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Analysis of Plant Regulatory DNA Sequences by Transient Protoplast Assays and Computer Aided Sequence Evaluation

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Plant Signal Transduction

Part of the book series: Methods in Molecular Biology ((MIMB,volume 479))

Abstract

The orchestrated regulation of hundreds of genes responding in a temporal, spatial, and conditional expression is in part mediated by the transient binding of transcription factors to their specific DNA motifs. The analysis of these «¿-regulatory DNA sequences is still a challenging task. Therefore, the combination of the transient protoplast expression assay with computer aided sequence analysis is a preferred method for regulatory sequence analysis. The protocols given here describe the use of a reporter gene plasmid to investigate the effects of a transiently co-expressed transcription factor gene in plants. As a number of bioinformatic analysis tools for cis-elements are publicly available, we suggest a workflow for the electronic analysis of promoter sequences. This is in particular difficult, as most analysis programs have not been developed for the investigation of single sequences. We provide insight into bioinformatics tools that investigate «V-element presence, their distribution, and implications for further functional analyses

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Author information

Authors and Affiliations

  1. ZMBP Pflanzenphysiologie, Universität Tübingen, Tübingen, Germany

    Kenneth W. Berendzen

  2. ZMBP/Pflanzenphysiologie, Universität Tübingen, Tübingen, Germany

    Klaus Harter

  3. ZMBP Pflanzenphysiologie, Universität Tübingen, Tübingen, Germany

    Dierk Wanke

Authors
  1. Kenneth W. Berendzen
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  2. Klaus Harter
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  3. Dierk Wanke
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Editor information

Editors and Affiliations

  1. Institut für Allgemeine Botanik und Pflanzenphysiologie, Lehrstuhl Pflanzenphysiologie, Friedrich-Schiller-Universität Jena, Jena, Germany

    Thomas Pfannschmidt

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© 2009 Humana Press, a part of Springer Science+Business Media, LLC

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Berendzen, K., Harter, K., Wanke, D. (2009). Analysis of Plant Regulatory DNA Sequences by Transient Protoplast Assays and Computer Aided Sequence Evaluation. In: Pfannschmidt, T. (eds) Plant Signal Transduction. Methods in Molecular Biology, vol 479. Humana Press, Totowa, NJ. https://doi.org/10.1007/978-1-59745-289-2_20

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  • DOI: https://doi.org/10.1007/978-1-59745-289-2_20

  • Publisher Name: Humana Press, Totowa, NJ

  • Print ISBN: 978-1-58829-943-7

  • Online ISBN: 978-1-59745-289-2

  • eBook Packages: Springer Protocols

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