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Phylogenomic Analysis by Chromosome Sorting and Painting

  • Protocol
Phylogenomics

Part of the book series: Methods in Molecular Biology™ ((MIMB,volume 422))

Abstract

Chromosome sorting by flow cytometry is the principle source of chromosome-specific DNA not only for chromosome painting, but also for many other types of genomic analysis such as library construction, discovery and isolation of genes, chromosome specific direct DNA selection, and array painting. Chromosome sorting coupled with chromosome painting is a rapid method for global phylogenomic comparisons. These two techniques have made notable contributions to our knowledge of the evolution of the mammalian genome. The flow sorting of multiple species allows reciprocal painting and permits the delineation of subchromosomal homology and the definition of chromosomal breakpoints. Chromosomes are valuable phylogenetic makers because rearrangements that become fixed at the species level are considered rare events and apparently tightly bound to the speciation process. This chapter covers the preparation of a single chromosome suspension from cell cultures, bivariate chromosome flow sorting, preparation of chromosome paints by degenerate oligonucleotide primed-PCR and the fluorescence in-situ hybridization and detection of whole chromosome specific probes.

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Author information

Authors and Affiliations

  1. Dipartimento di Biologia Animale e Genetica, Florence University, Firenze, Italy

    Roscoe Stanyon

  2. National Cancer Institute-Frederick, Frederick, MD

    Gary Stone

Authors
  1. Roscoe Stanyon
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  2. Gary Stone
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Editor information

Editors and Affiliations

  1. Department of Veterinary Integrative Biosciences College of Veterinary Medicine and Biomedical Sciences Mail Stop 4458, Texas A&M University, Raymond Stotzer Parkway, Rm 107 VMA, College Station, TX, 77843-4458, USA

    William J. Murphy PhD

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© 2008 Humana Press Inc., Totowa, NJ

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Stanyon, R., Stone, G. (2008). Phylogenomic Analysis by Chromosome Sorting and Painting. In: Murphy, W.J. (eds) Phylogenomics. Methods in Molecular Biology™, vol 422. Humana Press. https://doi.org/10.1007/978-1-59745-581-7_2

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  • DOI: https://doi.org/10.1007/978-1-59745-581-7_2

  • Publisher Name: Humana Press

  • Print ISBN: 978-1-58829-764-8

  • Online ISBN: 978-1-59745-581-7

  • eBook Packages: Springer Protocols

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