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Chromatin decompaction in the interbands of Drosophila polytene chromosomes does not correlate with high transcription level

  • Molecular Genetics
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Abstract

The search for correlation between structural organization of particular chromosome regions and their functions is among key directions of molecular cytogenetics. In this study, we used polytene chromosomes of Drosophila melanogaster as a convenient model for examining transcriptional activity of chromomeres (bands) and interchromomeres (interbands) in eukaryotic interphase chromosomes. Using cloning of the interband DNA sequences and determination of the molecular limits for some interbands, we analyzed the transcriptional activity of these regions and compared the band and interband transcriptional activity in polytene chromosomes. Our results showed the absence of correlation between the decompacted state of the interbands examined and the levels of transcription observed in these regions.

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References

  1. Zhimulev, I.F., Khromomernaya organizatsiya politennykh khromosom (Chromomeric Organization of Polytene Chromosomes), Novosibirsk: Nauka, 1994.

    Google Scholar 

  2. Semeshin, V.F., Zhimulev, I.F., and Belyaeva, E.S., Electron Microscope Autoradiographic Study on Transcriptional Activity of Drosophila melanogaster Polytene Chromosomes, Chromosoma, 1979, vol. 73, pp. 163–177.

    Article  CAS  Google Scholar 

  3. Vlassova, I.E., Umbetova, G.H., Zimmermann, V.H., et al., Immunofluorescence Localization of DNA:RNA Hybrids in Drosophila melanogaster Polytene Chromosomes, Chromosoma, 1985, vol. 91, pp. 251–258.

    Article  PubMed  CAS  Google Scholar 

  4. Sass, H. and Bautz, E.K., Interbands of Polytene Chromosomes: Binding Sites and Start Points for RNA Polymerase B (II), Chromosoma, 1982, vol. 86, pp. 77–93.

    Article  PubMed  CAS  Google Scholar 

  5. Skaer, R.J., Interband Transcription in Drosophila, J. Cell Sci., 1977, vol. 26, pp. 251–266.

    PubMed  CAS  Google Scholar 

  6. Mott, M.R., Burnett, E.J., and Hill, R.J., Ultrastructure of Polytene Chromosomes of Drosophila Isolated by Microdissection, J. Cell Sci., 1980, vol. 45, pp. 15–30.

    PubMed  CAS  Google Scholar 

  7. Demakov, S., Gortchakov, A., Schwartz, Y., et al., Molecular and Genetic Organization of Drosophila melanogaster Polytene Chromosomes: Evidence for Two Types of Interband Regions, Genetics, 2004, vol. 122, pp. 311–324.

    CAS  Google Scholar 

  8. Deng, H., Bao, X., Cai, W., et al., Ectopic Histone H3S10 Phosphorylation Causes Chromatin Structure Remodeling in Drosophila, Development, 2008, vol. 135, pp. 699–705.

    Article  PubMed  CAS  Google Scholar 

  9. Demakov, S.A., Semeshin, V.F., and Zhimulev, I.F., Cloning and Molecular Genetic Analysis of Drosophila melanogaster Interband DNA, Mol. Gen. Genet., 1993, vol. 238, pp. 437–443.

    Article  PubMed  CAS  Google Scholar 

  10. Shvarts, Yu.B., Demakov, S.A., and Zhimulev, I.F., Cloning and Analysis of DNA from 85D9/D10 and 86B4/B6 Interband Regions of Drosophila melanogaster Polytene Chromosomes, Russ. J. Genet., 1998, vol. 34, no. 8, pp. 905–912.

    Google Scholar 

  11. Gorchakov, A.A., Demakov, S.A., Semeshin, V.F., and Zhimulev, I.F., Cloning and Molecular Genetic Analysis of DNA from the 60E7/E8-9 and 3A5/6 Interband Regions of Drosophila melanogaster, Cell Tissue Biol., 2000, vol. 42, p. 275.

    Google Scholar 

  12. Keppy, D.O. and Welshons, W.J., The Cytogenetics of a Recessive Visible Mutant Associated with a Deficiency Adjacent to the notch Locus in Drosophila melanogaster, Genetics, 1977, vol. 85, pp. 497–506.

    PubMed  CAS  Google Scholar 

  13. Semeshin, V.F., Demakov, S.A., Shloma, V.V., et al., Interbands Behave as Decompacted Autonomous Units in Drosophila melanogaster Polytene Chromosomes, Genetics, 2008, vol. 132, pp. 267–279.

    CAS  Google Scholar 

  14. Livak, K.J. and Schmittgen, T.D., Analysis of Relative Gene Expression Data Using Real-Time Quantitative PCR and the 2(-Delta Delta C(T)) Method, Methods, 2001, vol. 25, pp. 402–408.

    Article  PubMed  CAS  Google Scholar 

  15. Brennecke, J., Hipfner, D.R., Stark, A., et al., bantam Encodes a Developmentally Regulated MicroRNA That Controls Cell Proliferation and Regulates the Proapoptotic Gene hid in Drosophila, Cell, 2003, vol. 113, pp. 25–36.

    Article  PubMed  CAS  Google Scholar 

  16. Rykowski, M.C., Parmelee, S.J., Agard, D.A., and Sedat, J.W., Precise Determination of the Molecular Limits of a Polytene Chromosome Band: Regulatory Sequences for the Notch Gene Are in the Interband, Cell, 1988, vol. 54, pp. 461–472.

    Article  PubMed  CAS  Google Scholar 

  17. Vazquez, J. and Schedl, P., Deletion of an Insulator Element by the Mutation Facet-Strawberry in Drosophila melanogaster, Genetics, 2000, vol. 155, pp.1297–1311.

    PubMed  CAS  Google Scholar 

  18. Chintapalli, V.R., Wang, J., and Dow, J.A., Using FlyAtlas to Identify Better Drosophila melanogaster Models of Human Disease, Nat. Genet., 2007, vol. 39, pp. 715–720.

    Article  PubMed  CAS  Google Scholar 

  19. Raisin, S., Pantalacci, S., Breittmayer, J.P., and Leopold, P., A New Genetic Locus Controlling Growth and Proliferation in Drosophila melanogaster, Genetics, 2003, vol. 164, pp. 1015–1025.

    PubMed  CAS  Google Scholar 

  20. Berkaeva, M.B., Demakov, S.A., Schwartz, Yu.B., and Zhimulev, I.F., Functional Analysis of Drosophila Polytene Chromosomes Decompacted Unit: The Inter-band, Chromosome Res., 2009, vol. 17, pp. 745–754.

    Article  PubMed  CAS  Google Scholar 

  21. Griffiths-Jones, S., Saini, H.K., van Dongen, S., and Enright, A.J., miRBase: Tools for MicroRNA Genomics, Nucl. Acids Res., 2008, vol. 36, pp. 154–158.

    Article  Google Scholar 

  22. Bartel, D.P., MicroRNAs: Genomics, Biogenesis, Mechanism, and Function, Cell, 2004, vol. 116, pp. 281–297.

    Article  PubMed  CAS  Google Scholar 

  23. Mattick, J.S. and Gagen, M.J., The Evolution of Controlled Multitasked Gene Networks: The Role of Introns and Other Noncoding RNAs in the Development of Complex Organisms, Mol. Biol. Evol., 2001, vol. 18, pp. 1611–1630.

    PubMed  CAS  Google Scholar 

  24. Shabalina, S.A. and Spiridonov, N.A., The Mammalian Transcriptome and the Function of Non-Coding DNA Sequences, Genome Biol., 2004, vol. 5, p. 105.

    Article  PubMed  Google Scholar 

  25. Prasanth, K.V. and Spector, D.L., Eukaryotic Regulatory RNAs: An Answer to the ‘Genome Complexity’ Conundrum, Genes Dev., 2007, vol. 21, pp. 11–42.

    Article  PubMed  CAS  Google Scholar 

  26. Portin, P., General Outlines of the Molecular Genetics of the Notch Signalling Pathway in Drosophila melanogaster: A Review, Hereditas, 2002, vol. 136, pp. 89–96.

    Article  PubMed  Google Scholar 

  27. Semeshin, V.F., Demakov, S.A., Perez Alonso, M., et al., Electron Microscopical Analysis of Drosophila Polytene Chromosomes: V. Characteristics of Structures Formed by Transposed DNA Segments of Mobile Elements, Chromosoma, 1989, vol. 97, pp. 396–412.

    Article  PubMed  CAS  Google Scholar 

  28. Schwartz, Y.B., Ioudinkova, E.S., Demakov, S.A., et al., Interbands of Drosophila melanogaster Polytene Chromosomes Contain Matrix Association Regions, J. Cell Biochem., 1999, vol. 72, pp. 368–372.

    Article  PubMed  CAS  Google Scholar 

  29. Meyerowitz, E.M., Crosby, M.A., Garfinkel, M.D., et al., The 68C Glue Puff of Drosophila, Cold Spring Harbor Symp. Quant. Biol., 1985, vol. 50, pp. 347–353.

    PubMed  CAS  Google Scholar 

  30. Tulin, A., Chinenov, Y., and Spradling, A., Regulation of Chromatin Structure and Gene Activity by Poly(ADP-Ribose) Polymerases, Curr. Top Dev. Biol., 2003, vol. 56, pp. 55–83.

    Article  PubMed  CAS  Google Scholar 

  31. Weeks, J.R., Hardin, S.E., Shen, J., et al., Locus-Specific Variation in Phosphorylation State of RNA Polymerase II in vivo: Correlations with Gene Activity and Transcript Processing, Genes Dev., 1993, vol. 7, pp. 2329–2344.

    Article  PubMed  CAS  Google Scholar 

  32. Jin, Y., Wang, Y., Walker, D.L., et al., JIL-1: A Novel Chromosomal Tandem Kinase Implicated in Transcriptional Regulation in Drosophila, Mol. Cell, 1999, vol. 4, pp. 129–135.

    Article  PubMed  CAS  Google Scholar 

  33. Deng, H., Zhang, W., Bao, X., et al., The JIL-1 Kinase Regulates the Structure of Drosophila Polytene Chromosomes, Chromosoma, 2005, vol. 114, pp. 173–182.

    Article  PubMed  CAS  Google Scholar 

  34. Hart, C.M., Zhao, K., and Laemmli, U.K., The scs’ Boundary Element: Characterization of Boundary Element-Associated Factors, Mol. Cell Biol., 1997, vol. 17, pp. 999–1009.

    PubMed  CAS  Google Scholar 

  35. Zhao, K., Hart, C.M., and Laemmli, U.K., Visualization of Chromosomal Domains with Boundary Element-Associated Factor BEAF-32, Cell, 1995, vol. 81, pp. 879–889.

    Article  PubMed  CAS  Google Scholar 

  36. Gerasimova, T.I. and Corces, V.G., Polycomb and Trithorax Group Proteins Mediate the Function of a Chromatin Insulator, Cell, 1998, vol. 92, pp. 511–521.

    Article  PubMed  CAS  Google Scholar 

  37. Eggert, H., Gortchakov, A.A., and Saumweber, H., Identification of the Drosophila Interband-Specific Protein Z4 as a DNA-Binding Zinc-Finger Protein Determining Chromosomal Structure, J. Cell Sci., 2004, vol. 117, pp. 4253–4264.

    Article  PubMed  CAS  Google Scholar 

  38. Gortchakov, A.A., Eggert, H., Gan, M., et al., Chriz, a Chromodomain Protein Specific for the Interbands of Drosophila melanogaster Polytene Chromosomes, Chromosoma, 2005, vol. 114, pp. 54–66.

    Article  PubMed  CAS  Google Scholar 

  39. Gilbert, M.K., Tan, Y.Y., and Hart, C.M., The Drosophila Boundary Element-Associated Factors BEAF-32A and BEAF-32B Affect Chromatin Structure, Genetics, 2006, vol. 173, pp. 1365–1375.

    Article  PubMed  CAS  Google Scholar 

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Correspondence to S. A. Demakov.

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Original Russian Text © E.Z. Kvon, S.A. Demakov, I.F. Zhimulev, 2011, published in Genetika, 2011, Vol. 47, No. 6, pp. 765–773.

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Kvon, E.Z., Demakov, S.A. & Zhimulev, I.F. Chromatin decompaction in the interbands of Drosophila polytene chromosomes does not correlate with high transcription level. Russ J Genet 47, 674–681 (2011). https://doi.org/10.1134/S1022795411060135

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  • DOI: https://doi.org/10.1134/S1022795411060135

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