Transparent soil for imaging the rhizosphere

Helen F. Downie, Nicola Holden, Wilfred Otten, Andrew J. Spiers, Tracy A. Valentine, Lionel X. Dupuy

Research output: Contribution to journalArticle

95 Citations (Scopus)
89 Downloads (Pure)


Understanding of soil processes is essential for addressing the global issues of food security, disease transmission and climate change. However, techniques for observing soil biology are lacking. We present a heterogeneous, porous, transparent substrate for in situ 3D imaging of living plants and root-associated microorganisms using particles of the transparent polymer, Nafion, and a solution with matching optical properties. Minerals and fluorescent dyes were adsorbed onto the Nafion particles for nutrient supply and imaging of pore size and geometry. Plant growth in transparent soil was similar to that in soil. We imaged colonization of lettuce roots by the human bacterial pathogen Escherichia coli O157:H7 showing micro-colony development. Micro-colonies may contribute to bacterial survival in soil. Transparent soil has applications in root biology, crop genetics and soil microbiology.
Original languageEnglish
Article numbere44276
Number of pages6
JournalPLoS One
Issue number9
Publication statusPublished - Sep 2012

Fingerprint Dive into the research topics of 'Transparent soil for imaging the rhizosphere'. Together they form a unique fingerprint.

  • Cite this

    Downie, H. F., Holden, N., Otten, W., Spiers, A. J., Valentine, T. A., & Dupuy, L. X. (2012). Transparent soil for imaging the rhizosphere. PLoS One, 7(9), [e44276].