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Tissue-Specific Transcriptome Profiling in Arabidopsis Roots

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Plant Genomics

Part of the book series: Methods in Molecular Biology ((MIMB,volume 1610))

Abstract

Spatiotemporal transcriptome profiles from specific tissues are critical for understanding plant development and responses to the environment. One approach to isolate specific tissues is fluorescence-activated cell sorting (FACS). In this chapter, we outline methods for the FACS isolation of root protoplasts followed by transcriptome profiling using RNA sequencing.

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Acknowledgments

We gratefully acknowledge members of the Benfey Lab for their comments on this chapter and specifically Colleen Drapek for providing FACS plots, Kevin Lehner for photography, and Masashi Yamada and Louisa Liberman for providing the expected number of cells for different marker lines. Research in the Benfey Lab is supported by funding from the National Institutes of Health, the National Science Foundation, the Howard Hughes Medical Institute, and the Gordon and Betty Moore Foundation.

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Authors and Affiliations

  1. Department of Biology and Howard Hughes Medical Institute, Duke University, Durham, NC, USA

    Erin E. Sparks

  2. Department of Biology and Howard Hughes Medical Institute, Duke University, 130 Science Drive Room 137, Duke Box 90338, Durham, NC, 27708, USA

    Philip N. Benfey

Authors
  1. Erin E. Sparks
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  2. Philip N. Benfey
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Corresponding author

Correspondence to Philip N. Benfey .

Editor information

Editors and Affiliations

  1. Gregor Mendel Institute (GMI), Austrian Academy of Sciences, Vienna Biocenter (VBC), Vienna, Austria

    Wolfgang Busch

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Sparks, E.E., Benfey, P.N. (2017). Tissue-Specific Transcriptome Profiling in Arabidopsis Roots. In: Busch, W. (eds) Plant Genomics. Methods in Molecular Biology, vol 1610. Humana Press, New York, NY. https://doi.org/10.1007/978-1-4939-7003-2_8

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  • DOI: https://doi.org/10.1007/978-1-4939-7003-2_8

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  • Publisher Name: Humana Press, New York, NY

  • Print ISBN: 978-1-4939-7001-8

  • Online ISBN: 978-1-4939-7003-2

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