Skip to main content
SpringerLink
Log in

Identification of duplicates for the optimization of carrot collection management

  • Published:
Biodiversity & Conservation Aims and scope Submit manuscript

Abstract

Molecular markers have proved their efficiency for the identification of duplicate accessions in genetic resources collections. Partners of the GENRES Carrot project decided to evaluate the use of molecular markers for the identification of carrot accession duplicates. As a model analysis, 21 presumed duplicate accessions of ‘Jaune du Doubs’ were selected. Only accessions that were not distinguished on a morphological basis were subjected to molecular analysis. The crucial question was to determine the threshold required to declare whether accessions were duplicates or not. We used a strategy based on the comparison between intravarietal and intervarietal genetic distances. DNA extractions were made on 4–8 bulks of five individuals per accession, and the bulks were analysed using 75 AFLP markers. An additional set of 7 bulks was extracted from one accession to provide true control replicates. With the exception of the true duplicates, all the accessions were clearly differentiated. Based on these results, a general strategy for the identification of carrot duplicates is proposed.

This is a preview of subscription content, log in via an institution to check access.

Access this article

Log in via an institution

Price excludes VAT (USA)
Tax calculation will be finalised during checkout.

Instant access to the full article PDF.

Institutional subscriptions

Similar content being viewed by others

References

  • D. Astley (2000) The future of European carrot: a programme to conserve characterise evaluate and collect carrot and wild relatives. EC Contract: GENRES CT99-105 Horticulture Research International Welesbourne, UK 21 pp

    Google Scholar 

  • J.B. Bamberg S.D. Kiru A.H. del Rio (2001) ArticleTitleComparison of reputed duplicate populations in the Russian and US potato genebanks using RAPD markers American Journal of Potato Research 78 365–369 Occurrence Handle10.1007/BF02884345

    Article  Google Scholar 

  • M. Briard V. Le Clerc D. Grzebelus D. Senalik P.W. Simon (2000a) ArticleTitleImproved plant genomic DNA preparation for AFLPtm analysis and visualization with radioisotope or silver stain Plant Molecular Biology Reporter 18 235–241 Occurrence Handle10.1007/BF02823994 Occurrence Handle1:CAS:528:DC%2BD3cXptValsL0%3D

    Article  CAS  Google Scholar 

  • M. Briard V. Le Clerc D. Peltier A. Veret J.Y. Péron (2000b) ArticleTitleMolecular analysis of the genetic variability within the Apiaceae family Acta Horticulturae 521 155–163 Occurrence Handle1:CAS:528:DC%2BD3cXjtFajt7c%3D

    CAS  Google Scholar 

  • Briard M., Le Clerc V., Mausset A.E. and Veret A. 2001. A comparative study on the use of ISSR, Microsatellites and RAPD markers for varietal identification of carrot genotypes. In: Dore’ C., Dosba F. and Baril C. (eds), Proceedings of the International Symposium on Molecular Markers for Characterizing Genotypes and Identifying Cultivars in Horticulture, Montpellier, France, 6– 8 March 2000. Acta Horticulturae 546: 377–385.

  • W. Cao P. Hucl G. Scoles R.N. Chibbar (1998) ArticleTitleGenetic diversity within spelta and macha wheats based on RAPD analysis Euphytica 104 181–189 Occurrence Handle10.1023/A:1018628102650

    Article  Google Scholar 

  • A.H. Del Rio J.B. Bamberg (2000) ArticleTitleRAPD markers efficiently distinguish heterogenous populations of wild potato (Solanum) Genetic Resources and Crop Evolution 47 115–121 Occurrence Handle10.1023/A:1008725121904

    Article  Google Scholar 

  • P. Dubreuil C. Rebourg M. Merlino A. Charcosset (1999) ArticleTitleEvaluation of DNA pooled sampling strategy for estimating the RFLP diversity of maize populations Plant Molecular Biology Reporter 17 123–128 Occurrence Handle10.1023/A:1007571101815 Occurrence Handle1:CAS:528:DyaK1MXntVSqsbg%3D

    Article  CAS  Google Scholar 

  • B.V. Ford-Lloyd M.T. Jackson H.J. Newbury (1997) Molecular markers and the management of genetic resources in seed genbanks: a case study of rice J.A. Callow B.V. Ford-Lloyd H.J. Newbury (Eds) Biotechnology and Plant Genetic Resources CAB International Walligford, UK 103–118

    Google Scholar 

  • J.E. Gilbert R.V. Lewis M.J. Wilkinson P.D.S. Caligari (1999) ArticleTitleDeveloping an appropriate strategy to assess genetic variability in plant germplasm collections Theoretical and Applied Genetics 98 1125–1131 Occurrence Handle10.1007/s001220051176 Occurrence Handle1:CAS:528:DyaK1MXktFSmsLk%3D

    Article  CAS  Google Scholar 

  • Grzebelus D., Baranski R., Jagosz B., Michalik B. and Simon P.W. 2001. Comparison of RAPD and AFLP techniques used for the evaluation of genetic diversity of carrot breeding materials. In: Dore’ C., Dosba F. and Baril C. (eds), Proceedings of the International Symposium on Molecular Markers for Characterizing Genotypes and Identifying Cultivars in Horticulture, Montpellier, France, 6–8 March 2000. Acta Horticulturae 546: 413–416.

  • D. Grzebelus M. Szklarczyk B. Michalik (1997) ArticleTitleThe use of RAPD markers for genotype identification of carrot lines and F1 hybrids Journal of Applied Genetics 38A 33–41

    Google Scholar 

  • M.M. Hansen E. Kenchington E.E. Nielsen (2001) ArticleTitleAssigning individual fish to populations using microsatellite DNA markers Fish Fish. 2 93–112

    Google Scholar 

  • C. Kubik M. Sawkins W.A. Meyer B.S. Gaut (2001) ArticleTitleGenetic diversity in seven Perennial Ryegrass (Lolium perenne L.) cultivars based on SSR markers Crop Science 41 1565–1572 Occurrence Handle1:CAS:528:DC%2BD38XmsVanurw%3D Occurrence Handle10.2135/cropsci2001.4151565x

    Article  CAS  Google Scholar 

  • S. Kumar Verma V. Khanna N. Singh (1999) ArticleTitleRandom amplified polymorphic DNA analysis of Indian scented basmati rice (Oryza sativa L.) germplasm for identification of variability and duplicate accessions, if any Electrophoresis 20 1786–1789 Occurrence Handle10.1002/(SICI)1522-2683(19990101)20:8<1786::AID-ELPS1786>3.0.CO;2-5

    Article  Google Scholar 

  • V. Le Clerc (2001) Etude de la diversité génétique chez la carotte (Daucus carota L.): mise au point de stratégies d’analyse et de régénération des ressources génétiques Angers University France

    Google Scholar 

  • Le Clerc V., Briard M. and Peltier D. 2000. Carrot genetic substructure evaluation: comparison of the effciency of mapped molecular markers and randomly chosen markers. In: Dore’ C., Dosba F. and Baril C. (eds), Proceedings of the International Symposium on Molecular Markers for Characterizing Genotypes and Identifying Cultivars in Horticulture, Montpellier, France, 6–8 March 2000. Acta Horticulturae 546: 127–134.

  • V. Le Clerc M. Briard P. Revollon (2002) ArticleTitleInfluence of number and map distribution of AFLP markers on similarity estimates in carrot Theoretical and Applied Genetics 106 157–162 Occurrence Handle12582884 Occurrence Handle1:STN:280:DC%2BD3s%2Fnt1aqsA%3D%3D

    PubMed  CAS  Google Scholar 

  • C.E. McGregor R. van Treuren R. Hoekstra Th.J. van Hintum (2002) ArticleTitleAnalysis of the wild potato germplasm of the series Acaulia with AFLPs: implications for ex situ conservation Theoretical and Applied Genetics 104 146–156 Occurrence Handle12579440 Occurrence Handle10.1007/s001220200018 Occurrence Handle1:CAS:528:DC%2BD38XitFyjtbw%3D

    Article  PubMed  CAS  Google Scholar 

  • S.C. Lougheed H.L. Gibbs K.A. Prior P.J. Weatherhead (2000) ArticleTitleA comparison of RAPD versus microsatellite DNA markers in population studies of the Massasauga Rattlesnake American Genetic Association 91 458–463 Occurrence Handle1:CAS:528:DC%2BD3MXht1SrtL0%3D

    CAS  Google Scholar 

  • A. Negash A. Tsegaye PrefixVan R. Treuren B. Visser (2002) ArticleTitleAFLP analysis of enset clonal diversity in south and southwestern Ethiopia for conservation Crop Science 42 1105–1111 Occurrence Handle1:CAS:528:DC%2BD38XmsVant7w%3D Occurrence Handle10.2135/cropsci2002.1105

    Article  CAS  Google Scholar 

  • D. Paetkau W. Calvert I. Sterling C. Strobeck (1995) ArticleTitleMicrosatellite analysis of population structure in Canadian polar bears Molecular Ecology 4 347–354 Occurrence Handle7663752 Occurrence Handle10.1111/j.1365-294X.1995.tb00227.x Occurrence Handle1:CAS:528:DyaK2MXntValu78%3D

    Article  PubMed  CAS  Google Scholar 

  • X. Perrier (1998) Analyse de la diversité génétique: mesures de dissimilarité et représentations arborées Montpellier II University France

    Google Scholar 

  • S.I. Shim R.B. Jorgensen (2000) ArticleTitleGenetic structure in cultivated and wild carrots (Daucus carota L.) revealed by AFLP analysis Theoretical and Applied Genetics 101 227–233 Occurrence Handle10.1007/s001220051473 Occurrence Handle1:CAS:528:DC%2BD3cXlvVyksbo%3D

    Article  CAS  Google Scholar 

  • R.R. Sokal C.D. Michener (1958) ArticleTitleA statistical method for evaluating systematic relationships University of Kansas Science Bulletin 38 1409–1438

    Google Scholar 

  • Prefixvan R. Treuren (2001) ArticleTitleEfficiency of reduced primer selectivity and bulked DNA analysis for the rapid detection of AFLP polymorphisms in a range of crop species Euphytica 117 27–37 Occurrence Handle10.1023/A:1004003121622

    Article  Google Scholar 

  • P.S. Virk H.J. Newbury M.T. Jackson B.V. Ford-Lloyd (1995) ArticleTitleThe identification of putative duplicate accessions within a rice germplasm collection using RAPD analysis Theoretical and Applied Genetics 90 1049–1055 Occurrence Handle10.1007/BF00222920 Occurrence Handle1:CAS:528:DyaK2MXnsF2ru7g%3D

    Article  CAS  Google Scholar 

  • P. Vos R. Hogers M. Bleeker M. Reijans PrefixVan T. de Lee M. Hornes et al. (1995) ArticleTitleAFLP: a new technique for DNA fingerprinting Nucleic Acids Research 23 4407–4414 Occurrence Handle7501463 Occurrence Handle10.1093/nar/23.21.4407 Occurrence Handle1:CAS:528:DyaK2MXpslensbo%3D

    Article  PubMed  CAS  Google Scholar 

  • Zhang D.P., Huaman Z., Rodriguez F., Rossel G. and Ghislain M. 2001. Identifying duplicates in sweet potato (Ipomea batatas (L.) Lam) cultivars using RAPD. In: Dore’ C., Dosba F. and Baril C. (eds), Proceedings of the International Symposium on Molecular Markers for Characterizing Genotypes and Identifying Cultivars in Horticulture, Montpellier, France, 6–8 March 2000. Acta Horticulturae 546: 535–541.

Download references

Author information

Authors and Affiliations

  1. Institut National d‘Horticulture, Génie Biologique appliqué à l’Horticulture, 2, Rue Le Nôtre, Angers, cedex 01, France, F-49045

    Valerie Le Clerc, Anita Suel & Mathilde Briard

Authors
  1. Valerie Le Clerc
    View author publications

    You can also search for this author in PubMed Google Scholar

  2. Anita Suel
    View author publications

    You can also search for this author in PubMed Google Scholar

  3. Mathilde Briard
    View author publications

    You can also search for this author in PubMed Google Scholar

Corresponding author

Correspondence to Mathilde Briard.

Rights and permissions

Reprints and permissions

About this article

Cite this article

Le Clerc, V., Suel, A. & Briard, M. Identification of duplicates for the optimization of carrot collection management. Biodivers Conserv 14, 1211–1223 (2005). https://doi.org/10.1007/s10531-004-7847-y

Download citation

  • Received:

  • Accepted:

  • Issue Date:

  • DOI: https://doi.org/10.1007/s10531-004-7847-y

Keywords

Search

Navigation