Sensitive and rapid detection of centromeric alphoid DNA in human metaphase chromosomes by PNA fluorescence In situ hybridization and its application to biological radiation dosimetry

Cytologia

Volumn 77, Issue 2, 2012, Pages 261-267

  Suto, Yumiko ^a   Hirai, Momoki ^a   Akiyama, Miho ^a   Suzuki, Toshikazu ^a   Sugiura, Nobuyuki ^a  

^a NATIONAL INSTITUTE OF RADIOLOGICAL SCIENCES   (Japan)

Author keywords

Alphoid DNA; Centromere; Multicentric chromosome; PNA FISH; Radiation

Indexed keywords

EID: 84867535016     PISSN: 00114545     EISSN: None     Source Type: Journal    
DOI: 10.1508/cytologia.77.261     Document Type: Article

References (47)

1. Abruzzo, M. A., Griffin, D. K., Millie, E. A., Sheean, L. A. and Hassold, T. J. 1996. The effect of Y-chromosome alphoid array length on the rate of sex chromosome disomy in human sperm. Hum. Genet. 97: 819-823.
2. Alexandrov, I., Kazakov, A., Tumeneva, I., Shepelev, V. and Yurov, Y. 2001. Alpha satellite DNA of primates: Old and new families. Chromosoma 110: 253-266.
3. Alves, G., Seuanez, H. N. and Fanning, T. 1994. Alpha satellite DNA in neotropical primates (Platyrrhini). Chromosoma 103: 262-267.
4. Baldini, A., Ried, T., Shridhar, V., Ogura, K., D'Aiuto, L., Rocchi, M. and Ward, D. C. 1993. An alphoid DNA sequence conserved in all human and great ape chromosomes: Evidence for ancient centromeric sequences at human chro-mosomal regions 2q21 and 9ql3. Hum. Genet. 90: 577-583.
5. Boei, J. J. W., Vermeulen, S. and Natarajan, A. T. 2000. Analysis of radiation-induced chromosomal aberrations using telomeric and centromeric PNA probes. Int. J. Radiat. Biol. 76: 163-167.
6. Chen, C, Hong, Y. K., Ontiveros, S. D. E., Egholm, M. and Strauss, W. M. 1999. Single base discrimination of CENP-B repeats on mouse and human chromosomes with PNA-FISH. Mamm. Genome 10: 13-18.
7. Choo, K. H., Vissel, B., Nagy, A., Earle, E. and Kalitsis, P. 1991. A survey of the genomic distribution of alpha satellite DNA on all the human chromosomes, and derivation of a new consensus sequence. Nucleic Acids Res. 19: 1179- 1182.
8. Cooke, C. A., Bernat, R. L. and Earnshaw, W. C. 1990. CENP-B: a major human centromere protein located beneath the kinetochore. J. Cell Biol. 110: 1475-1488.
9. Earnshaw, W. C. and Rothfield, N. 1985. Idendification of a family of human centromere proteins using autoimmune sera from patients with scleroderma. Chromosoma 91:313-321.
10. Earnshaw, W. C. and Rothfield, N., Rtrie,III., H. and Stetten, G. 1989. Visualization of centrosome protein CENP-B and CENP-C on a stable dicentric chromosome in cytological spreads. Chromosoma 98: 1-12.
11. Egholm, M. Buchardt, O., Nielsen, P. E. and Berg, R. H. 1992. Peptide nucleic acids (PNA): oligonucleotide analogues with an achiral peptide backbone. J. Am. Chem. Soc. 114: 1895-1897.
12. Egholm, M. Buchardt, O., Nielsen, P. E. and Berg, R. H., Christensen, L. Behrens, C, Freier, S. M., Driver, D. A., Berg, R. H., Kim, S. K., Norden, B. and Nielsen, P. E. 1993. PNA hybridizes to complementary oligonucleotides obeying the Watson-Crick hydrogen-bonding rules. Nature 365: 566-568.
13. Fomina, J, Darroudi, F., Boei, J. J. and Natarajan, A. T. 2000. Discrimination between complete and incomplete chromo-some exchanges in X-irradiated human lymphocytes using FISH with pan-centromeric and chromosome specific DNA probes in combination with telomeric PNA probe. Int. J. Radiat. Biol. 76: 807-813.
14. Guy, J., Hearn, T., Crosier, M., Mudge, J., Viggiano, L., Koczan, K., Thiesen, H. J., Bailey, J. A., Horvath, Eichler, E. E., Earthrowl, M. E., Deloukas, P., French, L., Rogers, J., Bentley, D. and Jackson, M. S. 2003. Genomic sequence and transcriptional profile of the boundary between pericentromeric satellites and genes on human chromosome arm 10p. Genome Res. 13: 159-172.
15. Horvath, J. E., Viggiano, L., Loftus, B. J., Adams, M. D., Archidiacono, N., Rocchi, M. and Eichler, E. E. 2000. Molecular structure and evolution of an a satellite/non-a satellite junction at 16p 11. Hum. Mol. Genet. 9: 113-123.
16. IAEA (International Atomic Energy Agency). 2001. Cytogenetic analysis for radiation dose assessment. A manual. Technical Report Series No. 405. IAEA., Vienna.
17. Lansdorp, P. M., Verwoerd, N. P., van de Rijke, F. M., Dragowska, V., Little, M-T., Dirks, R. W., Raap, A. K. and Tanke, H. J. 1996. Heterogeneity in telomere length of human chromosomes. Hum. Mol. Genet. 5: 685-691.
18. Leijon, M., Graslund, A., Nielsen, P. E., Buchardt O., Norden, B., Kristensen, S. M. and Erikson, M. 1994. Structural char-acterization of PNA-DNA duplexes by NMR. Evidence for DNA in a B-like conformation. Biochemistry 33: 9820-9825.
19. Maio, J. J. 1971. DNA strand reassociation and polynucleotide binding in the African green monkey, Cercopithecus aethiops. J. Mol. Biol. 56: 579-595.
20. Maio, J. J., Brown, F. L. and Musich, P. R. 1981. Toward a molecular paleontology of primate genomes. Chromosoma 83: 103-125.
21. Martens, U. M., Mark, J., Zijlmans, J. M., Poon, S. S. S., Dragowska W. Yui, J., Chavez, E. A., R. Ward, R. K., and Lansdrop, P. M. 1998. Short telomeres on human chromosome 17p. Nature Genet. 18: 76-80.
22. Masumoto, H., Masukata, H., Muro, Y., Nozaki, N. and Okazaki, T. 1989. A human centromere antigen (CENP-B) inter-acts with a short specific sequence in alphoid DNA, a human centromeric satellite. J. Cell Biol. 109: 1963-1973.
23. Masumoto, H., Masukata, H., Muro, Y., Nozaki, N. and Okazaki, T., Nakano, M. and Ohzeki, J. 2004. The role of CENP-B and a-satellite DNA: de novo assembly and epigenetic mainte-nance of human centromeres. Chromosome Res. 12: 543-556.
24. Matera, A. G. and Ward, D. C. 1992. Oligonucleotide probes for the analysis of specific repetitive DNA sequences by fluo-rescence in situ hybridization. Hum. Mol. Genet. 1: 535-539.
25. Meyne, J., Littlefield, L. G. and Moyzis, R. K. 1989. Labeling of human centromeres using an alphoid DNA consensus se-quence: application to the scoring of chromosome aberrations. Mutat. Res. 226: 75-79.
26. Musich, P. R., Brown, F. L. and Maio, J. J. 1980. Highly repetitive component alpha and related alphoid DNAs in man and monkeys. Chromosoma 80: 331-348.
27. Nielsen, P. E., Egholm, M., Berg, R. H. and Buchardt, O. 1991. Sequence-selective recognition of DNA by strand displace-ment with a thymine-substituted polyamide. Science 254: 1497-1500.
28. Nielsen, P. E., Egholm, M., Berg, R. H. and Buchardt, O. and Christensen, L. E. 1996. Strand displacement binding of duplex-forming homopurine PNA to a homopyrimidine duplex DNA target. J. Am. Chem. Soc. 118: 2287-2288.
29. Oakey, R. and Tyler-Smith, C. 1990. Y chromosome DNA haplotyping suggests that most European and Asian men are de-scended from one of two males. Genomics 7: 325-330.
30. Ohzeki, J., Nakano, M., Okada, T. and Masumoto, H. 2002. CENP-B box is required for de novo centromere chromatin as-sembly on human alphoid DNA. J. Cell Biol. 159: 765-775.
31. Okada, T., Ohzeki, J., Nakano, M., Yoda, K., Brinkley, W, R., Larionov, V. and Masumoto, H. 2007. CENP-B controls centromere formation depending on the chromatin contex. Cell 131: 1287-1300.
32. Pluta, F. P., Saitoh, N., Goldberg, I. and Eamshaw, W. C. 1992. Identification of a subdomain of CENP-B that is necessary and sufficient for localization to the human centromere. J. Cell Biol. 116: 1081-1093.
33. Rosenberg, H., Singer, M. and Rosenberg, M. 1978. Highly reiterated sequences of Simians. Science 200: 394-402.
34. Rudd, M. K., Schueler, M. G. and Willard, H. F. 2003. Sequence organization and functional annotation of human centro-meres. Cold Spring Harbor Symposium on Quantitative Biology (68th). Cold Spring Harbor Laboratory Press, Plainview. pp. 141-149.
35. Rudd, M. K., Schueler, M. G. and Willard, H. F. and Willard, H. F. 2004. Analysis of the centromeric regions of the human genome assembly. Trends Genet. 20: 529- 533.
36. Rudd, M. K., Schueler, M. G. and Willard, H. F. and Willard, H. F., Wray, G. A. and Willard, H. F. 2006. The evolutionary dynamics of a-satellite. Genome Res. 16: 88-96.
37. Schueler, M. G., Higgins, A. W., Rudd, M. K., Gustashaw, K. and Willard, H. F. 2001. Genomic and genetic definition of a functional human centromere. Science 294: 109-115.
38. Shi, L., Fujioka, K., Sun, J., Kinomura, A., Inaba, T., lkura, T., Ohtaki, M., Yoshida, M., Kodama, Y., Livingston, G. K., Kamiya, K. and Tashiro, S. 2012. A modified system for analyzing ionizing radiation-induced chromosome ab-normalities. Radiat. Res. 177: 533-538.
39. Suto, Y., Akiyama, M. and Yamada, Y. 2011. Unequivocal detection of radiation-induced multicentric chromosomes by fluorescence in situ hybridization using peptide nucleic acid probes. Cytologia 76: 1-2.
40. The Human Genome Reference Consortium. The Human Feb. 2009 Assembly (GRCh37/hgl9). URL to: http://www.ncbi.nlm.nih.gov/projects/genome/assembly/grc/ index.shtml.
41. Tyler-Smith, C, Oakey, R. J., Larin, Z., Fisher, R. B., Crocker, M, Affara, N. A., Ferguson-Smith, M. A., Muenke, M., Zuffardi, O. and Jobling, M. A. 1993. Localization of DNA sequences required for human centeromere function through an analysis of rearranged Y chromosomes. Nature Genet. 5: 368-375.
42. Warburton, P. E. and Willard, H. F. 1996. Evolution of Centromeric a-satellite DNA: Molecular Organization within and between Human and Primate Chromosojes. In: Jackson, S.T. and Dover, G. (eds.). Human Genome Evolution. BIOS Scientific Publishers, Oxford, pp. 121-145.
43. Wevrick, R. and Willard, H. F. 1989. Long-range organization of tandem arrays of a-satellite DNA at the centromeres of human chromosomes: high frequency array-length polymorphism and meiotic stability. Proc. Natl. Acad. Sci. U.S.A. 86: 9394-9398.
44. Wevrick, R., Willard, V. P. and Willard, H. F. 1992. Structure of DNA near long tandem arrays of α-satellite DNA at the centromere of human chromosome 7. Genomics 14: 912-923.
45. Willard, H. F. and Waye, J. S. 1987. Hierarchical order in chromosome-specific human alpha satellite DNA. Trends Genet. 3: 192-198.
46. Willard, H. F. and Waye, J. S. 1991. Evolution of alpha satellite. Curr. Opin. Genet. Dev. 1: 509-514.
47. 2 terminus, which is separable from dimerizing activity. J. Cell Biol. 119: 1413-142.