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Individual Analysis of Transposon Polymorphisms by AFLP

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Mobile Genetic Elements

Part of the book series: Methods in Molecular Biology ((MIMB,volume 859))

Abstract

The DNA polymorphisms caused by insertion and excision of transposable elements (TEs) are applicable in studying genome dynamics, genetic diversity, and molecular evolution, generating genome-wide molecular maps and investigating functional attributes of transposons in epigenetics and diseases. Identification of individual mutations caused by TEs using the principles of amplified fragment length polymorphism assay is a reliable and cost-effective approach. The method relies upon selective polymerase chain reaction (PCR) of flanking regions of TE insertion sites in the genome. A detailed procedure is described in this chapter that outlines each step starting from the preparation of PCR template to identification and isolation of the polymorphic bands. The approach outlined in this protocol can be adopted to identify individual polymorphisms caused by any transposon in any organism.

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Acknowledgments

I am thankful to Dr. David W. Severson at the University of Notre Dame for encouragement, support, and help. I also gratefully acknowledge Dr. Jeffery J. Staurt at Purdue University for invitation and encouragement to write this chapter.

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Authors and Affiliations

  1. Department of Biological Sciences, Eck Institute for Global Health, Univerity of Notre Dame, Galvin Life Sciences Center, Notre Dame, IN, USA

    Susanta K. Behura

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  1. Susanta K. Behura
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Corresponding author

Correspondence to Susanta K. Behura .

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Editors and Affiliations

  1. , Physiologie de la Reproduction, UMR INRA-CNRS 6175, n/a, Nouzilly Cedex, 37380, France

    Yves Bigot

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Behura, S.K. (2012). Individual Analysis of Transposon Polymorphisms by AFLP. In: Bigot, Y. (eds) Mobile Genetic Elements. Methods in Molecular Biology, vol 859. Humana Press. https://doi.org/10.1007/978-1-61779-603-6_8

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  • DOI: https://doi.org/10.1007/978-1-61779-603-6_8

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  • Publisher Name: Humana Press

  • Print ISBN: 978-1-61779-602-9

  • Online ISBN: 978-1-61779-603-6

  • eBook Packages: Springer Protocols

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