CropDesign: Traitmill approaches from an industry perspective
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1 CropDesign: Traitmill approaches from an industry perspective Pierre Lejeune, CropDesign, Gent, Belgium EPSO: The European Plant Science Organisation EPSO Workshop on Plant Phenotyping November 02-03, 2009 Forschungszentrum Jülich, Germany Forschungszentrum Jülich, Germany ICG-3: Phytosphere Jülich Plant Phenotyping Centre (JPPC) Website:
2 TraitMill TM at A phenotyping approach from an industrial perspective. Pierre Lejeune - Oct
3 Overview Context The TraitMill TM pipeline Lead examples Future developments 2
4 CropDesign 2009 at a Glance Agricultural bio-technology company Based in Gent, Belgium 103 employees / 15 nationalities 1998: spin-off from VIB 2006: Acquired by Operating a unique rice-based trait-discovery platform: TraitMill TM 3
5 Trends driving demand for agricultural products Food & Feed UN estimate* on word population: 9.2 billion people for 2050 Rising social standards drive global demand for more processed food (meat consumption in Asia) MARKET POTENTIAL Biofuels** Worldwide: Programs to support bio-fuel projects EU biofuel target: 10% of total transportation fuel by 2020: 55% of total agricultural land needed to reach the target (in canola) *Published in May 2007 by the UN; ** EU-Directive, March 2007 To meet the demand we have to double productivity within the next 20 years 4
6 : A Unique Technology Platform North Carolina Ames Iowa Ludwigshafen 5
7 The BASF approach to gene discovery: unique technology platform Crop yield improvement Look at plant Look inside CropDesign Metanomics Unique and synergistic platform for gene function discovery Combines visual plant screening & metabolic profiling for gene function analysis High throughput at 5,000 to 10,000 genes tested per year 6
8 Context The TraitMill pipeline HTP phenotyping challenges Evaluation setup Tools and screens Lead examples Future developments 7
9 TraitMillTM : Trait Development for Different High-Value Opportunities Productivity traits for established field crops Rice with improved yield Productivity traits for bioenergy crops Product leads Patent filing Data mgt & analysis Plant phenotyping Molecular analysis Plant transformation Vector construction Gene selection Genes Annual throughput >60 leads 10s of terrabytes 140,000 plants 300,000 PCRs >75,000 transformants 1300 constructs 2,000 genes 8
10 HTP phenotyping challenges High Throughput Low costs Efficient logistics Automation Early discovery Predictability Model plants Screening strategy Traits Organize the data flow LIMS Productivity tools 9
11 The TraitMill pipeline VECTOR CONSTRUCTION PLANT TRANSFORMATION MOLECULAR ANALYSIS PLANT EVALUATION SEED EVALUATION LEAD IDENTIFICATION LIMS and DATA MANAGEMENT PLANNING FACILITIES Myriam Van Quickenborne_June 13 th
12 HTP plant evaluation 11
13 HTP plant evaluation 12
14 Evaluation set up T0 generation T1 generation Evaluation Statistical data analysis 13
15 Green biomass Leaf area Early vigour Max leaf area After drought Height Maximum Gravity centre Greenness index Before flowering After drought Days to flowering 14
16 Root biomass Area Length Thickness Branching Shoot/Root 15
17 Yield components Number of panicles Total number of seeds Flowers per panicle Number of filled seeds Fertility ( fill rate ) TKW Total seed yield Harvest index Seed dimensions Width Length Area 16
18 Materials tracking LIMS Dbase over 50 manyears of development 17
19 Screening strategies Optimal regime Salt stress regime Drought stress regime Nitrogen limitation regime Drought 18
20 Context The TraitMill pipeline HTP phenotyping challenges Evaluation setup Tools and screens Lead examples Future developments 19
21 Gene selection targets different yield components Biomass components Root Biomass Number of panicles Plant height Green biomass Development time Time to Flower Flowers per panicle Filling rate Yield components 1000 kernel weight Yield Total weight seeds 20
22 A Phenotype tool kit + biomass + flowers + seeds - biomass - flowers - seeds + biomass + panicles + seeds + flowering - biomass - flowers - seeds 21
23 Family stories.. NAC genes 22
24 Yield stability.. Lead C Normal Drought Salt LowN 23
25 And in the field.. Wild type -/- +/ % yield Lead CDE D + 26 % yield increase Null line Event 4 24
26 Field Validated Leads By By end of of 2006, Leads tested in in at at least 1 field trial Field confirmation rate close to to % Confirmed 25 Not Confirmed 8 Pending Lead confirmed in field: positive phenotype observed in TraitMill TM confirmed in 2 field trials Lead not confirmed in field: positive phenotype observed in TraitMill TM not confirmed in 2 field trials Pending: 1 field trial result or conflicting results after 2 trials 25
27 Context The TraitMill pipeline HTP phenotyping challenges Evaluation setup Tools and screens Lead examples Future developments 26
28 Integration of Phenotyping & Metabolic Profiling Create Unique Opportunities Analyze phenotype Metabolic profiling Identify important pathways + + Characterize mode of action Identification of new lead genes based on pathway knowledge Determine yield Expression profile Increased efficiency & efficacy of gene discovery 27
29 Conclusions TraitMill: result of continuous improvements Example of cost-effective, highly automated platform for screening yieldenhancement genes Large effects (>20%) on yield Different yield components: opportunities for trait stacking Know-How & Expertise In some cases, increased yield stability Phenotypes in the greenhouse confirm under field conditions Transfer of transgenic traits to other crops is ongoing 28
30 Thank You 29
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