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Plant Cytogenetics pp 23–33Cite as

Fluorescent In Situ Hybridization on Extended Chromatin Fibers for High-Resolution Analysis of Plant Chromosomes

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Part of the book series: Methods in Molecular Biology ((MIMB,volume 1429))

Abstract

Fiber FISH is a high-resolution cytogenetic method and a powerful tool of genome analysis to study the localization and the physical organization of markers, genes, and repetitive sequences on a molecular level. Measurement of physical distances between sequences can be performed along extended chromatin fibers with the resolution of up to 1 kb and is applicable to all plant species.

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References

  1. John HA, Birnstiel ML, Jones KW (1969) RNA-DNA hybrids at the cytological level. Nature 223:582–587

    Article  CAS  PubMed  Google Scholar 

  2. Manuelidis L, Langer-Safer PR, Ward DC (1982) High-resolution mapping of satellite DNA using biotin-labeled DNA probes. J Cell Biol 95:619–625

    Article  CAS  PubMed  Google Scholar 

  3. Rayburn AL, Gill BS (1985) Use of biotin-labeled probes to map specific DNA sequences on wheat chromosomes. J Hered 76:78–81

    Google Scholar 

  4. Schwarzacher T, Heslop-Harrison JS (1991) In situ hybridization to plant telomeres using synthetic oligomers. Genome 34:317–323

    Article  Google Scholar 

  5. Heslop-Harrison JS, Schwarzacher T (2011) Organization of the plant genome in chromosomes. Plant J 66:18–33

    Article  CAS  PubMed  Google Scholar 

  6. Desel C, Jansen R, Dedong G, Schmidt T (2002) Painting of parental chromatin in Beta hybrids by multi-colour fluorescent in situ hybridization. Ann Bot 89:171–181

    Article  PubMed  PubMed Central  Google Scholar 

  7. Fonsêca A et al (2010) Cytogenetic map of common bean (Phaseolus vulgaris L.). Chromosome Res 18:487–502

    Article  PubMed  PubMed Central  Google Scholar 

  8. Ohmido N et al (2010) Integration of cytogenetic and genetic linkage maps of Lotus japonicus, a model plant for legumes. Chromosome Res 18:287–299

    Article  CAS  PubMed  Google Scholar 

  9. Paesold S, Borchardt D, Schmidt T, Dechyeva D (2012) A sugar beet (Beta vulgaris L.) reference FISH karyotype for chromosome and chromosome-arm identification, integration of genetic linkage groups and analysis of major repeat family distribution. Plant J 72:1–12

    Article  Google Scholar 

  10. Fransz PF, Alonso-Blanco C, Liharska T, Peeters AJM, Zabel P, De Jong JH (1996) High resolution physical mapping in Arabidopsis thaliana and tomato by fluorescence in situ hybridisation to extended DNA fibres. Plant J 9:421–430

    Article  CAS  PubMed  Google Scholar 

  11. De Jong JH, Fransz P, Zabel P (1999) High resolution FISH in plants-techniques and applications. Trends Plant Sci 4:258–263

    Article  Google Scholar 

  12. Ohmido N, Kijima K, Ashikawa I, de Jong JH, Fukui K (2001) Visualization of the terminal structure of rice chromosomes 6 and 12 with multicolor FISH to chromosomes and extended DNA fibers. Plant Mol Biol 47:413–421

    Article  CAS  PubMed  Google Scholar 

  13. Szinay D et al (2008) High-resolution chromosome mapping of BACs using multi-colour FISH and pooled-BAC FISH as a backbone for sequencing tomato chromosome 6. Plant J 56:627–637

    Article  CAS  PubMed  Google Scholar 

  14. Dechyeva D, Schmidt T (2006) Molecular organization of terminal repetitive DNA in Beta species. Chromosome Res 14:881–897

    Article  CAS  PubMed  Google Scholar 

  15. Paesold S (2013) Entwicklung eines FISH-Referenzkaryotyps für die Zuckerrübe (B. vulgaris) und Anwendungsmöglichkeiten in der Chromosomen- und Genomanalyse. PhD Thesis, Technische Universität Dresden, Dresden

    Google Scholar 

  16. Schwarzacher T, Heslop-Harrison JS (2000) Practical in situ hybridization. BIOS Scientific Publishers Limited, Oxford

    Google Scholar 

  17. Schmidt T, Schwarzacher T, Heslop-Harrison JS (1994) Physical mapping of rRNA genes by fluorescent in situ hybridization and structural analysis of 5S rRNA genes and intergenic spacer sequences in sugar beet (Beta vulgaris). Theor Appl Genet 88:629–636

    Article  CAS  PubMed  Google Scholar 

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Acknowledgments

We gratefully acknowledge funding by the BMBF GABI-FUTURE START (grant 0315070), AnnoBeet project (0315962C). We are grateful to Prof. Dr. K. Fukui (Graduate School of Engineering, Osaka University, Osaka, Japan) and Prof. Dr. N. Ohmido (Graduate School of Human Development and Environment, Kobe University, Kobe, Japan) and their colleagues for the opportunity to perform fiber FISH in their laboratories and to M. Richter-Babekoff, International Office of the Technische Universität Dresden, for excellent administrative support.

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Authors and Affiliations

  1. Institute of Botany, Technische Universität Dresden, Zellescher Weg 20b, 01062, Dresden, Germany

    Daryna Dechyeva & Thomas Schmidt

Authors
  1. Daryna Dechyeva
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  2. Thomas Schmidt
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Corresponding author

Correspondence to Thomas Schmidt .

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Editors and Affiliations

  1. University of Minnesota, St. Paul, Minnesota, USA

    Shahryar F. Kianian

  2. University of Minnesota, St. Paul, Minnesota, USA

    Penny M. Avoles Kianian

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Dechyeva, D., Schmidt, T. (2016). Fluorescent In Situ Hybridization on Extended Chromatin Fibers for High-Resolution Analysis of Plant Chromosomes. In: Kianian, S., Kianian, P. (eds) Plant Cytogenetics. Methods in Molecular Biology, vol 1429. Humana Press, New York, NY. https://doi.org/10.1007/978-1-4939-3622-9_3

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  • DOI: https://doi.org/10.1007/978-1-4939-3622-9_3

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  • Publisher Name: Humana Press, New York, NY

  • Print ISBN: 978-1-4939-3620-5

  • Online ISBN: 978-1-4939-3622-9

  • eBook Packages: Springer Protocols

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