Plant Methods

Article	Citations
TreeJ: an ImageJ plugin for interactive cell lineage reconstruction from static images	98
Orchid2024: A cultivar-level dataset and methodology for fine-grained classification of Chinese Cymbidium Orchids	92
Coconut tree modeling based on abiotic factors and modified cosserat rod theory	88
Spectral image classification of asymptomatic peanut leaf diseases based on deep learning algorithms	77
A lightweight hybrid transformer approach for hyperspectral imaging-based drought tolerance evaluation in tea plants	75
A deep learning approach to track Arabidopsis seedlings’ circumnutation from time-lapse videos	71
A novel method for extraction of high purity and high production Phytophthora sojae oospores	70
Development of a multi-targeted real-time PCR assay for the detection of the grapevine pathogen Xylophilus ampelinus	62
Crop phenotype prediction using SNP context and whole-genome feature embedding based on DNABERT-2	48
The isolation strategy and chemical analysis of oil cells from Asari Radix et Rhizoma	47
The influence of water content on the longitudinal modulus of elasticity of maize stalk pith and rind tissues	46
Investigating phloem transport dynamics in Arabidopsis through compartmental modelling of positron emission tomography data	46
The semi-automated development of plant cell wall finite element models	45
Classification of multi-year and multi-variety pumpkin seeds using hyperspectral imaging technology and three-dimensional convolutional neural network	44
A simple and high-throughput single pollen genotyping pipeline to study meiosis in apple (Malus x domestica)	44
Targeted gene deletion with SpCas9 and multiple guide RNAs in Arabidopsis thaliana: four are better than two	43
Non-destructive real-time monitoring of underground root development with distributed fiber optic sensing	43
Estimation of cotton canopy parameters based on unmanned aerial vehicle (UAV) oblique photography	42
The evaluation of different combinations of enzyme set, aligner and caller in GBS sequencing of soybean	41
An automated method for stem diameter measurement based on laser module and deep learning	41
An improved bacterial mRNA enrichment strategy in dual RNA sequencing to unveil the dynamics of plant-bacterial interactions	40
Truncated CMV2bN43 enhances virus-induced gene silencing in pepper by retaining systemic but not local silencing suppression	39
Improved estimation of forage nitrogen in alpine grassland by integrating Sentinel-2 and SIF data	39
Detection of TuMV by a toehold switch sensor coupled with NASBA amplification in Pseudostellaria heterophylla	37
A simple and efficient method to quantify the cell parameters of the seed coat, embryo and silique wall in rapeseed	37

Synchrotron tomography applications in agriculture and food sciences research: a review	37
OpenEar: an ultra-affordable, high-throughput, and accurate maize ear phenotyping system	37
Quantifying wheat spike morphology by high resolution 3D surface scanning	36
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	35
Hybrid metaheuristic optimization of a DeepFusionNet for plant leaf disease diagnosis and recommendation	34
Non-destructive detection of early wheat germination via deep learning-optimized terahertz imaging	34
Deep aerenchyma: a transformer-based pipeline for scalable phenotyping of rice root aerenchyma lacunae across environments	34
Combination of long-term 13CO2 labeling and isotopolog profiling allows turnover analysis of photosynthetic pigments in Arabidopsis leaves	34
Optimization of ribosome profiling in plants including structural analysis of rRNA fragments	34
In-bore climate control chamber for magnetic resonance imaging of living plants	33
Novel in silico screening system for plant defense activators using deep learning-based prediction of reactive oxygen species accumulation	33
pSIG plasmids, MoClo-compatible vectors for efficient production of chimeric double-stranded RNAs in Escherichia coli HT115 (DE3) strain	32
A comparative study on point cloud down-sampling strategies for deep learning-based crop organ segmentation	32
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	32
Improvement of germination rate and hybridization to facilitate breeding of an industrial oil crop, Euphorbia lagascae Spreng	31
Automatic rape flower cluster counting method based on low-cost labelling and UAV-RGB images	31
Automated, image-based disease measurement for phenotyping resistance to soybean frogeye leaf spot	31
GrainNet: efficient detection and counting of wheat grains based on an improved YOLOv7 modeling	31
PestDetectSim: an integrated approach for crop pest diagnosis using object detection and similarity-based image retrieval	30
Using near-infrared spectroscopy to predict nitrogen and phosphorus concentrations of herbarium specimens under different storage conditions	30
Assembly and operation of an imaging system for long-term monitoring of bioluminescent and fluorescent reporters in plants	29
A statistical method for high-throughput emergence rate calculation for soybean breeding plots based on field phenotypic characteristics	29
A high-throughput phenotyping method for sugarcane rind penetrometer resistance and breaking force characterization by near-infrared spectroscopy	29
SYMPATHIQUE: image-based tracking of symptoms and monitoring of pathogenesis to decompose quantitative disease resistance in the field	29
A new and effective method to induce infection of Phyllachora maydis into corn for tar spot studies in controlled environments	28
Research on the classification model of rubber leaf powdery mildew disease severity based on hyperspectral multi-dimensional feature fusion	28
ScAnalyzer: an image processing tool to monitor plant disease symptoms and pathogen spread in Arabidopsis thaliana leaves	27
Targeting the tomato fruit epidermis using the nsLTP2 promoter: a molecular tool to study the composition, architecture and properties of the cuticle	27
Machine learning provides specific detection of salt and drought stresses in cucumber based on miRNA characteristics	27
Evaluation of deep learning for predicting rice traits using structural and single-nucleotide genomic variants	27
DWTFormer: a frequency-spatial features fusion model for tomato leaf disease identification	27
Scoring the number of B chromosomes in Zea mays L. using droplet digital PCR assay	26
RGB image-based method for phenotyping rust disease progress in pea leaves using R	26
BerryPortraits: Phenotyping Of Ripening Traits in cranberry (Vaccinium macrocarpon Ait.) with YOLOv8	26
An electrophoretic mobility shift assay using the protein isolated from host plants	26
EBS-YOLO: edge-optimized bidirectional spatial feature augmentation for in-field detection of wheat Fusarium head blight epidemics	26
Detection and characterization of spike architecture based on deep learning and X-ray computed tomography in barley	26
In vitro micropropagation protocols for two endangered Dianthus species - via in vitro culture for conservation and recultivation purposes	26
WheatLFANet: in-field detection and counting of wheat heads with high-real-time global regression network	25
A compact deep learning approach integrating depthwise convolutions and spatial attention for plant disease classification	25
Rapid Ragi: A speed breeding protocol for finger millet	25
Mapping of cotton bolls and branches with high-granularity through point cloud segmentation	25
Spectral estimation of the aboveground biomass of cotton under water–nitrogen coupling conditions	25
Statistical analysis of organelle movement using state-space models	25
Assessing data analysis techniques in a high-throughput meiosis-like induction detection system	25
Quantitative phenotyping of crop roots with spectral electrical impedance tomography: a rhizotron study with optimized measurement design	25
Optimization of preparation conditions for Salsola laricifolia protoplasts using response surface methodology and artificial neural network modeling	25
Profiling DNA-protein interactions in Meloidogyne incognita using dCas9-based affinity purification	24
A high-throughput approach for quantifying turgor loss point in grapevine	23
Correction: Whole mount multiplexed visualization of DNA, mRNA, and protein in plant-parasitic nematodes	23

Insights into lncRNA-mediated regulatory networks in Hevea brasiliensis under anthracnose stress	23
2NPLGBM: a genomic model that merges the strengths of classical and machine learning methods in genomic prediction	23
A method to determine antifungal activity in seed exudates by nephelometry	23
Spatial and Texture Analysis of Root System distribution with Earth mover’s Distance (STARSEED)	22
SeedSeg: image-based transgenic seed counting for segregation analysis of T-DNA loci	22
Intelligent identification on cotton verticillium wilt based on spectral and image feature fusion	22
Optimizing cannabis cultivation: an efficient in vitro system for flowering induction	22
Pre-trained protein language model sheds new light on the prediction of Arabidopsis protein–protein interactions	22
DiffPlantCT: a training-free, annotation-free approach to cross-species plant CT image segmentation	22
Transmembrane potential, an indicator in situ reporting cellular senescence and stress response in plant tissues	22
A vector-free gene interference system using delaminated Mg–Al-lactate layered double hydroxide nanosheets as molecular carriers to intact plant cells	22
Automating high-throughput screening for anthracnose resistance in common bean using allele specific PCR	21
ADAM-DETR: an intelligent rice disease detection method based on adaptive multi-scale feature fusion	21
A custom library construction method for super-resolution ribosome profiling in Arabidopsis	21
Go Big or go home: a new gene ontology subset that improves plant gene function prediction	21
Mitochondrial DNA editing in potato through mitoTALEN and mitoTALECD: molecular characterization and stability of editing events	21
AraDQ: an automated digital phenotyping software for quantifying disease symptoms of flood-inoculated Arabidopsis seedlings	20
Eggsplorer: a rapid plant–insect resistance determination tool using an automated whitefly egg quantification algorithm	20
Low-cost and reliable substrate-based phenotyping platform for screening salt tolerance of cutting propagation-dependent grass, paspalum vaginatum	20
Tracking deuterium uptake in hydroponically grown maize roots using correlative helium ion microscopy and Raman micro-spectroscopy	20
Acceleration of wheat breeding: enhancing efficiency and practical application of the speed breeding system	20
Mapping and quantifying unique branching structures in lentil (Lens culinaris Medik.)	20
FE-SEM visualization of cortical microtubules in plant cells using freeze-fracture techniques	19
Monitoring of plant water uptake by measuring root dielectric properties on a fine timescale: diurnal changes and response to leaf excision	19
BioCurve Analyzer: a web-based shiny app for analyzing biological response curves	19
A novel method for measuring heat injury in leaves provides insights into the sequence of processes of heat injury development	19
Efficient mutagenesis and genotyping of maize inbreds using biolistics, multiplex CRISPR/Cas9 editing, and Indel-Selective PCR	18
A deep learning approach for deriving wheat phenology from near-surface RGB image series using spatiotemporal fusion	18
Improved genomic prediction using machine learning with Variational Bayesian sparsity	18
MicroDeblurNet: high-fidelity restoration of spatially variant defocus in microscopic images for cucumber downy mildew	18
CRISPR-Cas13a as a next-generation tool for rapid and precise plant RNA virus diagnostics	18
One pattern analysis (OPA) for the quantitative determination of protein interactions in plant cells	18
YOLO-RBSD: an efficient and accurate rice blast spore detector based on improved YOLOv8	18
Attention-PestNet: hierarchical scaled dot-product attention for insect pest detection	18
Publisher Correction: New improvements in grapevine genome editing: high efficiency biallelic homozygous knock-out from regenerated plantlets by using an optimized zCas9i	18
A novel selection model based on multivariate methods and arbitrary genetic parameters: a case study on tomato families	18
Accelerating eucalypt clone selection pipeline via cloned progeny trials and molecular data	17
A wireless leaf movement sensor system for early detection of abiotic stresses in Zea mays L.	17
YOLO-PEST: a novel rice pest detection approach based on YOLOv5s	17
Introduction of the Ribo-BiFC method to plants using a split mVenus approach	17
Utilizing X-ray radiography for non-destructive assessment of paddy rice grain quality traits	17
Determining water status of walnut orchards using the crop water stress index and canopy temperature measurements	17
A three-dimensional reconstruction method for seedlings based on improved DIFIX3D+	17
Establishment of a low-temperature immersion method for extracting high-activity and high-purity mitochondria from Syntrichia caninervis Mitt.	17
A non-destructive approach for measuring rice panicle-level photosynthetic responses using 3D-image reconstruction	17
Identifying and mapping individual medicinal plant Lamiophlomis rotata at high elevations by using unmanned aerial vehicles and deep learning	17
Apnet: Lightweight network for apricot tree disease and pest detection in real-world complex backgrounds	16
Characterization of leaf surface phenotypes based on light interaction	16
Clarification of the infection pattern of Xanthomonas citri subsp. citri on citrus fruit by artificial inoculation	16
SSR_VibraProfiler: a Python package for accurate classification of varieties using SSRs with intra-variety specificity and inter-variety polymorphism	16
BeanGPT: a domain-specific retrieval-augmented generation system for Phaseolus vulgaris research	16
Segmentation and counting of wheat spike grains based on deep learning and textural feature	16
A conditional segmentation-guided network for pomegranate image completion under occlusion	16
CMSAF-Net: integrative network design with enhanced decoder for precision segmentation of pear leaf diseases	16
Advancing radiation-induced mutant screening through high-throughput technology: a preliminary evaluation of mutant screening in Arabidopsis thaliana	16
RP-DETR: end-to-end rice pests detection using a transformer	16
Combining novel feature selection strategy and hyperspectral vegetation indices to predict crop yield	16
Establishment of an efficient tissue culture system for Paeonia ostii by combining vernalization and etiolation pretreatment with optimized culture conditions	16
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	16
A CNN model for early detection of pepper Phytophthora blight using multispectral imaging, integrating spectral and textural information	16
A cell P system with membrane division and dissolution rules for soybean leaf disease recognition	15
YOLOV8-CMS: a high-accuracy deep learning model for automated citrus leaf disease classification and grading	15
Efficient induction of tetraploids via adventitious bud regeneration and subsequent phenotypic variation in Acacia melanoxylon	15
Optimized deep learning framework for pomegranate disease detection using nature-inspired algorithms	15
Assessing and avoiding C isotopic contamination artefacts in mesocosm-scale 13CO2/12CO2 labelling systems: from biomass components to purified carbohydrates and dark respiration	15
ShinyCore: An R/Shiny program for establishing core collection based on single nucleotide polymorphism data	15
Correction: Rapid and cost-effective molecular karyotyping in wheat, barley, and their crossprogeny by chromosome-specific multiplex PCR	15
Dual discriminator GAN-based synthetic crop disease image generation for precise crop disease identification	15
Non-wounding contact-based Inoculation of fruits with fungal pathogens in postharvest	15
X-ray-mediated isolated microspore mutagenesis: a system for salt-tolerant line development in wheat (Triticum aestivum L.)	15
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	15
RhizoMAP: a comprehensive, nondestructive, and sensitive platform for metabolic imaging of the rhizosphere	15
PhenoTrack3D: an automatic high-throughput phenotyping pipeline to track maize organs over time	14
Low-cost and automated phenotyping system “Phenomenon” for multi-sensor in situ monitoring in plant in vitro culture	14
Automatic root measurement: a lightweight method for measuring pea root length	14
Establishment of an NPK nutrient monitor system in yield-graded cotton petioles under drip irrigation	14
Development of a semi-open chamber system for the gas exchange measurement of whole-canopy under steady and unsteady states in cucumber seedlings	14
Photolysis of caged cytokinin in single cells of Arabidopsis thaliana	14
In-vivo Raman microspectroscopy reveals differential nitrate concentration in different developmental zones in Arabidopsis roots	14
Gray mold and anthracnose disease detection on strawberry leaves using hyperspectral imaging	14

A novel approach integrating multispectral imaging and machine learning to identify seed maturity and vigor in smooth bromegrass	14
A systematic comparison of transformers and ConvNets for root segmentation across nine datasets	14
An automated phenotyping method for Chinese Cymbidium seedlings based on 3D point cloud	14
Opening the black box: explainable deep-learning classification of wood microscopic image of endangered tree species	13
Soybean seed pest damage detection method based on spatial frequency domain imaging combined with RL-SVM	13
NRTPredictor: identifying rice root cell state in single-cell RNA-seq via ensemble learning	13
Rapid real-time quantitative colorimetric LAMP methodology for field detection of Verticillium dahliae in crude olive-plant samples	13
A high-throughput fluorescence-based microplate reader assay to quantify total flavonol levels in plant tissues	13
A CNN-LSTM-att hybrid model for classification and evaluation of growth status under drought and heat stress in chinese fir (Cunninghamia lanceolata)	13
Swin-Unet++: a study on phenotypic parameter analysis of cabbage seedling roots	13
Quality assurance of hyperspectral imaging systems for neural network supported plant phenotyping	13
The mechanisms and prediction of non-structural carbohydrates accretion and depletion after mechanical wounding in slash pine (Pinus elliottii) using near-infrared reflectance spectroscopy	13