EURISCO as a tool to assist in gap analysis of ex situ European CWR Sónia Dias Presented at the PGRForum Workshop 2: Threat and Conservation Assessment.

EURISCO as a tool EURISCO as a tool to assist in gap analysis of to assist in gap analysis of ex ex

situsitu European CWR European CWR

Sónia Dias

Presented at the PGRForum

Workshop 2: Threat and Conservation Assessment27-30 April 2005Korsör, Denmark

1.Background and objective

2.EURISCO, What it is and what it does

3.EURISCO for CWR

4.Gap analysis with EURISCO

5.5. Reasons Reasons for collectingfor collecting

6.Prospects

OverviewOverview

1. Background1. Background

• The EPGRIS project was approved under 5th Framework

programme, thematic Program “Quality Of Life And Management Of

Living Resources.

• The project aimed at establishing an infrastructure for information

on plant genetic resources (PGR) maintained ex situ in Europe.

• This European Inventory is called EURISCO, which stands for

European Internet Search Catalogue, and in ancient Greek means

"I find".

• EURISCO was an end product from the EPGRIS project.

• EURISCO Catalogue is maintained by IPGRI on behalf of ECP/GR.

The objective of EURISCO is toThe objective of EURISCO is to

Support the creation and providing technical support to National PGR Inventories

Develop an European PGR Search Catalogue with passport data on ex situ collections maintained in Europe by:

having the possibility to frequently update the catalogue from the National PGR Inventories

encouraging easy accessibility via the Internet

providing access to all ex situ PGR information in Europe thus facilitate locating and accessing PGR.

•EURISCO = European Search Catalogue

•First regional catalogue of PGR

•Contains passport information on over 911,000 accessions

•Provides access to information on PGR maintained in Europe

•Facilitates locating germplasm material

•Facilitates the access to germplasm material

•Updated through the National Inventories (NI)

•These data comes from 27 PGR Inventories, covering 31

European countries.

2. What it is and what it does

RolesRoles

1. Responsible of data sources & merges2. Ensure data quality & accuracy 3. Decide on data availability 4. Commit to provide data in the

EURISCO-MCPD data format Nat

ion

alN

atio

nal

1. Responsible of data checking of NI 2. Provide feedback to National Partners 3. Import NI data in EURISCO4. Develop and maintain front endC

entr

alC

entr

al

Data format (for the time being tab delimited)Essential descriptors

NICODEINSTCODEACCENUMB GENUS

Line per Line checkingUploading report generatedData provider contacted for approval….

Organization (data protocols)Organization (data protocols)

Organization (data protocols)Organization (data protocols)

Essential !!!Detailed checking

Basic checking

No real checking(for the time being)

Line per Line checkingRequired DescriptorsDescriptors coded

Sample statusCollecting sourceWith INSTCODE (BREDCODE…)

Descriptors semi-codedDatesCoordinates

Descriptors un-codedTaxonomy

...

Database software: MySQL (http://www.mysql.com)

Scripting language: PHP (http://www.php.net)

Web server: Apache (http://www.apache.org)

•EURISCO central node is developed with free software.

• EURISCO should be able to run on most OS (Linux, Windows, Mac…)

•All developments including codes are freely accessible.

Organization (data protocols)Organization (data protocols)

Data FlowData Flow

Data file Data file Data file

NationalInventory

NationalInventory

NationalInventory

Errors

Uploader

NFPNFP NFPNFPNFPNFP

EURISCO

3. EURISCO for CWR3. EURISCO for CWR

Ex situEx situ germplasm germplasm

CWRCWR

EuropeEurope

What are you looking for?What are you looking for?

What type of material?What type of material?

From where?From where?

What can be searched?What can be searched?

34488 Wild, Wild- Natural, Wild-Semi-natural accessions34488 Wild, Wild- Natural, Wild-Semi-natural accessions

1272 1272 GenusGenus

7870 7870

SpeciesSpecies

920147920147 AccessionsAccessions

National Inventory Holding Institute Genus, SpeciesGenus, Species, Sub-species Country sourceCountry source Sample statusSample status Collecting source Acquisition date Latitude and longitudeLatitude and longitude ElevationElevation Accession numbersAccession numbers Accession names Other number Breeding Institute Collecting Institute Donor Institute Safety duplication Institute Passport data Geographical distribution of accessionsGeographical distribution of accessions

What can be searched?What can be searched?

EURISCO descriptor list EURISCO descriptor list is an extension of the is an extension of the FAO/IPGRI Multi Crop FAO/IPGRI Multi Crop Passport Descriptor List Passport Descriptor List version 2 (December version 2 (December 2001)2001)

Download the MCPD:

http://www.ipgri.cgiar.org/publications/pubfile.asp?id_pub=124

http://www.ipgri.cgiar.org/publications/pdf/124.pdf

4. 4. Gap analysis with EURISCOGap analysis with EURISCO

Generally and for this purpose consider two main PhasesGenerally and for this purpose consider two main Phases

Phase I – Identify GapPhase I – Identify Gap

•Set up your gap questions

Phase II – Fill gapPhase II – Fill gap

•Set up plans/recommendations/actions

Yes.Yes.

No.No.

Not applicable.Not applicable.

Use EURISCOUse EURISCO

ÖÖ no action requiredno action required

XX Gap identified = action requiredGap identified = action required

= no action required= no action required

Spatial data

Predicting Species Distribution

Use GIS based packages for visualization, analysis and management of PGR data

•Administrative maps

•Present and future climate surfaces

•Protected area maps

•Environmental maps

•Human impact maps

Using spatial data

DIVA-GIS http://diva-gis.org/program.htm

•General system intended to visualize spatial distribution of biological collections

http://www.floramap-ciat.org/

•Principal components analysis coupled with a probability model

•Cluster analysis also can refine result and identify different adaptations in organism

Domain

http://www.cifor.cgiar.org/scripts/default.asp?ref=research_tools/domain/index.htm

•Generates maps of similarity or distance from the conditions at known points of presence, using the Gower metric method.

•Species distribution maps

•Information on adaptation of germplasm

•Diversity hotspots maps

•Areas of genetic erosion

•Gaps in collections

•Spatial targeting and prioritization for collecting, conservation and use

Accession passport data allows:

5. Reasons 5. Reasons for collectingfor collecting

Diversity is missing or under-Diversity is missing or under-represented in represented in ex situex situ collections collections

Gap FillingGap Filling

Gap AnalysisGap Analysis

•Areas inadequately coveredAreas inadequately covered

•Under represented Under represented agro/ecological conditionsagro/ecological conditions

•Missing or under-represented Missing or under-represented genotypes and taxa genotypes and taxa

•Better planned ecogeographic surveys

•Better decision making on what collecting needs are concerned

•Support the establishment and revision of management plans

•Contribute to recommend sites for new PA’s

•Identify hotspots for diversity.

EURISCO a tool evolving to:EURISCO a tool evolving to:

6. Prospects6. Prospects

•Support the implementation of restoration actions

•Contributes to plan regeneration and evaluation activities

•Contribute to decision making

•Contributes to biodiversity use and conservation

•Increase public awareness on PGR

•Reinforce link with integrated management systems.

EURISCO a tool evolving to:EURISCO a tool evolving to:

6. Prospects6. Prospects

http://eurisco.ecpgr.org

Thank youThank you