Advanced phenotyping and phenotype data analysis for the study of plant growth and development

TraitCapture: genomic and environment modelling of plant phenomic data

(2014) Tim B Brown et al.   CURRENT OPINION IN PLANT BIOLOGY

Phenotyping and beyond: modelling the relationships between traits

(2014) Christine Granier et al.   CURRENT OPINION IN PLANT BIOLOGY

Molecular basis of adaptation to high soil boron in wheat landraces and elite cultivars

(2014) Margaret Pallotta et al.   NATURE

Dissecting the Phenotypic Components of Crop Plant Growth and Drought Responses Based on High-Throughput Image Analysis

(2014) Dijun Chen et al.   PLANT CELL

High-Resolution Inflorescence Phenotyping Using a Novel Image-Analysis Pipeline, PANorama

(2014) S. Crowell et al.   PLANT PHYSIOLOGY

Integrated Analysis Platform: An Open-Source Information System for High-Throughput Plant Phenotyping

(2014) C. Klukas et al.   PLANT PHYSIOLOGY

Objective Definition of Rosette Shape Variation Using a Combined Computer Vision and Data Mining Approach

(2014) Anyela Camargo et al.   PLoS One

High-Throughput Phenotyping to Detect Drought Tolerance QTL in Wild Barley Introgression Lines

(2014) Nora Honsdorf et al.   PLoS One

A Review of Imaging Techniques for Plant Phenotyping

(2014) Lei Li et al.   SENSORS

Genetic and molecular bases of yield-associated traits: a translational biology approach between rice and wheat

(2014) Ravi Valluru et al.   THEORETICAL AND APPLIED GENETICS

Advanced imaging techniques for the study of plant growth and development

(2014) Rosangela Sozzani et al.   TRENDS IN PLANT SCIENCE

Image-based phenotyping for non-destructive screening of different salinity tolerance traits in rice

(2014) Aris Hairmansis et al.   Rice

Decoding tumour phenotype by noninvasive imaging using a quantitative radiomics approach

(2014) Hugo J. W. L. Aerts et al.   Nature Communications

Combining high-throughput phenotyping and genome-wide association studies to reveal natural genetic variation in rice

(2014) Wanneng Yang et al.   Nature Communications

Abscisic acid dynamics in roots detected with genetically encoded FRET sensors

(2014) Alexander M Jones et al.   eLife

Integrating omic approaches for abiotic stress tolerance in soybean

(2014) Rupesh Deshmukh et al.   Frontiers in Plant Science

Future Scenarios for Plant Phenotyping

(2013) Fabio Fiorani et al.   Annual Review of Plant Biology

Functional approach to high-throughput plant growth analysis

(2013) Oliver L Tessmer et al.   BMC Systems Biology

Plant phenomics and high-throughput phenotyping: accelerating rice functional genomics using multidisciplinary technologies

(2013) Wanneng Yang et al.   CURRENT OPINION IN PLANT BIOLOGY

Phenoscope: an automated large-scale phenotyping platform offering high spatial homogeneity

(2013) Sébastien Tisné et al.   PLANT JOURNAL

Accounting for variation in designing greenhouse experiments with special reference to greenhouses containing plants on conveyor systems

(2013) Chris J Brien et al.   Plant Methods

An online database for plant image analysis software tools

(2013) Guillaume Lobet et al.   Plant Methods

Identifying Genotype-by-Environment Interactions in the Metabolism of Germinating Arabidopsis Seeds Using Generalized Genetical Genomics

(2013) R. V. L. Joosen et al.   PLANT PHYSIOLOGY

Phenotypic Effects of Salt and Heat Stress over Three Generations in Arabidopsis thaliana

(2013) Léonie Suter et al.   PLoS One

3D phenotyping and quantitative trait locus mapping identify core regions of the rice genome controlling root architecture

(2013) C. N. Topp et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

Cell to whole-plant phenotyping: the best is yet to come

(2013) Stijn Dhondt et al.   TRENDS IN PLANT SCIENCE

Quantitative Imaging with Fluorescent Biosensors

(2012) Sakiko Okumoto et al.   Annual Review of Plant Biology

An image classification approach to analyze the suppression of plant immunity by the human pathogen Salmonella Typhimurium

(2012) Marek Schikora et al.   BMC BIOINFORMATICS

A novel mesh processing based technique for 3D plant analysis

(2012) Anthony Paproki et al.   BMC PLANT BIOLOGY

Hyperspectral detection of rice damaged by rice leaf folder (Cnaphalocrocis medinalis)

(2012) Jianrong Huang et al.   COMPUTERS AND ELECTRONICS IN AGRICULTURE

A common genetic basis to the origin of the leaf economics spectrum and metabolic scaling allometry

(2012) François Vasseur et al.   ECOLOGY LETTERS

Analyzing Lateral Root Development: How to Move Forward

(2012) I. De Smet et al.   PLANT CELL

Surveying the plant’s world by magnetic resonance imaging

(2012) Ljudmilla Borisjuk et al.   PLANT JOURNAL

PhenoPhyte: a flexible affordable method to quantify 2D phenotypes from imagery

(2012) Jason M Green et al.   Plant Methods

Rosette Tracker: An Open Source Image Analysis Tool for Automatic Quantification of Genotype Effects

(2012) J. De Vylder et al.   PLANT PHYSIOLOGY

SmartGrain: High-Throughput Phenotyping Software for Measuring Seed Shape through Image Analysis

(2012) T. Tanabata et al.   PLANT PHYSIOLOGY

Genotypic differences in physiological characteristics in the tolerance to drought and salinity combined stress between Tibetan wild and cultivated barley

(2012) Imrul Mosaddek Ahmed et al.   PLANT PHYSIOLOGY AND BIOCHEMISTRY

Genetic bases of rice grain shape: so many genes, so little known

(2012) Rongyu Huang et al.   TRENDS IN PLANT SCIENCE

Genome-Wide Association Mapping in Tomato ( Solanum lycopersicum ) Is Possible Using Genome Admixture of Solanum lycopersicum var. cerasiforme

(2012) Nicolas Ranc et al.   G3-Genes Genomes Genetics

A functional–structural model of rice linking quantitative genetic information with morphological development and physiological processes

(2011) Lifeng Xu et al.   ANNALS OF BOTANY

HTPheno: An image analysis pipeline for high-throughput plant phenotyping

(2011) Anja Hartmann et al.   BMC BIOINFORMATICS

Association analysis of frost tolerance in rye using candidate genes and phenotypic data from controlled, semi-controlled, and field phenotyping platforms

(2011) Yongle Li et al.   BMC PLANT BIOLOGY

Robust fitting of fluorescence spectra for pre-symptomatic wheat leaf rust detection with Support Vector Machines

(2011) Christoph Römer et al.   COMPUTERS AND ELECTRONICS IN AGRICULTURE

Sensitivity of flowering plant gametophytes to temperature fluctuations

(2011) Afif Hedhly   ENVIRONMENTAL AND EXPERIMENTAL BOTANY

Survival and growth of Arabidopsis plants given limited water are not equal

(2011) Aleksandra Skirycz et al.   NATURE BIOTECHNOLOGY

A growth phenotyping pipeline for Arabidopsis thaliana integrating image analysis and rosette area modeling for robust quantification of genotype effects

(2011) Samuel Arvidsson et al.   NEW PHYTOLOGIST

Arabidopsis growth under prolonged high temperature and water deficit: independent or interactive effects?

(2011) DENIS VILE et al.   PLANT CELL AND ENVIRONMENT

A novel machine-vision-based facility for the automatic evaluation of yield-related traits in rice

(2011) Lingfeng Duan et al.   Plant Methods

Accurate inference of shoot biomass from high-throughput images of cereal plants

(2011) Mahmood R Golzarian et al.   Plant Methods

Three-Dimensional Root Phenotyping with a Novel Imaging and Software Platform

(2011) R. T. Clark et al.   PLANT PHYSIOLOGY

Beyond Predictions: Biodiversity Conservation in a Changing Climate

(2011) T. P. Dawson et al.   SCIENCE

Genome-wide association mapping of agronomic traits in sugar beet

(2011) Tobias Würschum et al.   THEORETICAL AND APPLIED GENETICS

Genome-wide association mapping of agronomic and morphologic traits in highly structured populations of barley cultivars

(2011) Minghui Wang et al.   THEORETICAL AND APPLIED GENETICS

Phenomics – technologies to relieve the phenotyping bottleneck

(2011) Robert T. Furbank et al.   TRENDS IN PLANT SCIENCE

How to fit nonlinear plant growth models and calculate growth rates: an update for ecologists

(2011) C. E. Timothy Paine et al.   Methods in Ecology and Evolution

High-throughput phenotyping of multicellular organisms: finding the link between genotype and phenotype

(2011) Rosangela Sozzani et al.   GENOME BIOLOGY

Genetic and Molecular Bases of Rice Yield

(2010) Yongzhong Xing et al.   Annual Review of Plant Biology

Dissection and modelling of abiotic stress tolerance in plants

(2010) François Tardieu et al.   CURRENT OPINION IN PLANT BIOLOGY

Quantifying phenological plasticity to temperature in two temperate tree species

(2010) Yann Vitasse et al.   FUNCTIONAL ECOLOGY

High-throughput shoot imaging to study drought responses

(2010) B. Berger et al.   JOURNAL OF EXPERIMENTAL BOTANY

New phenotyping methods for screening wheat and barley for beneficial responses to water deficit

(2010) R. Munns et al.   JOURNAL OF EXPERIMENTAL BOTANY

Genome-wide association study of 107 phenotypes in Arabidopsis thaliana inbred lines

(2010) Susanna Atwell et al.   NATURE

Genome-wide association studies of 14 agronomic traits in rice landraces

(2010) Xuehui Huang et al.   NATURE GENETICS

leafprocessor: a new leaf phenotyping tool using contour bending energy and shape cluster analysis

(2010) Andreas Backhaus et al.   NEW PHYTOLOGIST

Rice leaf growth and water potential are resilient to evaporative demand and soil water deficit once the effects of root system are neutralized

(2010) BORIS PARENT et al.   PLANT CELL AND ENVIRONMENT

Breeding Technologies to Increase Crop Production in a Changing World

(2010) M. Tester et al.   SCIENCE

A prediction model for population occurrence of paddy stem borer (Scirpophaga incertulas), based on Back Propagation Artificial Neural Network and Principal Components Analysis

(2009) Lin-nan Yang et al.   COMPUTERS AND ELECTRONICS IN AGRICULTURE

Modeling QTL for complex traits: detection and context for plant breeding

(2009) Mark Cooper et al.   CURRENT OPINION IN PLANT BIOLOGY

Simultaneous phenotyping of leaf growth and chlorophyll fluorescence via GROWSCREEN FLUORO allows detection of stress tolerance inArabidopsis thalianaand other rosette plants

(2009) Marcus Jansen et al.   FUNCTIONAL PLANT BIOLOGY

Foreword: Plant phenomics: from gene to form and function

(2009)   FUNCTIONAL PLANT BIOLOGY

Thermal infrared imaging of crop canopies for the remote diagnosis and quantification of plant responses to water stress in the field

(2009) Hamlyn G. Jones et al.   FUNCTIONAL PLANT BIOLOGY

C4rice: a challenge for plant phenomics

(2009) Robert T. Furbank et al.   FUNCTIONAL PLANT BIOLOGY

3D monitoring spatio–temporal effects of herbicide on a whole plant using combined range and chlorophyllafluorescence imaging

(2009) Atsumi Konishi et al.   FUNCTIONAL PLANT BIOLOGY

Functional–structural plant modelling: a new versatile tool in crop science

(2009) J. Vos et al.   JOURNAL OF EXPERIMENTAL BOTANY

Combined MRI-PET dissects dynamic changes in plant structures and functions

(2009) Siegfried Jahnke et al.   PLANT JOURNAL

HYPOTrace: Image Analysis Software for Measuring Hypocotyl Growth and Shape Demonstrated on Arabidopsis Seedlings Undergoing Photomorphogenesis

(2009) L. Wang et al.   PLANT PHYSIOLOGY

Three Sequenced Legume Genomes and Many Crop Species: Rich Opportunities for Translational Genomics

(2009) S. B. Cannon et al.   PLANT PHYSIOLOGY

Characterizing canopy biochemistry from imaging spectroscopy and its application to ecosystem studies

(2009) Raymond F. Kokaly et al.   REMOTE SENSING OF ENVIRONMENT

With ‘Phenomics,’ Plant Scientists Hope to Shift Breeding Into Overdrive

(2009) Elizabeth Finkel   SCIENCE

Conceptual framework for drought phenotyping during molecular breeding

(2009) Ghasem Hosseini Salekdeh et al.   TRENDS IN PLANT SCIENCE

The 1001 Genomes Project for Arabidopsis thaliana

(2009) Detlef Weigel et al.   GENOME BIOLOGY

Chlorophyll Fluorescence: A Probe of Photosynthesis In Vivo

(2008) Neil R. Baker   Annual Review of Plant Biology

Quantifying sub-pixel signature of paddy rice field using an artificial neural network

(2008) Manoj Karkee et al.   COMPUTERS AND ELECTRONICS IN AGRICULTURE

Modeling the growth of individuals in crowded plant populations

(2008) C. Damgaard et al.   Journal of Plant Ecology

Quantifying the three main components of salinity tolerance in cereals

(2008) KARTHIKA RAJENDRAN et al.   PLANT CELL AND ENVIRONMENT

Combined Genetic and Modeling Approaches Reveal That Epidermal Cell Area and Number in Leaves Are Controlled by Leaf and Plant Developmental Processes in Arabidopsis

(2008) S. Tisne et al.   PLANT PHYSIOLOGY

The Dark Side of the Salad: Salmonella typhimurium Overcomes the Innate Immune Response of Arabidopsis thaliana and Shows an Endopathogenic Lifestyle

(2008) Adam Schikora et al.   PLoS One

The Blue Revolution, Drop by Drop, Gene by Gene

(2008) E. Pennisi   SCIENCE