Organization of the Drosophila genome

• Autorzy: Jullien N. , Henaut A. , Miassod R.
• Języki publikacji: EN

Abstrakty

EN

The distribution of (A,T)-rich regions has been investigated on a 835kb DNA fragment (D835), from the Drosophila X sex chromosome, unsequenced but provided with detailed physical maps for restriction enzymes-recognizing (A,T)- or (C,G)- or (mixte)-motifs, and on several sequenced DNA fragments, 100-600 kb long, from the autosomal chromosomes. Numerous (A,T)-rich regions are present in all DNA fragments. Their size varies from 0.2 kb to several kb in all cases, except for D835 where some of them extend to 20-30 kb. The relationship between these (A,T)-rich regions and several chromosome landmarks has been examined in the particular case of D835. Topo II in-vitro sites are randomly distributed with regard to (A,T)-richness. However, transcription units and repeated regions are significantly localized outside (A,T)-rich regions. On the opposite, SARs and ARSs are mostly localized within (A,T)-rich regions. Lastly, topo II in-vivo sites are almost exclusively localized in (A,T)-rich regions. Speculations are proposed on why and how (A,T)-rich regions may have appeared during the emergence of Drosophila genome from a primitive genome.

Słowa kluczowe

EN

genome structure; chromosome; Drosophila; DNA

• Wydawca: -
• Czasopismo: Cellular and Molecular Biology Letters
• Rocznik: 1999
• Tom: 04
• Numer: 4
• Opis fizyczny: p.631-645,fig.

Twórcy

autor

Jullien N.

autor

Henaut A.

autor

Miassod R.

Bibliografia

• 1. Fargas, G. and Udvardy, A. Sequence of scs and scs' Drosophila DNA fragments with boundary function in the control of gene expression. Nature 371 (1992) 2604-2606.
• 2. Hoover, T., Mikovits, J., Court, D., Liu, Y-L., Kung H-F. and Razziuddin S. A nuclear matrix-specific factor that binds a specific segment of the negative regulatory element (NRE) of HIV-1 LTR and inhibits NF-kappa(B) activity. Nucl. Acids Res. 234 (1996) 1895-1900.
• 3. Kim, M. K., Lesoon-Wood, L. A., Weintraub, B. D. and Chung, J. H. A soluble transcription factor, Oct-1, is also found in the insoluble nuclear matrix and possesses silencing activity in its alanine-rich domain. Mol. Cell. Biol. 16 (1996) 4366-4377.
• 4. Surdej, P, Got, C. and Miassod, R. Developmental expression pattern of an 800 kb DNA continuum cloned from the Drosophila X chromosome 14B-15B region. Biol. Cell 83 (1990) 105-118.
• 5. Brun, C., Dang, Q. and Miassod, R. Studies of an 800-kilobase DNA stretch of the Drosophila X chromosome: able to replicate autonomously in Saccharomyces cerevisiae. Mol. Cell. Biol. 10 (1990) 5455-5463.
• 6. Surdej, P., Got, C., Rosset, R. and Miassod, R. Supragenic loop organization: Mapping in Drosophila embryos, of scaffold-associated regions on a 800 kilobase DNA continuum cloned from the 14B-15B first chromosome region. Nuci. Acids Res. 18 (1990) 3713-3722.
• 7. Surdej, P., Brandli, D. and Miassod R. Scaffold-associated regions and repeated or cross-hybridizing sequences on an 800 kilobase DNA stetch of the Drosophila X chromosome. Biol. Cell 73 (1991) 11-120.
• 8. Miassod, R. Razin, S. V. and Hancock R. Distribution of topoisomerase II-mediated cleavage sites and relation to structural and functional landmarks in 830 kb of Drosophila DNA. Nucl. Acids Res. 25 (41997) 2041-2046.
• 9. Iarovaia, O., Hancock, R., Lagarkova, M., Miassod, R. and Razin, S. V. Mapping of genomic DNA loop organization in a 500-kilobase region of the Drosophila X chromosome by the topoisomerase II-mediated DNA loop excision protocol. Mol. Cell. Biol. 16 (1996) 302-308.
• 10. Jackson, D. A., Dickinson, P. and Cook, P. R. The size of chromatin loops in HeLa cells. EMBO J. 9 (1990) 576-571.
• 11. Saito, Y. and Laemmli, U. E. Metaphase chromosome structure: bands arise from a differential folding path of the highly AT-rich scaffold. Cell 76 (1994) 609-622.
• 12. Strick, R. and Laemmli, U. E. SARs are cis DNA elements of chromosome dynamics: synthesis of a SAR repressor protein. Cell 83 (1995) 1137-1148.
• 13. Bickmore, W. A. and Oghene, K. Visualizing the spatial relationships between defined DNA sequences and the axial region of extracted metaphase chromosomes. Cell 84 (1996) 95-104.
• 14. Brun, C., Jullien, N., Jacobsone, M., Gautier, C. and Miassod, R. SARs, ARSs, and A,T-rich regions evidenced by restriction mapping on an 835-kb DNA fragment from Drosophila. Expt. Cell Res. 220 (1995) 338-347.
• 15. Marcaud L., Maschat, F., Kejzlarova-Lepesant, J., Lepesant, J-A. and Scherrer, K. A + T-rich linkers define functional domains in eukaryotic DNA. Nature 295 (1982) 260-262.
• 16. Moreau, J., Kejzlarova-Lepesant, J., Brock, H. Lepesant, J-A. and Scherrer, K. AT-rich linkers in long range organisation of Drosophila DNA. Mol. Gen. Gen. 199 (1985) 357-364.
• 17. Bernardi, G. The isochore organization of the human genome. Ann. Rev. Genet. 23 (1989) 637-661.
• 18. Carroll, S. B. Homeotic genes and the evolution of arthropods and chordates. Nature 376 (1995) 479-485
• 19. Brönner, G., Taubert H. and Jäckle H. Mesoderm-specific B104 expression in the Drosophila embryo is mediated by internal cis-acting elements of the transposon. Chromosoma 103 (1995) 669-675.
• 20. Britten, R. J. DNA sequence insertion and evolutionary variation in gene regulation. Proc. Natl. Acad. Sci. USA 93 (1996) 9374-9377.
• 21. Fyrberg, C., Ryan, L., Kenton, M, and Fyrberg E. Genes encoding actin-related proteins of Drosophila melanogasler. J. Mol. Biol. 241 (1994) 498-503.
• 22. Wang, T. A and Li, J. J. Eukaryotic DNA replication. Curr. Opin. Cell Biol. 7 (1995) 414-420.
• 23. Newport, J. and Yan, H. Organization of DNA into foci during replication. Curr. Opin. Cell Biol 8 (1996) 365-368.
• 24. Bonifer, C., Vidal, M., Grosveld, F. and Sippel, A. E Tissue specific and position independent expression of the complete gene domain for chicken lysozyme in transgenic mice. EMBO J. 9 (1990) 2843-2848.
• 25. Bode, J. and Maass, K. Chromatin domain surrounding the human interferon-beta gene as defined by scaffold-attached regions. Biochem. 27 (1988) 4706-4711.
• 26. Kalos, M. and Fournier, R. E. K. Position-independent transgene expression mediated by boundary element from the apolipoprotein B chromatin domain. Mol. Cell. Biol. 15 (1995) 198-207.
• 27. Thompson, E. M., Christians, E., Stinnakre, M-G. and Renard, J-P. Scaffold attachment regions stimulate HSP70.1 expression in mouse preimplantation embryos but not in differentiated tissues. Mol. Cell. Biol. 14 (1994) 4694-4703.
• 28. Chung, J. H., Whiteley, M. and Felsenfeld, G. A 5' element of the chicken beta-globin domain serves as an insulator in human erythroid cells and protects against position effect in Drosophila. Cell 74 (1993) 505-514.