Light sheet tomography (LST) for in situ imaging of plant roots

Zhengyi Yang, Helen Downie, Emil Rozbicki, Lionel X. Dupuy, Michael P. MacDonald

    Research output: Contribution to journalArticle

    16 Citations (Scopus)

    Abstract

    The production of crops capable of efficient nutrient use is essential for addressing the problem of global food security. The ability of a plant's root system to interact with the soil micro-environment determines how effectively it can extract water and nutrients. In order to assess this ability and develop the fast and cost effective phenotyping techniques which are needed to establish efficient root systems, in situ imaging in soil is required. To date this has not been possible due to the high density of scatterers and absorbers in soil or because other growth substrates do not sufficiently model the heterogeneity of a soil's microenvironment. We present here a new form of light sheet imaging with novel transparent soil containing refractive index matched particles. This imaging method does not rely on fluorescence, but relies solely on scattering from root material. We term this form of imaging Light Sheet Tomography (LST). We have tested LST on a range of materials and plant roots in transparent soil and gel. Due to the low density of root structures, i.e. relatively large spaces between adjacent roots, long-term monitoring of lettuce root development in situ with subsequent quantitative analysis was achieved.
    Original languageEnglish
    Pages (from-to)16239-16247
    Number of pages7
    JournalOptics Express
    Volume21
    Issue number14
    Early online date1 Jul 2013
    DOIs
    Publication statusPublished - 2013

    Fingerprint

    plant roots
    soils
    tomography
    nutrients
    crops
    scattering
    food
    quantitative analysis
    absorbers
    gels
    refractivity
    costs
    fluorescence

    Cite this

    Yang, Zhengyi ; Downie, Helen ; Rozbicki, Emil ; Dupuy, Lionel X. ; MacDonald, Michael P. / Light sheet tomography (LST) for in situ imaging of plant roots. In: Optics Express. 2013 ; Vol. 21, No. 14. pp. 16239-16247.
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    abstract = "The production of crops capable of efficient nutrient use is essential for addressing the problem of global food security. The ability of a plant's root system to interact with the soil micro-environment determines how effectively it can extract water and nutrients. In order to assess this ability and develop the fast and cost effective phenotyping techniques which are needed to establish efficient root systems, in situ imaging in soil is required. To date this has not been possible due to the high density of scatterers and absorbers in soil or because other growth substrates do not sufficiently model the heterogeneity of a soil's microenvironment. We present here a new form of light sheet imaging with novel transparent soil containing refractive index matched particles. This imaging method does not rely on fluorescence, but relies solely on scattering from root material. We term this form of imaging Light Sheet Tomography (LST). We have tested LST on a range of materials and plant roots in transparent soil and gel. Due to the low density of root structures, i.e. relatively large spaces between adjacent roots, long-term monitoring of lettuce root development in situ with subsequent quantitative analysis was achieved.",
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    language = "English",
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    Yang, Z, Downie, H, Rozbicki, E, Dupuy, LX & MacDonald, MP 2013, 'Light sheet tomography (LST) for in situ imaging of plant roots', Optics Express, vol. 21, no. 14, pp. 16239-16247. https://doi.org/10.1364/OE.21.016239

    Light sheet tomography (LST) for in situ imaging of plant roots. / Yang, Zhengyi; Downie, Helen; Rozbicki, Emil; Dupuy, Lionel X.; MacDonald, Michael P.

    In: Optics Express, Vol. 21, No. 14, 2013, p. 16239-16247.

    Research output: Contribution to journalArticle

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    AU - Yang, Zhengyi

    AU - Downie, Helen

    AU - Rozbicki, Emil

    AU - Dupuy, Lionel X.

    AU - MacDonald, Michael P.

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    AB - The production of crops capable of efficient nutrient use is essential for addressing the problem of global food security. The ability of a plant's root system to interact with the soil micro-environment determines how effectively it can extract water and nutrients. In order to assess this ability and develop the fast and cost effective phenotyping techniques which are needed to establish efficient root systems, in situ imaging in soil is required. To date this has not been possible due to the high density of scatterers and absorbers in soil or because other growth substrates do not sufficiently model the heterogeneity of a soil's microenvironment. We present here a new form of light sheet imaging with novel transparent soil containing refractive index matched particles. This imaging method does not rely on fluorescence, but relies solely on scattering from root material. We term this form of imaging Light Sheet Tomography (LST). We have tested LST on a range of materials and plant roots in transparent soil and gel. Due to the low density of root structures, i.e. relatively large spaces between adjacent roots, long-term monitoring of lettuce root development in situ with subsequent quantitative analysis was achieved.

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