How high-throughput phenotyping can contribute to cope with - PowerPoint PPT Presentation

How high-throughput phenotyping can contribute to cope with climate change Francesco Cellini ALSIA, Metapontum Agrobios Research Center RUC-APS WORKSHOP 14 May 2020

ALSIA, BASILICATA, SOUTH ITALY Matera Metaponto

ALSIA MISSION AND STRUCTURE Regional Agency for the development and innovation of agrofood and agroindustry sectors through innovation transfer and implementation of Agrofood Development Services (ADS) Headquarter in Matera, a provincial office in Potenza, Agrobios R&D center in Metaponto, 8 Demonstration and Experimental farms, and two extension service units.

ALSIA ROLE AND ACTIVITIES t R&D&T activities t Agriculture extension services (dissemination, technical and organizational consultancy, marketing) t Farmer training t Agro-technical services and support

PLANTS ARE IMPORTANT https://youtu.be/6X5RqN03rWI

Phenotype and Phenome An organism phenotype, is the complex of morfological and functional characteristics, the phenome represents all the phenotypes evident in an organism

One Genome : Multiple Phenotypes From Plant Phenomics, from Sensors to Knowledge. (2017) Tardieu et al. DOI:https://doi.org/10.1016/j.cub.2017.05.055

Problems in phenotype analyses: Manual, labour intensive Costs Hidden parameters difficult to detect Sampling, desruptive measurements Local measurements Operator bias and errors

High Throughput Phenotyping by imaging: Plant Phenomics era Use of imaging remote sensors Automation Computer vision Bioinformatics Integration with IoT No sampling Statistically robust

Imaging of plants. Sensors.

Imaging of plants. Multilevel & Multiscale.

Image analyses general pipeline

Plant Phenomics Platform in ALSIA 2. Imaging stations 3.Computer NIR RGB station • ROI ( “ Region Of Interest ” ) • Digital biomass • Green and yellow indexes • Water content • Water content • % drought stress • % Drought • Fluorescence/Photosintesys • Root morphology • Stress indexes • Root Architecture 1. Conveyor system

DROUGHT IS AN URGENT PROBLEM Sentinel Data elaborated by IRPI-CNR

RESERVOIR WATER AVAILABILITY IN BASILICATA (November 2017) 122 Mcm 1/6 of the total capacity

TACKLING WATER SCARCITY WITHIN THE PHENOTYPE SPACE CONTEXT Management Agronomical practices Taxon or Genotype Mutants, natural variants, result of genetic crosses. Water Environment Light e Minerals c a Microbe p Temperature S e p y t o n e h P FAO Status of water use efficiency of main crops. SOLAW Background Thematic Report - TR07

(3D) Visible (RGB) v Biomass, Biovolume, Biomass spatial distribution, etc. v Compactness v Colour index v Health indexes

Digital biomass = Fresh weight æ å ö TV å å ç ÷ BiomasaDig ital = SV 1 + SV 2 + log ç ÷ 3 è ø å å å BiomasaDig ital = SV 1 + SV 2 + TV BiomasaDigital= Nuova Formula

Compactness

UC82b ATHB7

Compactness

Drought WW

Root- Visibile (RGB) Biomassa radicale

1 2 3 4 5 6 7 8 9

Root- Visible (RGB)

Near Infra Red (NIR) Water level in plant and soil v Analisi in Pianta v Analisi nel suolo

STUDYING BIOSTIMULANT EFFECTS ON PLANT PHENOTYPE

Biostimulant on tomato - DROUGHT STRESS 1. RGB (Red-Green-Blue) à Digital biomass 200 ml of water (recovery) 50 ml of water 50 ml of water Stress induction 200 ml of water (recovery) Stress induction UNTREATED

PLANT GROWTH Petrozza et al. (2014) Scientia Horticolturae 174:185-192,

HAIRY ROOT Water uptake in roots Biostimolante CONTROL - Acqua + Acqua

Conclusions • New fast developing technology area • Integrates multidisciplinaty approach • Produces and analyze Big Data with AI approaches • Speeds up plant breeding and plant science discoveries • Supports smart farming development with proxymal sensing technologies • Strongly contributes in finding plant phenotypes resilient to climatic change induced stresses

EPPN 2020 UE I3 Projet ‘Advanced community’ Beginning, May 2017 2017-2020 Coordination F. Tardieu 10 M € Ger, Fr., UK, NL, IT, Bel, Hungary, Finland, Slovakia, Denmark Focus: genetics of adaptation to climate change - Transnational access : @ 100 accesses, public and private, 20% outside UE - Joint research activities : Model assisted phenotyping Trans-plaform analysis Information systems - Networking https://eppn2020.plant-phenotyping.eu

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