Journal
CHROMOSOME RESEARCH
Volume 19, Issue 7, Pages 901-909Publisher
SPRINGER
DOI: 10.1007/s10577-011-9245-0
Keywords
chromosome territories; exome; fluorescence in situ hybridization; nuclear organization; oligonucleotides; tissue sections
Funding
- Medical Research Council, UK
- ERC [249956]
- MRC [MC_PC_U127527202] Funding Source: UKRI
- Medical Research Council [MC_PC_U127527202] Funding Source: researchfish
- European Research Council (ERC) [249956] Funding Source: European Research Council (ERC)
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The ability to visualize specific DNA sequences, on chromosomes and in nuclei, by fluorescence in situ hybridization (FISH) is fundamental to many aspects of genetics, genomics and cell biology. Probe selection is currently limited by the availability of DNA clones or the appropriate pool of DNA sequences for PCR amplification. Here, we show that liquid-phase probe pools from sequence capture technology can be adapted to generate fluorescently labelled pools of oligonucleotides that are very effective as repeat-free FISH probes in mammalian cells. As well as detection of small (15 kb) and larger (100 kb) specific loci in both cultured cells and tissue sections, we show that complex oligonucleotide pools can be used as probes to visualize features of nuclear organization. Using this approach, we dramatically reveal the disposition of exons around the outside of a chromosome territory core and away from the nuclear periphery.
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