Plant Methods

Article	Citations
The influence of water content on the longitudinal modulus of elasticity of maize stalk pith and rind tissues	107
Targeted gene deletion with SpCas9 and multiple guide RNAs in Arabidopsis thaliana: four are better than two	99
TreeJ: an ImageJ plugin for interactive cell lineage reconstruction from static images	80
Orchid2024: A cultivar-level dataset and methodology for fine-grained classification of Chinese Cymbidium Orchids	67
The isolation strategy and chemical analysis of oil cells from Asari Radix et Rhizoma	64
Stability investigation of air-dried olive ribo nucleic acids for metavirome studies	63
A novel method for extraction of high purity and high production Phytophthora sojae oospores	58
An automated method for stem diameter measurement based on laser module and deep learning	54
A deep learning approach to track Arabidopsis seedlings’ circumnutation from time-lapse videos	54
Optimized synthesis of layered double hydroxide lactate nanosheets and their biological effects on Arabidopsis seedlings	53
Real-time monitoring of Ralstonia solanacearum infection progress in tomato and Arabidopsis using bioluminescence imaging technology	48
Estimation of cotton canopy parameters based on unmanned aerial vehicle (UAV) oblique photography	47
Classification of multi-year and multi-variety pumpkin seeds using hyperspectral imaging technology and three-dimensional convolutional neural network	46
Small-scale sequencing enables quality assessment of Ribo-Seq data: an example from Arabidopsis cell culture	44
Complementarity of Raman and Infrared spectroscopy for rapid characterization of fucoidan extracts	43
Coconut tree modeling based on abiotic factors and modified cosserat rod theory	43
Orthogonal control of gene expression in plants using synthetic promoters and CRISPR-based transcription factors	42
Fast estimation of plant growth dynamics using deep neural networks	40
Electrical impedance spectroscopy (EIS) in plant roots research: a review	38
Non-destructive real-time monitoring of underground root development with distributed fiber optic sensing	37
The semi-automated development of plant cell wall finite element models	36
An improved bacterial mRNA enrichment strategy in dual RNA sequencing to unveil the dynamics of plant-bacterial interactions	34
Meta-analysis of the role of zinc in coordinating absorption of mineral elements in wheat seedlings	34
Determination of phosphorus compounds in plant tissues: from colourimetry to advanced instrumental analytical chemistry	34
RiboPlotR: a visualization tool for periodic Ribo-seq reads	33

Combination of long-term 13CO2 labeling and isotopolog profiling allows turnover analysis of photosynthetic pigments in Arabidopsis leaves	32
Innovation of strip fertilization planting for rice straw crushing with back-throwing and interrow-laying	32
Novel in silico screening system for plant defense activators using deep learning-based prediction of reactive oxygen species accumulation	30
High-throughput estimation of allele frequencies using combined pooled-population sequencing and haplotype-based data processing	30
Optimization of ribosome profiling in plants including structural analysis of rRNA fragments	29
Local mapping of root orientation traits by X-ray micro-CT and 3d image analysis: A study case on carrot seedlings grown in simulated vs real weightlessness	29
Improved wood species identification based on multi-view imagery of the three anatomical planes	28
Synchrotron tomography applications in agriculture and food sciences research: a review	28
Improved estimation of forage nitrogen in alpine grassland by integrating Sentinel-2 and SIF data	28
A global non-invasive methodology for the phenotyping of potato under water deficit conditions using imaging, physiological and molecular tools	28
A method of two-dimensional correlation spectroscopy combined with residual neural network for comparison and differentiation of medicinal plants raw materials superior to traditional machine learning	27
Non-destructive detection of early wheat germination via deep learning-optimized terahertz imaging	27
A statistical method for high-throughput emergence rate calculation for soybean breeding plots based on field phenotypic characteristics	27
An advanced method for the release, enrichment and purification of high-quality Arabidopsis thaliana rosette leaf trichomes enables profound insights into the trichome proteome	27
A simple and efficient method to quantify the cell parameters of the seed coat, embryo and silique wall in rapeseed	27
Inter-row navigation line detection for cotton with broken rows	26
Automated, image-based disease measurement for phenotyping resistance to soybean frogeye leaf spot	26
Automatic rape flower cluster counting method based on low-cost labelling and UAV-RGB images	25
GrainNet: efficient detection and counting of wheat grains based on an improved YOLOv7 modeling	24
Evaluation of deep learning for predicting rice traits using structural and single-nucleotide genomic variants	24
DWTFormer: a frequency-spatial features fusion model for tomato leaf disease identification	24
Assembly and operation of an imaging system for long-term monitoring of bioluminescent and fluorescent reporters in plants	23
Development and application of a virus-induced gene silencing protocol for the study of gene function in narrow-leafed lupin	23
A high-throughput phenotyping method for sugarcane rind penetrometer resistance and breaking force characterization by near-infrared spectroscopy	23
ScAnalyzer: an image processing tool to monitor plant disease symptoms and pathogen spread in Arabidopsis thaliana leaves	22
A new and effective method to induce infection of Phyllachora maydis into corn for tar spot studies in controlled environments	22
Installation and imaging of thousands of minirhizotrons to phenotype root systems of field-grown plants	22
Improvement of germination rate and hybridization to facilitate breeding of an industrial oil crop, Euphorbia lagascae Spreng	22
Using near-infrared spectroscopy to predict nitrogen and phosphorus concentrations of herbarium specimens under different storage conditions	21
A rapid and non-destructive method for spatial–temporal quantification of colonization by Pseudomonas syringae pv. tomato DC3000 in Arabidopsis and tomato	21
RGB image-based method for phenotyping rust disease progress in pea leaves using R	21
A comparative study on point cloud down-sampling strategies for deep learning-based crop organ segmentation	20
An electrophoretic mobility shift assay using the protein isolated from host plants	20
Machine learning provides specific detection of salt and drought stresses in cucumber based on miRNA characteristics	20
Optimization of preparation conditions for Salsola laricifolia protoplasts using response surface methodology and artificial neural network modeling	20
SYMPATHIQUE: image-based tracking of symptoms and monitoring of pathogenesis to decompose quantitative disease resistance in the field	20
Spectral estimation of the aboveground biomass of cotton under water–nitrogen coupling conditions	19
In vitro micropropagation protocols for two endangered Dianthus species - via in vitro culture for conservation and recultivation purposes	19
Evaluation of an intelligent artificial climate chamber for high-throughput crop phenotyping in wheat	19
Scoring the number of B chromosomes in Zea mays L. using droplet digital PCR assay	19
BerryPortraits: Phenotyping Of Ripening Traits in cranberry (Vaccinium macrocarpon Ait.) with YOLOv8	19
Sorting biotic and abiotic stresses on wild rocket by leaf-image hyperspectral data mining with an artificial intelligence model	19
Ribozyme-mediated CRISPR/Cas9 gene editing in pyrethrum (Tanacetum cinerariifolium) hairy roots using a RNA polymerase II-dependent promoter	18
Statistical analysis of organelle movement using state-space models	18
Wheat physiology predictor: predicting physiological traits in wheat from hyperspectral reflectance measurements using deep learning	18
WheatLFANet: in-field detection and counting of wheat heads with high-real-time global regression network	18
Mapping of cotton bolls and branches with high-granularity through point cloud segmentation	18
A compact deep learning approach integrating depthwise convolutions and spatial attention for plant disease classification	18
A method to determine antifungal activity in seed exudates by nephelometry	17
A hybrid CNN–SVM classifier for weed recognition in winter rape field	17

Quantitative phenotyping of crop roots with spectral electrical impedance tomography: a rhizotron study with optimized measurement design	17
Assessing data analysis techniques in a high-throughput meiosis-like induction detection system	17
Detection and characterization of spike architecture based on deep learning and X-ray computed tomography in barley	17
Estimation of plant height and yield based on UAV imagery in faba bean (Vicia faba L.)	17
Refining bulk segregant analyses: ontology-mediated discovery of flowering time genes in Brassica oleracea	17
Intelligent identification on cotton verticillium wilt based on spectral and image feature fusion	16
A custom library construction method for super-resolution ribosome profiling in Arabidopsis	16
A high-throughput approach for quantifying turgor loss point in grapevine	16
Optimizing cannabis cultivation: an efficient in vitro system for flowering induction	16
Automating high-throughput screening for anthracnose resistance in common bean using allele specific PCR	16
Insights into lncRNA-mediated regulatory networks in Hevea brasiliensis under anthracnose stress	16
Mitochondrial DNA editing in potato through mitoTALEN and mitoTALECD: molecular characterization and stability of editing events	16
Genotyping of polyploid plants using quantitative PCR: application in the breeding of white-fleshed triploid loquats (Eriobotrya japonica)	16
Transmembrane potential, an indicator in situ reporting cellular senescence and stress response in plant tissues	16
Spatial and Texture Analysis of Root System distribution with Earth mover’s Distance (STARSEED)	15
DeepCob: precise and high-throughput analysis of maize cob geometry using deep learning with an application in genebank phenomics	15
AraDQ: an automated digital phenotyping software for quantifying disease symptoms of flood-inoculated Arabidopsis seedlings	15
Pre-trained protein language model sheds new light on the prediction of Arabidopsis protein–protein interactions	15
An efficient chromatin immunoprecipitation (ChIP) protocol for studying histone modifications in peach reproductive tissues	15
Efficient mutagenesis and genotyping of maize inbreds using biolistics, multiplex CRISPR/Cas9 editing, and Indel-Selective PCR	15
A practical guide to estimating the light extinction coefficient with nonlinear models—a case study on maize	15
Low-cost and reliable substrate-based phenotyping platform for screening salt tolerance of cutting propagation-dependent grass, paspalum vaginatum	15
Acceleration of wheat breeding: enhancing efficiency and practical application of the speed breeding system	15
Monitoring of plant water uptake by measuring root dielectric properties on a fine timescale: diurnal changes and response to leaf excision	15
Eggsplorer: a rapid plant–insect resistance determination tool using an automated whitefly egg quantification algorithm	15
A vector-free gene interference system using delaminated Mg–Al-lactate layered double hydroxide nanosheets as molecular carriers to intact plant cells	15
Tracking deuterium uptake in hydroponically grown maize roots using correlative helium ion microscopy and Raman micro-spectroscopy	14
Culture types and period impact gametophyte morphogenesis and sporophyte formation of eastern bracken	14
Improved genomic prediction using machine learning with Variational Bayesian sparsity	14
Characterizing the effects of different chemicals on stem bending of cut snapdragon flower	14
Mapping and quantifying unique branching structures in lentil (Lens culinaris Medik.)	14
Sensor-based phenotyping of above-ground plant-pathogen interactions	14
Determining water status of walnut orchards using the crop water stress index and canopy temperature measurements	14
A novel selection model based on multivariate methods and arbitrary genetic parameters: a case study on tomato families	14
BioCurve Analyzer: a web-based shiny app for analyzing biological response curves	14
A deep learning approach for deriving wheat phenology from near-surface RGB image series using spatiotemporal fusion	14
De novo assembly provides new insights into the evolution of Elaeagnus angustifolia L.	14
A CNN model for early detection of pepper Phytophthora blight using multispectral imaging, integrating spectral and textural information	14
Accelerating eucalypt clone selection pipeline via cloned progeny trials and molecular data	13
RP-DETR: end-to-end rice pests detection using a transformer	13
Publisher Correction: New improvements in grapevine genome editing: high efficiency biallelic homozygous knock-out from regenerated plantlets by using an optimized zCas9i	13
A non-destructive approach for measuring rice panicle-level photosynthetic responses using 3D-image reconstruction	13
Metric learning for image-based flower cultivars identification	13
Identifying and mapping individual medicinal plant Lamiophlomis rotata at high elevations by using unmanned aerial vehicles and deep learning	13
One pattern analysis (OPA) for the quantitative determination of protein interactions in plant cells	13
A cassava common mosaic virus vector for virus-induced gene silencing in cassava	13
Advancing radiation-induced mutant screening through high-throughput technology: a preliminary evaluation of mutant screening in Arabidopsis thaliana	13
Simple and efficient isolation of plant genomic DNA using magnetic ionic liquids	12
Apnet: Lightweight network for apricot tree disease and pest detection in real-world complex backgrounds	12
ShinyCore: An R/Shiny program for establishing core collection based on single nucleotide polymorphism data	12
A novel approach integrating multispectral imaging and machine learning to identify seed maturity and vigor in smooth bromegrass	12
RhizoMAP: a comprehensive, nondestructive, and sensitive platform for metabolic imaging of the rhizosphere	12
Phenotyping seedlings for selection of root system architecture in alfalfa (Medicago sativa L.)	12
CMSAF-Net: integrative network design with enhanced decoder for precision segmentation of pear leaf diseases	12
A rapid and efficient in vivo inoculation method for introducing tree stem canker pathogens onto leaves: suitable for large-scale assessment of resistance in poplar breeding progeny	12
A cell P system with membrane division and dissolution rules for soybean leaf disease recognition	12
Yield estimation of high-density cotton fields using low-altitude UAV imaging and deep learning	12
Clarification of the infection pattern of Xanthomonas citri subsp. citri on citrus fruit by artificial inoculation	12
Combining novel feature selection strategy and hyperspectral vegetation indices to predict crop yield	12
Segmentation and counting of wheat spike grains based on deep learning and textural feature	12
Correction: Rapid and cost-effective molecular karyotyping in wheat, barley, and their crossprogeny by chromosome-specific multiplex PCR	12
Low-cost and automated phenotyping system “Phenomenon” for multi-sensor in situ monitoring in plant in vitro culture	12
Dual discriminator GAN-based synthetic crop disease image generation for precise crop disease identification	12
Characterization of leaf surface phenotypes based on light interaction	11
Non-wounding contact-based Inoculation of fruits with fungal pathogens in postharvest	11
Establishment of an NPK nutrient monitor system in yield-graded cotton petioles under drip irrigation	11
Quality assurance of hyperspectral imaging systems for neural network supported plant phenotyping	11
Deep learning for detecting herbicide weed control spectrum in turfgrass	11
Gray mold and anthracnose disease detection on strawberry leaves using hyperspectral imaging	11
Development of a semi-open chamber system for the gas exchange measurement of whole-canopy under steady and unsteady states in cucumber seedlings	11
Rapid real-time quantitative colorimetric LAMP methodology for field detection of Verticillium dahliae in crude olive-plant samples	11
DNA-free high-quality RNA extraction from 39 difficult-to-extract plant species (representing seasonal tissues and tissue types) of 32 families, and its validation for downstream molecular application	11
Development of a highly efficient virus-free regeneration system of Salvia miltiorrhiza from Sichuan using apical meristem as explants	11
PhenoTrack3D: an automatic high-throughput phenotyping pipeline to track maize organs over time	11
Accelerating leaf area measurement using a volumetric approach	11
Overexpressing Arabidopsis thaliana ACBP6 in transgenic rapid-cycling Brassica napus confers cold tolerance	11
SSR_VibraProfiler: a Python package for accurate classification of varieties using SSRs with intra-variety specificity and inter-variety polymorphism	11
Swin-Unet++: a study on phenotypic parameter analysis of cabbage seedling roots	10
Segmentation of structural parts of rosebush plants with 3D point-based deep learning methods	10
Soybean seed pest damage detection method based on spatial frequency domain imaging combined with RL-SVM	10

Meta-learning prediction of physical and chemical properties of magnetized water and fertilizer based on LSTM	10
The mechanisms and prediction of non-structural carbohydrates accretion and depletion after mechanical wounding in slash pine (Pinus elliottii) using near-infrared reflectance spectroscopy	10
In-vivo Raman microspectroscopy reveals differential nitrate concentration in different developmental zones in Arabidopsis roots	10
In-depth evaluation of root infection systems using the vascular fungus Verticillium longisporum as soil-borne model pathogen	10
NRTPredictor: identifying rice root cell state in single-cell RNA-seq via ensemble learning	10
Exploring the impact of light intensity under speed breeding conditions on the development and growth of lentil and chickpea	10
Photolysis of caged cytokinin in single cells of Arabidopsis thaliana	10
Developing non-invasive 3D quantificational imaging for intelligent coconut analysis system with X-ray	10
Opening the black box: explainable deep-learning classification of wood microscopic image of endangered tree species	10
A CNN-LSTM-att hybrid model for classification and evaluation of growth status under drought and heat stress in chinese fir (Cunninghamia lanceolata)	10
IMPLANT: a new technique for transgene copy number estimation in plants using a single end-point PCR reaction	9
An efficient multiplex approach to CRISPR/Cas9 gene editing in citrus	9
A Cotyledon-based Virus-Induced Gene Silencing (Cotyledon-VIGS) approach to study specialized metabolism in medicinal plants	9
A protocol for Chenopodium quinoa pollen germination	9
DeLTa-Seq: direct-lysate targeted RNA-Seq from crude tissue lysate	9
High-resolution spectral information enables phenotyping of leaf epicuticular wax in wheat	9
An integrated isotopic labeling and freeze sampling apparatus (ILSA) to support sampling leaf metabolomics at a centi-second scale	9
Enhancing cotton whitefly (Bemisia tabaci) detection and counting with a cost-effective deep learning approach on the Raspberry Pi	9
Open-source analytical pipeline for robust data analysis, visualizations and sharing in crop breeding	9
Monitoring of drought stress and transpiration rate using proximal thermal and hyperspectral imaging in an indoor automated plant phenotyping platform	9
MAPtools: command-line tools for mapping-by-sequencing and QTL-Seq analysis and visualization	9
Heterotic quantitative trait loci analysis and genomic prediction of seedling biomass-related traits in maize triple testcross populations	9
A protoplast-based transient gene expression assay for the identification of heat and oxidative stress-regulatory genes in perennial ryegrass	9
A modified aeroponic system for growing small-seeded legumes and other plants to study root systems	9
An automated phenotyping method for Chinese Cymbidium seedlings based on 3D point cloud	9
Colour-analyzer: a new dual colour model-based imaging tool to quantify plant disease	9
Improved phenotyping procedure for evaluating resistance in rice against gall midge (Orseolia oryzae, Wood-Mason)	9
Correction: BerryPortraits: phenotyping of ripening traits in cranberry (Vaccinium macrocarpon Ait.) With YOLOv8	8
Production of HSVd- and PPV-free apricot cultivars by in vitro thermotherapy followed by meristem culture	8
Towards portable MRI in the plant sciences	8
An ensemble deep learning models approach using image analysis for cotton crop classification in AI-enabled smart agriculture	8
Vapor pressure deficit control and mechanical vibration techniques to induce self-pollination in strawberry flowers	8
DNA–protein interaction studies: a historical and comparative analysis	8
Optimization of immune receptor-related hypersensitive cell death response assay using agrobacterium-mediated transient expression in tobacco plants	8
Identification of an emerging cucumber virus in Taiwan using Oxford nanopore sequencing technology	8
Novel cultivation techniques for water lily (Nymphaea micrantha Guill. & Perr) production based on in vitro technology	8
Research on anthracnose grade of Camellia oleifera based on the combined LIBS and THz technology	8
Validating a multi-locus metabarcoding approach for characterizing mixed-pollen samples	8
Trans2express – de novo transcriptome assembly pipeline optimized for gene expression analysis	8
Overexpression of Vitis GRF4-GIF1 improves regeneration efficiency in diploid Fragaria vesca Hawaii 4	8
A system for the study of roots 3D kinematics in hydroponic culture: a study on the oscillatory features of root tip	8
Effect of a suitable treatment period on the genetic transformation efficiency of the plant leaf disc method	8
A simple new method to determine leaf specific heat capacity	8
A prediction model of rubber content in the dried root of Taraxacum kok-saghyz Rodin based on near-infrared spectroscopy	8
Two-fold red excess (TREx): a simple and novel digital color index that enables non-invasive real-time monitoring of green-leaved as well as anthocyanin-rich crops	8
Completing the picture of field-grown cereal crops: a new method for detailed leaf surface models in wheat	8
Genomic prediction for root and yield traits of barley under a water availability gradient: a case study comparing different spatial adjustments	8
2023: a soil odyssey–HeAted soiL-Monoliths (HAL-Ms) to examine the effect of heat emission from HVDC underground cables on plant growth	7
Wheat grain width: a clue for re-exploring visual indicators of grain weight	7
A cotton organ segmentation method with phenotypic measurements from a point cloud using a transformer	7
Development of an accurate low cost NDVI imaging system for assessing plant health	7
A survey of few-shot learning in smart agriculture: developments, applications, and challenges	7
Enhanced Bayesian model for multienvironmental selection of winter hybrids maize: assessing grain yield using ‘ProbBreed’	7
Establishment of virus-induced gene silencing (VIGS) system in Luffa acutangula using Phytoene desaturase (PDS) and tendril synthesis related gene (TEN)	7
Starch phosphorylation—A needle in a haystack	7
Correction: The rapid-tome, a 3D-printed microtome, and an updated hand-sectioning method for high-quality plant sectioning	7
Leaf infiltration in plant science: old method, new possibilities	7
Prediction of fruit characteristics of grafted plants of Camellia oleifera by deep neural networks	7
Carbon dioxide expanded liquid: an effective solvent for the extraction of quercetin from South African medicinal plants	7
Maui: modular analytics of UAS imagery for specialty crop research	7
X-ray fluorescence spectroscopy (XRF) for metallome analysis of herbarium specimens	7
A plant protein farnesylation system in prokaryotic cells reveals Arabidopsis AtJ3 produced and farnesylated in E. coli maintains its function of protecting proteins from heat inactivation	7
A novel application of laser speckle imaging technique for prediction of hypoxic stress of apples	7
Lightweight highland barley detection based on improved YOLOv5	7
A successive time-to-event model of phyllochron dynamics for hypothesis testing: application to the analysis of genetic and environmental effects in maize	7
Rapid quantification of whole seed fatty acid amount, composition, and shape phenotypes from diverse oilseed species with large differences in seed size	7
Plant trait measurement in 3D for growth monitoring	7
High-throughput interspecies profiling of acidic plant hormones using miniaturised sample processing	7
High-throughput phenotyping for non-destructive estimation of soybean fresh biomass using a machine learning model and temporal UAV data	6
Early detection of verticillium wilt in eggplant leaves by fusing five image channels: a deep learning approach	6
Terrestrial laser scanning and low magnetic field digitization yield similar architectural coarse root traits for 32-year-old Pinus ponderosa trees	6
Estimation of chlorophyll content in rice canopy leaves using 3D radiative transfer modeling and unmanned aerial hyperspectral images	6
Genetic transformation of the oilseed crop camelina using immature zygotic embryos	6
Correction: Revisiting superiority and stability metrics of cultivar performances using genomic data: derivations of new estimators	6
Improved estimation of aboveground biomass of regional coniferous forests integrating UAV-LiDAR strip data, Sentinel-1 and Sentinel-2 imageries	6
Soybean leaf estimation based on RGB images and machine learning methods	6
A novel in-situ-process technique constructs whole circular cpDNA library	6
Tensor methods in data analysis of chromatography/mass spectroscopy-based plant metabolomics	6
Optimizing PGRs for in vitro shoot proliferation of pomegranate with bayesian-tuned ensemble stacking regression and NSGA-II: a comparative evaluation of machine learning models	6
Ripening dynamics revisited: an automated method to track the development of asynchronous berries on time-lapse images	6
Resource-optimized cnns for real-time rice disease detection with ARM cortex-M microprocessors	6
Development of a controlled-environment assay to induce iron deficiency chlorosis in soybean by adjusting calcium carbonates, pH, and nodulation	6
HairNet2: deep learning to quantify cotton leaf hairiness, a complex genetic and environmental trait	6
Segmentation and characterization of macerated fibers and vessels using deep learning	6
Automated image registration of RGB, hyperspectral and chlorophyll fluorescence imaging data	6
UAV rice panicle blast detection based on enhanced feature representation and optimized attention mechanism	6
Highly efficient Agrobacterium rhizogenes-mediated hairy root transformation for gene functional and gene editing analysis in soybean	6
Efficient isolation and purification of tissue-specific protoplasts from tea plants (Camellia sinensis (L.) O. Kuntze)	6
Hyperspectral imaging-based classification of rice leaf blast severity over multiple growth stages	6
AprGPD: the apricot genomic and phenotypic database	6
Tunisian Artemisia campestris L.: a potential therapeutic agent against myeloma - phytochemical and pharmacological insights	6
High-throughput phenotyping allows the selection of soybean genotypes for earliness and high grain yield	6
GRABSEEDS: extraction of plant organ traits through image analysis	6
Chemoinformatics-driven classification of Angiosperms using sulfur-containing compounds and machine learning algorithm	6
Advancing virus-induced gene silencing in sunflower: key factors of VIGS spreading and a novel simple protocol	6