Plant Methods

Papers
(The median citation count of Plant Methods is 3. The table below lists those papers that are above that threshold based on CrossRef citation counts [max. 250 papers]. The publications cover those that have been published in the past four years, i.e., from 2021-01-01 to 2025-01-01.)
ArticleCitations
VA-TIRFM-based SM kymograph analysis for dwell time and colocalization of plasma membrane protein in plant cells496
Full-length transcriptome sequences by a combination of sequencing platforms applied to isoflavonoid and triterpenoid saponin biosynthesis of Astragalus mongholicus Bunge85
Protocol: a simple method for biosensor visualization of bacterial quorum sensing and quorum quenching interaction on Medicago roots79
Using a thermal gradient table to study plant temperature signalling and response across a temperature spectrum77
The influence of water content on the longitudinal modulus of elasticity of maize stalk pith and rind tissues59
Cryopreservation of sessile oak (Quercus petraea (Matt.) Liebl.) plumules using aluminium cryo-plates: influence of cryoprotection and drying57
A device for the controlled cooling and freezing of excised plant specimens during magnetic resonance imaging55
Characterizing reference genes for high-fidelity gene expression analysis under different abiotic stresses and elicitor treatments in fenugreek leaves54
A robust and efficient automatic method to segment maize FASGA stained stem cross section images to accurately quantify histological profile53
Detection of Cucumber green mottle mosaic virus in low-concentration virus-infected seeds by improved one-step pre-amplification RT-qPCR51
Orthogonal control of gene expression in plants using synthetic promoters and CRISPR-based transcription factors50
Optimizing speed breeding and seed/pod chip based genotyping techniques in pigeonpea: A way forward for high throughput line development48
Targeted gene deletion with SpCas9 and multiple guide RNAs in Arabidopsis thaliana: four are better than two43
Stability investigation of air-dried olive ribo nucleic acids for metavirome studies42
Profiling of 1-aminocyclopropane-1-carboxylic acid and selected phytohormones in Arabidopsis using liquid chromatography-tandem mass spectrometry37
Protocol: analytical methods for visualizing the indolic precursor network leading to auxin biosynthesis37
Electrical impedance spectroscopy (EIS) in plant roots research: a review36
Efficient transformation of the isolated microspores of Chinese cabbage (Brassica rapa L. ssp. pekinensis) by particle bombardment36
Semi-supervised few-shot learning approach for plant diseases recognition36
A novel selection model based on multivariate methods and arbitrary genetic parameters: a case study on tomato families35
Micro computed tomography analysis of barley during the first 24 hours of germination35
The semi-automated development of plant cell wall finite element models35
A quantitative method to measure geranylgeranyl diphosphate (GGPP) and geranylgeranyl monophosphate (GGP) in tomato (Solanum lycopersicum) fruit34
Optimizing PGRs for in vitro shoot proliferation of pomegranate with bayesian-tuned ensemble stacking regression and NSGA-II: a comparative evaluation of machine learning models33
Rapid identification of mutations caused by fast neutron bombardment in Medicago truncatula32
An automated method for stem diameter measurement based on laser module and deep learning32
Methods to optimize optical sensing of biotic plant stress – combined effects of hyperspectral imaging at night and spatial binning32
Karst vegetation coverage detection using UAV multispectral vegetation indices and machine learning algorithm31
Culture types and period impact gametophyte morphogenesis and sporophyte formation of eastern bracken31
Improved estimation of aboveground biomass of regional coniferous forests integrating UAV-LiDAR strip data, Sentinel-1 and Sentinel-2 imageries30
Identifying and mapping individual medicinal plant Lamiophlomis rotata at high elevations by using unmanned aerial vehicles and deep learning30
AprGPD: the apricot genomic and phenotypic database29
Optimized synthesis of layered double hydroxide lactate nanosheets and their biological effects on Arabidopsis seedlings28
The isolation strategy and chemical analysis of oil cells from Asari Radix et Rhizoma27
Characterizing the effects of different chemicals on stem bending of cut snapdragon flower26
High-throughput phenotyping allows the selection of soybean genotypes for earliness and high grain yield26
A novel visual marker to distinguish haploids from doubled haploids in rice (Oryza sativa, L) at early growth stages26
A systematic high-throughput phenotyping assay for sugarcane stalk quality characterization by near-infrared spectroscopy25
TreeJ: an ImageJ plugin for interactive cell lineage reconstruction from static images25
Orchid2024: A cultivar-level dataset and methodology for fine-grained classification of Chinese Cymbidium Orchids25
Improved genomic prediction using machine learning with Variational Bayesian sparsity24
An efficient screening system of disease-resistant genes from wild apple, Malus sieversii in response to Valsa mali pathogenic fungus23
Combining Fourier-transform infrared spectroscopy and multivariate analysis for chemotyping of cell wall composition in Mungbean (Vigna radiata (L.) Wizcek)23
Real-time monitoring of Ralstonia solanacearum infection progress in tomato and Arabidopsis using bioluminescence imaging technology23
Simultaneous determination of protoporphyrin IX and magnesium protoporphyrin IX in Arabidopsis thaliana and Camellia sinensis using UPLC-MS/MS23
Advanced screening methods for assessing motility and hatching in plant-parasitic nematodes23
One pattern analysis (OPA) for the quantitative determination of protein interactions in plant cells23
De novo assembly provides new insights into the evolution of Elaeagnus angustifolia L.22
Application of machine learning algorithms and feature selection in rapeseed (Brassica napus L.) breeding for seed yield22
Simple and efficient isolation of plant genomic DNA using magnetic ionic liquids22
Soybean leaf estimation based on RGB images and machine learning methods22
Hyperspectral imaging-based classification of rice leaf blast severity over multiple growth stages22
A novel method for extraction of high purity and high production Phytophthora sojae oospores21
Efficient isolation and purification of tissue-specific protoplasts from tea plants (Camellia sinensis (L.) O. Kuntze)21
Temporal resolution trumps spectral resolution in UAV-based monitoring of cereal senescence dynamics19
Metric learning for image-based flower cultivars identification19
Improving the prediction performance of leaf water content by coupling multi-source data with machine learning in rice (Oryza sativa L.)19
Determination of phosphorus compounds in plant tissues: from colourimetry to advanced instrumental analytical chemistry18
Systematic investigation and validation of peanut genetic transformation via the pollen tube injection method18
Non-destructive real-time monitoring of underground root development with distributed fiber optic sensing18
A handheld device for measuring the diameter at breast height of individual trees using laser ranging and deep-learning based image recognition18
Segmentation and counting of wheat spike grains based on deep learning and textural feature18
A deep learning approach to track Arabidopsis seedlings’ circumnutation from time-lapse videos17
A method to experimentally clamp leaf water content to defined values to assess its effects on apoplastic pH17
A label-free, fast and high-specificity technique for plant cell wall imaging and composition analysis17
Versatile DNA extraction from diverse plant taxa using ionic liquids and magnetic ionic liquids: a methodological breakthrough for enhanced sample utility17
Corn360: a method for quantification of corn kernels17
In vivo characterisation of field pea stem wall thickness using optical coherence tomography17
Computer vision-based wood identification and its expansion and contribution potentials in wood science: A review17
Mix-and-match: an improved, fast and accessible protocol for hypocotyl micrografting of Arabidopsis seedlings with systemic ACC responses as a case study16
A CNN model for early detection of pepper Phytophthora blight using multispectral imaging, integrating spectral and textural information16
A non-destructive approach for measuring rice panicle-level photosynthetic responses using 3D-image reconstruction16
Fast estimation of plant growth dynamics using deep neural networks16
Qualitative and quantitative evaluation of thylakoid complexes separated by Blue Native PAGE15
Prediction accuracy and repeatability of UAV based biomass estimation in wheat variety trials as affected by variable type, modelling strategy and sampling location15
HairNet2: deep learning to quantify cotton leaf hairiness, a complex genetic and environmental trait15
Highly efficient Agrobacterium rhizogenes-mediated hairy root transformation for gene functional and gene editing analysis in soybean15
Roughness measurement of leaf surface based on shape from focus15
An efficient grafting method for phytoplasma transmission in Catharanthus roseus15
Early detection of verticillium wilt in eggplant leaves by fusing five image channels: a deep learning approach15
Estimation of cotton canopy parameters based on unmanned aerial vehicle (UAV) oblique photography15
Phenotyping seedlings for selection of root system architecture in alfalfa (Medicago sativa L.)15
A random-sampling approach to track cell divisions in time-lapse fluorescence microscopy15
Ripening dynamics revisited: an automated method to track the development of asynchronous berries on time-lapse images15
A cassava common mosaic virus vector for virus-induced gene silencing in cassava14
Study on canopy extraction method for narrowband spectral images based on superpixel color gradation skewness distribution features14
A streamlined guide RNA screening system for genome editing in Sorghum bicolor14
Complementarity of Raman and Infrared spectroscopy for rapid characterization of fucoidan extracts14
Applying spectral fractal dimension index to predict the SPAD value of rice leaves under bacterial blight disease stress14
Can allele-specific loop-mediated isothermal amplification be used for rapid detection of target-site herbicide resistance in Lolium spp.?14
Classification of multi-year and multi-variety pumpkin seeds using hyperspectral imaging technology and three-dimensional convolutional neural network14
High-throughput phenotyping for non-destructive estimation of soybean fresh biomass using a machine learning model and temporal UAV data13
Axial variation in flexural stiffness of plant stem segments: measurement methods and the influence of measurement uncertainty13
Combining novel feature selection strategy and hyperspectral vegetation indices to predict crop yield13
Identification of the initial water-site and movement in Gleditsia sinensis seeds and its relation to seed coat structure13
Soybean cyst nematode detection and management: a review13
Methodology: non-invasive monitoring system based on standing wave ratio for detecting water content variations in plants13
Small-scale sequencing enables quality assessment of Ribo-Seq data: an example from Arabidopsis cell culture13
A model for genuineness detection in genetically and phenotypically similar maize variety seeds based on hyperspectral imaging and machine learning13
Tensor methods in data analysis of chromatography/mass spectroscopy-based plant metabolomics13
Species-specific basecallers improve actual accuracy of nanopore sequencing in plants12
Highly efficient Agrobacterium rhizogenes-mediated transformation for functional analysis in woodland strawberry12
Correction: Maximizing efficiency in sunflower breeding through historical data optimization12
Leaf area index estimation model for UAV image hyperspectral data based on wavelength variable selection and machine learning methods12
Correction: Revisiting superiority and stability metrics of cultivar performances using genomic data: derivations of new estimators12
Determination of wheat spike and spikelet architecture and grain traits using X-ray Computed Tomography imaging12
A highly efficient protocol for isolation of protoplast from China, Assam and Cambod types of tea plants [Camellia sinensis (L.) O. Kuntze]11
Publisher Correction: New improvements in grapevine genome editing: high efficiency biallelic homozygous knock-out from regenerated plantlets by using an optimized zCas9i11
‘Single-Seed-SpeedBulks:’ a protocol that combines ‘speed breeding’ with a cost-efficient modified single-seed descent method for rapid-generation-advancement in oat (Avena sativa L.)11
Innovation of strip fertilization planting for rice straw crushing with back-throwing and interrow-laying11
A comprehensive review of in planta stable transformation strategies11
Correction: YOLO POD: a fast and accurate multi-task model for dense Soybean Pod counting11
A comprehensive tool in recycling plant-waste of Gossypium barbadense L agricultural and industrial waste extracts containing gossypin and gossypol: hepatoprotective, anti-inflammatory and antioxidant11
Evaporative flux method of leaf hydraulic conductance estimation: sources of uncertainty and reporting format recommendation11
Automatic freezing-tolerant rapeseed material recognition using UAV images and deep learning11
Terrestrial laser scanning and low magnetic field digitization yield similar architectural coarse root traits for 32-year-old Pinus ponderosa trees11
Atmospheric correction of vegetation reflectance with simulation-trained deep learning for ground-based hyperspectral remote sensing11
Segmentation and characterization of macerated fibers and vessels using deep learning11
Applying quantitative spatial phenotypes analysis to the investigation of peltate glandular trichomes development pattern in Perilla frutescens11
Gray mold and anthracnose disease detection on strawberry leaves using hyperspectral imaging10
Optimization of ribosome profiling in plants including structural analysis of rRNA fragments10
Crossing multiple life stages: fine-grained classification of agricultural pests10
ShinyCore: An R/Shiny program for establishing core collection based on single nucleotide polymorphism data10
Combination of long-term 13CO2 labeling and isotopolog profiling allows turnover analysis of photosynthetic pigments in Arabidopsis leaves10
Cryopreservation of Abies alba × A. numidica and Pinus nigra embryogenic tissues by stepwise dehydration method10
Two Arabidopsis promoters drive seed-coat specific gene expression in pennycress and camelina10
Development of a highly efficient virus-free regeneration system of Salvia miltiorrhiza from Sichuan using apical meristem as explants10
Quantitative MRI imaging of parenchyma and venation networks in Brassica napus leaves: effects of development and dehydration10
Image analysis and polyphenol profiling unveil red-flesh apple phenotype complexity10
A rapid assay for assessing bacterial effects on Arabidopsis thermotolerance9
Standardization of electrolyte leakage data and a novel liquid nitrogen control improve measurements of cold hardiness in woody tissue9
Texture feature extraction from microscope images enables a robust estimation of ER body phenotype in Arabidopsis9
Semantic segmentation of plant roots from RGB (mini-) rhizotron images—generalisation potential and false positives of established methods and advanced deep-learning models9
Clarification of the infection pattern of Xanthomonas citri subsp. citri on citrus fruit by artificial inoculation9
A procedure for Dex-induced gene transactivation in Arabidopsis ovules9
Effects of cushion box and closed let-down ladder usage on damage to corn during handling: physiological deterioration9
X-ray driven peanut trait estimation: computer vision aided agri-system transformation9
A novel in-situ-process technique constructs whole circular cpDNA library9
Mechanism of self-recovery of hydrophobicity after surface damage of lotus leaf9
Feature enhancement guided network for yield estimation of high-density jujube9
K-seq, an affordable, reliable, and open Klenow NGS-based genotyping technology9
Rapid non-destructive method to phenotype stomatal traits9
An exploration of the influence of ZnO NPs treatment on germination of radish seeds under salt stress based on the YOLOv8-R lightweight model9
Cucumber mosaic virus-induced gene and microRNA silencing in water dropwort (Oenanthe javanica (Blume) DC)9
Computational fluid dynamics simulation analysis of the effect of curved rice leaves on the deposition behaviour of droplets9
Exploring genetic variability under extended photoperiod in lentil (Lens Culinaris Medik): vegetative and phenological differentiation according to genetic material’s origins9
Targeted mRNA demethylation in Arabidopsis using plant m6A editor8
Evaluation of genetic stability in olive callus-induced and meristem-induced shoots using flow cytometry and amplified fragment length polymorphism techniques8
Chemoinformatics-driven classification of Angiosperms using sulfur-containing compounds and machine learning algorithm8
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 weightlessness8
Novel in silico screening system for plant defense activators using deep learning-based prediction of reactive oxygen species accumulation8
Optimization of the selection of suitable harvesting periods for medicinal plants: taking Dendrobium officinale as an example8
Four-dimensional measurement of root system development using time-series three-dimensional volumetric data analysis by backward prediction8
A pin-based probe for electronic moisture meters to determine moisture content in a single wheat kernel8
Non-wounding contact-based Inoculation of fruits with fungal pathogens in postharvest8
Improved wood species identification based on multi-view imagery of the three anatomical planes8
A fast method to evaluate in a combinatorial manner the synergistic effect of different biostimulants for promoting growth or tolerance against abiotic stress8
A simple and efficient method to quantify the cell parameters of the seed coat, embryo and silique wall in rapeseed8
Meta-analysis of the role of zinc in coordinating absorption of mineral elements in wheat seedlings8
RiboPlotR: a visualization tool for periodic Ribo-seq reads8
Whole mount multiplexed visualization of DNA, mRNA, and protein in plant-parasitic nematodes8
Synchrotron tomography applications in agriculture and food sciences research: a review8
An improved bacterial mRNA enrichment strategy in dual RNA sequencing to unveil the dynamics of plant-bacterial interactions7
Optimization of preparation and transformation of protoplasts from Populus simonii × P. nigra leaves and subcellular localization of the major latex protein 328 (MLP328)7
Deep learning for detecting herbicide weed control spectrum in turfgrass7
A new biotechnology for in-planta gene editing and its application in promoting flavonoid biosynthesis in bamboo leaves7
Comparison of new hyperspectral index and machine learning models for prediction of winter wheat leaf water content7
Improving the sorting efficiency of maize haploid kernels using an NMR-based method with oil content double thresholds7
A technical guide to TRITEX, a computational pipeline for chromosome-scale sequence assembly of plant genomes7
Wheat leaf area index prediction using data fusion based on high-resolution unmanned aerial vehicle imagery7
GRABSEEDS: extraction of plant organ traits through image analysis7
Rapid in-solution preparation of somatic and meiotic plant cell nuclei for high-quality 3D immunoFISH and immunoFISH-GISH7
Advancing virus-induced gene silencing in sunflower: key factors of VIGS spreading and a novel simple protocol7
Establishment of an efficient cotton root protoplast isolation protocol suitable for single-cell RNA sequencing and transient gene expression analysis7
Characterization of leaf surface phenotypes based on light interaction7
A global non-invasive methodology for the phenotyping of potato under water deficit conditions using imaging, physiological and molecular tools7
Early real-time detection algorithm of tomato diseases and pests in the natural environment7
Plant diseases and pests detection based on deep learning: a review7
A toolkit to rapidly modify root systems through single plant selection7
Cucumber pathogenic spores’ detection using the GCS-YOLOv8 network with microscopic images in natural scenes7
Maize-IAS: a maize image analysis software using deep learning for high-throughput plant phenotyping7
A highly efficient regeneration, genetic transformation system and induction of targeted mutations using CRISPR/Cas9 in Lycium ruthenicum7
Computational fluid dynamics simulation experimental verification and analysis of droplets deposition behaviour on vibrating pear leaves7
RhizoMAP: a comprehensive, nondestructive, and sensitive platform for metabolic imaging of the rhizosphere7
An open-source controller to build a dynamic light intensity setup7
Hyperspectral imaging for pest symptom detection in bell pepper7
MGIDI: a powerful tool to analyze plant multivariate data7
High-throughput estimation of allele frequencies using combined pooled-population sequencing and haplotype-based data processing7
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 application6
Advances in micropropagation, somatic embryogenesis, somatic hybridizations, genetic transformation and cryopreservation for Passiflora improvement6
Automated image registration of RGB, hyperspectral and chlorophyll fluorescence imaging data6
Rice bacterial blight resistant cultivar selection based on visible/near-infrared spectrum and deep learning6
Correction: A deep learning model for predicting risks of crop pests and diseases from sequential environmental data6
Biomass estimation of cultivated red algae Pyropia using unmanned aerial platform based multispectral imaging6
Earbox, an open tool for high-throughput measurement of the spatial organization of maize ears and inference of novel traits6
Yield estimation of high-density cotton fields using low-altitude UAV imaging and deep learning6
Untapped potential of non-conventional rubus species: bioactivity, nutrition, and livelihood opportunities6
Identifying rice field weeds from unmanned aerial vehicle remote sensing imagery using deep learning6
New improvements in grapevine genome editing: high efficiency biallelic homozygous knock-out from regenerated plantlets by using an optimized zCas9i6
Correction: Soybean seed pest damage detection method based on spatial frequency domain imaging combined with RL-SVM6
Assembly and operation of an imaging system for long-term monitoring of bioluminescent and fluorescent reporters in plants6
RGB image-based method for phenotyping rust disease progress in pea leaves using R6
Correction: Rapid and cost-effective molecular karyotyping in wheat, barley, and their crossprogeny by chromosome-specific multiplex PCR6
PhenoTrack3D: an automatic high-throughput phenotyping pipeline to track maize organs over time6
Revolutionizing automated pear picking using Mamba architecture6
Field cabbage detection and positioning system based on improved YOLOv8n6
Accelerating leaf area measurement using a volumetric approach6
Low-cost and automated phenotyping system “Phenomenon” for multi-sensor in situ monitoring in plant in vitro culture6
A high-efficiency transient expression system mediated by Agrobacterium tumefaciens in Spinacia oleracea leaves6
Automated quantification of fluorescence and morphological changes in pretreated wood cells by fluorescence macroscopy6
A comparison of ImageJ and machine learning based image analysis methods to measure cassava bacterial blight disease severity5
Isotope ratio-based quantification of carbon assimilation highlights the role of plastidial isoprenoid precursor availability in photosynthesis5
Root-TRAPR: a modular plant growth device to visualize root development and monitor growth parameters, as applied to an elicitor response of Cannabis sativa5
Validation and demonstration of a pericarp disc system for studying blossom-end rot of tomatoes5
In-depth evaluation of root infection systems using the vascular fungus Verticillium longisporum as soil-borne model pathogen5
Exploring the impact of light intensity under speed breeding conditions on the development and growth of lentil and chickpea5
MoBiFC: development of a modular bimolecular fluorescence complementation toolkit for the analysis of chloroplast protein–protein interactions5
Establishment of Agrobacterium-mediated genetic transformation and application of CRISPR/Cas9 genome-editing system to Brassica rapa var. rapa5
Toward robust and high-throughput detection of seed defects in X-ray images via deep learning5
High throughput phenotyping of cross-sectional morphology to assess stalk lodging resistance5
An automated phenotyping method for Chinese Cymbidium seedlings based on 3D point cloud5
Establishment of an NPK nutrient monitor system in yield-graded cotton petioles under drip irrigation5
Developing non-invasive 3D quantificational imaging for intelligent coconut analysis system with X-ray5
The mechanisms and prediction of non-structural carbohydrates accretion and depletion after mechanical wounding in slash pine (Pinus elliottii) using near-infrared reflectance spectroscopy5
Open-source workflow design and management software to interrogate duckweed growth conditions and stress responses5
Installation and imaging of thousands of minirhizotrons to phenotype root systems of field-grown plants5
Development of a semi-open chamber system for the gas exchange measurement of whole-canopy under steady and unsteady states in cucumber seedlings5
HairNet: a deep learning model to score leaf hairiness, a key phenotype for cotton fibre yield, value and insect resistance5
Quantification of the three-dimensional root system architecture using an automated rotating imaging system5
Mapping intron retention events contributing to complex traits using splice quantitative trait locus5
Variation in forest root image annotation by experts, novices, and AI5
Cotton plant part 3D segmentation and architectural trait extraction using point voxel convolutional neural networks5
Using near-infrared spectroscopy to predict nitrogen and phosphorus concentrations of herbarium specimens under different storage conditions5
Phyllotaxis transition over the lifespan of a palm tree using Magnetic Resonance Imaging (MRI) and Terrestrial Laser Scanning (TLS): the case of Jubaea chilensis5
Fast-track transformation and genome editing in Brachypodium distachyon5
Seed protein biotyping in Amaranthus species: a tool for rapid identification of weedy amaranths of concern5
Non-destructive wood identification using X-ray µCT scanning: which resolution do we need?5
An advanced method for the release, enrichment and purification of high-quality Arabidopsis thaliana rosette leaf trichomes enables profound insights into the trichome proteome5
Knockdown expression of a MYB-related transcription factor gene, OsMYBS2, enhances production of recombinant proteins in rice suspension cells5
Fast reconstruction method of three-dimension model based on dual RGB-D cameras for peanut plant5
Segmentation of structural parts of rosebush plants with 3D point-based deep learning methods5
WeCoNET: a host–pathogen interactome database for deciphering crucial molecular networks of wheat-common bunt cross-talk mechanisms4
NRTPredictor: identifying rice root cell state in single-cell RNA-seq via ensemble learning4
A cationic lipid mediated CRISPR/Cas9 technique for the production of stable genome edited citrus plants4
An efficient CRISPR-Cas9 enrichment sequencing strategy for characterizing complex and highly duplicated genomic regions. A case study in the Prunus salicina LG3-MYB10 genes cluster4
MultipleXLab: A high-throughput portable live-imaging root phenotyping platform using deep learning and computer vision4
Raman imaging reveals in-situ microchemistry of cuticle and epidermis of spruce needles4
High-resolution spectral information enables phenotyping of leaf epicuticular wax in wheat4
Non-destructive pre-symptomatic detection of gray mold infection in kiwifruit using hyperspectral data and chemometrics4
Remotely sensed estimation of total iron content in soil with harmonic analysis and BP neural network4
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