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Marker-assisted reduction of redundancy in a genebank collection of cultivated lettuce

Published online by Cambridge University Press:  05 January 2010

R. van Treuren ,
E. C. de Groot ,
I. W. Boukema ,
C. C. M. van de Wiel  and
Th. J. L. van Hintum
R. van Treuren*
Affiliation:
Centre for Genetic Resources, The Netherlands, Wageningen University and Research Centre, PO Box 16, 6700 AAWageningen, The Netherlands
E. C. de Groot
Affiliation:
Centre for Genetic Resources, The Netherlands, Wageningen University and Research Centre, PO Box 16, 6700 AAWageningen, The Netherlands
I. W. Boukema
Affiliation:
Centre for Genetic Resources, The Netherlands, Wageningen University and Research Centre, PO Box 16, 6700 AAWageningen, The Netherlands
C. C. M. van de Wiel
Affiliation:
Plant Research International B.V., Business Unit Biodiversity and Breeding, Wageningen University and Research Centre, PO Box 16, 6700 AA, Wageningen, The Netherlands
Th. J. L. van Hintum
Affiliation:
Centre for Genetic Resources, The Netherlands, Wageningen University and Research Centre, PO Box 16, 6700 AAWageningen, The Netherlands
*
*Corresponding author. E-mail: robbert.vantreuren@wur.nl
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Abstract

To reduce the level of redundancy in a collection of cultivated lettuce, data from 160 amplified fragment length polymorphism (AFLP) fragments and 10 polymorphic microsatellites were used in combination with passport data and morphological data, the latter obtained from an experimental field trial performed for verification purposes. Based on the observed distribution of the number of marker differences between and within accessions, a minimum of three AFLP differences and two microsatellite differences were regarded as levels warranting distinction between accessions in the redundancy analysis. The strategy followed in the redundancy analysis was mainly based on the confirmation of duplication by each of two independently generated data sources. The molecular data were used for the validation as well as the identification of potential duplicates, revealing a total number of 198 redundancies, corresponding to 12.9% of the total collection. Trueness to type, number of characterization and evaluation data, and collection management considerations, such as available seed quantities and germination percentages, were used as primary, secondary and tertiary criteria to decide which accession from duplication groups to maintain in the collection. Removal of accessions showed negligible effects on total collection diversity, as quantified for AFLPs and microsatellites, characterization and evaluation traits and resistance profiles against downy mildew pathotypes, indicating that the applied strategy was effective.

Keywords

genebank efficiencygermplasm collectionLactuca sativamolecular markersrationalization
Type
Research Article
Information
Plant Genetic Resources , Volume 8 , Issue 2 , August 2010 , pp. 95 - 105
Copyright
Copyright © NIAB 2010

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