. 146:1997;1365-1380.
30. Hodgson J.W., Argiropoulos B., Brock H.W. Site specific recognition of a 70-base-pair element containing d(GA)(n) repeats mediates bithoraxoid polycomb group response element-dependent silencing. Mol. Cell. Biol. 21:2001;4528-4543.
31. Hodgson J.W., Cheng N.N., Sinclair D.A., Kyba M., Randsholt N.B., Brock H.W. The polyhomeotic locus of Drosophila melanogaster is transcriptionally and post- transcriptionally regulated during embryogenesis. Mech. Dev. 66:1997;69-81.
32. Horard B., Tatout C., Poux S., Pirrotta V. Structure of a polycomb response element and in vitro binding of polycomb group complexes containing GAGA factor. Mol. Cell. Biol. 20:2000;3187-3197.
33. Huang D.H., Chang Y.L., Yang C.C., Pan I.C., King B. pipsqueak encodes a factor essential for sequence-specific targeting of a Polycomb group protein complex. Mol. Cell. Biol. 17:2002;6261-6271.
34. Jürgens G. A group of genes controling the spatial expression of the bithorax complex in Drosophila. Nature. 316:1985;153-155.
35. Kassis J.A. Unusual properties of regulatory DNA from the Drosophila engrailed gene three "pairing-sensitive" sites within a 1.6 kb region . Genetics. 136:1994;1025-1038.
36. Kassis J.A. Pairing-sensitive silencing, Polycomb group response elements, and transposon homing in Drosophila. Adv. Genet. 46:2002;421-438.
37. Kassis J.A., VanSickle E.P., Sensabaugh S.M. A fragment of engrailed regulatory DNA can mediate transvection of the white gene in Drosophila. Genetics. 128:1991;751-761.
38. Kennison J.A. The Polycomb and trithorax group proteins of Drosophila trans-regulators of homeotic gene function . Annu. Rev. Genet. 29:1995;289-303.
39. Kuzin B., Tillib S., Sedkov Y., Mizrokhi L., Mazo A. The Drosophila trithorax gene encodes a chromosomal protein and directly regulates the region-specific homeotic gene fork head. Genes Dev. 8:1994;2478-2490.
40. Landecker H.L., Sinclair D.A., Brock H.W. Screen for enhancers of Polycomb and Polycomblike in Drosophila melanogaster. Dev. Genet. 15:1994;425-434.
41. Locke J., Kotarski M.A., Tartof K.D. Dosage-dependent modifiers of position effect variegation in Drosophila and a mass action model that explains their effect. Genetics. 120:1988;181-198.
42. Lonie A., D'Andrea R., Paro R., Saint R. Molecular characterisation of the Polycomblike gene of Drosophila melanogaster, a trans-acting negative regulator of homeotic gene expression. Development. 120:1994;2629-2636.
43. Martin E.C., Adler P.N. The Polycomb group-gene Posterior Sex Combs encodes a chromosomal protein. Development. 117:1993;641-655.
44. Mihaly J., Hogga I., Gausz J., Gyurkovics H., Karch F. In situ dissection of the Fab-7 region of the bithorax complex into a chromatin domain boundary and a Polycomb- response element. Development. 124:1997;1809-1820.
45. Mihaly J., Mishra R.K., Karch F. A conserved sequence motif in Polycomb- response elements. Mol. Cell. 1:1998;1065-1066.
46. Mishra R.K., Mihaly J., Barges S., Spierer A., Karen F., Hagstrom K., Schweinsberg S.E., Schedl P. 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. 21:2001;1311-1318.
47. Moazed D., O'Farrell P.H. Maintenance of the engrailed expression pattern by Polycomb group genes in Drosophila. Development. 116:1992;805-810.
48. Muller M., Hagstrom K., Gyurkovics H., Pirrotta V., Schedl P. The mcp element from the Drosophila melanogaster bithorax complex mediates long-distance regulatory interactions. Genetics. 153:1999;1333-1356.
49. Netter S., Fauvarque M.O., Diez del Corral R., Dura J.M., Coen D. white+ transgene insertions presenting a dorsal/ventral pattern define a single cluster of homeobox genes that is silenced by the polycomb-group proteins in Drosophila melanogaster. Genetics. 149:1998;257-275.
50. Orlando V., Jane E.P., Chinwalla V., Harte P.J., Paro R. Binding of trithorax and Polycomb proteins to the bithorax complex dynamic changes during early Drosophila embryogenesis. EMBO J. 17:1998;5141-5150.
51. Orlando V., Paro R. Mapping Polycomb repressed domains in the bithorax complex using in vivo formaldehyde cross-linked chromatin. Cell. 75:1993;1187-1198.
52. Pirrotta V., Rastelli L. White gene expression repressive chromatin domains and homeotic gene regulation in Drosophila. Bioessays. 16:1994;549-556.
53. Saurin A.J., Shao Z., Erdjument Bromage H., Tempst P., Kingston R.E. A Drosophila Polycomb group complex includes Zeste and dTAFII proteins. Nature. 412:2001;655-660.
54. Serrano N., Brock H.W., Demeret C., Dura J.M., Randsholt N.B., Kornberg T.B., Maschat F. polyhomeotic appears to be a target of engrailed regulation in Drosophila. Development. 121:1995;1691-1703.
55. Serrano N., Maschat F. Molecular mechanism of polyhomeotic activation by Engrailed. EMBO J. 17:1998;3704-3713.
56. Shao Z., Raible F., Mollaaghababa R., Guyon J.R., Wu C.T., Bender W., Kingston R.E. Stabilization of chromatin structure by PRC1, a Polycomb complex. Cell. 98:1999;37-46.
57. Shimell M.J., Peterson A.J., Burr J., Simon J.A., O'Connor M.B. Functional analysis of repressor binding sites in the iab-2 regulatory region of the abdominal-A homeotic gene. Dev. Biol. 218:2000;38-52.
58. Simon J., Chiang A., Bender W., Shimell M.J., O'Connor M. Elements of the Drosophila bithorax complex that mediate repression by Polycomb group products. Dev. Biol. 158:1993;131-144.
59. Simon J.A., Tamkun J.W. Programming off and on states in chromatin mechanisms of Polycomb and trithorax group complexes . Curr. Opin. Genet. Dev. 12:2002;210-218.
60. Spradling A.C. P element mediated transformation. Roberts D.B. Drosophila A Practical Approach . 1986;175-197 IRL Press, Oxford.
61. Stankunas K., Berger J., Ruse C., Sinclair D.A., Randazzo F., Brock H.W. The enhancer of polycomb gene of Drosophila encodes a chromatin protein conserved in yeast and mammals. Development. 125:1998;4055-4066.
62. Strutt H., Cavalli G., Paro R. Co-localization of Polycomb protein and GAGA factor on regulatory elements responsible for the maintenance of homeotic gene expression. EMBO J. 16:1997;3621-3632.
63. Strutt H., Paro R. The polycomb group protein complex of Drosophila melanogaster has different compositions at different target genes. Mol. Cell. Biol. 17:1997;6773-6783.
64. Tillib S., Petruk S., Sedkov Y., Kuzin A., Fujioka M., Goto T., Mazo A. Trithorax- and Polycomb-group response elements within an Ultrabithorax transcription maintenance unit consist of closely situated but separable sequences. Mol. Cell. Biol. 19:1999;5189-5202.
65. Thummel C.S., Pirrotta V. New pCaSpeR P element vectors. Drosophila Inf. Serv. 71:1992;150.
66. West A.G., Gaszner M., Felsenfeld G. Insulators many functions, many mechanisms . Genes Dev. 16:2002;271-288.
67. Zink B., Engstrom Y., Gehring W.J., Paro R. Direct interaction of the Polycomb protein with Antennapedia regulatory sequences in polytene chromosomes of Drosophila melanogaster. EMBO J. 10:1991;153-162.
68. Zink B., Paro R. In vivo binding pattern of a trans-regulator of homoeotic genes in Drosophila melanogaster. Nature. 337:1989;468-471.
69. Zink D., Paro R. Drosophila Polycomb group regulated chromatin inhibits the accessibility of a trans-activator to its target DNA. EMBO J. 14:1995;5660-5671.