Source: https://content.sciendo.com/abstract/journals/prolas/67/2/article-p84.xml
Timestamp: 2019-04-25 16:17:33+00:00

Document:
Characterisation of Latvia Fruit Crop Genetic Resources by Application of Molecular Genetics Methods : Proceedings of the Latvian Academy of Sciences. Section B. Natural, Exact, and Applied Sciences.
A large diversity of fruit crop accessions is maintained at the Latvia State Institute of Fruit- Growing, which consists of modern cultivars, landraces and selections from local breeding programmes, as well as germplasm that has resulted from scientific exchange and co-operation with other institutes. Presently, the germplasm collection comprises 2509 accessions of 17 fruit crops; 676 accessions are designated as national genetic resources. Conservation of germplasm itself has little value without characterisation and further utilisation of the stored plant material. To intensify these activities, DNA-based technologies have been implemented in the characterisation of germplasm. Two main groups of molecular markers have been utilised: non-specific markers and gene-specific (functional) markers, subsequently applicable for Marker Assisted Selection (MAS). Genotyping protocols based on SSR, RAPD and Methylation-sensitive amplification polymorphism (MSAP) markers have been developed for twelve fruit crops for use in plant material identification, True-to-Type verification and evaluation of genetic diversity and internal collection structure. In total, 790 accessions have been genotyped using any of the mentioned markers. These markers have been harmonised with the European cooperative programme for plant genetic resources working group (ECPGR WG) recommended sets to ensure international data exchange. Gene specific molecular markers have been applied to apple and pear (resistance to scab), strawberry (resistance to Gnomonia fragariae), sweet cherries and plums (self-incompatibility).
Antonius, K., Aaltonen, M., Uosukainen, M., Hurme, T. (2012a). Genotypic and phenotypic diversity in Finnish cultivated sour cherry (Prunus cerasus L.). Genet. Resour. Crop Evol., 59, 375-388.
Antonius, K., Karhu, S., Kaldmae, H., Lacis, G., Rugenius, R., Baniulis, D., Sasnauskas, A., Schulte, E., Kuras, A., Korbin, M., Gunnarsson, A., Werlemark, G., Ryliskis, D., Todam-Andersen, T., Kokk, L., Jarve, K. (2012b). Development of the Northern European Ribes core collection based on a microsatellite (SSR) marker diversity analysis. Plant Gen. Res. Cha. Utiliz., 10 (1), 70-73.
Badjakov, I., Todorovska, E., Boicheva, R., Atanassov, I., Atanassov A. (2005). Assessment of genetic diversity in Bulgarian raspberry germplasm collection by microsatelite markers (SSR). Biotechnol. Biotechnol. Eq., 19 (1),43-7.
Bao, L., Chen, K., Zhang, D., Li, X., Teng, Y. (2008). An assessment of ge­netic variability and relationships within Asian pears based on AFLP (am­plified fragment length polymorphism) markers. Sci. Hort., 116,374-380.
Borner, A., Khlestkina, E. K., Chebotar, S., Nagel, M., Arif, M. A. R., Neumann, K., Kobiljski, B., Lohwasser, U., Roder, M. S. (2012). Molecu­lar markers in management of ex situ PGR: A case study. J. Biosci., 37, 871-877.
Bus, V. G. M., Rikkerink, E. H. A., Caffier, V., Durel, C.-E., Plummer, K. M. (2011). Revision of the nomenclature of the differential host-pathogen in­teractions of Venturia inaequalis and Malus. Annu. Rev. Phytopathol., 49, 391-13.
Cavanna, M., Torello Marinoni, D., Beccaro, G. L., Bounous, G. (2009). Microsatellite-based evaluation of Ribes spp. germplasm. Genome, 52 (10), 839-848.
Clarke, J. B., Tobutt, K. R. (2009). A standard set of accessions, microsatellites and genotypes for harmonizing the fingerprinting of cherry collections for the ECPGR. Acta Hort., 814, 615-618. de Nettancourt, D. (1977). Incompatibility in angiosperms. Sexual Plant Reprod, 10, 185-199.
DeYoung, B. J., Innes, R. W. (2006). Plant NBS-LRR proteins in pathogen sensing and host defence. Nat. Immunol., 7 (12), 1243-1249.
Engels, J. M. M., Visser, L. (eds). (2003). A Guide to Effective Management of Germplasm Collections. IPGRI Handbooks for Genebanks, No. 6. IPGRI, Rome, Italy. 172 pp.
Fahrentrapp, J., Broggini, G. A. L., Kellerhals, M., Peil, A., Richter, K., Zini, E., Gessler, C. (2013). A candidate gene for fire blight resistance in Malus x robusta 5 is coding for a CC-NBS-LRR. Tree Genetics Genomes, 9 (1), 237-251.
Fernandez i Marti, A., Athanson, B., Koepke, T., Font i Forcada, C., Dhingra, A., Oraguzie, N. (2012). Genetic diversity and relatedness of sweet cherry (Prunus avium L.) cultivars based on single nucleotide polymorphic mark­ers. Front. Plant Sci., 3, 116.
Ferreira, M. E. (2006). Molecular analysis of gene banks for sustainable con­servation and increased use of crop genetic resources. In: Ruane, J., Sonnino, A. (eds.). The Role ofBiotechnology in Exploring and Protecting Agricultural Genetic Resources (pp. 121-127). Rome: FAO.
Frankel, O. H., Soule, M. E. (1981). Conservation and Evolution. Cam­bridge, UK: Cambridge University Press, 327 pp.
Galli, P. Patocchi, A., Broggini, G. A. L., Gessler, C. (2010). The Rvi15 (Vr2) Apple scab resistance locus contains three TIR-NBS-LRR Genes. MPMI, 23 (5), 608-617.
Gianfranceschi, L., Seglias, N., Tarchini, R., Komjanc, M., Gessler, C. (1998). Simple sequence repeats for the genetic analysis of apple. Theor. Appl. Genet., 96, 1069-1076.
Graham, J., Smith, K., Woodhead, M., Russell, J. (2002). Development and use of simple sequence repeat SSR markers in Rubus species. Mol. Ecol. Notes, 2 (3), 250-252.
Gross, B. L., Volk, G. M., Richards, C. M., Forsline, P. L., Fazio, G., Chao, C. T. (2012). Identification of „Duplicate” Accessions within the USDA-ARS National Plant Germplasm System Malus Collection. J. Amer. Soc. Hort. Sci., 137 (5), 333-342.
Hattendorf, A., Debener T. (2007). Molecular characterization of NBS- LRR-RGAs in the rose genome. Physiol. Plantarum, 129, 775-786.
Haussmann, B. I. G., Parzies, H. K., Presterl, T., Susie, Z., Miedaner T. (2004). Plant genetic resources in crop improvement. Plant Gen. Res., 2 (1), 3-21.
He, P., Li, L., Li, H., Wang, H., Yang, J., Wang, Y. (2011). Genetic analysis of wild apple resources in Shandong province based on inter-simple se­quence repeats (ISSR) and sequence-specific amplification polymorphism (S-SAP) markers. Afr. J. Biotechnol., 10 (46), 9501-9508.
Hegedus, A., Halasz J. (2007). Recent findings of the tree fruit self-incom­patibility studies. Int. J. Hort. Sci., 13 (2), 7-15.
Ikase, L., Lacis, G. (2013). Apple breeding and genetic resources in Latvia. Acta Horticulturae, 976, 69-74.
Ikase, L., Trajkovski V. (2001). The Swedish-Latvian Malus genetic re­sources research program. In: Broad Variation and Precise Characteriza­tion - Limitation for the Future. EUCARPIA Section Genetic Resources, 16-20 May 2001 (pp. 38-39). Poznan, Poland.
Ikase, L., Lacis, G., Kaufmane, E. (2001). Fruit crop geneticresources in Lat­via. Biologija, 4, 23-25.
Jarni, K., De Cuyper, B., Brus, R. (2012). Genetic variability of wild cherry (Prunus avium L.) seed stands in Slovenia as revealed by nuclear microsatellite loci. PLoS ONE, 7 (7), e41231.
Kampuss, K., Strautina, S., Kampuse S. (2007). Red and white currant ge­netic resources in Latvia. Acta Hort., 760, 397-03.
Karhu, S., Antonius, K., Kaldmae, H., Pluta, S., Kimmo, R., Ryliskis, D., Sasnauskas, A., Schulte, E., Strautina, S., Grout B. (2007). The core collec­tion of the Northern European gene pool of Ribes created by RIBESCO Project. Sodininkyste ir Daržininkyste (Horticulture and Vegetable Growing), 26 (3), 179-186.
Kaufmane, E., Ikase, L., Trajkovski, V., Lacis G. (2002). Evaluation and characterization of plum genetic resources in Sweden and Latvia. Acta Hort., 577, 207-213.
Kaufmane, E., Ikase, L., Trajkovski, V. (2003). Evaluation of Swedish plum varieties and hybrids in Sweden and Latvia. Sodininkyste ir Daržininkyste (Horticulture and Vegetable Growing), 22 (1), 62-73.
Kaufmane, E., Lacis, G., Ikase, L. (2006). Current situation of the Latvian Prunus collections - conservation, evaluation and characterization for the establishment of core collections. In: Report of a Working Group on Pru­nus, Biodiversity International, pp. 66-74.
Kota-Dombrovska, I., Lācis, G. (2013). Evaluation of domestic plum (Pru- nus domestica L.) self-incompatibility locus diversity using DNA-based S-genotyping. Proc. Latvian Acad. Sci., Section B., 67 (2).
Kumar, P., Gupta, V. K., Misra, A. K., Modi, D. R., Pandey, B. K. (2009). Potential of Molecular Markers in Plant Biotechnology. Plant Omics J., 2 (4), 141-162.
Lacis, G. (2001). Morphological analysis of Latvian sweet cherry (Prunus avium L.) genetic resources collection. In: Broad Variation and Precise Characterization - Limitationfor the Future. EUCARPIA Section Genetic Resources, 16-20 May 2001 (pp. 225-228). Poznan, Poland.
Lacis, G. (2010). Characterisation of the Latvian and Swedish Sweet and Sour Cherry Genetic Resources. Acta Universitatis Agriculturae Sueciae, DoctoralThesis, No. 2010:89, Sweden. 39 pp.
Lacis, G., Kaufmane, E., Rashal, I., Trajkovski, V., Iezzoni, A. F. (2008). Identification of self-incompatibility (S) alleles in Latvian and Swedish sweet cherry genetic resources collections by PCR based typing. Euphytica, 160, 155-163.
Lacis, G., Kaufmane, E., Trajkovski, V., Rashal, I. (2009). Morphological variability and genetic diversity within Latvian and Swedish sweet cherry collections. Acta Univ. Latv., 753, 19-32.
Lācis, G., Kota, I. (2011). SSR marker-based fingerprinting for sour cherry (Prunus cerasus) genetic resources identification and management. Acta Hort., 976, 251-256.
Lacis, G., Kota, I., Ikase, L., Rungis, D. (2011). Molecular characterization of the Latvian apple (Malus) genetic resource collection based on SSR markers and scab resistance gene Vfanalysis. Plant Gen. Res. Char. Utiliz., 9 (2), 189-192.
Lacis, G., Rashal, I. (2000). Evaluation of variability of morphologicaltraits of Latvian local sweet cherry (P. avium) accessions by means of multidi­mensional analysis. In: Proceedings of International Conference “Fruit Production and Fruit Breeding'" (pp. 147-151). Polli, Estonia.
Lacis, G., Rashal, I. (2001). Use of multidimensional statistical approaches in charecterization of Latvian sweet cherry (Prunus avium L.) genetic re­sources. Hort. Veget. Grow., 20 (3), 211-221.
Lacis, G., Rashal, I., Ruisa, S., Trajkovski, V., Iezzoni, A. F. (2009). Assess­ment of genetic diversity of Latvian and Swedish sweet cherry (Prunus avium L.) genetic resources collections by using SSR (microsatellite) markers. Scientia Hort., 121, 451-57.
Lacis, G., Rashal, I., Trajkovski, V. (2010). Comparative analysis of sweet cherry (P. avium) genetic diversity revealed by two methods of SSR marker detection. Proc. Latvian Acad. Sci. Section B, 64 (3/4), 149-158.
Lācis, G., Rashal, I., Trajkovski V. (2011). Implementation ofalimited set of SSR markers for screening of genetic variability in Latvian and Swedish sour cherry (Prunus cerasus L.) genetic resources collections. Proc. Lat- vianAcad. Sci. Section B, 65 (1/2), 21-28.
Lācis, G., Ruisa, S., Kota, I. (2008). Molecular marker application in breed­ing of self- and cross-compatible sweeet cherry (P.avium L.) varieties. In: Proceedings of International Scientific Conference „ Sustainable Fruit Growing: FromPlant to Product”, 28-31 May 2008 (pp. 158-164). Latvia State Institute of Fruit-Growing, Dobele, Latvia.
Lacis, G., Trajkovski, V., Rashal, I. (2010). Phenotypical variability and ge­netic diversity within accessions of the Swedish sour cherry (Prunus cerasus L.) genetic resources collection. Biologija, 56 (1/4), 1-8.
Laurentin, H. (2009). Data analysis for molecular characterization of plant genetic resources. Genet. Resour. Crop Evol., 56, 277-292.
Li, X., Xu, M., Korban, S. S. (2002). DNA methylation profiles differ be­tween field- and in vitro-grown leaves of apple. J. Plant Physiol., 159, 1229-1234.
Lisek, A., Korbin, M., Rozpara E. (2006). Using simply generated RAPD markers to distinguish between sweet cherry (Prunus avium L.) cultivars. J. Fruit Ornamen. Plant Res., 14 (1), 53-59.
Mafofo, J. (2008). Saturation sequencing, characterisation and mapping of the NBS-LRR resistance gene family in apple, Malus x domestica (Borkh.). PhD Thesis, University of the Western Cape. 351 pp.
Martinez-Gomez, P., Sanchez-Perez, R., Rubio, M., Dicenta, F., Gradziel, T. M., Sozzi, G. O. (2005). Application of recent biotechnologies to Prunus tree crop genetic improvement. Ciencia e Investigacion Agraria, 32 (2), 73-96.
Mitre, I., Lukacs, L., Ardelean, M., Mitre, V., Sestras, R., Pop, R., Cordea, M., (2009). Genotypic Variability of the Main Apple Cultivars Grown in Transylvania, Romania, Evaluated by Means of RAPD Analysis. Not. Bot. Hort. Agrobot. Cluj, 37 (1), 261-264.
Mondini L., Noorani A., Pagnotta M. A. (2009). Assessing plant genetic di­versity by molecular tools. Diversity, 1, 19-35.
Morocko, I., Fatehi, J., Gerhardson, B. (2006). Gnomoniafragariae, a cause of strawberry root rot and petiole blight. Eur. J. Plant Pathol., 114 (3), 235-244.
Myles, S., Chia, J.-M., Hurwitz, B., Simon, C., Zhong, G.Y., Buckler, E., Ware, D. (2010). Rapid genomic characterization of the genus Vitis. PLoS ONE, 5 (1): e8219.
Panda, S., Martín, J. P., Aguinagalde, I. (2003). Chloroplast DNA study in sweet cherry cultivars (Prunus avium L.) using PCR-RFLP method. Gen. Res. Crop Evol., 50, 489^95.
Patocchi, A., Frei, A., Frey, J. E., Kellerhals, M. (2009). Towards improve­ment of marker assisted selection of apple scab resistant cultivars: Venturia inaequalis avirulence surveys and standardization of molecular marker al­leles associated with resistance genes. Mol. Breed., 24 (4), 337-347.
Pierantoni, L., Dondini, L., Cho, K.-H., Shin, I.-S., Gennari, F., Chiodini, R., Tartarini, S., Kang, S.-J., Sansavini, S. (2007). Pear scab resistance QTLs via a European pear (Pyrus communis) linkage map. Tree Genetics Genomes, 3, 311-317.
Postman, J. D., Spotts, R. A., Calabro, J. (2005). Scab resistance in Pyrus Germplasm. Acta Hort., 671, 601-608.
Potts, S. M., Han, Y., Khan, M. A., Kushad, M. M., Rayburn, A. L., Korban, S. S. (2012). Genetic diversity and characterization of a core collection of malus germplasm using simple sequence repeats (SSRs). Plant Mol. Biol. Rep., 30, 827-837.
Rashal, I., Lacis, G. (1999). Accessions ofhorticulturalplants in the Latvian plant genetic resources data base. In: Fruit Growing Today and Tomorrow. Collection ofScientific Articles, 4 September, 1998 (pp. 124-130). Dobele, Latvia.
Rashal, I., Rashal D. (1996). Horticulture accessions in the Latvian plant ge­netic resources database. In: Problems of FruitPlantBreeding. Collection ofScientific Articles (pp. 38-41). LLU, Jelgava, Latvia.
Ruisa, S., Lacis, G. (2001). Characterization of Chaenomeles japonica ge­netic resources. Hort. Veget. Grow., 20 (3), 50-60.
Schuster, M. (2012). Incompatible (S-) genotypes of sweet cherry cultivars (Prunus avium L.). Sci. Hort., 148, 59-73.
Sefc, K. M., Lefort, F., Grando, M. S., Scott, K. D., Steinkellner, H., Thomas, M. R. (2001). Microsatellite markers for grapevine: A state of the art. In: Roubelakis-Angelakis, K. A. (ed.). Mol. Biol. Biotechnol. Grapevine (pp. 1-30). Dordrecht,: Kluwer Academic Publishers.
Sehic, J., Garkava-Gustavsson, L., Fernandez-Fernandez, F., Nybom, H. (2012). Genetic diversity in a collection of European pear (Pyrus communis) cultivars determined with SSR markers chosen by ECPGR. Sci. Hort., 145, 39-5.
Sikorskaite, S., Gelvonauskiene, D., Stanys, V., Baniulis D. (2012). Charac­terization of microsatellite loci in apple (Malus x domestica Borkh.) cultivars. Žemdirbystė (Agriculture), 99 (2), 131-138.
Sonneveld, T., Tobutt, K. R., Robbins, T. P. (2003). Allele-specific PCR de­tection of sweet cherry self-incompatibility (S) alleles S1 to S16 using con­sensus and allele specific primers. Theor. Appl. Genet., 107, 1059-1070.
Spooner, D., van Treuren, R., de Vicente, M.C. (eds.). (2005). Molecular Markers for Genebank Management. IPGRI Technical Bulletin No. 10. Rome: International Plant Genetic Resources Institute. 126 pp.
Stanys, V., Baniulis, D., Morkunaite-Haimi, S., Siksnianiene, J. B., Frercks, B., Gelvonauskiene, D., Stepulaitiene, I., Staniene, G., Siksnianas, T. (2012). Characterising the genetic diversity of Lithuanian sweet cherry (Prunus avium L.) cultivars using SSR markers. Sci. Hort., 142, 136-142.
Storti, A., Via, J. D., Baric S. (2012). Comparative molecular genetic analy­sis of apple genotypes maintained in germplasm collections. Erwerbs- Obstbau, 55 (3), 137-141.
Strautina, S., Kampuss, K. (2002). Research of Latvian Ribes Genetic Re­sources. Acta Hort., 585, 171-176.
Tao, R., Iezzoni, A. F. (2010). The S-RNase-based gametophytic self-incom­patibility system in Prunus exhibits distinct genetic and molecular features. Sci. Hort., 124 (4), 423^33.
Trajkovski, V., Hjalmarsson, I. (2007). The value of national fruit gene banks. Žemės Ūkio Mokslai (Agricultural Sciences), 14 (4), 28-32. vanTreuren, R., Kemp, H., Ernsting, G., Jongejans, B., Houtman, H., Visser, L. (2010). Microsatellite genotyping of apple (Malus domestica Borkh.) genetic resources in the Netherlands: Application in collection manage­ment and variety identification. Gen. Res. Crop E-vol., 57 (6), 853-865.
Wang, A., Zhang, Q., Wan, D., Yang, Y., Liu, J. (2008). Nine microsatellite DNA primers for Hippophae rhamnoides ssp. sinesis (Elaeagnaceae). Conserv. Genet., 9, 969-971.
Weising, K., Nybom, H., Wolff, K., Kahl, G. (eds.). (2005). DNA Finger­printing in Plants: Principles, Methods, and Applications. Boca Raton: CRC Press, Taylor & Francis Group. 444 pp.
Yamamoto, T., Kimura, T., Sawamura, Y., Manabe, T., Kotobuki, K., Hayashi, T., Ban, Y., Matsuta, N. (2002). Simple sequence repeats for ge­netic analysis in pear. Euphytica, 124, 129-137.

References: V. 
 V. 
 V. 
 V. 
 V. 
 V.