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      High-throughput method for ear phenotyping and kernel weight estimation in maize using ear digital imaging

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          Abstract

          Background

          Grain yield, ear and kernel attributes can assist to understand the performance of maize plant under different environmental conditions and can be used in the variety development process to address farmer’s preferences. These parameters are however still laborious and expensive to measure.

          Results

          A low-cost ear digital imaging method was developed that provides estimates of ear and kernel attributes i.e., ear number and size, kernel number and size as well as kernel weight from photos of ears harvested from field trial plots. The image processing method uses a script that runs in a batch mode on ImageJ; an open source software. Kernel weight was estimated using the total kernel number derived from the number of kernels visible on the image and the average kernel size. Data showed a good agreement in terms of accuracy and precision between ground truth measurements and data generated through image processing. Broad-sense heritability of the estimated parameters was in the range or higher than that for measured grain weight. Limitation of the method for kernel weight estimation is discussed.

          Conclusion

          The method developed in this work provides an opportunity to significantly reduce the cost of selection in the breeding process, especially for resource constrained crop improvement programs and can be used to learn more about the genetic bases of grain yield determinants.

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          Most cited references24

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          NIH Image to ImageJ: 25 years of image analysis.

          For the past 25 years NIH Image and ImageJ software have been pioneers as open tools for the analysis of scientific images. We discuss the origins, challenges and solutions of these two programs, and how their history can serve to advise and inform other software projects.
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            A concordance correlation coefficient to evaluate reproducibility.

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            A new reproducibility index is developed and studied. This index is the correlation between the two readings that fall on the 45 degree line through the origin. It is simple to use and possesses desirable properties. The statistical properties of this estimate can be satisfactorily evaluated using an inverse hyperbolic tangent transformation. A Monte Carlo experiment with 5,000 runs was performed to confirm the estimate's validity. An application using actual data is given.
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              Method agreement analysis: a review of correct methodology.

              The correct approach to analyzing method agreement is discussed. Whether we are considering agreement between two measurements on the same samples (repeatability) or two individuals using identical methodology on identical samples (reproducibility) or comparing two methods, appropriate procedures are described, and worked examples are shown. The correct approaches for both categorical and numerical variables are explained. More complex analyses involving a comparison of more than two pairs of data are mentioned and guidance for these analyses given. Simple formulae for calculating the approximate sample size needed for agreement analysis are also given. Examples of good practice from the reproduction literature are cited, and common errors of methodology are indicated. 2010 Elsevier Inc. All rights reserved.
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                Author and article information

                Contributors
                rmakanza@live.co.za
                z.mainassaraabdou@cgiar.org
                j.cairns@cgiar.org
                uqjeyre@uq.edu.au
                J.Burgueno@cgiar.org
                r.a.pacheco@cgiar.org
                chd45@cornell.edu
                c.magorokosho@cgiar.org
                a.tarekegne@cgiar.org
                m.olsen@cgiar.org
                b.prasanna@cgiar.org
                Journal
                Plant Methods
                Plant Methods
                Plant Methods
                BioMed Central (London )
                1746-4811
                15 June 2018
                15 June 2018
                2018
                : 14
                : 49
                Affiliations
                [1 ]International Maize and Wheat Improvement Center (CIMMYT), PO Box MP163, Harare, Zimbabwe
                [2 ]ISNI 0000 0000 9320 7537, GRID grid.1003.2, University of Queensland, ; Brisbane, Australia
                [3 ]International Maize and Wheat Improvement Center (CIMMYT), PO Box 1041, Nairobi, Kenya
                [4 ]ISNI 0000 0001 2289 885X, GRID grid.433436.5, International Maize and Wheat Improvement Center (CIMMYT), ; El Batan, Mexico
                [5 ]ISNI 000000041936877X, GRID grid.5386.8, Cornell University, ; Ithaca, NY 14853 USA
                Article
                317
                10.1186/s13007-018-0317-4
                6003192
                29946344
                5a2e2dd3-adde-4765-8659-1e4b51f26a04
                © The Author(s) 2018

                Open AccessThis article is distributed under the terms of the Creative Commons Attribution 4.0 International License ( http://creativecommons.org/licenses/by/4.0/), which permits unrestricted use, distribution, and reproduction in any medium, provided you give appropriate credit to the original author(s) and the source, provide a link to the Creative Commons license, and indicate if changes were made. The Creative Commons Public Domain Dedication waiver ( http://creativecommons.org/publicdomain/zero/1.0/) applies to the data made available in this article, unless otherwise stated.

                History
                : 15 March 2018
                : 7 June 2018
                Categories
                Methodology
                Custom metadata
                © The Author(s) 2018

                Plant science & Botany
                maize,ear,kernel,phenotyping,image analysis
                Plant science & Botany
                maize, ear, kernel, phenotyping, image analysis

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