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DNA preservation and utility of a historic seed collection

Published online by Cambridge University Press:  01 September 2009

Matti W. Leino ,
Jenny Hagenblad ,
Johan Edqvist  and
Else-Marie Karlsson Strese
Matti W. Leino*
Affiliation:
Swedish Museum of Cultural History, SE-643 98Julita, Sweden IFM-Biology, Linköping University, SE-581 83Linköping, Sweden
Jenny Hagenblad
Affiliation:
Plant Ecology, EBC, Uppsala University, SE-752 36Uppsala, Sweden
Johan Edqvist
Affiliation:
IFM-Biology, Linköping University, SE-581 83Linköping, Sweden
Else-Marie Karlsson Strese
Affiliation:
Swedish Museum of Cultural History, SE-643 98Julita, Sweden
*
*Correspondence Email: Matti.Leino@nordiskamuseet.se
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Abstract

Historic collections of biological material are important genetic resources for taxonomic, evolutionary and historical research. In this paper we describe a seed collection dating from 1862 to 1918 maintained at the Swedish Museum of Cultural History. The collection contains over 3000 well-documented seed samples of various agricultural crops, mostly cereals. A subset of 100 samples divided over ten species frequently represented in the collection and a range of ages were tested for germinability and DNA preservation. None of these accessions were found to contain viable seeds. DNA extracted from the seeds was degraded, but the amount of degradation varied between species. DNA quality was evaluated by yield, fragment size and size of amplification product. Quality was highest for DNA extracted from Pisum sativum and Vicia sativa. DNA extracted from Brassica napus, Beta vulgaris and Trifolium pratense was more fragmented, and DNA extracted from Triticum aestivum, Secale sereale, Hordeum vulgare, Avena sativa and Phleum pratense was most degraded. Polymerase chain reaction (PCR) amplification of ribosomal DNA fragments of up to 700 bp was permitted for most samples in all species. To test whether single-copy nuclear genes could be amplified from the extracted DNA, microsatellite markers were used on the Pisum sativum and Hordeum vulgare samples. Polymorphisms of microsatellite markers were detected between samples for both species. The results show that the 19th-century seed collection can be utilized to infer genetic relationships among obsolete cultivars as well as for other types of genetic research based on sequence or marker analysis.

Keywords

aged seedDNAgenebankmicrosatellitesplant genetic resourcesstability
Type
Research Article
Information
Seed Science Research , Volume 19 , Issue 3 , September 2009 , pp. 125 - 135
Copyright
Copyright © Cambridge University Press 2009

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References

Blatter, R.H.E., Jacomet, S. and Schlumbaum, A. (2002) Spelt-specific alleles in HMW glutenin genes from modern and historical European spelt (Triticum spelta L.). Theoretical and Applied Genetics 104, 329–337.Google Scholar
Börner, A., Chebotar, S. and Korzun, V. (2000) Molecular characterization of the genetic integrity of wheat (Triticum aestivum L.) germplasm after long-term maintenance. Theoretical and Applied Genetics 100, 494–497.CrossRefGoogle Scholar
Chebotar, S., Röder, M.S., Korzun, V. and Börner, A. (2002) Genetic integrity of ex situ genebank collections. Cellular and Molecular Biology Letters 7, 437–444.Google ScholarPubMed
Doebley, J.F., Gaut, B.S. and Smith, B.D. (2006) The molecular genetics of crop domestication. Cell 127, 1309–1321.Google Scholar
FAO (1997) The state of the world's plant genetic resources for food and agriculture. Rome, FAO.Google Scholar
Freitas, F.O., Bendel, G., Allaby, R.G. and Brown, T.A. (2003) DNA from primitive maize landraces and archaeological remains: implications for the domestication of maize and its expansion into South America. Journal of Archaeological Science 30, 901–908.CrossRefGoogle Scholar
Gagneux, P., Boesch, C. and Woodruff, D.S. (1997) Microsatellite scoring errors associated with noninvasive genotyping based on nuclear DNA amplified from shed hair. Molecular Ecology 6, 861–868.CrossRefGoogle ScholarPubMed
Gómez-Campo, C. (2006) Erosion of genetic resources within seed genebanks: the role of seed containers. Seed Science Research 16, 291–294.CrossRefGoogle Scholar
Gugerli, F., Parducci, L. and Petit, R.J. (2005) Ancient plant DNA: review and prospects. New Phytologist 166, 409–418.CrossRefGoogle ScholarPubMed
ISTA (1999) International rules for seed testing. Seed Science and Technology 27 (Supplement), 1–333.Google Scholar
Jaenicke-Després, V., Buckler, E.S., Smith, B.D., Gilbert, M.T.P., Cooper, A., Doebley, J. and Pääbo, S. (2003) Early allelic selection in maize as revealed by ancient DNA. Science 302, 1206–1208.CrossRefGoogle ScholarPubMed
Johansson, P., Aarsrud, S. and Öberg, A.-C. (2003) Det underbara huset: Vänersborgs museum. Vänersborgs museums skriftserie 1, 115–122.Google Scholar
Jones, H., Lister, D.L., Bower, M.A., Leigh, F.J., Smith, L.M.J. and Jones, M.K. (2008) Approaches and constraints of using existing landraces and extant plant material to understand agricultural spread in prehistory. Plant Genetic Resources, (in press). doi: 10.1017/S1479262108993138.Google Scholar
Kobayashi, A., Ebana, K., Fukuoka, S. and Nagamine, T. (2006) Microsatellite markers revealed the genetic diversity of an old Japanese rice landrace ‘Echizen’. Genetic Resources and Crop Evolution 53, 499–506.CrossRefGoogle Scholar
Kolodinska Brantestam, A., von Bothmer, R., Dayteg, C., Rashal, I., Tuvesson, S. and Weibull, J. (2007) Genetic diversity changes and relationships in spring barley (Hordeum vulgare L.) germplasm of Nordic and Baltic areas as shown by SSR markers. Genetic Resoures and Crop Evolution 54, 749–758.CrossRefGoogle Scholar
Lia, V.V., Confalonieri, V.A., Ratto, N., Hernández, J.A.C., Alzogaray, A.M.M., Poggio, L. and Brown, T.A. (2007) Microsatellite typing of ancient maize: insights into the history of agriculture in southern South America. Proceedings of the Royal Society B 274, 545–554.CrossRefGoogle ScholarPubMed
Lister, D.L., Bower, M.A., Howe, C.J. and Jones, M.K. (2008) Extraction and amplification of nuclear DNA from herbarium specimens of emmer wheat: a method for assessing DNA preservation by maximum amplicon length recovery. Taxon 57, 254–258.Google Scholar
Loridon, K., McPhee, K., Morin, J., Dubreuil, P., Pilet-Nayel, M.L., Aubert, G., Rameau, C., Baranger, A., Coyne, C., Lejeune-Hènaut, I. and Burstin, J. (2005) Microsatellite marker polymorphism and mapping in pea (Pisum sativum L.). Theoretical and Applied Genetics 111, 1022–1031.CrossRefGoogle ScholarPubMed
Manen, J.-F., Bouby, L., Dalnoki, O., Marinval, P., Turgay, M. and Schlumbaum, A. (2003) Microsatellites from achaeological Vitis vinifera seeds allow tentative assignment of the geographical origin of ancient cultivars. Journal of Archeological Science 30, 721–729.CrossRefGoogle Scholar
Morrison, L.A. (2001) The Percival Herbarium and wheat taxonomy: yesterday, today and tomorrow. pp. 65–80in Caligari, P.D.S.; Brandham, P.E. (Eds) Wheat taxonomy: the legacy of John Percival. The Linnean Society of London Special Issue No. 3. London, Academic Press.Google Scholar
Poulsen, G., Holten, C. and von Bothmer, R. (2006) Identification and revival of low viability seed samples. Genetic Resources and Crop Evolution 53, 675–678.CrossRefGoogle Scholar
Poulsen, G., Holten, C. and von Bothmer, R. (2007) AFLP similarities among Danish cultivars of fodder beet (Beta vulgaris L. subsp. vulgaris var. rapacea Koch). Genetic Resources and Crop Evolution 54, 1105–1115.CrossRefGoogle Scholar
Ramsay, L., Macaulay, M., Degli Ivanissevich, S., MacLean, K., Cardle, L., Fuller, J., Edwards, K.J., Tuvesson, S., Morgante, M., Massari, A., Maestri, E., Marmiroli, N., Sjakste, T., Ganal, M., Powell, W. and Waugh, R. (2000) A simple sequence repeat-based linkage map of barley. Genetics 156, 1997–2005.Google Scholar
Selkoe, K.A. and Toonen, R.J. (2007) Microsatellites for ecologists: a practical guide to using and evaluating microsatellite markers. Ecology Letters 9, 615–629.CrossRefGoogle Scholar
Steiner, A.M., Ruckenbauer, P. and Goecke, E. (1997) Maintenance in genebanks, a case study: contaminations observed in the Nürnberg oats of 1831. Genetic Resources and Crop Evolution 44, 533–538.Google Scholar
Tanksley, S.D. and McCouch, S.R. (1997) Seed banks and molecular maps: unlocking genetic potential from the wild. Science 277, 1063–1066.CrossRefGoogle ScholarPubMed
Walters, C., Wheeler, L.M. and Grotenhuis, J.M. (2005) Longevity of seeds stored in a genebank: species characteristics. Seed Science Research 15, 1–20.CrossRefGoogle Scholar
Walters, C., Reilley, A.A., Reeves, P.A., Baszczak, J. and Richards, C.M. (2006) The utility of aged seeds in DNA banks. Seed Science Research 16, 169–178.Google Scholar
White, T.J., Brims, T., Lee, S. and Taylor, J. (1990) Amplification and direct sequencing of fungal ribosomal RNA genes for phylogenetics. pp. 315–322in Innis, M.; Gelfand, D.;Sninsky, J.; White, T. (Eds) PCR protocols: a guide to methods and applications. San Diego, Academic Press.Google Scholar
Wright, S. (1951) The genetical structure of populations. Annals of Eugenics 15, 323–354.Google Scholar