web components for genetic resources site, observation methodology and evaluation data

www.jki.bund.de

Web components for genetic resources site, observation methodology and

evaluation data

Ch. U. Germeier & L.Frese

WBN 2012, Capelle en Pevele

An Integrated European In Situ management work plan: implementing genetic reserves and on farm concepts (AEGRO)

Avena Genetic Resources for Quality in Human Consumption (AVEQ)

Population level information systems for model crops (e.g. Beta).An integrated model for in situ and ex situ data.Data sources and analysis for Beta.Searching, mapping and editing in PLIS Beta.

Web based components for AEGRO and AVEQ

Online repository and roadmap for observation methodologies in evaluation.Field plan generation.Generate lists and spreadsheet templates for field observations.Edit experiment and treatment details including strains for artificial inoculation.Import spreadsheets and upload plot pictures.

Outlook


- Development of information models for in situ management of plant genetic resources field work on the population level.

- Integration of historical occurrence (distribution) data.

- Propose concepts for data exchange and the integration of project results in existing information systems (e.g. the European Central Crop Databases).

- Development of a web application for information on already known sites and additional tools supporting in situ field work (mobile application based on the CyberTracker development framework).

Population level information systems for model crops

(Avena, Beta, Brassica, Prunus)


Ex Situ

Accession

In Situ

An Integrated Model for In Situ and Ex Situ Data

Occurrence is collected n1

is within a1

n

CharacterisationEvaluation

Site

(Protected) Area

Location(administrative unit)

is within a1

n

Political Environment

is within a1

n

Ecogeography:ClimateSoilHabitatVegetation

Individual

Patch 1

n

n1

Monitoring1 n

Nat

ural

Env

ironm

ent


Biological Data Sources

GBIF Excel downloads (2007)EURISCO Excel downloads (2007)PCGRIN DBase download (2007)ECCDB: IDBB (2007)

Number of entries(accession, cataloguenumber)

20 355* 7 155*2 506**10 435**

* restricted to Europe ** worldwide

EUROSTAT (NUTS / LAU, 2003) * 111 074 locations described on 4 levels

Natura 2000 Database (J.Iriondo to detect occurrences in protected areas)

Geographic Data Sources

Data Sources Beta


Protected area (Natura 2000) inside outsideGenebank representation no yes no yesBeta 4 109 34 896

Beta corolliflora 4 137Beta intermedia 266Beta lomatogona 3 181Beta macrocarpa 18 27 90 87

Beta macrorhiza 4 65Beta nana 8 68 3 9

Beta patula 2 10

Beta trigyna 5 2 111 38Beta vulgaris 333 239 2400 1973

Beta vulgaris L. subsp. adanensis 6 23 22

Beta vulgaris L. subsp. maritima 967 131 5600 823

Beta vulgaris L. subsp. vulgaris 63 105 1280 1381

Patellifolia patellaris 6 19 48 66Patellifolia procumbens 1 13 9 31Patellifolia webbiana 6 1 12

Analysis of occurrences for Beta


Searching through a geographic hierarchy


Map occurrences in protected or non-protected areas


Interactive correction of occurrence data


Would it work with BioGeomancer ?


Interactive correction of occurrence data


Searching through a taxonomic hierarchy


Mapping a Large Taxon (B. vulgaris ssp. maritima)


- Online repository for observation methodologies,

Develop web solutions for managing cooperative multisite genetic resources evaluation and facilitate the inclusion of project data into a central database by promoting standardized ways of documentation and data generation:

- Online description of field experiments and treatments,

- Online fieldplan generation, download of pdf and Excel templates,

- Spreadsheet upload with routine calculations (e.g. emergence, yield, seed weight)

AVEQ: Avena genetic resources for quality in human consumption


Online repository for observation methodologies


Methodology roadmap for evaluation experiments


Online – Fieldplan Generation


Generate Lists and Excel Templates for Field Observations


Edit Experiment Details


Edit Treatment Details


Edit Pathogen Strains


Calculators: - Percentages- Area extrapolation- Sample moisture harmonization

Map and Upload Excel Files


Documentation of Plot Pictures


OutlookVision:- The user community manages the database themselves by using the

online tools.- They are able to adapt and further develop these tools for their purposes

themselves with the source code available in an open source repository.

Next steps:- All source code developed for AEGRO and AVEQ will be made available in

CropForge together with journal publications.

New projects:- Mobile apps for using the IDBB in exploration and monitoring of

in situ CWR resources?- Using and improving the online tools developed for AVEQ in a

Beta evaluation and characterization project? - Still to be done: update of passport data and / or stronger

integration with EURISCO and GRIN passport data – will be difficult to attract funds for that.


Thanks for your attention

Acknowledgements:Carsten Höhne, Stefan Unger, Alexander Henning (Software Development)All project partners

European Commission, DG AGRI council regulation 870/2004Peter Koelln KGaA, Elmshorn, GermanyEmco Ltd., Praha, Czech RepublicGemeinschaft zur Förderung der privaten deutschen Pflanzenzüchtung e.V. (GFP), Bonn, Germany

web components for genetic resources site, observation methodology and evaluation data

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