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Developing a core collection of olive (Olea europaea L.) based on molecular markers (DArTs, SSRs, SNPs) and agronomic traits

Abstract

Molecular markers (SSR, SNP and DArT) and agronomical traits have been used in the world’s largest olive (Olea europaea L.) germplasm collection (IFAPA, Centre Alameda del Obispo, Cordoba, Spain) to study the patterns of genetic diversity and underlying genetic structure among 361 olive accessions. In addition the marker data were used to construct a set of core collections by means of two different algorithms (MSTRAT and PowerCore) based on M (maximization) strategy. Our results confirm that the germplasm collection is a useful source of genetically diverse material. We also found that geographical origin is an important factor structuring genetic diversity in olive. Subsets of 18, 27, 36, 45 and 68 olive accessions, representing respectively 5%, 7.5%, 10%, 12.5% and 19% of the whole germplasm collection, were selected based on the information obtained by all the data set as well as each marker type considered individually. According to our results, the core collections that represent between 19% and 10% of the total collection size could be considered as optimal to retain the bulk of the genetic diversity found in this collection. Due to its high efficiency at capturing all the alleles/traits states found in the whole collection, the core size of 68 accessions could be of special interest for genetic conservation applications in olive. The high average genetic distance and diversity and the almost equal representation of accessions from different geographical regions indicate that the core size of 36 accessions, could be the working collection for olive breeders.

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Acknowledgements

The present work was partly supported by Fundación Genoma España, Junta de Andalucia through Instituto de Investigación y Formación Agraria y Pesquera and Corporación Tecnológica de Andalucía. The authors acknowledge the contribution of Luis Rallo during the development of this study. Thanks are due to the Spanish National Institute for Research in Agricultura (INIA) which supported the conservation and identification of WOGB, through the Projects FEDER-INIA: RFP2009-00008, RF2009-00011-00-00. We acknowledge the technical contribution of C. Calderón for DNA extraction. A. Belaj has got a postdoctoral INIA contract (Subprograma DOC-INIA) National Institute of Agricultural Research (INIA), Ministry of Education and Culture, Spain. M.C. Dominguez-García is in debt to the INIA for a PhD grant.

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Correspondence to Angjelina Belaj.

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Communicated by G. G. Vendramin

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Supplementary material file 1

Structure data of the olive accessions from the WOGB collection included in the development of the core collection. Q values for the STRUCTURE analysis for both K = 2 and K = 3 are shown. Register number of the accessions in the WOGB collection, their country and Mediterranean regions of origin are also indicated (EXCEL format) (XLS 85 kb)

Supplementary material file 2

List of cultivars included in the five core collections (EXCEL format) (XLS 32 kb)

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Belaj, A., Dominguez-García, M.d.C., Atienza, S.G. et al. Developing a core collection of olive (Olea europaea L.) based on molecular markers (DArTs, SSRs, SNPs) and agronomic traits. Tree Genetics & Genomes 8, 365–378 (2012). https://doi.org/10.1007/s11295-011-0447-6

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  • DOI: https://doi.org/10.1007/s11295-011-0447-6

Keywords

  • Olive germplasm
  • Genetic diveristy
  • Core sets
  • Molecular markers
  • Olive breeding