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Chromosome-band-specific painting: chromosome in situ suppression hybridization using PCR products from a microdissected chromosome band as a probe pool

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We describe a chromosome-band-specific painting method that involves (1) microdissection of the chromosome, chromosomal region or band, (2) amplification of a variety of chromosome/region/band-specific DNA fragments with the polymerase chain reaction (PCR), and (3) chromosome in situ suppression hybridization (CISS) with the direct use of the PCR products as a probe pool. With this method, it was possible 1) to paint an entire X or Y chromosome, a distal one-fourth of 2q, and only a band at 8q24.1, 2) to identify the origin of a minute marker chromosome in a mentally retarded patient, 3) to detect an X;Y translocation in another patient, and 4) to identify one human chromosome 2 in a human-mouse hybrid cell line. This method allows us to identify not only structural chromosome abnormalities at the band level, but also the origin of cytogenetically unidentifiable marker chromosomes. It will also be useful in studies of evolutionary cytogenetics.

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  1. Cremer T, Lichter P, Borden J, Ward DC, Manuelidis L (1988) Detection of chromosome aberrations in metaphase and interphase tumor cells by in situ hybridization using chromosomespecific library probes. Hum Genet 80:235–246

  2. Cremer T, Popp S, Emmerich P, Lichter P, Cremer C (1990) Rapid metaphase and interphase detection of radiationinduced chromosome aberrations in human lymphocytes by chromosomal suppression in situ hybridization. Cytometry 11:110–118

  3. Devilee P, Thierry RF, Kievits T, Kolluri R, Hopman AHN, Willard HF, Pearson PL, Cornelisse CJ (1988) Detection of chromosome aneuploidy in interphase nuclei from human primary breast tumors using chromosome-specific repetitive DNA probes. Cancer Res 48:5825–5830

  4. Garson JA, Berghe JA van den, Kemshead JT (1987) Novel nonisotopic in situ hybridization technique detects small (1 kb) unique sequences in routinely G-banded human chromosomes: fine mapping of N-myc and β-NGF genes. Nucleic Acids Res 15:4761–4770

  5. Jauch A, Daumer C, Lichter P, Murken J, Schroeder-Kurth T, Cremer T (1990) Chromosomal in situ suppression hybridization of human gonosomes and autosomes and its use in clinical cytogenetics. Hum Genet 85:145–150

  6. Jinno Y, Niikawa N (1990) Direct cloning method with PCR products from defined chromosomal regions: microdissectionmicrocloning method (in Japanese). Exp Med 8:1052–1057

  7. Kao E-T, Yu J-W (1991) Chromosome microdissection and cloning in human genome and genetic disease analysis. Proc Natl Acad Sci USA 88:1844–1848

  8. Koi M, Shimizu M, Morita H, Yamada H, Oshimura M (1989) Construction of mouse A9 clones containing a single human chromosome tagged with neomycin-resistance gene via microcell fusion. Jpn J Cancer Res 80:413–418

  9. Lengauer C, Riethman H, Cremer T (1990) Painting of human chromosomes with probes generated from hybrid cell lines by PCR with Alu and L1 primers. Hum Genet 86:1–6

  10. Lengauer C, Eckelt A, Weith A, Endlich N, Ponelies N, Lichter P, Greulich KO, Cremer T (1991) Painting of defined chromosomal regions by in situ suppression hybridization of libraries from laser-microdissected chromosomes. Cytogenet Cell Genet 56:27–30

  11. Lichter P, Cremer T, Borden J, Manuelidis L, Ward DC (1988) Delineation of individual human chromosomes in metaphase and interphase cells by in situ suppression hybridization using recombinant DNA libraries. Hum Genet 80:224–234

  12. Lüdecke H-J, Senger G, Claussen U, Horsthemke B (1989) Cloning defined regions of the human genome by microdissection of banded chromosomes and enzymatic amplification. Nature 338:348–350

  13. Lüdecke H-J, Senger G, Claussen U, Horsthemke B (1990) Construction and characterization of band-specific DNA libraries. Hum Genet 84:512–516

  14. Nederlof PM, Robinson D, Abuknesha R, Wiegant J, Hopman AHN, Tanke HJ, Raap AK (1989a) Three-color fluorescence in situ hybridization for the simultaneous detection of multiple nucleic acid sequences. Cytometry 10:20–27

  15. Nederlof PM, Flier S van der, Raap AK, Tanke HJ, Ploeg M van der, Kornips F, Geraedts JPM (1989b) Detection of chromosome aberrations in interphase tumor nuclei by nonradioactive in situ hybridization. Cancer Genet Cytogenet 42:87–98

  16. Pinkel D, Landegent J, Collins C, Fuscoe J, Segraves R, Lucas J, Gray J (1988) Fluorescence in situ hybridization with human chromosome-specific libraries: detection of trisomy 21 and translocations of chromosome 4. Proc Natl Acad Sci USA 85:9138–9142

  17. Takahashi E, Hori T, O'Connell P, Leppert M, White R (1990) R-banding and nonisotopic in situ hybridization: precise localization of the human type II collagen gene (COL2A1). Hum Genet 86:14–16

  18. Viegas-Pequignot E, Berrard S, Brice A, Apiou F, Mallet J (1991) Localization of a 900-bp-long fragment of the human choline acetyltransferase gene to 10q11.2 by nonradioactive in situ hybridization. Genomics 9:210–212

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Deng, H., Yoshiura, K., Dirks, R.W. et al. Chromosome-band-specific painting: chromosome in situ suppression hybridization using PCR products from a microdissected chromosome band as a probe pool. Hum Genet 89, 13–17 (1992).

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  • Polymerase Chain Reaction Product
  • Hybrid Cell
  • Marker Chromosome
  • Chromosome Band
  • Hybrid Cell Line