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Development of retrotransposon-based SSAP molecular marker system for study of genetic diversity in sea holly (Eryngium maritimum L.)

Published online by Cambridge University Press:  28 October 2010

Baiba Ievina
Affiliation:
Faculty of Biology, University of Latvia, 4 Kronvalda Blvd., LV-1586, Riga, Latvia
Naeem H. Syed
Affiliation:
Division of Plant Sciences, University of Dundee at Scottish Crop Research Institute, Invergowrie, DundeeDD2 5DA, UK
Andrew J. Flavell
Affiliation:
Division of Plant Sciences, University of Dundee at Scottish Crop Research Institute, Invergowrie, DundeeDD2 5DA, UK
Gederts Ievinsh
Affiliation:
Faculty of Biology, University of Latvia, 4 Kronvalda Blvd., LV-1586, Riga, Latvia
Nils Rostoks*
Affiliation:
Faculty of Biology, University of Latvia, 4 Kronvalda Blvd., LV-1586, Riga, Latvia
*
*Corresponding author. E-mail: nils.rostoks@lu.lv

Abstract

Eryngium maritimum L. is a wild plant species threatened or endangered in most of Northern Europe, where species is on the northern margin of its distribution range. Recent studies have found reduction of size and even extinction of many populations. Assessment of genetic diversity in natural populations of endangered wild plant species can reflect condition and fitness of particular population and inform decisions on appropriate conservation measures. Application of inter simple sequence repeat markers and chloroplast DNA sequencing could not resolve genetic relationship between E. maritimum populations in Northern Europe. Therefore, the more sensitive retrotransposon-sequence-specific amplification polymorphism (SSAP) molecular marker system was developed. Six Ty1-copia long terminal repeat retrotransposons were isolated from E. maritimum genome (Tem1Tem6) and assessed for their utility as molecular markers in this species. Two retrotransposons – Tem2 and Tem5 – were recognized as most informative based on the level of polymorphism and SSAP banding pattern quality. On average, 20.4% of SSAP bands were polymorphic for the five most informative primer combinations in a set of 150 Northern European E. maritimum plants from 13 locations, providing a useful tool for assessment of genetic diversity in this endangered species.

Type
Research Article
Copyright
Copyright © NIAB 2010

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References

Acquadro, A, Portis, E, Moglia, A, Magurno, F and Lanteri, S (2006) Retrotransposon-based S-SAP as a platform for the analysis of genetic variation and linkage in globe artichoke. Genome 49: 11491159.Google ScholarPubMed
Aviziene, D, Pakalnis, R and Sendzikaite, J (2008) Status of red-listed species Eryngium maritimum L. on the Lithuanian coastal dunes. In: Cygas, D and Froehner, KD (eds) Environmental Engineering. The 7th International Conference, Vilnius, Lithuania. Selected Papers, I, Environmental protection, pp. 2228.Google Scholar
Berenyi, M, Gichuki, ST, Schmidt, J and Burg, K (2002) Ty1-copia retrotransposon-based SSAP (Seguence-specific amplified polymorphism) for genetic analysis of sweet poptato. Theoretical and Applied Genetics 105: 862869.Google Scholar
Bousios, A, Saldana-Oyarzabal, I, Valenzuela-Zapata, AG, Wood, C and Pearce, SR (2007) Isolation and characterization of Ty1-copia retrotransposon sequences in the blue agave (Agave tequilana Weber var.azul) and their development as SSAP markers for phylogenetic analysis. Plant Science 172: 291298.CrossRefGoogle Scholar
Clausing, G, Vickers, K and Kadereit, JW (2000) Historical biogeography in a linear system: genetic variation of sea rocket (Cakile maritime) and sea holly (Eryngium maritimum) along European coasts. Molecular Ecology 9: 18231833.CrossRefGoogle Scholar
Curle, M, Stabbetorp, OE and Nordal, I (2007) Eryngium maritimum, biology of a plant at its northernmost localities. Nordic Journal of Botany 24: 617628.Google Scholar
De Riek, J, Calsyn, E, Everaert, I, Van Bockstaele, E and De Loose, M (2001) AFLP based alternatives for the assessment of Distinctness, Uniformity and Stability of sugar beet varieties. Theoretical and Applied Genetics 103: 12541265.CrossRefGoogle Scholar
Ellis, THN, Poyser, SJ, Knox, MR, Vershinin, AV and Ambrose, MJ (1998) Polymorphism of insertion sites of Ty1-copia class retrotransposons and its use for linkage and diversity analysis in pea. Molecular Genetics and Genomics 260: 919.Google ScholarPubMed
Flavell, AJ, Dunbar, E, Anderson, R, Pearce, SR, Hartley, R and Kumar, A (1992) Ty1-copia group retrotransposons are ubiquitous and heterogeneous in higher plants. Nucleic Acids Research 20: 36393644.CrossRefGoogle ScholarPubMed
Kadereit, JW and Westberg, E (2007) Determinants of phylogeographic structure: a comparative study of seven coastal flowering plant species across their European range. Watsonia 26: 229238.Google Scholar
Kumar, A and Bennetzen, JL (1999) Plant retrotransposons. Annual Reviews of Genetics 33: 479532.CrossRefGoogle ScholarPubMed
Łabuz, TA (2007) Evaluation of past and present Sea Holly (Eryngium maritimum) habitats on Polish coastal dunes. Acta Universitatis Latviensis 723: 99114.Google Scholar
Lou, Q and Chen, J (2007) Ty1-copia retrotransposon-based SSAP marker development and its potential in the genetic study of cucurbits. Genome 50: 802810.Google ScholarPubMed
Matsunga, S, Yagisawa, F, Yamamoto, M, Uchida, W, Nakao, S and Kawano, S (2002) LTR retrotransposons in the dioecious plant Silene latifolia. Genome 45: 745751.CrossRefGoogle Scholar
Natali, L, Santini, S, Giordani, T, Minelli, S, Maestrini, P, Cionini, PG and Cavallini, A (2006) Distribution of Ty3-gypsy- and Ty1-copia-like DNA sequences in the genus Helianthus and other Asteraceae. Genome 49: 6472.CrossRefGoogle ScholarPubMed
Nybom, H (2004) Comparison of different nuclear DNA markers for estimating intraspecific genetic diversity in plants. Molecular Ecology 13: 11431155.CrossRefGoogle ScholarPubMed
Olšauskas, AM and Urboniene, R (2008) State of Eryngium maritimum L. population on the Curonian Spit coastal dunes. Environmental Reasearch, Engineering and Management 2: 6974.Google Scholar
Pearce, SR, Stuart-Rogers, C, Knox, MR, Kumar, A, Noel Ellis, TH and Flavell, AJ (1999) Rapid isolation of plant Ty1-copia group retrotransposon LTR sequences for molecular marker studies. The Plant Journal 19: 711717.CrossRefGoogle ScholarPubMed
Pearce, SR, Knox, M, Ellis, THN, Flavell, AJ and Kumar, A (2000) Pea Ty1-copia group retrotransposons: transpositional activity and use as markers to study genetic diversity in Pisum. Molecular Genetics and Genomics 263: 898907.CrossRefGoogle ScholarPubMed
Porceddu, A, Albertini, E, Barcaccia, G, Marconi, G, Bertoli, FB and Veronesi, F (2002) Development of S-SAP markers based on an LTR-like sequence from Medicago sativa L. Molecular Genetics and Genomics 267: 107114.CrossRefGoogle ScholarPubMed
Queen, RA, Gribbon, BM, James, C and Jack, P (2004) Retrotransposon-based molecular markers for linkage and genetic diversity analysis in wheat. Molecular Genetics and Genomics 271: 9197.CrossRefGoogle ScholarPubMed
Reed, DH and Frankham, R (2003) Correlation between fitness and genetic diversity. Conservation Biology 17: 230237.CrossRefGoogle Scholar
Ruas, CF, Weiss-Schneeweiss, H, Stuessy, TF, Samuel, MR, Pedrosa-Harand, A, Tremetsberger, K, Ruas, PM, Schlüter, PM, Herrera, MAO, König, C and Matzenbacher, NI (2008) Characterization, genomic organization and chromosomal distribution of Ty1-copia retrotransposons in species of Hypochaeris (Asteraceae). Gene 412: 3949.CrossRefGoogle Scholar
Sanz, AM, Gonzalez, SG, Syed, NH, Suso, MJ, Saldaña, CC and Flavell, AJ (2007) Genetic diversity analysis in Vicia species using retrotransposon-based SSAP markers. Molecular Genetics and Genomics 278: 433441.CrossRefGoogle ScholarPubMed
Syed, NH, Surseshsundar, S, Wilkinson, MJ, Bhau, BS, Cavalcanti, JJV and Flavell, AJ (2005a) Ty1-copia retrotransposon-based SSAP marker development in cashew (Anacardium occidentale L.). Theoretical and Applied Genetics 110: 11951202.CrossRefGoogle Scholar
Syed, NH, Sørensen, AP, Antonise, R, van de Wiel, C, van der Linden, CG, Hooftman, WWDAP, Nijs, HCM and Flavell, AJ (2005b) A detailed linkage map of lettuce based on SSAP, AFLP and NBS markers. Theoretical and Applied Genetics 112: 517527.CrossRefGoogle ScholarPubMed
Syed, NH and Flawell, AJ (2006) Sequence-specific amplification polymorphisms (SSAPs): a multi-locus approach for analyzing transposon insertions. Nature Protocols 1: 27462752.CrossRefGoogle ScholarPubMed
Tam, SM, Mhiri, C, Vogelaar, A, Kerkveld, M, Pearce, SR and Grandbastien, MA (2005) Comparative analysis of genetic diversities within tomato and pepper collections detected by retrotransposon-based SSAP, AFLP and SSR. Theoretical and Applied Genetics 110: 819831.CrossRefGoogle ScholarPubMed
Venturi, S, Dondini, L, Donini, P and Sansavini, S (2006) Retrotransposon characterisation and fingerprinting of apple clones by S-SAP markers. Theoretical and Applied Genetics 112: 440444.CrossRefGoogle ScholarPubMed
Vos, P, Hogers, R, Bleeker, M, Reijans, M, van de Lee, T, Hornes, M, Frijters, A, Pot, J, Peleman, J, Kuiper, M and Zabeau, M (1995) AFLP: a new technique for DNA fingerprinting. Nucleic Acids Research 23: 44074414.CrossRefGoogle ScholarPubMed
Waugh, R, McLean, K, Flavell, AJ, Pearce, SR, Kumar, A, Thomas, BBT and Powell, W (1997) Genetic distribution of Bare-1-like retrotransposable elements in the barley genome revealed by sequence-specific amplification polymorphisms (S-SAP). Molecular and General Genetics 253: 687694.CrossRefGoogle Scholar
Westberg, E and Kadereit, JW (2009) The influence of sea currents, past disruption of gene flow and species biology on the phylogeographical structure of coastal flowering plants. Journal of Biogeography 36: 13981410.CrossRefGoogle Scholar
Zolkos, K, Afranowicz, R, Bloch-Orlowska, J and Koziel, K (2007) Distribution and the resources of Sea Holly (Eryngium maritimum L.) on the western shore of the Gulf of Gdansk. Biodiversity: Research and Conservation 5-8: 5560.Google Scholar
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Development of retrotransposon-based SSAP molecular marker system for study of genetic diversity in sea holly (Eryngium maritimum L.)
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