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Plant phenotyping methods.

植物形質を測っただけの研究ではなく、フェノタイピング手法の開発・検証・実質的利用・ベンチマーク・方法レビューとの関連性が見つかった論文を中心に表示します。

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10 papers · code / dataset availability confirmedLatest completed run · 2016-01-01 – 2026-09-13

自動判定された未検証候補です。Catalogへの掲載にはキュレーター承認が必要です。

Code / dataset availability confirmedOpenAlex · Crossref · checked 15 Sept 2026
Published23 Jun 2026DataCited by 0 · OpenAlex ↗

LeafScans-Orchard: A Multi-Year Open RGB Scan Dataset of Orchard Plant Leaves for Species and Cultivar Classification

AppleCherryPeachPearPlumLaboratory / benchtopRGB / grayscaleLeafClassificationMorphology / geometry measurement

LeafScans-Orchard is a curated, multi-year RGB image dataset of orchard plant leaves designed to support research in computer vision, machine learning, and plant phenotyping. The dataset comprises 9708 high-quality leaf scans acquired during collection campaigns conducted between 2015 and 2025, covering seven orchard crop species: apple, pear, sweet cherry, sour cherry, plum, peach, and apricot. In total, the dataset includes 67 cultivar labels. All samples were acquired using flatbed scanning under controlled conditions on a uniform background, ensuring high visual consistency and minimal background variability. The original scans were captured at 1200 dpi and subsequently converted into a public release format at 300 dpi, stored as lossless TIFF images to preserve morphological and textural details. Each image corresponds to a single leaf and is organized in a hierarchical directory structure by species, cultivar, and acquisition year, accompanied by image-level metadata and aggregated species–cultivar–year counts. LeafScans-Orchard is suitable for plant species classification, cultivar recognition, leaf morphology analysis, texture analysis, and general visual feature extraction. In addition to the main release, a representative subset of 300 original 1200 dpi scans is provided to support high-resolution analyses. The dataset is particularly suited for fine-grained classification, morphology-driven analysis, and methodological studies under controlled imaging conditions.

Why it matches plant phenotyping methods果樹葉のRGBスキャン画像を収録した公開データセットで、植物フェノタイピングおよび葉形態解析を目的とする。標準化された画像取得と再利用可能なデータ構成が中心であり、フェノタイピング用データセットとして適格。

abstractLeafScans-Orchard is a curated, multi-year RGB image dataset of orchard plant leaves designed to support research in computer vision, machine learning, and plant phenotyping.
Reproduction assets foundThe paper's core asset is the LeafScans-Orchard dataset itself (9708 RGB leaf scans, 300 dpi TIFF release plus 1200 dpi subset, image-level metadata and summary counts), openly deposited on Zenodo with an explicit DOI and CC BY 4.0 license. This is a paper-specific, public, actionable phenotyping image dataset. No code
Dataset · publicthe published version of the manuscript. Funding: This research received no external funding. Institutional Review Board Statement: Not applicable. Informed Consent Statement: Not applicable. Data Availability Statement: The dataset described in this article is openly available in Zenodo as LeafScans-Orchard Dataset (v1.0.0) at https://doi.org/10.5281/zenodo.20187966 (accessed on 10 May 2026). The repository includes the 300 dpi image release, the 1200 dpi high-resolution subset, image-level metadata, aggregated species–cultivar–year counts, and supporting documentation. The complete archive of original 1200 dpi scans is retained locally by the authors but is not included in the current pubOpen asset ↗Zenodo · 10.5281/zenodo.20187966pdf-raw-page:12 lines:1-46
Code / dataset availability confirmedEurope PMC · OpenAlex · checked 15 Sept 2026
Published9 Jan 2026Plant PhenomicsCited by 1 · OpenAlex ↗

Spatially resolved analysis of growth dynamics in pome and drupe fruits of Rosaceae using 3D Gaussian Splatting.

ApplePeachPearField / plotNeRF / 3D Gaussian SplattingFruitStem / branchWhole plant / canopy / plot / fieldMorphology / geometry measurement2D/3D reconstruction

Fruit growth has long been described using single- or double-sigmoid curves; however, these temporal models cannot fully capture the spatial heterogeneity that ultimately shapes a fruit. Here, we present a three-dimensional analysis pipeline that non-destructively tracks spatial fruit growth dynamics from field-collected imagery. Surface landmarks were drawn, and video recordings were taken throughout development for three pome fruits, apple ( Malus × domestica ), Japanese pear ( Pyrus pyrifolia ) and European pear ( Pyrus communis ), and two drupe fruits, peach ( Prunus persica ) and Japanese apricot ( Prunus mume ), to track their motion. Using 3D Gaussian splatting, we successfully reconstructed 3D models of the fruits, and the landmark displacement could be measured with high accuracy, with R 2 ≥ 0.98 when compared to manual recordings. We found a common spatial growth gradient in the longitudinal growth shared in the pomes and drupes of the Rosaceae; proximal (stem-end) regions exhibited more pronounced growth than the distal (stylar) end. An exception was found in European pear 'Bartlett,' which showed relatively vigorous growth in the distal region, explaining its distinct shape with expanded distal end. Transverse expansion varied far less than longitudinal expansion, with a possible association with initial fruit morphology. Inter-fruit growth variability peaked in the fastest-growing regions, particularly in the distal area of the European pear, highlighting the link between growth vigor and phenotypic variance. These results provide foundational insights into the developmental dynamics of both pome and drupe fruits of the Rosaceae family, contributing to the optimization of fruit size, shape, and uniformity.

Why it matches plant phenotyping methods3D画像解析パイプラインと3D Gaussian Splattingを用いて果実の空間的成長を非破壊計測し、手動記録との精度比較で検証しているため、植物表現型取得法が中心である。

abstractHere, we present a three-dimensional analysis pipeline that non-destructively tracks spatial fruit growth dynamics from field-collected imagery.
Reproduction assets foundThe authors deposited a subset of the 3DGS-reconstructed fruit models (the paper's phenotyping outputs) on Figshare with a public DOI; additional data only on request. No author analysis code or raw imagery deposit is stated.
Dataset · publicFootnotes Appendix A Supplementary data to this article can be found online at https://doi.org/10.1016/j.plaphe.2026.100166 . Appendix A. Supplementary data The following is the Supplementary data to this article: Multimedia component 1 Multimedia component 1 Data availability A subset of the generated 3D models is available at https://doi.org/10.6084/m9.figshare.30854579 , where the quality of the 3DGS reconstructions and the marking/measurement procedure can be examined. Additional data may be provided upon reasonable request to the corresponding author. ReferencesOpen asset ↗figshare · 10.6084/m9.figshare.30854579lines:151-171
Code / dataset availability confirmedEurope PMC · bioRxiv · OpenAlex · checked 15 Sept 2026
Published1 Sept 2025bioRxivCited by 0 · OpenAlex ↗

Spatially resolved analysis of growth dynamics in pome and drupe fruits of Rosaceae using 3D Gaussian Splatting

ApplePeachPearField / plotNeRF / 3D Gaussian SplattingFruitStem / branchWhole plant / canopy / plot / fieldMorphology / geometry measurement2D/3D reconstruction

Fruit growth has long been described using single- or double-sigmoid curves; however, these temporal models cannot fully capture the spatial heterogeneity that ultimately shapes a fruit. Here, we present a three-dimensional analysis pipeline that non-destructively tracks spatial fruit growth dynamics from field-collected imaginary. Surface landmarks were drawn, and video recordings were taken throughout development for three pome fruits, apple ( Malus × domestica ), Japanese pear ( Pyrus pyrifolia ) and European pear ( Pyrus communis ), and two drupe fruits, peach ( Prunus persica ) and Japanese apricot ( Prunus mume ), to track their motion. Using 3D Gaussian Splatting, we successfully reconstructed 3D models of the fruits, and the landmark displacement could be measured with high accuracy, with R 2 ≥ 0.98 when compared to manual recordings. We found a common spatial growth gradient in the longitudinal growth shared in the pomes and drupes of the Rosaceae; proximal (stem-end) regions exhibited more pronounced growth than the distal (stylar) end. An exception was found in European pear ‘Bartlett,’ which showed relatively vigorous growth in the distal region, explaining its distinct shape with expanded distal end. Transverse expansion varied far less than longitudinal expansion, with a possible association with initial fruit morphology. Inter-fruit growth variability peaked in the fastest-growing regions, particularly in the distal area of the European pear, highlighting the link between growth vigor and phenotypic variance. These results provide foundational insights into the developmental dynamics of both pome and drupe fruits of the Rosaceae family, contributing to the optimization of fruit size, shape, and uniformity.

Why it matches plant phenotyping methods3D Gaussian Splattingを用いて果実の3D再構成と空間的成長形質の非破壊計測パイプラインを開発し、手動記録との精度比較で検証しているため、フェノタイピング手法が中心である。

abstractHere, we present a three-dimensional analysis pipeline that non-destructively tracks spatial fruit growth dynamics
Reproduction assets foundThe paper's data availability statement deposits a subset of the generated 3DGS fruit reconstruction models (the paper's phenotyping outputs) on Figshare with a public DOI; additional data is request-only. No author analysis code is explicitly deposited.
Dataset · publicFootnotes Appendix A Supplementary data to this article can be found online at https://doi.org/10.1016/j.plaphe.2026.100166 . Appendix A. Supplementary data The following is the Supplementary data to this article: Multimedia component 1 Multimedia component 1 Data availability A subset of the generated 3D models is available at https://doi.org/10.6084/m9.figshare.30854579 , where the quality of the 3DGS reconstructions and the marking/measurement procedure can be examined. Additional data may be provided upon reasonable request to the corresponding author. ReferencesOpen asset ↗figshare · 10.6084/m9.figshare.30854579lines:151-171
Code / dataset availability confirmedEurope PMC · checked 6 Sept 2026
Published7 Mar 2025Scientific reportsCited by 71 · OpenAlex ↗

Leveraging YOLO deep learning models to enhance plant disease identification.

PeachStrawberryLeafObject detectionDisease symptoms / severity

Early automation in identifying plant diseases is crucial for the precise protection of crops. Plant diseases pose substantial risks to agriculture-dependent nations, often leading to notable crop losses and financial challenges, particularly in developing countries. Symptoms such as chlorosis, structural deformities, and wilting, characterize these diseases. However, early identification can be challenging due to symptoms similarity. Researchers using artificial intelligence (AI) for plant disease classification, challenges like data imbalance, symptom variability, real-time performance, and costly annotation hinder accuracy and adoption. This work introduced a novel approach using the You Only Look Once (YOLO) deep learning model, chosen for its exceptional accuracy and speed. The study focuses on analyzing YOLO models, specifically YOLOv3 and YOLOv4, to identify fruit plant diseases. This work examines healthy peach and strawberry leaves, as well as peach leaves affected by bacterial spots and strawberry leaves with scorch disease. These models underwent thorough training using data from the publicly accessible Plant Village dataset. The simulation results were highly promising, numerically YOLOv3 model achieved 97% accuracy and a Mean Average Precision (mAP) of 92%, within a total detection time of 105 s. In comparison, the YOLOv4 model outperformed, with a 98% accuracy and an impressive mean average precision of 98%, all while completing the detection process in just 29 s. YOLOv4 demonstrated lower complexity, significantly faster, and more precise performance, especially in detecting multiple items. Serving as an efficient real-time detector, it holds the potential to transform plant disease diagnosis and mitigation strategies, ultimately leading to increased agricultural productivity and enhanced financial outcomes for developing nations.

Why it matches plant phenotyping methods植物葉の病徴・病害状態を画像から識別するYOLO手法の開発と性能比較が研究の中心であり、植物病害フェノタイピング手法に該当する。

abstractThis work introduced a novel approach using the You Only Look Once (YOLO) deep learning model
Reproduction assets foundThe paper's plant-phenotyping input is the publicly available Plant Village dataset on Kaggle (4,222 peach/strawberry leaf images across four classes), used to train and evaluate YOLOv3/YOLOv4 disease-detection models. No author analysis code, trained model checkpoints, or paper-specific supplements are publicly stated
Dataset · publicThis study utilizes data from the publicly available Plant Village dataset 41 , accessible on Kaggle.Open asset ↗Kagglelines:139-155
Code / dataset availability confirmedarXiv · OpenAlex · checked 13 Sept 2026
Published12 Aug 2024arXivCited by 0 · OpenAlex ↗

FruitNeRF: A Unified Neural Radiance Field based Fruit Counting Framework

AppleCitrusMangoPeachPearPlumField / plotLiDAR / point cloudRGB / grayscaleFruit

We introduce FruitNeRF, a unified novel fruit counting framework that leverages state-of-the-art view synthesis methods to count any fruit type directly in 3D. Our framework takes an unordered set of posed images captured by a monocular camera and segments fruit in each image. To make our system independent of the fruit type, we employ a foundation model that generates binary segmentation masks for any fruit. Utilizing both modalities, RGB and semantic, we train a semantic neural radiance field. Through uniform volume sampling of the implicit Fruit Field, we obtain fruit-only point clouds. By applying cascaded clustering on the extracted point cloud, our approach achieves precise fruit count.The use of neural radiance fields provides significant advantages over conventional methods such as object tracking or optical flow, as the counting itself is lifted into 3D. Our method prevents double counting fruit and avoids counting irrelevant fruit.We evaluate our methodology using both real-world and synthetic datasets. The real-world dataset consists of three apple trees with manually counted ground truths, a benchmark apple dataset with one row and ground truth fruit location, while the synthetic dataset comprises various fruit types including apple, plum, lemon, pear, peach, and mango.Additionally, we assess the performance of fruit counting using the foundation model compared to a U-Net.

Why it matches plant phenotyping methods果実を対象に、画像・NeRF・点群クラスタリングを組み合わせて3D果実数を推定する手法を開発し、実データおよび合成データで評価しているため、植物表現型取得法が中心である。

abstractWe introduce FruitNeRF, a unified novel fruit counting framework that leverages state-of-the-art view synthesis methods to count any fruit type directly in 3D.
Reproduction assets foundThe paper's real-world apple tree image dataset with manual ground-truth counts and synthetic Blender fruit tree data are publicly released via the project website, and the FruitNeRF analysis code is open-source on GitHub. The Zenodo DOI refers to the third-party BlenderNeRF plugin (cited tool), not a paper-specific.
Dataset · publicThe data has been made publicly available, and visualizations can be accessed on the project website.Open asset ↗lines:183-221
Code · publicFruitNeRF code: https://github.com/meyerls/FruitNeRF has been made open-source.Open asset ↗meyerls/FruitNeRFlines:74-108
Code / dataset availability confirmedEurope PMC · Crossref · checked 7 Sept 2026
Published11 Oct 2023Frontiers in Plant ScienceCited by 73 · OpenAlex ↗

An effective approach for plant leaf diseases classification based on a novel DeepPlantNet deep learning model

AppleCherryMaizePeachPepper / chilliPotatoPumpkin / squashStrawberryTomatoLeaf

Introduction Recently, plant disease detection and diagnosis procedures have become a primary agricultural concern. Early detection of plant diseases enables farmers to take preventative action, stopping the disease's transmission to other plant sections. Plant diseases are a severe hazard to food safety, but because the essential infrastructure is missing in various places around the globe, quick disease diagnosis is still difficult. The plant may experience a variety of attacks, from minor damage to total devastation, depending on how severe the infections are. Thus, early detection of plant diseases is necessary to optimize output to prevent such destruction. The physical examination of plant diseases produced low accuracy, required a lot of time, and could not accurately anticipate the plant disease. Creating an automated method capable of accurately classifying to deal with these issues is vital. Method This research proposes an efficient, novel, and lightweight DeepPlantNet deep learning (DL)-based architecture for predicting and categorizing plant leaf diseases. The proposed DeepPlantNet model comprises 28 learned layers, i.e., 25 convolutional layers (ConV) and three fully connected (FC) layers. The framework employed Leaky RelU (LReLU), batch normalization (BN), fire modules, and a mix of 3×3 and 1×1 filters, making it a novel plant disease classification framework. The Proposed DeepPlantNet model can categorize plant disease images into many classifications. Results The proposed approach categorizes the plant diseases into the following ten groups: Apple_Black_rot (ABR), Cherry_(including_sour)_Powdery_mildew (CPM), Grape_Leaf_blight_(Isariopsis_Leaf_Spot) (GLB), Peach_Bacterial_spot (PBS), Pepper_bell_Bacterial_spot (PBBS), Potato_Early_blight (PEB), Squash_Powdery_mildew (SPM), Strawberry_Leaf_scorch (SLS), bacterial tomato spot (TBS), and maize common rust (MCR). The proposed framework achieved an average accuracy of 98.49 and 99.85in the case of eight-class and three-class classification schemes, respectively. Discussion The experimental findings demonstrated the DeepPlantNet model's superiority to the alternatives. The proposed technique can reduce financial and agricultural output losses by quickly and effectively assisting professionals and farmers in identifying plant leaf diseases.

Why it matches plant phenotyping methods葉画像から植物病害状態を分類する深層学習手法を開発しており、植物の病徴・病害状態の取得と推定が研究の中心であるため。

abstractThis research proposes an efficient, novel, and lightweight DeepPlantNet deep learning (DL)-based architecture for predicting and categorizing plant leaf diseases.
Reproduction assets foundThe paper's plant leaf disease classification experiments are built entirely on two public Kaggle image datasets explicitly cited by the authors: the PlantVillage Dataset (eight-class experiment) and the Plant Disease Prediction Dataset (three-class experiment). No author code, trained model, or supplementary deposit (
Dataset · publicWe verified the effectiveness and robustness of the DeepPlantNet model by using images from the publicly available Kaggle “PlantVillage Dataset” dataset ( Dataset : https://www.kaggle.com/datasets/abdallahalidev/plantvillage-dataset ).Open asset ↗Kaggle · abdallahalidev/plantvillage-datasetlines:355-366
Dataset · publicWe validated our model using another common, publicly accessible Kaggle dataset, “Plant Disease Prediction Dataset,” to assess and estimate the generalizability and performance of the DeepPlantNet model ( Dataset : https://www.kaggle.com/datasets/shuvranshu/plant-disease-prediction-dataset ).Open asset ↗Kaggle · shuvranshu/plant-disease-prediction-datasetlines:729-756
Code / dataset availability confirmedCrossref · Europe PMC · checked 9 Sept 2026
Published17 Dec 2020PLOS ONECited by 59 · OpenAlex ↗

Real-time plant health assessment via implementing cloud-based scalable transfer learning on AWS DeepLens

ApplePeachPotatoStrawberryTomatoFruitLeafClassificationObject detectionDisease symptoms / severity

The control of plant leaf diseases is crucial as it affects the quality and production of plant species with an effect on the economy of any country. Automated identification and classification of plant leaf diseases is, therefore, essential for the reduction of economic losses and the conservation of specific species. Various Machine Learning (ML) models have previously been proposed to detect and identify plant leaf disease; however, they lack usability due to hardware sophistication, limited scalability and realistic use inefficiency. By implementing automatic detection and classification of leaf diseases in fruit trees (apple, grape, peach and strawberry) and vegetable plants (potato and tomato) through scalable transfer learning on Amazon Web Services (AWS) SageMaker and importing it into AWS DeepLens for real-time functional usability, our proposed DeepLens Classification and Detection Model (DCDM) addresses such limitations. Scalability and ubiquitous access to our approach is provided by cloud integration. Our experiments on an extensive image data set of healthy and unhealthy fruit trees and vegetable plant leaves showed 98.78% accuracy with a real-time diagnosis of diseases of plant leaves. To train DCDM deep learning model, we used forty thousand images and then evaluated it on ten thousand images. It takes an average of 0.349s to test an image for disease diagnosis and classification using AWS DeepLens, providing the consumer with disease information in less than a second.

Why it matches plant phenotyping methods植物葉の病害状態を画像から自動推定する深層学習・クラウド実装を開発・評価しており、植物フェノタイピング手法が中心です。

abstractAutomated identification and classification of plant leaf diseases is, therefore, essential
Reproduction assets foundThe paper's Data Availability statement explicitly links a public Kaggle plant-disease image dataset used for training/testing and an authors' GitHub code repository. The TensorFlow plant_village catalog URL is a generic mirror of the same public dataset rather than a paper-specific deposit.
Dataset · publicData Availability: Dataset is available from the below link: https://www.kaggle.com/emmarex/plantdiseaseOpen asset ↗kaggle · emmarex/plantdiseaselines:123-130
Code · publicGithub Code Repo Link: https://github.com/umairnawazz/Plant-Disease-DetectionOpen asset ↗github · umairnawazz/Plant-Disease-Detectionlines:123-130
Code / dataset availability confirmedEurope PMC · checked 9 Sept 2026
Published17 Nov 2020Sensors (Basel, Switzerland)Cited by 31 · OpenAlex ↗

Maturity Prediction in Yellow Peach ( Prunus persica L.) Cultivars Using a Fluorescence Spectrometer.

PeachChlorophyll fluorescenceFruitClassificationGrowth / development / phenologyPigment / colour / senescence

Technology for rapid, non-invasive and accurate determination of fruit maturity is increasingly sought after in horticultural industries. This study investigated the ability to predict fruit maturity of yellow peach cultivars using a prototype non-destructive fluorescence spectrometer. Collected spectra were analysed to predict flesh firmness (FF), soluble solids concentration (SSC), index of absorbance difference (I AD ), skin and flesh colour attributes (i.e., a* and H°) and maturity classes (immature, harvest-ready and mature) in four yellow peach cultivars-'August Flame', 'O'Henry', 'Redhaven' and 'September Sun'. The cultivars provided a diverse range of maturity indices. The fluorescence spectrometer consistently predicted I AD and skin colour in all the cultivars under study with high accuracy (Lin's concordance correlation coefficient > 0.85), whereas flesh colour's estimation was always accurate apart from 'Redhaven'. Except for 'September Sun', good prediction of FF and SSC was observed. Fruit maturity classes were reliably predicted with a high likelihood ( F1 -score = 0.85) when samples from the four cultivars were pooled together. Further studies are needed to assess the performance of the fluorescence spectrometer on other fruit crops. Work is underway to develop a handheld version of the fluorescence spectrometer to improve the utility and adoption by fruit growers, packhouses and supply chain managers.

Why it matches plant phenotyping methods蛍光分光計を用いてモモ果実の成熟度や品質関連形質を非破壊推定し、複数品種で精度評価しているため、植物フェノタイピング手法が中心です。

abstractusing a prototype non-destructive fluorescence spectrometer
Reproduction assets foundThe paper reports peach fluorescence-spectra phenotyping and PLS/LDA modelling. The only qualifying paper-specific public asset is the authors' sample analysis code (simulated annealing wavelength band selection with PLS), explicitly stated as freely available as a Jupyter Notebook. No public phenotype dataset, spectra
Code · publicSample scripts of the algorithms are freely available as a Project Jupyter Notebook [ 45 ].Open asset ↗lines:45-57
Code / dataset availability confirmedEurope PMC · OpenAlex · checked 13 Sept 2026
Published10 Dec 2018Horticulture researchCited by 81 · OpenAlex ↗

Characterization of peach tree crown by using high-resolution images from an unmanned aerial vehicle

PeachAerial / UAVField / plotPhotogrammetry / SfM / MVSWhole plant / canopy / plot / fieldMorphology / geometry measurementSegmentationGrowth / time-series analysisArchitecture / morphology / geometryGrowth / development / phenology

In orchards, measuring crown characteristics is essential for monitoring the dynamics of tree growth and optimizing farm management. However, it lacks a rapid and reliable method of extracting the features of trees with an irregular crown shape such as trained peach trees. Here, we propose an efficient method of segmenting the individual trees and measuring the crown width and crown projection area (CPA) of peach trees with time-series information, based on gathered images. The images of peach trees were collected by unmanned aerial vehicles in an orchard in Okayama, Japan, and then the digital surface model was generated by using a Structure from Motion (SfM) and Multi-View Stereo (MVS) based software. After individual trees were identified through the use of an adaptive threshold and marker-controlled watershed segmentation in the digital surface model, the crown widths and CPA were calculated, and the accuracy was evaluated against manual delineation and field measurement, respectively. Taking manual delineation of 12 trees as reference, the root-mean-square errors of the proposed method were 0.08 m ( R 2 = 0.99) and 0.15 m ( R 2 = 0.93) for the two orthogonal crown widths, and 3.87 m 2 for CPA ( R 2 = 0.89), while those taking field measurement of 44 trees as reference were 0.47 m ( R 2 = 0.91), 0.51 m ( R 2 = 0.74), and 4.96 m 2 ( R 2 = 0.88). The change of growth rate of CPA showed that the peach trees grew faster from May to July than from July to September, with a wide variation in relative growth rates among trees. Not only can this method save labour by replacing field measurement, but also it can allow farmers to monitor the growth of orchard trees dynamically.

Why it matches plant phenotyping methodsUAV画像とSfM/MVS、画像分割によりモモ樹の樹冠幅・樹冠投影面積を抽出し、手動 delineation と圃場測定で精度検証しており、植物表現型取得法が研究の中心である。

abstractwe propose an efficient method of segmenting the individual trees and measuring the crown width and crown projection area (CPA) of peach trees with time-series information
Reproduction assets foundThe paper explicitly states that source codes and sample data for the peach crown characterization method are available at the authors' public GitHub repository, which matches an allowed URL.
Code · publicThe crown geometry is derived using two kinds of DSM (bare-branch DSM and foliated DSM) by image analysis techniques in the following five steps (source codes and sample data are available at our surpport page: https://github.com/UTokyo-FieldPhenomics-Lab/Characterization-of-peach-tree-crown):Open asset ↗UTokyo-FieldPhenomics-Lab/Characterization-of-peach-tree-crownlines:46-69
Code / dataset availability confirmedEurope PMC · checked 10 Sept 2026
Published1 Mar 2018Horticulture researchCited by 122 · OpenAlex ↗

An integrated approach for increasing breeding efficiency in apple and peach in Europe.

ApplePeach

Despite the availability of whole genome sequences of apple and peach, there has been a considerable gap between genomics and breeding. To bridge the gap, the European Union funded the FruitBreedomics project (March 2011 to August 2015) involving 28 research institutes and private companies. Three complementary approaches were pursued: (i) tool and software development, (ii) deciphering genetic control of main horticultural traits taking into account allelic diversity and (iii) developing plant materials, tools and methodologies for breeders. Decisive breakthroughs were made including the making available of ready-to-go DNA diagnostic tests for Marker Assisted Breeding, development of new, dense SNP arrays in apple and peach, new phenotypic methods for some complex traits, software for gene/QTL discovery on breeding germplasm via Pedigree Based Analysis (PBA). This resulted in the discovery of highly predictive molecular markers for traits of horticultural interest via PBA and via Genome Wide Association Studies (GWAS) on several European genebank collections. FruitBreedomics also developed pre-breeding plant materials in which multiple sources of resistance were pyramided and software that can support breeders in their selection activities. Through FruitBreedomics, significant progresses were made in the field of apple and peach breeding, genetics, genomics and bioinformatics of which advantage will be made by breeders, germplasm curators and scientists. A major part of the data collected during the project has been stored in the FruitBreedomics database and has been made available to the public. This review covers the scientific discoveries made in this major endeavour, and perspective in the apple and peach breeding and genomics in Europe and beyond.

Why it matches plant phenotyping methodsリンゴ・モモ育種プロジェクトのレビューで、複雑形質の新しい表現型測定法の開発とデータベース化を明示的に扱っており、フェノタイピング手法・データが中心的な構成要素の一つである。

abstractThis review covers the scientific discoveries made in this major endeavour, and perspective in the apple and peach breeding and genomics in Europe and beyond.
Reproduction assets foundThe paper describes the FruitBreedomics database storing the project's apple/peach phenotypic and genotypic data, publicly accessible at the tecnoparco URL, and the HapAg (HaploblockAggregator) software developed for the apple linkage map analysis, publicly available at the Wageningen URL. Both are paper-specific,公开,和可
Dataset · publicAll data are accessible through a stable and well-maintained interface, available at the address http://bioinformatics.tecnoparco.org/fruitbreedomics .Open asset ↗lines:39-45
Code · publicThe dedicated software HapAg was developed in support to this approach, which has been made public available at http://www.wageningenur.nl/en/show/HaploblockAggregator.htm .Open asset ↗lines:62-69