Skip to main content

Chromosome Painting for Plant Biotechnology

  • Protocol
  • First Online:
Plant Chromosome Engineering

Abstract

Fluorescence in situ hybridization (FISH) is an invaluable tool for chromosome analysis and engineering. The ability to visually localize endogenous genes, transposable elements, transgenes, naturally occurring organellar DNA insertions – essentially any unique sequence larger than 2 kb – greatly facilitates progress. This chapter details the labeling procedures and chromosome preparation techniques used to produce high-quality FISH signals on somatic metaphase and meiotic pachytene spreads.

This is a preview of subscription content, log in via an institution to check access.

Access this chapter

Protocol
USD 49.95
Price excludes VAT (USA)
  • Available as PDF
  • Read on any device
  • Instant download
  • Own it forever
eBook
USD 84.99
Price excludes VAT (USA)
  • Available as EPUB and PDF
  • Read on any device
  • Instant download
  • Own it forever
Softcover Book
USD 159.00
Price excludes VAT (USA)
  • Compact, lightweight edition
  • Dispatched in 3 to 5 business days
  • Free shipping worldwide - see info
Hardcover Book
USD 109.99
Price excludes VAT (USA)
  • Durable hardcover edition
  • Dispatched in 3 to 5 business days
  • Free shipping worldwide - see info

Tax calculation will be finalised at checkout

Purchases are for personal use only

Institutional subscriptions

References

  1. Lamb, J. C., Danilova, T., Bauer, M. J., Meyer, J., Holland, J. J., Jensen, M. D., and Birchler, J. A. (2007) Single gene detection and karyotyping using small target FISH on maize somatic chromosomes. Genetics 175, 1047–1058.

    Article  PubMed  CAS  Google Scholar 

  2. Danilova, T. V. and Birchler, J. A. (2008) Integrated cytogenetic map of mitotic metaphase chromosome 9 of maize: resolution, sensitivity and banding paint development. Chromosoma 117, 345–356.

    Article  PubMed  Google Scholar 

  3. Kato, A., Lamb, J. C., and Birchler, J. A. (2004) Chromosome painting using repetitive DNA sequences as probes for somatic chromosome identification in maize. Proceedings of the National Academy of Sciences of the United States of America 101, 13554–13559.

    Article  PubMed  CAS  Google Scholar 

  4. Lamb, J. C., Meyer, J. M., Corcoran, B., Kato, A., Han, F., and Birchler, J. A. (2007) Distinct chromosomal distributions of highly repetitive sequences in maize. Chromosome Research 15, 33–49.

    Article  PubMed  CAS  Google Scholar 

  5. Birchler, J. A., Albert, P. S., and Gao, Z. (2008) Stability of repeated sequence clusters in hybrids of maize as revealed by FISH. Tropical Plant Biology 1, 34–39.

    Article  Google Scholar 

  6. Yu, W., Lamb, J. C., Han, F., and Birchler, J. A. (2007) Cytological visualization of DNA transposons and their transposition pattern in somatic cells of maize. Genetics 175, 31–39.

    Article  PubMed  Google Scholar 

  7. Lough, A. N., Roark, L. M., Kato, A., Ream, T. S., Lamb, J. C., Birchler, J. A., and Newton, K. J. (2008) Mitochondrial DNA transfer to the nucleus generates extensive insertion site variation in maize. Genetics 178, 47–55.

    Article  PubMed  CAS  Google Scholar 

  8. Lamb, J. C. and Birchler, J. A. (2006) Retroelement genome painting: cytological visualization of retroelement expansions in the genera Zea and Tripsacum. Genetics 173, 1007–1021.

    Article  PubMed  CAS  Google Scholar 

  9. Lamb, J. C., Kato, A., Yu, W., Han, F., Albert, P. S., and Birchler, J. A. (2006) Cytogenetics and chromosome analytical techniques, in Floriculture, Ornamental and Plant Biotechnology: Advances and Topical Issues, Volume IV (Teixeira da Silva, J. A., ed.) Global Science Books, London, pp. 245–248.

    Google Scholar 

  10. Kato, A., Vega, J. M., Han, F., Lamb, J. C., and Birchler, J. A. (2005) Advances in plant chromosome identification and cytogenetic techniques. Current Opinion in Plant Biology 8, 148–154.

    Article  PubMed  CAS  Google Scholar 

  11. Kato, A. (1997) An improved method for chromosome counting in maize. Biotechnic & Histochemistry 72, 249–252.

    Article  CAS  Google Scholar 

  12. Kato, A. (1999) Air drying method using nitrous oxide for chromosome counting in maize. Biotechnic & Histochemistry 74, 160–166.

    Article  CAS  Google Scholar 

  13. Kato, A., Albert, P. S., Vega, J. M., and Birchler, J. A. (2006) Sensitive FISH signal detection using directly labeled probes produced by high concentration DNA polymerase nick translation in maize. Biotechnic & Histochemistry 81, 71–78.

    Article  Google Scholar 

  14. Neuffer, M. G., Coe, E. H., and Wessler, S. R. (1997) The maize organism: the gametophyte (microsporogenesis) in Mutants of Maize. Cold Spring Harbor Laboratory Press, New York, pp. 20–28.

    Google Scholar 

  15. Krabchi, K., Gadji, M., Yan, J., and Drouin, R. (2006) Dual-color PRINS for in situ detection of fetal cells in maternal blood, in PRINS and In Situ PCR Protocols, Second Edition (Pellestor, F., ed.) Humana Press, New Jersey, pp. 142, 146.

    Google Scholar 

Download references

Acknowledgments

This work was supported by grants from the National Science Foundation DBI 0423898, DBI 0421671 and DBI 0701297.

Note Added in Proof Cascade Blue®-7-dUTP is no longer available. Coumarin-5-dUTP can be purchased as a custom synthesis from Perkin Elmer.

Author information

Authors and Affiliations

Authors

Corresponding author

Correspondence to James A. Birchler .

Editor information

Editors and Affiliations

Rights and permissions

Reprints and permissions

Copyright information

© 2011 Springer Science+Business Media, LLC

About this protocol

Cite this protocol

Kato, A. et al. (2011). Chromosome Painting for Plant Biotechnology. In: Birchler, J. (eds) Plant Chromosome Engineering. Methods in Molecular Biology, vol 701. Humana Press, Totowa, NJ. https://doi.org/10.1007/978-1-61737-957-4_4

Download citation

  • DOI: https://doi.org/10.1007/978-1-61737-957-4_4

  • Published:

  • Publisher Name: Humana Press, Totowa, NJ

  • Print ISBN: 978-1-61737-956-7

  • Online ISBN: 978-1-61737-957-4

  • eBook Packages: Springer Protocols

Publish with us

Policies and ethics