Global mapping of transposon location.

Abram Gabriel, Johannes Dapprich, Mark Kunkel, David Gresham, Stephen C. Pratt, Maitreya J. Dunham

Research output: Contribution to journalArticle

Abstract

Transposable genetic elements are ubiquitous, yet their presence or absence at any given position within a genome can vary between individual cells, tissues, or strains. Transposable elements have profound impacts on host genomes by altering gene expression, assisting in genomic rearrangements, causing insertional mutations, and serving as sources of phenotypic variation. Characterizing a genome's full complement of transposons requires whole genome sequencing, precluding simple studies of the impact of transposition on interindividual variation. Here, we describe a global mapping approach for identifying transposon locations in any genome, using a combination of transposon-specific DNA extraction and microarray-based comparative hybridization analysis. We use this approach to map the repertoire of endogenous transposons in different laboratory strains of Saccharomyces cerevisiae and demonstrate that transposons are a source of extensive genomic variation. We also apply this method to mapping bacterial transposon insertion sites in a yeast genomic library. This unique whole genome view of transposon location will facilitate our exploration of transposon dynamics, as well as defining bases for individual differences and adaptive potential.

Original languageEnglish (US)
JournalPLoS Genetics
Volume2
Issue number12
DOIs
StatePublished - Dec 15 2006

Fingerprint

transposons
genome
Genome
genomics
DNA Transposable Elements
Genomic Library
Oligonucleotide Array Sequence Analysis
Individuality
gene expression
yeast
Saccharomyces cerevisiae
mutation
transposition (genetics)
Yeasts
genomic libraries
Gene Expression
phenotypic variation
DNA
Mutation
complement

ASJC Scopus subject areas

  • Genetics
  • Molecular Biology
  • Ecology, Evolution, Behavior and Systematics
  • Cancer Research
  • Genetics(clinical)

Cite this

Gabriel, A., Dapprich, J., Kunkel, M., Gresham, D., Pratt, S. C., & Dunham, M. J. (2006). Global mapping of transposon location. PLoS Genetics, 2(12). https://doi.org/10.1371/journal.pgen.0020212

Global mapping of transposon location. / Gabriel, Abram; Dapprich, Johannes; Kunkel, Mark; Gresham, David; Pratt, Stephen C.; Dunham, Maitreya J.

In: PLoS Genetics, Vol. 2, No. 12, 15.12.2006.

Research output: Contribution to journalArticle

Gabriel, A, Dapprich, J, Kunkel, M, Gresham, D, Pratt, SC & Dunham, MJ 2006, 'Global mapping of transposon location.', PLoS Genetics, vol. 2, no. 12. https://doi.org/10.1371/journal.pgen.0020212
Gabriel A, Dapprich J, Kunkel M, Gresham D, Pratt SC, Dunham MJ. Global mapping of transposon location. PLoS Genetics. 2006 Dec 15;2(12). https://doi.org/10.1371/journal.pgen.0020212
Gabriel, Abram ; Dapprich, Johannes ; Kunkel, Mark ; Gresham, David ; Pratt, Stephen C. ; Dunham, Maitreya J. / Global mapping of transposon location. In: PLoS Genetics. 2006 ; Vol. 2, No. 12.
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