What do we learn from automatedplant phenotyping?Marcus Jansen

Dr. Marcus Jansen | Chief Scientist | LemnaTec GmbH |Pascalstraße 59 | 52076 Aachen | Germany |www.lemnatec.de | marcus.jansen@lemnatec.de

Background

• Dozens of scientific papers report on results generated with phenotyping as research toolbox• Automated phenotyping facilitates gaining knowledge in many fields of research• Novel insights in research and breeding for food security and climate resilience• Improved strategies for tackling environmental challenges• Evaluation of RGB images as key tool• Non-RGB sensor data gaining importance for characterizing physiological functions

Conclusion

We are Phenotyping1st General COST FA1306 Meeting

at IPK Gatersleben22.06.2015 – 24.06.2015

• Substantial progress in automated and non-invasive plant phenotyping technology during the recent two decades• Various platforms developed at academic institutes and by commercial providers• Operational and valuable tools in plant science and breeding• Multiple publications prove large advances in basic and applied science

Phenotypingplatforms

automated Commercialsolutions

Solutions formultiple userapplications

Academicdevelopments

Experiment specificsetups andprototypes

manual

Platforms and sensors

• Chen D et al. (2014) Dissecting the Phenotypic Components of Crop Plant Growth and DroughtResponses Based on High-Throughput Image Analysis. Plant Cell Online 26: 4636–4655

• Fehér-Juhász E et al. (2014) Phenotyping shows improved physiological traits and seed yieldof transgenic wheat plants expressing the alfalfa aldose reductase under permanent droughtstress. Acta Phys Plant 36: 663–673

References or examplesArea ofapplication

• Weidenbach D et al. (2015) Shoot and root phenotyping of the barley mutant kcs6 (3-ketoacyl-CoA synthase6) depleted in epicuticular waxes under water limitation. Plant Sig &Behav

• Albrecht-Borth V et al. (2013) A novel proteinase, SNOWY COTYLEDON4, is required forphotosynthetic acclimation to higher light intensities in Arabidopsis. Plant phys 163: 732–45

basic plantscience

• Neilson EH et al. (2015) Utilization of a high-throughput shoot imaging system to examine thedynamic phenotypic responses of a C4 cereal crop plant to nitrogen and water deficiency overtime. J Exp Bot doi: 10.1093/jxb/eru526

• Petrozza A et al. (2014) Physiological responses to Megafol® treatments in tomato plantsunder drought stress: A phenomic and molecular approach. Sci Hort 174: 185–192

applied plantscience

• Wahabzada M et al. (2015) Metro Maps of Plant Disease Dynamics—Automated Mining ofDifferences Using Hyperspectral Images. PLOS ONE 10: e0116902

• Schmittgen S et al. (2015) Magnetic resonance imaging of sugar beet taproots in soil revealsgrowth reduction and morphological changes during foliar Cercospora beticola infestation. JExp Bot doi: 10.1093/jxb/erv109

plantpathology

• Hayes JE et al. (2013) Germanium as a tool to dissect boron toxicity effects in barley andwheat. FPB 40: 618

• Stolte S et al. (2015) Preliminary toxicity and ecotoxicity assessment of methyltrioxorheniumand its derivatives. Green Chem 17: 1136–1144

ecotoxicology

• Boyle R et al. (2015) Image-based estimation of oat panicle development using local texturepatterns. FPB 42: 433

• All major plant breeders and agribusiness companies use phenotyping technologyplant breeding

climate changeresearch

Barley mutant characterisation with academically developed platform(RGB-camera in SCREENHOUSE at Forschungszentrum Jülich)Arabidopsis gene function analysed with commercial platform (RGB-camera in LemnaTec Scanalyzer)

Maize nutrient and water use analysed with commercial platform (RGB-,NIR- sensors in LemnaTec Scanalyzer3D at Plant Accelerator Adelaide)Study on biostimulant effect in tomato at drought conditions analysedwith commercial platform (RGB-, NIR, fluorescence sensors in LemnaTecScanalyzer3D at ALISA Metaponto)

Barley pathogen responses analysed with academically developedplatform (hyperspectral imaging platform at Uni Bonn)Sugar beet pathogen response characterisation with academicallydeveloped platform (MRI platform at Forschungszentrum Jülich)

Barley response to toxic substances analysed with commercial platform(RGB-camera in LemnaTec Scanalyzer3D at Plant Accelerator Adelaide)Duckweed test for assessing toxicity of catalytic substances analysedwith commercial platform (RGB-camera in LemnaTec Scanalyzer at UniBremen)

Oat panicle development analysed with commercial platform (RGB-camera in LemnaTec Scanalyzer3D at UK NPPC in Aberystwyth)Breeding and agribusiness companies frequently use platforms from allcommercial providers as well as specifically self-designed setups

Drought effect on crop plants analysed with commercial platform (RGB-,NIR-, fluorescence sensors in LemnaTec Scanalyzer3D at IPK Gatersleben)Transgenic improvement of drought tolerance in wheat analysed withacademically developed platform (RGB and thermal cameras in platformat Cereal Research Non-profit Ltd Szeged)

Research and platforms