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Hedgehog Signaling Protocols pp 231–250Cite as

Sequence Analyses to Study the Evolutionary History and Cis-Regulatory Elements of Hedgehog Genes

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Part of the book series: Methods Inmolecular Biology™ ((MIMB,volume 397))

Abstract

Sequence analysis and comparative genomics are powerful tools to gain knowledge on multiple aspects of gene and protein regulation and function. These have been widely used to understand the evolutionary history and the biochemistry of Hedgehog (Hh) proteins, and the molecular control of Hedgehog gene expression. Here, we report on some of the methods available to retrieve protein and genomic sequences. We describe how protein sequence comparison can produce information on the evolutionary history of Hh proteins. Moreover, we describe the use of genomic sequence analysis including phylogenetic footprinting and transcription factor-binding site search tools, techniques that allow for the characterization of cis-regulatory elements of developmental genes such as the Hedgehog genes.

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Authors and Affiliations

  1. Institute of Toxicology and Genetics, Forschungszentrum, Karlsruhe. Postfach., Karlsruhe, Germany

    Ferenc Müller

  2. Department of Biomedical Science, University of Sheffield, Centre for Developmental Genetics, Sheffield, UK

    Anne-Gaelle Borycki

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  1. Ferenc Müller
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Editors and Affiliations

  1. Deptment of Biomedical Sciences College of Medicine, Florida State University, Tallahassee, Florida, USA

    Jamila I. Horabin (Associate Professor) (Associate Professor)

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© 2007 Humana Press Inc., Totowa, NJ

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Müller, F., Borycki, AG. (2007). Sequence Analyses to Study the Evolutionary History and Cis-Regulatory Elements of Hedgehog Genes. In: Horabin, J.I. (eds) Hedgehog Signaling Protocols. Methods Inmolecular Biology™, vol 397. Humana Press. https://doi.org/10.1007/978-1-59745-516-9_16

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  • DOI: https://doi.org/10.1007/978-1-59745-516-9_16

  • Publisher Name: Humana Press

  • Print ISBN: 978-1-58829-692-4

  • Online ISBN: 978-1-59745-516-9

  • eBook Packages: Springer Protocols

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