Heterochromatin and centromere structure paradox

Tsitologiya

Volumn 51, Issue 3, 2009, Pages 204-211

  Podgornaya, O I ^a   Ostromishensky, D I ^a   Kuznetsova, I S ^a   Matveev, I V ^a   Komissarov, A S ^a  

^a INSTITUTE OF CYTOLOGY   (Russian Federation)

Author keywords

Centromere; Chromosome unknown; Curved DNA; Databases; Genome; Heterochromatin; Pericentromere; Satellite DNA

Indexed keywords

SATELLITE DNA;

ANIMAL; ARTICLE; CENTROMERE; CHEMICAL STRUCTURE; CHEMISTRY; CHROMOSOMAL INSTABILITY; GENETICS; HETEROCHROMATIN; HUMAN; METABOLISM; MOUSE; RAT; TANDEM REPEAT; ULTRASTRUCTURE;

ANIMALS; CENTROMERE; CHROMOSOMAL INSTABILITY; DNA, SATELLITE; HETEROCHROMATIN; HUMANS; MICE; MODELS, MOLECULAR; RATS; TANDEM REPEAT SEQUENCES;

EID: 67649207624     PISSN: 00413771     EISSN: None     Source Type: Journal    
DOI: None     Document Type: Review

References (43)

1. Russian source
2. Alazami A. M., Mejia J. E., Monaco Z. L. 2004. Human artificial chromosomes containing chromosome 17 alphoid DNA maintain an active centromere in murine cells but are not stable. Genomics. 83 : 844-851.
3. Benson G. 1999. Tandem repeats finder: a program to analyze DNA sequences. Nucl. Acids Res. 27 : 573-580.
4. Bernard P., Allshire R. 2002. Centromeres become unstuck without heterochromatin. Trends Cell Biol. 12 : 419-424.
5. Blobel G. 1985. Gene gating: a hypothesis. Proc. Nat. Acad. Sci. USA. 82 : 8527-8529.
6. Boulikas T. 1995. Prediction of MAR sequences. Int. Rev. Cytol. 162A : 279-388.
7. Choo K. H. A. 2000. Centromerization. Trends Cell Biol. 10 : 182-188.
8. Csárdi G., Nepusz T. 2006. The igraph software package for complex network research. In: Proc. of the Int. Conference on Complex Systems. 1695-1696.
9. Durand-Dubief M. I., Ekwall K. 2008. Heterochromatin tells CENP-A where to go. BioEssays. 30 : 526-529.
10. Enukashvily N., Doney R., Sheer D., Podgornaya O. 2005. Satellite DNA binding and cellular localization of RNA helicase p68. J. Cell Sci. 118 : 611-622.
11. Fakan S., van Driel R. 2007. The perichromatin region: a functional compartment in the nucleus that determines large-scale chromatin folding. Seminars in Cell & Develop. Biol. 18 : 676-681.
12. Haaf T., Schmid M. 1991. Chromosome topology in mammalian interphase nuclei. Exp. Cell Res. 192 : 325-332.
13. Henikoff S., Ahmad K., Malik H. S. 2001. The centromere paradox: stable inheritance with rapidly evolving DNA. Science. 293 : 1098-1102.
14. Henning K. A., Novotny E. A., Compton S. T., Guan X. Y., Liu P. P., Ashlock M. A. 1999. Human artificial chromosomes generated by modification of a yeast artificial chromosome containing both human alpha satellite and single-copy DNA sequences. Proc. Nat. Acad. Sci. USA. 96 : 592-597.
15. Hibino Y., Nakamura K., Asano S., Sugano N. 1992. Affinity of a highly repetitive bent DNA for nuclear scaffold proteins from rat liver. Biochem. Biophys. Res. Commun. 184 : 853-858.
16. Ikeno M., Grimes B., Okazaki T., Nakano M., Saitoh K., Hoshino H., McGill N. I., Cooke H., Masumoto H. 1998. Construction of YAC-based mammalian artificial chromosomes. Nat. Biotechnol. 16 : 431-439.
17. Karpen G. H., Allshire R. C. 1997. The case for epigenetic effects on centromere identity and function. Trends Genet. 13 : 489-496.
18. Koch J. 2000. Neocentromeres and alpha satellite: a proposed structural code for functional human centromere DNA. Hum. Mol. Genet. 9 : 149-154.
19. Komissarov A., Podgornaya O. 2007. CHRUNTA - tandem repeat search and classification program. In: Proceedings of the 3rd Moscow conference on computational molecular biology. 155-156.
20. Kuznetsova I., Podgornaya O., Ferguson-Smith M. A. 2006. High-resolution organization of mouse centromeric and pericentromeric DNA. Cytogenet. Genome Res. 112 : 248-255.
21. Kuznetsova I. S., Prusov A. N., Enukashvily N. I., Podgornaya O. I. 2005. New types of mouse centromeric satellite DNAs. Chrom. Res. 12 : 9-25.
22. Lander E., Linton L., Birren B. et al. 2001. Initial sequencing and analysis of the human genome. Nature. 409 : 860-921.
23. Lobov I. B., Tsutsui K., Mitchell A. R., Podgornaya O. I. 2000. Specific interaction of mouse major satellite with MAR-binding protein SAF-A. Eur. J. Cell Biol. 79 : 839-849.
24. Lobov I. B., Tsutsui K., Mitchell A. R., Podgornaya O. I. 2001. SAF-A and lamin B binding specificity in vitro correlates with the satellite DNA bending state. J. Cell. Biochem. 83 : 218-229.
25. Loi P., Beaujean N., Khochbin S., Fulka J., Jr, Ptak G. 2008. Asymmetric nuclear reprogramming in somatic cell nuclear transfer? BioEssays. 30 : 66-74.
26. Manuelidis L., Borden J. 1988. Reproducible compartmentalization of individual chromosome domains in human CNS cells revealed by in situ hybridization and three-dimensional reconstruction. Chromosoma. 96 : 397-410.
27. Martine-Balbas A., Rodriguez-Campos A., Garcia-Ramirez M., Sainz J., Carrera P., Aymami J., Azorin F. 1990. Satellite DNAs contain sequence that induce curvature. Biochemistry. 9 : 2342-2348.
28. Misteli T. 2005. Concepts in nuclear architecture. BioEssays. 27 : 477-487.
29. Mravinac B., Plohl M. 2007. Satellite DNA junctions identify the potential origin of new repetitive elements in the beetle Tribolium madens. Gene. 394 : 45-52.
30. Pederson T. 2000. Half a century of «the nuclear matrix». Mol. Cell. Biol. 11 : 799-805.
31. Podgornaya O. I., Dey R., Lobov I. B., Enukashvily N. I. 2000. Human satellite 3 binding protein from the nuclear matrix: isolation and binding properties. Biochim. biophys. acta. 1497 : 204-214.
32. Podgornaya O. I., Voronin A. P., Enukashvily N. I., Matveev I. V., Lobov I. B. 2003. Structure-specific DNA-binding proteins as the foundation for 3-dimensional chromatin organization. Int. Rev. Cytol. 224 : 227-296.
33. Radic M. Z., Lundgren K., Hamkalo B. A. 1987. Curvature of mouse satellite DNA and condensation of heterochromatin. Cell. 50 : 1101-1108.
34. Rosandic M. et al. 2008. The role of alphoid higher order repeats (HORs) in the centromere folding. J. Theor. Biol.
35. Tajbakhsh J., Luz H., Bornfleth H., Lampel S., Cremer C., Lichter P. 2000. Spatial distribution of GC- and AT-rich DNA sequences within human chromosome territories. Exp. Cell Res. 255 : 229-237.
36. Takahashi K., Murakami Sh., Chikashige Y., Funabiki H., Niwa O., Yanagida M. 1992. A low copy number central sequence with strict symmetry and unusual chromatin structure in fission yeast centromere. Mol. Biol. Cell. 3 : 819-835.
37. Tautz D., Archtander P., Minelli A., Thomas R. H., Vogler A. P. 2003. A plea for DNA taxonomy. TREE. 18 : 70-74.
38. Trifonov E. N. 1985. Curved DNA. CRC Crit. Rev. Biochem. 19 : 89-106.
39. Tyler-Smith C., Floridia G. 2000. Many paths to the top of mountain: diverse evolutionary solutions to centromere structure. Cell. 102 : 5-8.
40. Venter C. et al. 2001. The sequence of the human genome. Science. 291 : 1304-1351.
41. Volpi E. V., Chevret E., Jones T., Vatcheva R., Williamson J., Beck S., Campbell R. D., Goldsworthy M., Powis S. H., Ragoussis J., Trowsdale J., Sheer D. 2000. Large-scale chromatin organization of the major histocompatibility complex and other regions of human chromosome 6 and its response to interferon in interphase nuclei. J. Cell Sci. 113 : 1565-1576.
42. Waterston R. H. et al. 2002. Initial sequencing and comparative analysis of the mouse genome. Nature. 420 : 520-562.
43. Waugh J. 2007. DNA barcoding in animal species: progress, potential and pitfalls. BioEssays. 29 : 188-197.