Abstract
Organization and practical application of ex situ collections require estimation of genetic differences between numerous accessions of local cultivars and field weed forms collected from the same ecogeographical region and similar in their morphophysiological characteristics. A mathematical algorithm for estimating the degree of genetic singularity of a specimen in the system of local gene pool determined with the help of molecular markers is described. The utility of this algorithm is demonstrated by the example of classification of 677 common vetch accessions from the collection of the Vavilov Institute of Plant Industry from 11 ecogeographical regions of Russia analyzed using AFLP. The proposed classification of accessions is the result of processing the AFLP data by weighting the marker traits based on their frequency in particular regions. This allowed each accession to be characterized according to the ratio of rare and frequent alleles as a genetic singularity coefficient. The proposed method is appropriate for any types of molecular markers. A practical result of its application is the classification of accessions using a five-point score scale, which can be added to descriptors of certificate databases and used for optimization of the work with collections.
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References
FAO: The Role of Biotechnology for the Characterisation and Conservation of Crop, Forest, Animal and Fishery Genetic Resources in Developing Countries, Background Document to Conference 13 of the FAO Biotechnology Forum, 2005.
Virk, P.S., Ford-Lloyd, B.V., Jackson, M.T., and Newbury, H.J., The Use of RAPD for the Study of Diversity within Plant Germplasm Collections, Heredity, 1999, vol. 74, pp. 170–179.
Hodgkin, T., Brown, A.H.D., van Hintum, Th.J.L., and Morales, E.A.V., Core Collections of Plant Genetic Resources, Chichester: Wiley, 1995.
Vos, P., Hogers, R., Bleeker, M., et al., AFLP: A New Technique for DNA Fingerprinting, Nucleic Acid Res., 1995, vol. 16, pp. 81–86.
Potokina, E., Blattner, R., Alexandrova, T., and Bachmann, K., AFLP Diversity in the Common Vetch (Vicia sativa L.) on the World Scale, Theor. Appl. Genet., 2002, vol. 105, no. 1, pp. 58–67.
Gosudarstvennyi reestr sel’skokhozyaistvennykh dostizhenii, dopushchennykh k ispol’zovaniyu: Sorta rastenii. Gosudarstvennaya komissiya RF po ispytaniyu i okhrane selektsionnykh dostizhenii (State Register of Agricultural Achievements Accepted for Use: Plant Cultivars. State Committee of Russian Federation for Testing and Legal Protection of Breeding Achievements), Moscow: MSKh RF, 2004.
Leokene, L.V., Ecogeographical Classification of Cultivated Common Vetch (Vicia sativa L. subsp. sativa) Cultivars, Tr. Prikl. Botan., Genet., Selekts., 1978, vol. 63, no. 1, pp. 108–122.
Katalog mirovoi kollektsii VIR: Posevnaya vika (All Union Institute for Plant Cultivation Catalog of World Collection: Common Vetch), Leningrad, 1970, issue 63.
Katalog mirovoi kollektsii VIR: Vika posevnaya (VIR Catalog of World Collection: Common Vetch), Leningrad, 1990, issue 529.
Katalog mirovoi kollektsii VIR: Vika posevnaya (VIR Catalog of World Collection: Common Vetch), St. Petersburg, 1993, issue 645.
Nei, M., Genetic Distance between Populations, Am. Nat., 1972, vol. 106, pp. 283–292.
Sneath, P.H.A. and Sokal, R.R., Numerical Taxonomy, San Francisco: Freeman, 1973.
Jaccard, P., Nouvelles rescherches sur la distribution florale, Bull. Soc. Vaud. Sci. Nat., 1908, vol. 44, pp. 223–270.
Dice, L.R., Measures of the Amount of Ecologic Association between Species, Ecology, 1945, vol. 26, pp. 297–302.
Nei, M. and Li, W.H., Mathematical Model for Studying Genetic Variation in Terms of Restriction Endonucleases, Proc. Natl. Acad. Sci. USA, 1979, vol. 76, pp. 5269–5273.
Smirnov, E.S., Taksonomicheskii analiz (Taxonomic Analysis), Moscow, 1969.
Smirnov, E.S., About Trait Coding for Taxonomic Analysis, Zh. Obshch. Biol., 1971, vol. 32, no. 2, pp. 224–228.
Mezhdunarodnyi klassifikator SEV vida Vicia sativa (COMECON International Classificatory for Vicia sativa), Leningrad, 1985.
Timofeev-Resovskii, N.V., Yablokov, A.V., and Glotov, N.V., Ocherk ucheniya o populyatsii (Outline of a Study on Population), Moscow: Nauka, 1973.
Kurlovich, B.S., Rep’ev, S.I, Shchelko, L.G. et al., Genofond i selektsiya zernovykh bobovykh kul’tur (lyupin, vika, soya, fasol’) (Gene Pool and Legume Grain Crops (Lupine, Common Vetch, Soya Beans, and Haricot) Breeding), St. Petersburg: VIR, 1995.
Rep’ev, S.I., Theoretical Problems of Common Vetch Breeding, Byull. VIR, 1989, issue 190, pp. 3–6.
Tanksley, S.D. and McCouch, S.R. Seed Banks and Molecular Maps: Unlocking Genetic Potential from the Wild, Science, 1997, vol. 22, no. 277, no. 5329, pp. 1063–1066.
Doebley, J., Mapping the Genes That Made Maize, Trends Genet., 1992, vol. 8, no. 9, pp. 302–307.
Buckler, E.S., Thornsberry, J.M., and Kresovich, S., Molecular Diversity, Structure and Domestication of Grasses, Genet. Res., 2001, vol. 77, no. 3, pp. 213–218.
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Original Russian Text © E.K. Potokina, T.G. Aleksandrova, 2008, published in Genetika, 2008, Vol. 44, No. 11, pp. 1508–1516.
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Potokina, E.K., Aleksandrova, T.G. Genetic singularity coefficients of common vetch Vicia sativa L. accessions determined with molecular markers. Russ J Genet 44, 1309–1316 (2008). https://doi.org/10.1134/S1022795408110094
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DOI: https://doi.org/10.1134/S1022795408110094