Fluorescence in situ hybridization on plant extended chromatin DNA fibers for single-copy and repetitive DNA sequences

Plant Cell Rep. 2011 Sep;30(9):1779-86. doi: 10.1007/s00299-011-1086-y. Epub 2011 Jun 22.

Abstract

The compactness of plant chromosomes and the structure of the plant cell wall and cytoplasm provide a great obstacle to fluorescence in situ hybridization (FISH) for single-copy or low-copy DNA sequences. Consequently, many new methods for improving spatial resolution via chromosomal stretching have been employed to overcome this technical challenge. In this article, a technique for extracting cell-wall free nuclei at mitotic interphase, then using these nuclei to prepare extended DNA fibers (EDFs) by the method of a receding interface, whereby slide-mounted chromatin produces EDFs in concert with gravity-assisted buffer flow, was adopted as a result of the low frequency of EDF damage produced by this procedure. To examine the quality of these EDFs, we used single-copy gene encoding S-locus receptor kinase and multi-copy 5S rDNA (ribosomal DNA) as probes. The resulting EDFs proved suitable for high-resolution FISH mapping for repetitive DNA sequences, and the localization of a single-copy locus.

Publication types

  • Research Support, Non-U.S. Gov't

MeSH terms

  • Brassica / genetics
  • Cell Nucleus / genetics
  • Cell Wall / metabolism
  • Chromatin / metabolism
  • Chromosome Mapping / methods*
  • Chromosomes, Plant / genetics
  • DNA Probes / genetics
  • DNA Probes / metabolism
  • DNA, Plant / genetics*
  • Flowers / genetics
  • In Situ Hybridization, Fluorescence / methods*
  • Interphase*
  • Metaphase
  • Pachytene Stage
  • Plant Proteins / genetics
  • Plant Roots / genetics
  • Protein Kinases / genetics
  • RNA, Ribosomal, 5S / genetics
  • RNA, Ribosomal, 5S / metabolism
  • Repetitive Sequences, Nucleic Acid

Substances

  • Chromatin
  • DNA Probes
  • DNA, Plant
  • Plant Proteins
  • RNA, Ribosomal, 5S
  • Protein Kinases
  • S-receptor kinase