Current taxonomic composition of European genebank material documented in EURISCO

Taxonomy plays an essential role in genebank documentation. It is often the first level at which users search material, and it determines the protocols used in the management of collections. Especially, when plant genetic resources information is pooled in systems such as EURISCO, the European catalogue of ex situ plant genetic resources, problems regarding technical handling of taxonomic nomenclature, such as lack of standardization and low quality of data, become apparent. These problems were studied by analysing the content of EURISCO and mapping the taxon names in EURISCO on those used in the United States Department of Agriculture genebank system GRIN-Tax. Thus, the number of spelling errors and the level of standardization could be quantified and improved. An analysis of the content of EURISCO was made, showing a highly unbalanced distribution over crops: 50% of the accessions belong to ten genera only. Mapping EURISCO on the crops listed in Annex 1 of the International Treaty on Plant Genetic Resources for Food and Agriculture showed that 67% of the accessions in EURISCO belong to crops in that list

To Serve and Conserve: strengthening germplasm evaluation to focus on users' needs

Powerpointpresentatie over het gebruik van genenbanken: focus op wat de gebruiker nodig heeft

The European ex situ PGR Information Landscape

In this paper the authors try to describe the current situation regarding the documentation of Plant Genetic Resources (PGR) maintained in ex situ collections in Europe. It will tackle the systems that are used to manage the information involved, the mechanisms and systems that exist to exchange this information, and we will discuss the developments and challenges in this area. Apart from this technical description, the authors also try to give a functional description of the changing role of these systems in the light of international, technical and legal developments

Marker-assisted optimization of an expert-based strategy for the acquisition of modern lettuce varieties to improve a genebank collection

To regularly improve the composition of the lettuce collection of the Centre for Genetic Resources, the Netherlands (CGN) with modern varieties, feedback from crop experts is used to select approximately 10% of the new material for incorporation in the collection. In the present study, assessments of six experts were compared to microsatellite data of 414 new varieties and 1408 existing accessions. Based on the microsatellite data, the extent to which the genetic diversity of the collection would be enriched (added value) was calculated for specific sets of new varieties. When individual assessments of experts were evaluated, the total added value of expert-based selections was not significantly higher compared to randomly chosen groups, except for a single expert. Unfamiliarity with new varieties was shown to be a crucial factor in the assessment of crop experts. According to the current acquisition protocol that seeks for consensus among experts, varieties are selected based on recommendations from at least three experts. This protocol also did not perform better than randomly chosen groups of new varieties. However, significantly better results were obtained with alternative protocols. It was concluded that breeding value was a more decisive criterion in the current acquisition protocol than maximal extension of the genetic diversity within the collection. A modified protocol addressing both commercial and diversity aspects was suggested in order to meet the demands of plant breeders as well as conservationist

Innovation in conservation, how information technology tools improve the ex situ management of plant genetic resources

Many new technologies highly relevant to the PGR community have become available over the past years, especially in the fields of genomics and information technology. The effect of the second category of technologies on the ex situ manage-ment of plant genetic resources is explored. After a low initial level of standardization in genebank documentation systems, a strong increase of access and exchange of infor¬mation could be observed. Important elements behind this increase are standardiza¬tion - creating the possibility to interpret each others information - and web services - creating the possibilities for machines to access each others information via the internet. Some aspects of these developments such as the application of ontologies, persistent identifiers and anticipated developments such as the increased use of open source software, are presented. Also for the user of PGR and associated information many improvements can be foreseen. Ongoing developments include on-line querying and ordering facilities, and trait prediction. A final element that will be described is the development of virtual genebanks: thanks to IT tools, the management of PGR and the interfaces to these PGR can be decoupled. As a result, anyone can develop a website giving access to PGR, including the possibility to order material in one or more genebanks anywhere in the world

Optimization of the composition of crop collections for ex situ conservation

Many crop genetic resources collections have been established without a clearly defined conservation goal or mandate, which has resulted in collections of considerable size, unbalanced composition and high levels of duplication. Attempts to improve the composition of collections are hampered by the fact that conceptual views to optimize collection composition are very rare. An optimization strategy is proposed herein, which largely builds on the concepts of core collection and core selection. The proposed strategy relies on hierarchically structuring the crop gene pool and assigning a relative importance to each of its different components. Comparison of the resulting optimized distribution of the number of accessions with the actual distribution allows identification of under- and over-representation within a collection. Application of this strategy is illustrated by an example using potato. The proposed optimization strategy is applicable not only to individual genebanks, but also to consortia of cooperating genebanks, which makes it relevant for ongoing activities within projects that aim at sharing responsibilities among institutions on the basis of rational conservation, such as a European genebank integrated system and the global cacao genetic resources network CacaoNet

Genetic erosion in crops: concept, research results and challenges

The loss of variation in crops clue to the modernization of agriculture has been described as genetic erosion The current paper discusses the different views that exist on the concept of genetic erosion in crops Genetic erosion of cultivated diversity is reflected in a modernization bottleneck in the diversity levels that occurred during the history of the crop Two stages in this bottleneck are recognized the initial replacement of landraces by modern cultivars, and further trends in diversity as a consequence of modern breeding practices Genetic erosion may occur at three levels of integration crop, variety and allele The different approaches in the recent literature to measure genetic erosion in crops are reviewed. Genetic erosion as reflected in a reduction of allelic evenness and richness appears to be the most useful definition, but has to be viewed in conjunction with events at variety level According to the reviewed literature, the most likely scenario of diversity trends during modernization is the following a reduction in diversity clue to the replacement of landraces by modern cultivars, but no further reduction after this replacement has been complete

Reliability of germination testing of ex situ conserved seeds: a genebank case study on outsourced analyses

Germination tests are performed on a routine basis to determine the viability of genebank accessions. The results determine which accessions have to be rejuvenated. The reliability of the germination test results used by the Centre for Genetic Resources, the Netherlands was determined by the retesting of 641 random samples anonymously, in the same year and by the same testing agency as the original tests. Results showed alarmingly low reliabilities, with error levels much higher than expected based on sampling effects. The result of a germination test of a random sample with a germination of 80% was shown to have a 95% confidence interval from 63 to 97%. The errors differed strongly over crops and testing years, and were larger for crop wild relatives than for crop species