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Analyzing Changes in Maize Leaves Orientation due to GxExM Using an Automatic Method from RGB Images

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Plant Phenomics 2023年第2期5卷 239-252页

作者： Mario Serouart Raul Lopez-Lozano Gaëtan Daubige Maëva Baumont Brigitte Escale benoit de solan Frédéric Baret Arvalis Institut du végétal228route de l’aérodrome-CS 4050984914 Avignon Cedex 9France INRAE Avignon UniversitéUMR EMMAHUMT CAPTE228route de l’aérodrome-CS 4050984914 Avignon Cedex 9France Arvalis Ecophysiology21 Chemin de Pau64121 MontardonFrance

The sowing pattern has an important impact on light interception efficiency in maize by determining the spatial distribution of leaves within the *** orientation is an important architectural trait determining maize canopies light *** studies have indicated how maize genotypes may adapt leaves orientation to avoid mutual shading with neighboring plants as a plastic response to intraspecific *** goal of the present study is 2-fold:firstly,to propose and validate an automatic algorithm(Automatic Leaf Azimuth Estimation from Midrib detection[ALAEM])based on leaves midrib detection in vertical red green blue(RGB)images to describe leaves orientation at the canopy level;and secondly,to describe genotypic and environmental differences in leaves orientation in a panel of 5 maize hybrids sowing at 2 densities(6 and 12 plants.m^(−2))and 2 row spacing(0.4 and 0.8 m)over 2 different sites in southern *** ALAEM algorithm was validated against in situ annotations of leaves orientation,showing a satisfactory agreement(root mean square[RMSE]error=0.1,R^(2)=0.35)in the proportion of leaves oriented perpendicular to rows direction across sowing patterns,genotypes,and *** results from ALAEM permitted to identify significant differences in leaves orientation associated to leaves intraspecific *** both experiments,a progressive increase in the proportion of leaves oriented perpendicular to the row is observed when the rectangularity of the sowing pattern increases from 1(6 plants.m^(−2),0.4 m row spacing)towards 8(12 plants.m^(−2),0.8 m row spacing).Significant differences among the 5 cultivars were found,with 2 hybrids exhibiting,systematically,a more plastic behavior with a significantly higher proportion of leaves oriented perpendicularly to avoid overlapping with neighbor plants at high *** in leaves orientation were also found between experiments in a squared sowing pattern(6 plants.m^(−2),0.4 m

关键词： cultivar spacing pattern

Self-Supervised Plant Phenotyping by Combining Domain Adaptation with 3D Plant Model Simulations: Application to Wheat Leaf Counting at Seedling Stage

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Plant Phenomics 2023年第2期5卷 226-238页

作者： Yinglun Li Xiaohai Zhan Shouyang Liu Hao Lu Ruibo Jiang Wei Guo Scott Chapman Yufeng Ge benoit de solan Yanfeng Ding Frédéric Baret Plant Phenomics Research Centre Academy for Advanced Interdisciplinary StudiesJiangsu Collaborative Innovation Center for Modern Crop ProductionNanjing Agricultural UniversityNanjingChina Key Laboratory of Image Processing and Intelligent Control School of Artificial Intelligence and AutomationHuazhong University of Science and TechnologyWuhanChina Graduate School of Agricultural and Life Sciences The University of Tokyo1-1-1 Midori-choNishitokyo CityTokyoJapan School of Agriculture and Food Sciences The University of QueenslandSt.LuciaQueensland 4072Australia department of Biological Systems Engineering University of Nebraska-LincolnLincolnNebraska 68583United States INRAE Avignon UniversitéUMR EMMAHUMT CAPTE228route de l’aérodrome-CS 4050984914 Avignon Cedex 9France ARVALIS Institut du Végétal 3 Rue Joseph et Marie Hackin75116 ParisFrance

The number of leaves at a given time is important to characterize plant growth and *** this work,we developed a high-throughput method to count the number of leaves by detecting leaf tips in RGB *** digital plant phenotyping platform was used to simulate a large and diverse dataset of RGB images and corresponding leaf tip labels of wheat plants at seedling stages(150,000 images with over 2 million labels).The realism of the images was then improved using domain adaptation methods before training deep learning *** results demonstrate the efficiency of the proposed method evaluated on a diverse test dataset,collecting measurements from 5 countries obtained under different environments,growth stages,and lighting conditions with different cameras(450 images with over 2,162 labels).Among the 6 combinations of deep learning models and domain adaptation techniques,the Faster-RCNN model with cycle-consistent generative adversarial network adaptation technique provided the best performance(R^(2)=0.94,root mean square error=8.7).Complementary studies show that it is essential to simulate images with sufficient realism(background,leaf texture,and lighting conditions)before applying domain adaptation ***,the spatial resolution should be better than 0.6 mm per pixel to identify leaf *** method is claimed to be self-supervised since no manual labeling is required for model *** self-supervised phenotyping approach developed here offers great potential for addressing a wide range of plant phenotyping *** trained networks are available at https://***/YinglunLi/Wheat-leaf-tip-detection.

关键词： Wheat seedling Plant

High-Throughput Measurements of Stem Characteristics to Estimate Ear density and Above-Ground Biomass

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Plant Phenomics 2019年第1期1卷 80-89页

作者： Xiuliang Jin Simon Madec Dan Dutartre benoit de solan Alexis Comar Frédéric Baret INRA EMMAH UMR 1114228 route de l’A′erodrome84914 AvignonFrance Institute of Crop Sciences Chinese Academy of Agricultural Sciences/Key Laboratory of Crop Physiology and EcologyMinistry of AgricultureBeijing 100081China HIPHEN Rue Charrue84000 AvignonFrance ARVALIS-Institut du V′eg′etal Station Exp′erimentale91720 BoignevilleFrance

Total above-ground biomass at harvest and ear density are two important traits that characterize wheat *** experiments were carried out in two different sites where several genotypes were grown under contrasted irrigation and nitrogen treatments.A high spatial resolution RGB camera was used to capture the residual stems standing straight after the cutting by the combine machine during *** provided a ground spatial resolution better than 0.2 mm.A Faster Regional Convolutional Neural Network(Faster-RCNN)deep-learning model was first trained to identify the stems cross *** showed that the identification provided precision and recall close to 95%.Further,the balance between precision and recall allowed getting accurate estimates of the stem density with a relative RMSE close to 7%and robustness across the two experimental *** estimated stem density was also compared with the ear density measured in the field with traditional methods.A very high correlation was found with almost no bias,indicating that the stem density could be a good proxy of the ear *** heritability/repeatability evaluated over 16 genotypes in one of the two experiments was slightly higher(80%)than that of the ear density(78%).The diameter of each stem was computed from the profile of gray values in the extracts of the stem cross *** show that the stem diameters follow a gamma distribution over eachmicroplot with an average diameter close to ***,the biovolume computed as the product of the average stem diameter,the stem density,and plant height is closely related to the above-ground biomass at harvest with a relative RMSE of 6%.Possible limitations of the findings and future applications are finally discussed.

关键词： Biomass straight finally

Global Wheat Head detection(GWHD)Dataset:A Large and Diverse Dataset of High-Resolution RGB-Labelled Images to develop and Benchmark Wheat Head detection Methods

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Plant Phenomics 2020年第1期2卷 243-254页

作者： Etienne David Simon Madec Pouria Sadeghi-Tehran Helge Aasen Bangyou Zheng Shouyang Liu Norbert Kirchgessner Goro Ishikawa Koichi Nagasawa Minhajul A.Badhon Curtis Pozniak benoit de solan Andreas Hund Scott C.Chapman Frédéric Baret Ian Stavness Wei Guo Arvalis Institut du végétal3 Rue Joseph et Marie Hackin75116 ParisFrance UMR1114 EMMAH INRAECentre PACABâtiment ClimatDomaine Saint-Paul228 Route de l’AérodromeCS 4050984914 Avignon CedexFrance Plant Sciences department Rothamsted ResearchHarpendenUK Institute of Agricultural Sciences ETH ZurichUniversitätstrasse 28092 ZurichSwitzerland CSIRO Agriculture and Food Queensland Biosciences Precinct306 Carmody RoadSt Lucia4067 QLDAustralia Plant Phenomics Research Center Nanjing Agricultural UniversityNanjingChina Institute of Crop Science National Agriculture and Food Research OrganizationJapan Hokkaido Agricultural Research Center National Agriculture and Food Research OrganizationJapan department of Computer Science University of SaskatchewanCanada department of Plant Sciences University of SaskatchewanCanada School of Food and Agricultural Sciences The University of QueenslandGatton4343 QLDAustralia Graduate School of Agricultural and Life Sciences The University of Tokyo1-1-1 Midori-choNishitokyo CityTokyoJapan

The detection of wheat heads in plant images is an important task for estimating pertinent wheat traits including head population density and head characteristics such as health,size,maturity stage,and the presence of *** studies have developed methods for wheat head detection from high-resolution RGB imagery based on machine learning ***,these methods have generally been calibrated and validated on limited *** variability in observational conditions,genotypic differences,development stages,and head orientation makes wheat head detection a challenge for computer ***,possible blurring due to motion or wind and overlap between heads for dense populations make this task even more *** a joint international collaborative effort,we have built a large,diverse,and well-labelled dataset of wheat images,called the Global Wheat Head detection(GWHD)*** contains 4700 high-resolution RGB images and 190000 labelled wheat heads collected from several countries around the world at different growth stages with a wide range of *** for image acquisition,associating minimum metadata to respect FAIR principles,and consistent head labelling methods are proposed when developing new head detection *** GWHD dataset is publicly available at http://***/and aimed at developing and benchmarking methods for wheat head detection.

关键词： Wheat wheat maturity

Ubiquitination-mediated regulation of receptorlike kinases in symbiosis and immunity

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Molecular Plant 2024年第9期17卷 1335-1337页

作者： David Landry and benoit Lefebvre Laboratory of Plant-Microbe-Environment Interactions(LIPME) Universite de ToulouseINRAECNRS31326Castanet-TolosanFrance

Receptor-like kinases(RLKs)are plasma membrane(PM)proteins that monitor the extracellular environment and regulate various processes such as biotic *** motif(LysM)RLKs are a specific class of RLKs involved in the recognition of chitin-derived molecules produced by microorganisms(Buendia et al.,2018).Notably,the LysM-RLK heterocomplex LjNFR1/LjNFR5 recognizes lipochitooligosaccharides(LCOs,also called Nod factors)leading to root nodule symbiosis(RNS)in Lotus japonicus,whereas the heterocomplexes AtLYK5/AtCERK1 and OsCEBIP/OsCERK1 recognize chitooligosaccharides(COs)leading to defense responses in Arabidopsis thaliana and rice,respectively(Buendia et al.,2018).These receptors function as *** ligand binding activates the intracellular kinase activity of LjNFR1,AtCERK1,and OsCERK1,which mediate phosphorylation-dependent signaling cascades.

关键词： extracellular immunity kinases

Spatially resolved investigation of flame particle interaction in a two dimensional model packed bed

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Particuology 2024年第2期85卷 167-185页

作者： Mohammadhassan Khodsiani Reza Namdar Fathollah Varnik Frank Beyrau benoit Fond Institute of Fluid Dynamics and Thermodynamics Universitaetsplatz 2Magdeburg39106Saxony-AnhaltGermany Interdisciplinary Centre for Advanced Materials Simulation(ICAMS) Ruhr-University BochumBochum44801Germany ONERA The French Aerospace Lab Department of AerodynamicsAeroelasticity and Acoustics(DAAA)Paris-Saclay UniversityMeudon92190France

This study investigates the interaction between a premixed methane-air flame and particles inside a model packed *** opacity of the spherical packed beds to visible light poses a major barrier to the implementation of highly resolved optical diagnostics,so that no detailed experimental data were so far available for the validation of numerical ***,a two-dimensional cylindrical packed bed design is set up,which enables direct line-of-sight optical measurements without loss of spatial reso-lution over the fluid region between the *** this study,the case of cold metallic cylindrical particles(T=377 K)relevant to start-up of a reactor is investigated using internal particle cooling,which also allows cylinder specific heat transfer rate measurements by differential temperature measurements on the coolant *** two dimensional assumption is first verified by measuring the inflow ve-locity and cylinder temperature profile along the *** imaging is then per-formed using a telecentric lens to observe the position and geometry of the two-dimensional flame front with respect to the surrounding cylinders without loss of ***,the cylinder-specific flame to cylinder heat transfer rates and cylinder surface temperature are *** the flame is closely surrounded by the three cooled cylinders,intense heat transfer is observed in this region corresponding to 25±2.5%of the flame thermal *** were stabilised at different positions depending on inflow velocity and equivalence ratio,and a direct correlation between flame to cylinder stand-off distance and the heat transfer rate normalised to the flame thermal power was found for both top and side ***,sidewall quenching distances to the curved cylinder surfaces were evaluated,and seem to be influenced by the presence of a warm recirculation zone behind the *** investigation provides fully resolved flame front position and heat tra

关键词： Packed beds Flame-particle interaction Optical diagnostics Sidewall quenching

Effect of Processing and Cultivar on Thermo-Chemical Properties of Australian-Grown Hemp Hurd(Cannabis sativa L.)

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Journal of Renewable Materials 2024年第8期12卷 1475-1493页

作者： Johannes Fehrmann benoit Belleville Barbara Ozarska Maya Ismayati Wahyu Dwianto School of Agriculture Food and Ecosystem Sciences(SAFES)Faculty of ScienceThe University of MelbourneMelbourne3121Australia Research Center for Biomass and Bioproducts National Research and Innovation Agency(BRIN)Jakarta16911Indonesia

This study explored the thermo-chemical properties of industrial hemp hurd with different provenances,maturity stages,and retting *** findings were then compared to hemp hurd used in the fabrication of citric acid-bonded ultra-low-density hemp hurd ***-gas chromatography-mass spectrometry(Py-GC/MS),Fourier-transform infrared spectroscopy(FTIR),and thermogravimetric analysis(TGA)were employed to document the variability of the hurd and comprehend the potential impact on biobased composite *** choice of cultivar,maturity stage,and processing modality significantly influenced the chemical composition,presence of functional groups,and thermal stability of the ***-GC/MS revealed substantial variations in the lignin-to-carbohydrate(L/C)ratio,along with the absence of fatty acids in certain *** FTIR signals confirmed consistent functional groups,differences in peak intensities were indicative of carbohydrate variations associated with maturity and retting duration,impacting the availability of hydroxyl groups for,i.e.,interparticle bonding in citric acid-based ***,it was observed that shorter retting durations initially enhanced the thermal resistance,but prolonged retting led to accelerated degradation,significantly reducing the hurd’s residual *** findings indicated notable differences among the samples,emphasizing the importance of investigating variables such as provenance/cultivar,maturity,and processing *** assessment is essential to ensure effective agronomic practices that align the raw material characteristics with the specific requirements of intended applications,such as the fabrication of biobased hemp hurd composites.

关键词： Hemp hurd material characterization chemical analysis thermal analysis

Global Wheat Head detection 2021:An Improved Dataset for Benchmarking Wheat Head detection Methods

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Plant Phenomics 2021年第1期3卷 277-285页

作者： Etienne David Mario Serouart Daniel Smith Simon Madec Kaaviya Velumani Shouyang Liu Xu Wang Francisco Pinto Shahameh Shafiee Izzat SATahir Hisashi Tsujimoto Shuhei Nasuda Bangyou Zheng Norbert Kirchgessner Helge Aasen Andreas Hund Pouria Sadhegi-Tehran Koichi Nagasawa Goro Ishikawa Sébastien Dandrifosse Alexis Carlier Benjamin Dumont benoit Mercatoris Byron Evers Ken Kuroki Haozhou Wang Masanori Ishii Minhajul ABadhon Curtis Pozniak David Shaner LeBauer Morten Lillemo Jesse Poland Scott Chapman benoit de solan Frédéric Baret Ian Stavness Wei Guo Arvalis Institut du Végétal3 Rue Joseph et Marie Hackin75116 ParisFrance UMR1114 EMMAH INRAECentre PACABâtiment ClimatDomaine Saint-Paul228 Route de l’AérodromeCS 4050984914 Avignon CedexFrance School of Food and Agricultural Sciences The University of QueenslandGatton4343 QLDAustralia Hiphen SAS 120 Rue Jean DaussetAgroparcBâtiment Technicité84140 AvignonFrance Plant Phenomics Research Center Nanjing Agricultural UniversityNanjingChina Wheat Genetics Resource Center Dep.of Plant PathologyKansas State Univ.4024 Throckmorton Plant Sciences CenterManhattanKansasUSA Global Wheat Program International Maize and Wheat Improvement Centre(CIMMYT)MexicoD.F.Mexico Faculty of Biosciences Norwegian University of Life SciencesP.O.Box 5003NO-1432ÅsNorway Agricultural Research Corporation Wheat Research ProgramP.O.Box 126Wad MedaniSudan Arid Land Research Center Tottori UniversityTottori 680-0001Japan Laboratories of Plant Genetics and Plant Breeding Graduate School of AgricultureKyoto UniversityJapan CSIRO Agriculture and Food Queensland Biosciences Precinct306 Carmody RoadSt Lucia4067 QLDAustralia Institute of Agricultural Sciences ETH ZurichUniversitätstrasse 28092 ZurichSwitzerland Plant Sciences department Rothamsted ResearchHarpendenUK Institute of Crop Science National Agriculture and Food Research OrganizationJapan Hokkaido Agricultural Research Center National Agriculture and Food Research OrganizationJapan Biosystems Dynamics and Exchanges TERRA Teaching and Research CenterGembloux Agro-Bio TechUniversity of Liège5030 GemblouxBelgium Plant Sciences TERRA Teaching and Research CenterGembloux Agro-Bio TechUniversity of Liège5030 GemblouxBelgium Graduate School of Agricultural and Life Sciences The University of Tokyo1-1-1 Midori-choNishitokyo CityTokyoJapan department of Computer Science University of SaskatchewanCanada department of Plant Sciences University of SaskatchewanCanada College of Agriculture and Life Sciences University of ArizonaTucsonArizona

The Global Wheat Head detection(GWHD)dataset was created in 2020 and has assembled 193,634 labelled wheat heads from 4700 RGB images acquired from various acquisition platforms and 7 countries/*** an associated competition hosted in Kaggle,GWHD_2020 has successfully attracted attention from both the computer vision and agricultural science *** this first experience,a few avenues for improvements have been identified regarding data size,head diversity,and label *** address these issues,the 2020 dataset has been reexamined,relabeled,and complemented by adding 1722 images from 5 additional countries,allowing for 81,553 additional wheat *** now release in 2021 a new version of the Global Wheat Head detection dataset,which is bigger,more diverse,and less noisy than the GWHD_2020 version.

关键词： Wheat adding release

Multi-point temperature measurements in packed beds using phosphor thermometry and ray tracing simulations

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Particuology 2024年第2期85卷 77-88页

作者： Guangtao Xuan Mirko Ebert Simson Julian Rodrigues Nicole Vorhauer-Huget Christian Lessig benoit Fond Institute of Fluid Dynamics and Thermodynamics OVGU MagdeburgUniversitaetsplatz 2Magdeburg39106Saxony-AnhaltGermany Institute of Simulations and Graphics OVGU MagdeburgUniversitaetsplatz 2Magdeburg39106Saxony-AnhaltGermany Institute of Process Engineering OVGU MagdeburgUniversitaetsplatz 2Magdeburg39106Saxony-AnhaltGermany ONERA The French Aerospace LabDepartment of AerodynamicsAeroelasticity and Aeroacoustics(DAAA)Paris-Saclay University8rue des VertugadinsMeudon92190France

Packed bed reactors are commonly found in the process industry,for example in flame-assisted calci-nation for cement *** the heat transfer inside the bed is essential for process control,product quality and energy *** we propose a technique to determine the internal temperature distribution of packed beds based on a combination of lifetime-based phosphor ther-mometry,ray tracing simulations,and assimilation of temperature data using finite element heat transfer *** establish and validate the technique,we considered a reproducible regular packing of 6 mm diameter aluminum spheres,with one of the spheres in the top layer being electrically *** a sphere inside the packing is coated with thermographic phosphors and excitation light is directed to-wards the packing,luminescence from the coated sphere exits the packed bed after multiple reflection and the sphere's temperature can be *** measurements showed that the temper-ature obtained by phosphor thermometry is independent of the luminescent sphere *** imaging the luminescence on a camera,the luminescence distribution in recorded image depended,however,on the position of the ***,in setups with multiple phosphor-coated spheres,their signals can be separated using a least squares *** demonstrate the approach using a setup with three luminescent spheres and validated the temperature readings against thermocouple *** obtain the spatial signatures for individual sphere positions required for the least squares fit,ray tracing simulations were *** provide an efficient alternative to single sphere measurements that are only practical for regular spherical packed ***-point measurements were used as input to a finite element heat transfer simulations to determine parameters such as particle-to-particle air gap *** these,the full temperature distribution inside the bed could be assimilated from the meas

关键词： Packed beds Phosphor thermometry Ray tracing Heat transfer simulation Data assimilation