Abstract
In situ hybridization (ISH) has proven to be a powerful methodological approach to visualize specific nucleic acid sequences directly within the morphological context of the cell. The method involves hybridization of labeled probes to denatured target chromatin that has been fixed on microscopic slides, followed by visualization using standard (immuno) cytochemical procedures. Originally, probes were marked with radioisotopes and visualized by autoradiography (1). This provided a high-sensitivity, but limited resolution owing to the track of the decaying particle in the photographic emulsion. Also, radioactive procedures did not permit identification of multiple probes hybridized simultaneously to the same samples. To date, these types of labels have been completely replaced by fluorescent- and enzyme-generated absorbing dyes. One can distinguish direct procedures, in which the nucleic acid probes are modified with the reporter molecules and visualized directly after the hybridization reaction (2–4). In indirect procedures, the probes are labeled with haptens, which require further immunocytochemical processing of the slides to introduce the reporter molecules (5–7).
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References
Gall, G. and Pardae, M. L. (1969) Formation and detection of RNA-DNA hybrid molecules in cytological preparations. Proc. Natl. Acad. Sci. USA 63, 378–381.
Bauman, J. G. J., Wiegant, J., and Van Duijn, P. (1981) Cytochemical hybridization with fluorochrome-labeled RNA. I Development of a method using nucleic acids bound to agarose beads as a model. J. Histochem. Cytochem. 29, 227–237.
Bauman, J. G. J., Wiegant, J., and Van Duijn, P. (1981) Cytochemical hybridization with fluorochrome-labeled RNA. II Applications. J. Histochem. Cytochem. 29, 238–246.
Hopman, A. H. N., Wiegant, J., Tesser, G. I., and Van Duijn, P. (1986) A non-radioactive in situ hybridization method based on mercurated nucleic acid probes and sulfhydryl-hapten ligands. Nucleic Acids Res. 14, 6471–6488.
Langer, P. R., Waldrop, A. A., and Ward, D. A. (1981) Enzymatic syntheses of biotin labeled polynucleotides novel nucleic acid affinity probes. Proc. Natl. Acad. Sci. USA 78, 6633–6637.
Landegent, J. E., Jansen in de Wal, N., Van Ommen, G. J. B., Baas, F., Vijlder, J. J. M., Van Duijn, P., and Van der Ploeg, M. (1985) Chromosomal localization of a unique gene by non-radiographic in situ hybridization. Nature 317, 175–357.
Pinkel, D., Staume, T., and Gray, J. W. (1986) Cytogenetic analysis using quantitative high sensitivity fluorescence hybridization. Proc. Natl. Acad. Sci. USA 83, 2934–2938.
Landegent, J. E., Jansen in de Wal, N., Dirks, R. W., Baas, F., and Van der Ploeg, M. (1987) Use of whole cosmid cloned genomic sequences for chromosomal localization by non-radioactive in situ hybridization. Hum. Genet. 77, 366–370.
Lichter, P., Tang, C. C., Call, K., Hermanson, G., Evans, G., Housman, D., and Ward, D. C. (1990) High resolution mapping of human chromosome 11 by in situ hybridization with cosmid probes. Science 247, 64–69.
den Dunnen, J. T., Grootsholten, P. M., Dauwerse, J. G., Walker, A. P., Monaco, A. P., Butler, R., Anand, R., Coffey, A. J., Bentley, D. R., Steenma, H. Y., and Van Ommen, G. J. B. (1992) Reconstruction of the 2.4 Mb human DMD-gene by homologous YAC recombination. Hum. Mol. Genet. 1, 19–28.
Dauwerse, J. G., Wiegant, J., Raap, A. K., Breuning, M. H., and Van Ommen, G. J. B. (1992) Multiple colors by fluorescence in situ hybridization using ratio labelled DNA probes create a molecular karyotype. Hum. Mol. Genet. 1, 593–598.
Nederhof, P. M, Van der Flier, S., Vrolijk, J., Tanke, H. J., and Raap, A. K. (1992) Fluorescence ratio measurements of double-labeled probes for multiple in situ hybridization by digital imaging microscopy. Cytometry 13, 831–838.
Trask, B., Pinkel, D., and Van den Engh, G. (1989) The proximity of DNA sequences in interphase nuclei is correlated to genomic distance and permits ordering of cosmids spanning 250 kilobase pairs. Genomics 5, 710–717.
Lawrence, J. B., Singer, R. H., and McNeil, J. A. (1990) Interphase and metaphase resolution of different distances within the human dystrophin gene. Science 249, 928–931.
Inazawa, J. A., Ariyama, T., Tokino, T., Tanigami, A., Nakamura, Y., and Abe, T. (1994) High resolution ordering of DNA markers by multi-color fluorescent in situ hybridization of prophase chromosomes. Cytogenet. Cell Genet. 65, 130–135.
Kluck, P. M. C., Wiegant, J., Raap, A. K., Vrolijk, H., Tanke, H. J., Willemze, R., and Landegent, J. E. (1992) Order of human hematopoietic growth factor and receptor genes on the long arm of chromosome 5, as determined by fluorescence in situ hybridization. Ann. Hematol. 66, 15–20.
Brandriff, B., Gordon, L., and Trask, B. (1991) A new system for high-resolution DNA sequence mapping in interphase pronuclei. Genomics 10, 75–82.
Wiegant, J., Kalle, W., Mullenders, L., Brookes, S., Hoovers, J. M. N., Dauwerse, J. G., Van Ommen, G. J. B., and Raap, A. K. (1992) High-resolution in situ hybridization using DNA halo preparations. Hum. Mol. Genet. 1, 587–592.
Heng, H. H. Q, Squire, J., and Tsui, L. C. (1992) High resolution mapping of mammalian genes by in situ hybridization to free chromatin. Proc. Natl. Acad. Sci. USA 89, 9509–9513.
Parra, I. and Windle, B. (1993) High resolution visual mapping of stretched DNA by fluorescent hybridization. Nature Genet. 5, 17–21.
Heiskannen, M., Karhu, R., Hellsten, E., Peltonen, L., Kallioniemi, O.-P., and Palotie, A. (1994) High resolution mapping by FISH to extended DNA fibers prepared from agarose embedded cells. BioTechniques 17, 928–933.
Driesen, M. S., Dauwerse, J. G., Wapenaar, M. C., Meershoek, E. J., Mollevanger, P., Chen, K. L., Fischbeck, K. H., and Van Ommen G. J. B. (1991) Generation of yeast artificial chromosomes from a hybrid cell line by high density screening of an amplified library and their fluorescent in situ hybridization mapping to 1p, 17p, 17q and 19q. Genomics 11, 1079–1087.
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© 1997 Humana Press Inc., Totowa, NJ
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Kroef, M., Dauwerse, H., Landegent, J. (1997). Probe Ordering and Distancing by FISH. In: Boultwood, J. (eds) Gene Isolation and Mapping Protocols. Methods in Molecular Biology™, vol 68. Humana Press. https://doi.org/10.1385/0-89603-482-8:77
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DOI: https://doi.org/10.1385/0-89603-482-8:77
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