Amman Workshop - Overview - M MacKay
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Transcript of Amman Workshop - Overview - M MacKay
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Global information on germplasm accessions project – an overview
Michael Mackay
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What is the project about?
• Partnership between GCDT, ITPGRFA & Bioversity to support the global system.
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GCDT Vision of a Global SystemGCDT Vision of a Global SystemGCDT Vision of a Global SystemGCDT Vision of a Global System
GlobalGlobalSystemSystem
RationalRational
EfficientEfficient
EffectiveEffectiveCost-efficientCost-efficient
SustainableSustainable
Based on a slide by Cary Fowler
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What is the project about?
• Partnership between GCDT, ITPGRFA & Bioversity to support the global system.
• Three components:– Data Standards– GRIN-Global– Accession level information portal to > 2M accessions
• Compliant with MLS and SMTA.• Delivery by April 2011.
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Project has 3 componentsProject has 3 componentsProject has 3 componentsProject has 3 components
plusDATA!!
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What is the project about?
• Partnership between GCDT, ITPGRFA & Bioversity to support the global system.
• Three components:– Data Standards– GRIN-Global– Accession level information portal to > 2M accessions
• Compliant with MLS and SMTA.• Delivery by April 2011.
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Data adds value to PGR
• Passport data been around for long time • This data alone is not so useful to facilitate
utilization – 50 year history, no exploitation methods had real impact – GCDT Crop Strategies etc
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So what’s the problem?
Improving conservation
Improving data
Improving use:Choosing the right samples for your needs
Courtesy: R Sackville-Hamilton
Vavilov (1957) emphasizes need to select correct‘starting material’ for crop improvement.
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National Focal Point
regional
global
national
CGNCGN GRINGRINNGBNGBBLEBLE AGRIAGRI VIRVIR NFPs/NIs..NFPs/NIs..
CGIAR / SINGER EUROPA /EURISCO North America /GRIN
NDL AZE RUS … ISL NOR DNK SWE FIN USA CANDEU
GlobalSystem
…
= “Who has What and Where?”
PassportPhenotype
Others…Models
MLSAEGIS
sMTA,Others
Models
Global portal for accessing and utilizing PGR
Passport
Phenotype
Others…
Models
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Information adds value -
• Combinations of passport, characterization, evaluation and environmental data allowed selection of right accessions to double the number of known functional alleles for Pm3 locus in just two years.
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Example of Impact : Allele mining
1 FIGS = Focused Identification of Germplasm Strategy (various, incl. Mackay et al, manuscript in preparation)
2 Kaur et al. Eur J Plant Pathol (2008) 121:387–397
• 16,000 bread wheat landraces• 1,300 chosen using FIGS1 method
(Passport + evaluation + GIS + environment data)
• Phenotyping showed 211 accessions either R or IR
• For Pm3: 2
• 100 years classic genetics = 7 alleles
• FIGS + MoBo + 2 years = 7 new alleles
• At least two have new race specificity
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C & E Data
• Who will use this type of data?– Policy maker– Bureaucrat– Student– Scientist
• Make sure we focus on who the user is, what the user wants and then provide appropriate functionality.
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C & E “+” Data
P D
ata
Methods
Users
?
answer
LocationLocation
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Needle in a haystack?
6 million accessions in 1500 gene banks
Scientist wants a few hundredaccessions to evaluate for a
particular trait
How does thescientist selecta small subsetlikely to have
the trait?
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C & E Data Options
• Considered difficult to add C & E data, but GRIN & ICIS have been doing for some time.
• Difficulty not so much in storing data, but more in getting, managing & facilitating its use.– Need a method of accepting any data contributed – Need to link ''families" of data. E.g. All drought related
evaluation data, despite different methods, approaches etc – PGR users need to easily find the data they seek – Possible solutions....
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Other data options
• Environmental data for any geo-referenced accessions – FIGS approach offers 60+ environmental parameters
• Visualization through mapping, download to Google Earth etc
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Another option to consider…
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The project also…
Developing these approaches including options for:• Uploading data• Web services tools• Flexible genebank management software with
built-in client, network and web functionality• Opportunity for ECPGR etc to take advantage of
these developments
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Demonstration web site - 01
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Adding environmental data…
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And visualization functionality ….
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