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  1. Research

    Multi-feature machine learning model for automatic segmentation of green fractional vegetation cover for high-throughput field phenotyping

    Accurately segmenting vegetation from the background within digital images is both a fundamental and a challenging task in phenotyping. The performance of traditional methods is satisfactory in homogeneous env...

    Pouria Sadeghi-Tehran, Nicolas Virlet, Kasra Sabermanesh and Malcolm J. Hawkesford

    Plant Methods 2017 13:103

    Published on: 21 November 2017

  2. Methodology

    Non-invasive imaging of plant roots in different soils using magnetic resonance imaging (MRI)

    Root systems are highly plastic and adapt according to their soil environment. Studying the particular influence of soils on root development necessitates the adaptation and evaluation of imaging methods for m...

    Daniel Pflugfelder, Ralf Metzner, Dagmar van Dusschoten, Rüdiger Reichel, Siegfried Jahnke and Robert Koller

    Plant Methods 2017 13:102

    Published on: 17 November 2017

  3. Research

    A cautionary note on the use of chromosome conformation capture in plants

    The chromosome conformation capture (3C) technique is a method to study chromatin interactions at specific genomic loci. Initially established for yeast the 3C technique has been adapted to plants in recent y...

    Suraj Jamge, Maike Stam, Gerco C. Angenent and Richard G. H. Immink

    Plant Methods 2017 13:101

    Published on: 16 November 2017

  4. Correction

    Correction to: The Tree Drought Emission MONitor (Tree DEMON), an innovative system for assessing biogenic volatile organic compounds emission from plants

    After publication of this article [1], the authors noted the following error. Due to a calculation error in the temperature term f(TL) of the emission standardization algorithm (Eq. 3 of the original paper), the ...

    Marvin Lüpke, Rainer Steinbrecher, Michael Leuchner and Annette Menzel

    Plant Methods 2017 13:100

    Published on: 16 November 2017

    The original article was published in Plant Methods 2017 13:14

  5. Methodology

    Measuring the compressive modulus of elasticity of pith-filled plant stems

    The compressional modulus of elasticity is an important mechanical property for understanding stalk lodging, but this property is rarely available for thin-walled plant stems such as maize and sorghum because ...

    Loay A. Al-Zube, Daniel J. Robertson, Jean N. Edwards, Wenhuan Sun and Douglas D. Cook

    Plant Methods 2017 13:99

    Published on: 9 November 2017

  6. Methodology

    A robot-assisted imaging pipeline for tracking the growths of maize ear and silks in a high-throughput phenotyping platform

    In maize, silks are hundreds of filaments that simultaneously emerge from the ear for collecting pollen over a period of 1–7 days, which largely determines grain number especially under water deficit. Silk gro...

    Nicolas Brichet, Christian Fournier, Olivier Turc, Olivier Strauss, Simon Artzet, Christophe Pradal, Claude Welcker, François Tardieu and Llorenç Cabrera-Bosquet

    Plant Methods 2017 13:96

    Published on: 8 November 2017

  7. Methodology

    PYM: a new, affordable, image-based method using a Raspberry Pi to phenotype plant leaf area in a wide diversity of environments

    Plant science uses increasing amounts of phenotypic data to unravel the complex interactions between biological systems and their variable environments. Originally, phenotyping approaches were limited by manua...

    Benoît Valle, Thierry Simonneau, Romain Boulord, Francis Sourd, Thibault Frisson, Maxime Ryckewaert, Philippe Hamard, Nicolas Brichet, Myriam Dauzat and Angélique Christophe

    Plant Methods 2017 13:98

    Published on: 8 November 2017

  8. Methodology

    A “Do-It-Yourself” phenotyping system: measuring growth and morphology throughout the diel cycle in rosette shaped plants

    Improvements in high-throughput phenotyping technologies are rapidly expanding the scope and capacity of plant biology studies to measure growth traits. Nevertheless, the costs of commercial phenotyping equipm...

    Andrei Dobrescu, Livia C. T. Scorza, Sotirios A. Tsaftaris and Alistair J. McCormick

    Plant Methods 2017 13:95

    Published on: 8 November 2017

  9. Methodology article

    A novel 3D imaging system for strawberry phenotyping

    Accurate and quantitative phenotypic data in plant breeding programmes is vital in breeding to assess the performance of genotypes and to make selections. Traditional strawberry phenotyping relies on the human...

    Joe Q. He, Richard J. Harrison and Bo Li

    Plant Methods 2017 13:93

    Published on: 8 November 2017

  10. Methodology

    A method for automatic segmentation and splitting of hyperspectral images of raspberry plants collected in field conditions

    Hyperspectral imaging is a technology that can be used to monitor plant responses to stress. Hyperspectral images have a full spectrum for each pixel in the image, 400–2500 nm in this case, giving detailed inf...

    Dominic Williams, Avril Britten, Susan McCallum, Hamlyn Jones, Matt Aitkenhead, Alison Karley, Ken Loades, Ankush Prashar and Julie Graham

    Plant Methods 2017 13:74

    Published on: 1 November 2017

  11. Research

    Non-destructive, high-content analysis of wheat grain traits using X-ray micro computed tomography

    Wheat is one of the most widely grown crop in temperate climates for food and animal feed. In order to meet the demands of the predicted population increase in an ever-changing climate, wheat production needs ...

    Nathan Hughes, Karen Askew, Callum P. Scotson, Kevin Williams, Colin Sauze, Fiona Corke, John H. Doonan and Candida Nibau

    Plant Methods 2017 13:76

    Published on: 1 November 2017

  12. Research

    Surface-enhanced Raman scattering spectra revealing the inter-cultivar differences for Chinese ornamental Flos Chrysanthemum: a new promising method for plant taxonomy

    Flos Chrysanthemi, as a part of Chinese culture for a long history, is valuable for not only environmental decoration but also the medicine and food additive. Due to their voluminously...

    Heng Zhang, Zhenyi Chen, Taihao Li, Na Chen, Wenjie Xu and Shupeng Liu

    Plant Methods 2017 13:92

    Published on: 30 October 2017

  13. Research

    Integrative field scale phenotyping for investigating metabolic components of water stress within a vineyard

    There is currently a high requirement for field phenotyping methodologies/technologies to determine quantitative traits related to crop yield and plant stress responses under field conditions.

    Jorge Gago, Alisdair R. Fernie, Zoran Nikoloski, Takayuki Tohge, Sebastiá Martorell, José Mariano Escalona, Miquel Ribas-Carbó, Jaume Flexas and Hipólito Medrano

    Plant Methods 2017 13:90

    Published on: 30 October 2017

  14. Methodology

    A sensitive synthetic reporter for visualizing cytokinin signaling output in rice

    Cytokinins play many essential roles in plant growth and development, mainly through signal transduction pathways. Although the cytokinin signaling pathway in rice has been clarified, no synthetic reporter for...

    Jinyuan Tao, Huwei Sun, Pengyuan Gu, Zhihao Liang, Xinni Chen, Jiajing Lou, Guohua Xu and Yali Zhang

    Plant Methods 2017 13:89

    Published on: 27 October 2017

  15. Methodology

    A highly efficient ligation-independent cloning system for CRISPR/Cas9 based genome editing in plants

    Most current methods for constructing guide RNAs (gRNA) for the CRISPR/Cas9 genome editing system, depend on traditional cloning using specific type IIS restriction enzymes and DNA ligation. These methods cons...

    Aftab A. Khan, Ashraf El-Sayed, Asma Akbar, Arianna Mangravita-Novo, Shaheen Bibi, Zunaira Afzal, David J. Norman and Gul Shad Ali

    Plant Methods 2017 13:86

    Published on: 16 October 2017

  16. Methodology

    Detecting spikes of wheat plants using neural networks with Laws texture energy

    The spike of a cereal plant is the grain-bearing organ whose physical characteristics are proxy measures of grain yield. The ability to detect and characterise spikes from 2D images of cereal plants, such as w...

    Li Qiongyan, Jinhai Cai, Bettina Berger, Mamoru Okamoto and Stanley J. Miklavcic

    Plant Methods 2017 13:83

    Published on: 13 October 2017

  17. Methodology

    Improved method for genomic DNA extraction for Opuntia Mill. (Cactaceae)

    Genomic DNA extracted from species of Cactaceae is often contaminated with significant amounts of mucilage and pectin. Pectin is one of the main components of cellular walls, whereas mucilage is a complex poly...

    César Ramiro Martínez-González, Rosario Ramírez-Mendoza, Jaime Jiménez-Ramírez, Clemente Gallegos-Vázquez and Isolda Luna-Vega

    Plant Methods 2017 13:82

    Published on: 11 October 2017

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