Abstract
Two conserved regions were identified as a result of interspecific comparison of the 5′-region of the Xist gene, which is the key player in the process of X-chromosome inactivation in mammalian females. The first region corresponds to the minimal promoter, and the second spans between −480 bp and −400 bp from the start of Xist transcription. Footprinting experiments revealed protected regions corresponding to the potential binding sites for TBP, SP1, AP1, SRY, ER, and some other transcription factors. They also demonstrated the interaction with the minimal promoter of the human recombinant transcription factor SP1 in vitro and of the transcription factor CTCF in vivo. Experiments with reporter constructs showed that repressors of Xist transcription were located between −100 bp and −200 bp and between −300 bp and −400 bp and activators of Xist transcription were located between −200 bp and −300 bp and between −400 bp and −500 bp.
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Avner, P. and Heard, E., X-Chromosome Inactivation: Counting, Choice and Initiation, Nat. Rev. Genet., 2001, vol. 2, pp. 59–67.
Lyon, M.F., Gene Action in the X-Chromosome of the Mouse (Mus musculus L.), Nature, 1961, vol. 190, pp. 372–373.
Brockdorff, N., The Role of Xist in X-Inactivation, Curr. Opin. Genet. Dev., 1998, vol. 8, pp. 328–333.
Chureau, C., Prissette, M., Bourdet, A., et al., Comparative Sequence Analysis of the X-Inactivation Center Region in Mouse, Human, and Bovine, Genome Res., 2002, vol. 12, pp. 894–908.
Nesterova, T.B., Slobodyanyuk, S.Y., Elisaphenko, E.A., et al., Characterization of the Genomic XIST Locus in Rodents Reveals Conservation of Overall Gene Structure and Tandem Repeats but Rapid Evolution of Unique Sequence, Genome Res., 2001, vol. 11, pp. 833–849.
Zakiyan, S.M., Nesterova, T.B., Cheryaukene, O.V., and Bochkarev, M.N., Heterochromatin as a Factor Affecting X-Inactivation In Interspecific Female Common Vole Hybrids (Microtidae, Rodentia), Russ. J. Genet., 1991, vol. 27, no. 3, pp. 425–433.
Elisaphenko, E.A., Kolesnikov, N.N., Shevchenko, A.I., et al., A Dual Origin of the Xist Gene from a Protein-Coding Gene and a Set of Transposable Elements, PLoS ONE, 2008, vol. 3, p. e2521.
Sheardown, S.A., Newall, A.E., Norris, D.P., et al., Regulatory Elements in the Minimal Promoter Region of the Mouse XIST Gene, Gene, 1997, vol. 203, pp. 159–168.
Pillet, N., Bonny, C., and Schorderet, D.F., Characterization of the Promoter Region of the Mouse XIST Gene, Proc. Natl. Acad. Sci. USA, 1995, vol. 92, pp. 12515–12519.
Hendrich, B.D., Plenge, R.M., and Willard, H.F., Identification and Characterization of the Human XIST Gene Promoter: Implications for Models of X Chromosome Inactivation, Nucleic Acids Res., 1997, vol. 25, pp. 2661–2671.
Komura, J., Sheardown, S.A., Brockdorff, N., et al., In vivo Ultraviolet and Dimethyl Sulfate Footprinting of the 5′-Region of the Expressed and Silent XIST Alleles, J. Biol. Chem., 1997, vol. 272, pp. 10975–10980.
Pugacheva, E.M., Tiwari, V.K., Abdullaev, Z., et al., Familial Cases of Point Mutations in the XIST Promoter Reveal a Correlation between CTCF Binding and Pre-Emptive Choices of X Chromosome Inactivation, Hum. Mol. Genet., 2005, vol. 14, pp. 953–965.
Altschul, S.F., Gish, W., Miller, W., et al., Basic Local Alignment Search Tool, J. Mol. Biol., 1990, vol. 215, pp. 403–410.
Pearson, W.R. and Lipman, D.J., Improved Tools for Biological Sequence Comparison, Proc. Natl. Acad. Sci. USA, 1988, vol. 85, pp. 2444–2448.
Schwartz, S., Zhang, Z., Frazer, K.A., et al., PipMaker—A Web Server for Aligning Two Genomic DNA Sequences, Genome Res., 2000, vol. 10, pp. 577–586.
Jeanmougin, F., Thompson, J.D., Gouy, M., et al., Multiple Sequence Alignment with Clustal X, Trends Biochem. Sci., 1998, vol. 23, pp. 403–405.
Cartharius, K., Frech, K., Grote, K., et al., MatInspector and Beyond: Promoter Analysis Based on Transcription Factor Binding Sites, Bioinformatics, 2005, vol. 21, pp. 2933–2942.
Wingender, E., Chen, X., Fricke, E., et al., The TRANSFAC System on Gene Expression Regulation, Nucleic Acids Res., 2001, vol. 29, pp. 281–283.
Jurka, J., Klonowski, P., Dagman, V., and Pelton, P., CENSOR—A Program for Identification and Elimination of Repetitive Elements from DNA Sequences, Comput. Chem., 1996, vol. 20, pp. 119–121.
Dyer, R.B. and Herzog, N.K., Isolation of Intact Nuclei for Nuclear Extract Preparation From a Fragile B-Lymphocyte Cell Line, BioTechniques, 1995, vol. 19, pp. 192–195.
Letovsky, J. and Dynan, W.S., Measurement of the Binding of Transcription Factor Sp1 to a Single GC Box Recognition Sequence, Nucleic Acids Res., 1989, vol. 17, pp. 2639–2653.
Ohlsson, R., Renkawitz, R., and Lobanenkov, V., CTCF Is a Uniquely Versatile Transcription Regulator Linked to Epigenetics and Disease, Trends Genet., 2001, vol. 17, pp. 520–527.
Bell, A.C., West, A.G., and Felsenfeld, G., The Protein CTCF Is Required for the Enhancer Blocking Activity of Vertebrate Insulators, Cell, 1999, vol. 98, pp. 387–396.
Kanduri, C., Pant, V., Loukinov, D., et al., Functional Association of CTCF with the Insulator Upstream of the H19 Gene Is Parent of Origin-Specific and Methylation-Sensitive, Curr. Biol., 2000, vol. 10, pp. 853–856.
Lee, M. and Struhl, K., Multiple Functions of the Non-conserved N-Terminal Domain of Yeast TATA-Binding Protein, Genetics, 2001, vol. 158, pp. 87–93.
Breathnach, R. and Chambon, P., Organization and Expression of Eukaryotic Split Genes Coding for Proteins, Annu. Rev. Biochem., 1981, vol. 50, pp. 349–383.
Pugh, B.F. and Tjian, R., Mechanism of Transcriptional Activation by Sp1: Evidence for Coactivators, Cell, 1990, vol. 61, pp. 1187–1197.
Macleod, D., Charlton, J., Mullins, J., and Bird, A.P., Sp1 Sites in the Mouse aprt Gene Promoter Are Required to Prevent Methylation of the CpG Island, Genes Dev., 1994, vol. 8, pp. 2282–2292.
Wylie, A.A., Murphy, S.K., Orton, T.C., and Jirtle, R.L., Novel Imprinted DLK1/GTL2 Domain on Human Chromosome 14 Contains Motifs That Mimic Those Implicated in IGF2/H19 Regulation, Genome Res., 2000, vol. 10, pp. 1711–1718.
Ryseck, R.P. and Bravo, R., c-JUN, JUN B, and JUN D Differ in Their Binding Affinities to AP-1 and CRE Consensus Sequences: Effect of FOS Proteins, Oncogene, 1991, vol. 6, pp. 533–542.
Kel, O.V., Romaschenko, A.G., Kel, A.E., et al., A Compilation of Composite Regulatory Elements Affecting Gene Transcription in Vertebrates, Nucleic Acids Res., 1995, vol. 23, pp. 4097–4103.
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Original Russian Text © K.E. Orishchenko, E.A. Elisaphenko, A.E. Kel, S.M. Zakian, 2009, published in Genetika, 2009, Vol. 45, No. 10, pp. 1341–1352.
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Orishchenko, K.E., Elisaphenko, E.A., Kel, A.E. et al. Molecular genetic characterization of the regulatory region of the Xist gene in the common vole Microtus rossiaemeridionalis . Russ J Genet 45, 1182–1191 (2009). https://doi.org/10.1134/S1022795409100056
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DOI: https://doi.org/10.1134/S1022795409100056