CAPFITOGEN tools. Facilitated spatial and ecogeographical germplasm analysis for efficient PGR conservation and utilization

Tools

Facilitated spatial and ecogeographical germplasm analysis for efficient PGR conservation and utilization

Mauricio Parra Quijano (ITPGRFA - Programme Coordinator)Francisco López (ITPGRFA)Elena Torres (UPM-Spain)José Iriondo (URJC-Spain)

Funded by:

And with technical support of:

Development

Transfer

Training

Building Capacity

National Programs and institutions

from Latin America

Idea + methodology development

Theoretical and practical scientific validation

Publication (peer review)

Data preparation R script development

Java / tomcat interface

Tool + documentation

Assistance

CAPFITOGEN tool release / distribution

GIS and ecogeographicapproaches on PGR

40° 20’ 33.4’’ N03° 11’ 52.1’’ W

Or paper maps…Gazeteers…Georeferencing softwareOld records…

Evaluate the quality of your collecting sites coordinates and locality description

Quality assessment on the georeferencing of the collecting sites included in passport data

Based on: Parra-Quijano et al., 2012. Gen Res Crop Evol59(2):205-217

Obtaining Ecogeographic Land Characterization (ELC) maps for a single species or group of related (specific maps) or unrelated species (generalist maps)

Ecogeographic germplasm (collecting sites) characterizations

Up to 105 ecogeographicvariables

EcogeographicCharacterizationmatrix

GeoreferencedPassport data

GIS

Elevation

Annual mean temp

Organic carbon on soil

pH soil

….….

Y

X

Perform ecogeographic characterizations of the georeferenced collecting sites

• Is your collection representative of the species’ environmental adaptive range?

Check the ecogeographical representativeness of your ex situ collection

GAPS!REPRESENTED

Evaluation of the ecogeographicalrepresentativeness of the germplasm collections

• Ocurrence of the highest levels of diversity in terms of average genotypic, phenotypic or ecogeographic distances among local

Identify where is located the diversity hotspots using phenotypic, genotypic or ecogeographic data

Maize studyAndean regionEcuador

Inspired onVan Zonneveld et al., 2012. PLoS ONE 7(1): e29845

Obtaining phenotipic, genotypic or ecogeographic“diversity” maps

Select a subset of accessions which represents the species’ ecogeographical range in your collection

A B

A

A

A

A

B

B B

B

C BA

A

B C

AA

AAB

B

BB

CBA

C

AA

A

A

AA

AA

CAB

A

B

CEcogeographicCoreCollection

Based on Parra Quijano et al., 2011. Crop Science 51:656-666

Generation of ecogeographic core collections based on ELC maps

Creating subsets of accessions with high probability to contain interesting traits

Annualprecipitation

Clay content

Slope

40

4

10% selectionintensity

FIGS subset (by filtering method)

Based on FIGS approach by Mackay,M., Street, K., Bari, A., Endresen, D. and other researchers

Waterlogging tolerance

Generation of subsets of breeding interest traits based on ecogeographic conditions of the collecting sites (Focused Identification Germplasm Strategy – filtering method)

CAPFITOGEN tools offer:

• Avoiding collecting in sites where other have been collecting in past expeditions

• Collecting germplasm in under or non-represented environments

• Collecting germplasm in sites with high probably of traits of interest occurrence

GEOQUAL +

ELCmapas +

Representa +

FIGS_R

Spanish

Portuguese

English

105 ecogeographical variables to select

With data available for more than 160 countries (national work frames)

Two sub-continental work frames (South and Meso-America)

One continent (Europe) and a world-wide work frame

1x1, 5x5, 10x10 and 20x20 km resolutions

Free access, free distribution

Programme to Strengthen

National Plant Genetic

Resource Capacities in Latin

America

Phase 1:

2012-2014

Seven tools focused on ex situ conservationUser guidesThree languages (Spanish, English, Portuguese)Two regional (Latin American) workshopsFour national workshops (Cuba, Spain, Honduras, Uruguay)About 150 trained technicians

Programme to Strengthen

National Plant Genetic

Resource Capacities in Latin

America

Phase 2:

2014-2016

Three new tools focused on in situ conservationUser’s networksE-Learning methodsTools on server (internet connection required, no installation)One final regional (Latin America + Spain + Portugal) workshopFour national workshops

Madrid, Spain, Nov 2013

Bogotá, Colombia, March 2013

Colonia, Uruguay, April 2014

Comayagua, Honduras, Nov 2013

Sancti Spitirus, Cuba, Sept 2013

Florianópolis, Brazil, May 2014

Birmingham, UK, Feb 2014

http://www.agrobiodiversidad.org/blog/?p=1039

http://www.planttreaty.org/capfitogen

capfitogen@fao.org

Mauricio.parra@fao.orgEmail: