Challenges and opportunities for quantifying roots and rhizosphere interactions through imaging and image analysis

Helen F. Downie, M. O. Adu, S. Schmidt, W. Otten, L. X. Dupuy, P. J. White, Tracy A. Valentine

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    Abstract

    The morphology of roots and root systems influences the efficiency by which plants acquire nutrients and water, anchor themselves and provide stability to the surrounding soil. Plant genotype and the biotic and abiotic environment significantly influence root morphology, growth and ultimately crop yield. The challenge for researchers interested in phenotyping root systems is, therefore, not just to measure roots and link their phenotype to the plant genotype, but also to understand how the growth of roots is influenced by their environment. This review discusses progress in quantifying root system parameters (e.g. in terms of size, shape and dynamics) using imaging and image analysis technologies and also discusses their potential for providing a better understanding of root:soil interactions. Significant progress has been made in image acquisition techniques, however trade-offs exist between sample throughput, sample size, image resolution and information gained. All of these factors impact on downstream image analysis processes. While there have been significant advances in computation power, limitations still exist in statistical processes involved in image analysis. Utilizing and combining different imaging systems, integrating measurements and image analysis where possible, and amalgamating data will allow researchers to gain a better understanding of root:soil interactions.
    Original languageEnglish
    Pages (from-to)1213–1232
    Number of pages20
    JournalPlant, Cell & Environment
    Volume38
    Issue number7
    Early online date11 Sep 2014
    DOIs
    Publication statusPublished - Jul 2015

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    rhizosphere
    image analysis
    root systems
    researchers
    phenotype
    soil
    genotype
    crop yield
    root growth
    sampling
    nutrients
    water
    methodology

    Cite this

    Downie, H. F., Adu, M. O., Schmidt, S., Otten, W., Dupuy, L. X., White, P. J., & Valentine, T. A. (2015). Challenges and opportunities for quantifying roots and rhizosphere interactions through imaging and image analysis. Plant, Cell & Environment, 38(7), 1213–1232. https://doi.org/10.1111/pce.12448
    Downie, Helen F. ; Adu, M. O. ; Schmidt, S. ; Otten, W. ; Dupuy, L. X. ; White, P. J. ; Valentine, Tracy A. / Challenges and opportunities for quantifying roots and rhizosphere interactions through imaging and image analysis. In: Plant, Cell & Environment. 2015 ; Vol. 38, No. 7. pp. 1213–1232.
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    abstract = "The morphology of roots and root systems influences the efficiency by which plants acquire nutrients and water, anchor themselves and provide stability to the surrounding soil. Plant genotype and the biotic and abiotic environment significantly influence root morphology, growth and ultimately crop yield. The challenge for researchers interested in phenotyping root systems is, therefore, not just to measure roots and link their phenotype to the plant genotype, but also to understand how the growth of roots is influenced by their environment. This review discusses progress in quantifying root system parameters (e.g. in terms of size, shape and dynamics) using imaging and image analysis technologies and also discusses their potential for providing a better understanding of root:soil interactions. Significant progress has been made in image acquisition techniques, however trade-offs exist between sample throughput, sample size, image resolution and information gained. All of these factors impact on downstream image analysis processes. While there have been significant advances in computation power, limitations still exist in statistical processes involved in image analysis. Utilizing and combining different imaging systems, integrating measurements and image analysis where possible, and amalgamating data will allow researchers to gain a better understanding of root:soil interactions.",
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    Downie, HF, Adu, MO, Schmidt, S, Otten, W, Dupuy, LX, White, PJ & Valentine, TA 2015, 'Challenges and opportunities for quantifying roots and rhizosphere interactions through imaging and image analysis', Plant, Cell & Environment, vol. 38, no. 7, pp. 1213–1232. https://doi.org/10.1111/pce.12448

    Challenges and opportunities for quantifying roots and rhizosphere interactions through imaging and image analysis. / Downie, Helen F.; Adu, M. O.; Schmidt, S.; Otten, W.; Dupuy, L. X.; White, P. J.; Valentine, Tracy A.

    In: Plant, Cell & Environment, Vol. 38, No. 7, 07.2015, p. 1213–1232.

    Research output: Contribution to journalArticle

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    AB - The morphology of roots and root systems influences the efficiency by which plants acquire nutrients and water, anchor themselves and provide stability to the surrounding soil. Plant genotype and the biotic and abiotic environment significantly influence root morphology, growth and ultimately crop yield. The challenge for researchers interested in phenotyping root systems is, therefore, not just to measure roots and link their phenotype to the plant genotype, but also to understand how the growth of roots is influenced by their environment. This review discusses progress in quantifying root system parameters (e.g. in terms of size, shape and dynamics) using imaging and image analysis technologies and also discusses their potential for providing a better understanding of root:soil interactions. Significant progress has been made in image acquisition techniques, however trade-offs exist between sample throughput, sample size, image resolution and information gained. All of these factors impact on downstream image analysis processes. While there have been significant advances in computation power, limitations still exist in statistical processes involved in image analysis. Utilizing and combining different imaging systems, integrating measurements and image analysis where possible, and amalgamating data will allow researchers to gain a better understanding of root:soil interactions.

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