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Development and evaluation of expressed sequence tag-derived microsatellite markers for hop genotyping

  • Brief Communication
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Biologia Plantarum

Abstract

The use of expressed sequence tag-simple sequence repeat (EST-SSR) markers might reflect the better relationship among species or cultivars than markers previously used. The first set of 30 EST-SSR was developed in hop (Humulus lupulus L.). They represent 25 gene loci with total of 1268 EST sequences. They were used for characterization of 11 hop samples and cross-amplification in Humulus japonicus Sieb. et Zucc. The number of alleles per locus ranged from two to nine. The observed and expected heterozygosities ranged from 0.182 to 0.956 and from 0.233 to 0.775, respectively. We used EST-SSR markers for cluster analysis of hop genotypes. Dendrogram well matched with genealogical and geographical data for hop genotypes.

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Abbreviations

EST:

expressed sequence tag

SSR:

simple sequence repeat

UPGMA:

unweighted pair group method with arithmetic mean

References

  • Akkak, A., Scariot, V., Torello Marinoni, D., Boccacci, P., Beltromo, C., Botta, R.: Development and evaluation of microsatellite markers in Phoenix dactylifera L. and their transferability to other Phoenix species. — Biol. Plant. 53: 164–166, 2009.

    Article  CAS  Google Scholar 

  • Akritidis, P., Mylona, P.V., Tsaftaris A.S., Polidoros, A.N.: Genetic diversity assessment in greek Medicago truncatula genotypes using microsatellite markers — Biol. Plant. 53: 343–346, 2009.

    Article  CAS  Google Scholar 

  • Bassil, N.V., Gilmore, B., Oliphant, J.M., Hummer, K.E., Henning, J.A.: Genic SSRs for European and North American hop (Humulus lupulus L.). — Genet. Resour. Crop Evol. 55: 959–969, 2008.

    Article  Google Scholar 

  • Belkhir, K., Borsa, P., Chikhi, L., Raufaste, N., Bonhomme, F.: GENETIX 4.05, logiciel sous Windows TM pour la génétique des popu-lations. Laboratoire Génome, Populations, Interactions, CNRS UMR 5000, Université de Montpellier II, Montpellier 2004.

  • Castro, C.B., Harlow, L.D., Whittock, S.P., Leggett, G., Kotoulis, A.: DNA sequence and expression variation of valerophenone synthase (VPS) during hop (Humulus lupulus L.) cone development. — Ann. Bot. 102: 265–273, 2008.

    Article  PubMed  CAS  Google Scholar 

  • Čerenak, A., Jakše, J., Javorník, B.: Identification and differation of hop varieties using simple sequence repeat markers. — J. amer. Soc. brewing Chem. 62: 1–7, 2004.

    Google Scholar 

  • Feingold, S., Lloyd, Ć.J., Torero, Ć.N., Bonierbale, Ć.M., Lorenzen, J.: Mapping and characterization of new EST-derived microsatellites for potato (Solanum tuberosum L.). — Tudor. appl. Genet. 111: 456–466, 2005.

    Article  CAS  Google Scholar 

  • Hadonou, A.M., Walden, R., Darby, P.: Isolation and characterization of polymorphic microsatellites for assessment of genetic variation of hops (Humulus lupulus L.). — Mol. Ecol. Notes 4: 280–282, 2004.

    Article  CAS  Google Scholar 

  • Hu, J.B., Zhou, X.Y., Li, J.W.: Development of novel chloroplast microsatellite markers for Cucumis from sequence database. — Biol. Plant. 53: 793–796, 2009.

    Article  CAS  Google Scholar 

  • Jaccard, P.: Nouvelles rescherches sur la distribution florale. — Bull. Soc. Vaud. Sci. Nat. 44: 223–270, 1908.

    Google Scholar 

  • Jakše, J., Bandelj, D., Javorník, B.: Eleven new microsatellites for hop (Humulus lupulus L.). — Mol. Ecol. Notes 2: 544–546, 2002.

    Article  Google Scholar 

  • Jakše, J., Kindlhofer, K., Javorník, B.: Assesment of genetic variation and differentiation of hop genotypes by microsatellite and AFLP markers. — Genome 44: 773–782, 2001.

    Article  PubMed  Google Scholar 

  • Jakše, J., Lothar, Z., Javorník, B.: New polymorphic dinucleotide and trinucleotide loci for hop Humulus lupulus L. — Mol. Exil. Resour. 8: 769–772, 2008.

    Article  Google Scholar 

  • Jakše, J., Satovic, Z., Javorník, B.: Microsatellite variability among wild and cultivated hops (Humulus lupulus L.). — Genome 47: 889–899, 2004.

    Article  PubMed  Google Scholar 

  • Ma, K.-H., Kim, K.-H., Dixit, A., Chung, I.-M., Gwag, J.-G., Kim, T.-S., Park, Y.-J.: Assessment of genetic diversity and relationships among Coix lacryma-jobi accessions using microsatellite markers — Biol. Plant. 54: 272–278, 2010.

    Article  CAS  Google Scholar 

  • Murakami, A., Darby, P., Javorník, B., Pais, M.S., Seigner, E., Lutz, A., Svoboda, P.: Microsatellite DNA analysis of wild hops, Humulus lupulus L. — Genetic Resour. Crop Evol. 53: 1553–1562, 2006.

    Article  CAS  Google Scholar 

  • Neve, R.A.: Hops. — Chapman and Hall, London 1991.

    Book  Google Scholar 

  • Novák, P., Krofta, K., Matoušek, J.: Chalcone synthase homologues from Humulus lupulus: some enzymatic properties and expression. — Biol. Plant. 50: 48–54, 2006.

    Article  Google Scholar 

  • Patzak, J.: Comparison of RAPD, STS, ISSR and AFLP molecular methods used for assessment of genetic diversity in hop (Humulus lupulus L.). — Euphytica 121: 9–18, 2001.

    Article  CAS  Google Scholar 

  • Patzak, J.: Characterization of Czech hop (Humulus lupulus L.) genotypes by molecular methods. — Plant Prod. 48: 343–350, 2002.

    CAS  Google Scholar 

  • Patzak, J., Vrba, L., Matoušek, J.: New STS molecular markers for assessment of genetic diversity and DNA fingerprinting in hop (Humulus lupulus L.). — Genome 50: 15–25, 2007.

    Article  PubMed  CAS  Google Scholar 

  • Patzak, J., Nesvadba, V., Henychová, A., Krofta, K.: Assessment of the genetic diversity of wild hops (Humulus lupulus L.) in Europe using chemical and molecular analyses. — Biochem. Syst. Ecol. 38: 136–145, 2010a.

    Article  CAS  Google Scholar 

  • Patzak, J., Nesvadba, V., Krofta, K., Henychová, A., Marzoev, A.I., Richards, K.: Evaluation of genetic variability of wild hops (Humulus lupulus L.) in Canada and the Caucasus region by chemical and molecular methods. — Genome 53: 545–557, 2010b.

    Article  PubMed  CAS  Google Scholar 

  • Raymond, M., Rousset, F.: GENEPOP, version 1.2: population genetics sofware for exact tests and ecuminicism. — J. Hered. 86: 248–249, 1995.

    Google Scholar 

  • Small, E.: Numerical and nomenclatural analysis of morphogeographic taxa of Humulus. — Syst. Bot. 3: 37–76, 1978.

    Article  Google Scholar 

  • Štajner, N., Jakše, J., Kozjak, P., Javorník, B.: The isolation and characterisation of microsatellites in hop (Humulus lupulus L.). — Plant Sci. 168: 213–221, 2005.

    Article  Google Scholar 

  • Štajner, N., Satovic, Z., Čerenak, A., Javornik, B.: Genetic structure and differentiation in hop (Humulus lupulus L.) as inferred from microsatellites. — Euphytica 161: 301–311, 2008.

    Article  Google Scholar 

  • Townsend, M.S., Henning, J.A.: AFLP discrimination of native North American and cultivated hop. — Crop Sci 49: 600–607, 2009.

    Article  CAS  Google Scholar 

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Acknowledgements

We thank Alena Henychová for excellent technical assistance with molecular analyses. This work was supported by the Grant Agency of the Czech Republic in project 521/08/0740 and by the National Agency for Agricultural Research of the Ministry of Agriculture of CR in project QH81052.

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Authors and Affiliations

  1. Hop Research Institute, Co. Ltd., Kadaňská 2525, Žatec, CZ-43846, Czech Republic

    J. Patzak

  2. Intitute of Plant Molecular Biology, Biology Centre of the Academy of Science of the CR, Branišovská 31, České Budějovice, CZ-370 05, Czech Republic

    J. Matoušek

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  1. J. Patzak
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  2. J. Matoušek
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Correspondence to J. Patzak.

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Patzak, J., Matoušek, J. Development and evaluation of expressed sequence tag-derived microsatellite markers for hop genotyping. Biol Plant 55, 761–765 (2011). https://doi.org/10.1007/s10535-011-0183-7

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  • DOI: https://doi.org/10.1007/s10535-011-0183-7

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