Plant Molecular Biology Reporter

, Volume 31, Issue 2, pp 280–288 | Cite as

Analysis of the Genetic Structure of a Barley Collection Using DNA Diversity Array Technology (DArT)

  • J. Ovesná
  • L. Kučera
  • K. Vaculová
  • J. Milotová
  • J. Snape
  • P. Wenzl
  • E. Huttner
  • A. Kilian
  • G. Martelli
  • L. Milella
Original Paper

Abstract

Analysis of the extent of genetic variation within genetic resources is important for diversity preservation and also for breeders who exploit it. We investigated the recently introduced molecular marker technique of DNA diversity array technology (DArT), with the objective of characterising diversity in the likely relatively narrow genetic background of Czech malting barley cultivars. A total of 94 obsolete or registered barley cultivars and some hulless barley lines primarily of Czech origin were characterised by DArT analysis. A total of 271 polymorphic marker alleles were revealed across the analysed set of accessions, 37 of which were identified as being overrepresented; the other 234 markers were used for further analysis. The average dissimilarity value within the analysed set of accessions was 0.692. To assess how well DArT is suited for individual barley characteristic evaluation, available agronomical data from three yield field trials were used. Out of 94 barley genotypes used in the field trials that were assessed by DArTs, 41 have been grown over time as malting cultivars in the region. Similarity matrices based on Gower’s coefficient for mixed data and simple matching coefficient were used to compare DaRT and agronomical results. We demonstrate that a DArT-based similarity matrix and an agronomical data-based similarity matrix correlated well. To assess the genetic structure of the entire collection, K-means and simple matching coefficient clustering were used. Statistical analysis confirmed the power of the DArT system, in fact they efficiently grouped old genetic resources and modern cultivars in the expected way. Our results show that the level of genetic diversity has not changed substantially over time, but significant shifts in allelic frequency have occurred. In addition, a DArT-based dendrogram and principal component analysis (PCA) plots clearly demonstrated the impact of breeding practices on the diversity of Czech spring malting barley cultivars over time.

Keywords

Field data Genetic resource Malting barley Array Similarity 

Notes

Acknowledgements

This work was supported by the Ministry of Agriculture of the Czech Republic, project 002700604, and the Ministry of Education, Youth and Sports of the Czech Republic projects OC10017, Ministry of Education, Youth and Sports (MEYS): 2532885901.

Supplementary material

11105_2012_491_MOESM1_ESM.pdf (135 kb)
Supplementary Table 1Barley cultivars released in the Czech Republic and former Czechoslovakia in 1884–1998 and their end-use qualities (PDF 135 kb)
11105_2012_491_MOESM2_ESM.pdf (329 kb)
Supplementary Table 2The means (and standard deviations) of the agronomical and the chemical parameters measured (PDF 328 kb)
11105_2012_491_MOESM3_ESM.pdf (11 kb)
Supplementary Table 3Variability within the collection of 94 barley cultivars (71 spring malting cultivars) used in different time periods based on DArT marker incidence and SM metrics. (PDF 10 kb)

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Copyright information

© Springer-Verlag 2012

Authors and Affiliations

  • J. Ovesná
    • 1
  • L. Kučera
    • 1
  • K. Vaculová
    • 2
  • J. Milotová
    • 2
  • J. Snape
    • 3
  • P. Wenzl
    • 4
  • E. Huttner
    • 4
  • A. Kilian
    • 4
  • G. Martelli
    • 5
  • L. Milella
    • 5
  1. 1.Crop Research InstitutePrague 6Czech Republic
  2. 2.Agricultural Research Institute Kromeriz, and Agrotest fytoKroměřížCzech Republic
  3. 3.John Innes CentreNorwich Research ParkColneyUK
  4. 4.Diversity Arrays Technologies and TriticarteCanberraAustralia
  5. 5.Deparment of ScienceUniversity of BasilicataPotenzaItaly

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