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Assessment of genetic diversity and relatedness in the Latvian potato genetic resources collection by DArT genotyping

Published online by Cambridge University Press:  14 August 2015

D. E. Rungis ,
A. Voronova ,
A. Kokina ,
I. Veinberga ,
I. Skrabule  and
N. Rostoks
D. E. Rungis*
Affiliation:
Genetic Resource Centre, LSFRI Silava, 111 Rigas street, Salaspils, LV-1029, Latvia
A. Voronova
Affiliation:
Genetic Resource Centre, LSFRI Silava, 111 Rigas street, Salaspils, LV-1029, Latvia
A. Kokina
Affiliation:
Faculty of Biology, University of Latvia, 4 Kronvalda Boulevard, Riga, LV-1586, Latvia
I. Veinberga
Affiliation:
Genetic Resource Centre, LSFRI Silava, 111 Rigas street, Salaspils, LV-1029, Latvia
I. Skrabule
Affiliation:
State Priekuli Plant Breeding Institute, 2 Zinatnes street, Priekuli, LV-4126, Latvia
N. Rostoks
Affiliation:
Faculty of Biology, University of Latvia, 4 Kronvalda Boulevard, Riga, LV-1586, Latvia
*
*Corresponding author. E-mail: dainis.rungis@silava.lv
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Abstract

Potato (Solanum tuberosum L.) has been cultivated in Latvia since the 17th century, and formal breeding programmes have been established since the start of the 20th century. The Latvian potato genetic resource collection consists of 83 accessions of Latvian origin, including landraces, old cultivars released starting from the 1930's, modern cultivars and breeding material. These are maintained in field and in vitro collections. Pedigree information about the potato cultivars is often limited, and the use of hybrids of local cultivars as parents is common in the Latvian potato breeding programme. Ninety-four Latvian potato varieties and breeding lines and some commonly used foreign accessions were genotyped with the potato DNA diversity array technology. Analysis of the Latvian potato genetic resources collection revealed that the amount of genetic diversity has increased in the modern cultivars in comparison with the old cultivars.

Keywords

breedingDArTdiversityfingerprintinggenetic resourcespotato
Type
Research Article
Information
Plant Genetic Resources , Volume 15 , Issue 1 , February 2017 , pp. 72 - 78
Copyright
Copyright © NIAB 2015 

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References

Alheit, KV, Maurer, HP, Reif, JC, Tucker, MR, Hahn, V, Weissmann, EA and Wurschum, T (2012) Genome-wide evaluation of genetic diversity and linkage disequilibrium in winter and spring triticale (x Triticosecale Wittmack). BMC Genomics 13: 235. doi:10.1186/1471-2164-13-235.CrossRefGoogle Scholar
Badea, AFE, Salmon, D, Tuvesson, S, Vrolijk, A, Larsson, C-T, Caig, V, Huttner, E, Kilian, A and Laroche, A (2011) Development and assessment of DArT markers in triticale. Theoretical and Applied Genetics 122: 1547–1560.CrossRefGoogle ScholarPubMed
Bolibok-Brągoszewska, H, Targońska, M, Bolibok, L, Kilian, A and Rakoczy-Trojanowska, M (2014) Genome-wide characterization of genetic diversity and population structure in Secale. BMC Plant Biology 14: 184.CrossRefGoogle ScholarPubMed
Braun, A and Wenzel, G (2005) Molecular analysis of genetic variation in potato (Solanum tuberosum L.). I. German cultivars and advanced clones. Potato Research 47: 81–92.CrossRefGoogle Scholar
Comadran, J, Thomas, W, van Eeuwijk, F, Ceccarelli, S, Grando, S, Stanca, A, Pecchioni, N, Akar, T, Al-Yassin, A, Benbelkacem, A, Ouabboh, H, Bort, J, Romagoas, I, Hackeyy, CA and Russell, JR (2009) Patterns of genetic diversity and linkage disequilibrium in a highly structured Hordeum vulgare association-mapping population for the Mediterranean basin. Theoretical and Applied Genetics 119: 175–187.CrossRefGoogle Scholar
Dale, MFB and Mackay, GR (1994) Inheritance of table and processing quality. In: Bradshaw, JE and Mackay, GR (eds) Potato Genetics. Wallingford: CAB International, pp. 285–307.Google Scholar
Elias, R, Till B, J, Mba, C and Al-Safadi, B (2009) Optimizing TILLING and ecotilling techniques for potato (Solanum tuberosum L). BMC Research Notes 2: 141.CrossRefGoogle ScholarPubMed
Gebhardt, C, Ballvora, A, Walkemeier, B, Oberhagemann, P and Schuler, K (2004) Assessing genetic potential in germplasm collections of crop plants by marker-trait association: a case study for potatoes with quantitative variation of resistance to late blight and maturity type. Molecular Breeding 13: 93–102.CrossRefGoogle Scholar
Grzebelus, D, Iorizzo, M, Senalik, D, Ellison, S, Cavagnaro, P, Macko-Podgorni, A, Heller-Uszynska, K, Kilian, A, Nothnagel, T, Allender, C, Simon, PW and Baranski, R (2014) Diversity, genetic mapping, and signatures of domestication in the carrot (Daucus carota L.) genome, as revealed by Diversity Arrays Technology (DArT) markers. Molecular Breeding 33: 625–637.CrossRefGoogle ScholarPubMed
Hajjar, R and Hodgkin, T (2007) The use of wild relatives in crop improvement: a survey of developments over the last 20 years. Euphytica 156: 1–13.CrossRefGoogle Scholar
He, X and Bjørnstad, Å (2012) Diversity of North European oat analyzed by SSR, AFLP and DArT markers. Theoretical and Applied Genetics 125: 57–70.CrossRefGoogle ScholarPubMed
Howard, EL, Whittock, SP, Jakše, J, Carling, J, Matthews, PD, Probasco, G, Henning, JA, Darby, P, Cerenak, A, Javornik, B, Kilian, A and Koutoulis, A (2011) High-throughput genotyping of hop (Humulus lupulus L.) utilising diversity arrays technology (DArT). Theoretical and Applied Genetics 122: 1265–1280.CrossRefGoogle ScholarPubMed
Jaccoud, D, Peng, K, Feinstein, D and Kilian, A (2001) Diversity arrays: a solid state technology for sequence independent genotyping. Nucleic Acids Research 29: e25.CrossRefGoogle ScholarPubMed
Kalendar, R, Antonius, K, Smýkal, P and Schulman, AH (2010) iPBS: a universal method for DNA fingerprinting and retrotransposon isolation. Theoretical and Applied Genetics 121: 1419–1430.CrossRefGoogle ScholarPubMed
Mace, ES, Xia, L, Jordan, DR, Halloran, K, Parh, DK, Huttner, E, Wenzl, P and Kilian, A (2008) DArT markers: diversity analyses and mapping in Sorghum bicolor . BMC Genomics 9: 26.CrossRefGoogle ScholarPubMed
McGregor, CE, Lambert, CA, Greyling, MM, Louw, JH and Warnich, L (2000) A comparative assessment of DNA fingerprinting techniques (RAPD, ISSR, AFLP and SSR) in tetraploid potato (Solanum tuberosum L.) germplasm. Euphytica 113: 135–144.CrossRefGoogle Scholar
Milbourne, D, Meyer, R, Bradshaw, JE, Baird, E, Bonar, N, Provan, J, Powell, W and Waugh, R (1997) Comparison of PCR-based marker systems for the analysis of genetic relationships in cultivated potato. Molecular Breeding 3: 127–136.CrossRefGoogle Scholar
Molema, GJ, Klooster, JJ, Verwijs, BR, Hendriks, MMWB and Breteler, H (1997a) Effect of impact body shape on subcutaneous tissue discoloration in potato tubers. Netherlands Journal of Agricultural Science 45: 407–421.CrossRefGoogle Scholar
Molema, GJ, Verwijs, BR, Van der Berg, JV and Breteler, H (1997b) Effect of repetitive impacts on subcutaneous tissue discolouration in potato tubers. Netherlands Journal of Agricultural Science 45: 187–200.Google Scholar
Murniece, I, Karklina, D, Galoburda, R, Santare, D, Skrabule, I and Costa, HS (2011) Nutritional composition of freshly harvested and stored Latvian potato (Solanum tuberosum) varieties depending on traditional cooking methods. Journal of Food Composition and Analysis 24: 699–710.CrossRefGoogle Scholar
Nei, M (1973) Analysis of gene diversity in subdivided populations. Proceedings of the National Academy of Sciences 70: 3321–3323.CrossRefGoogle ScholarPubMed
Peakall, R and Smouse, PE (2006) GENALEX 6: genetic analysis in Excel. Population genetic software for teaching and research. Molecular Ecology Notes 6: 288–295.CrossRefGoogle Scholar
Perrier, X and Jacquemoud-Collet, JP (2006) DARwin software. http://darwin.cirad.fr/.Google Scholar
Provan, J, Powell, W and Waugh, R (1996) Microsatellite analysis of relationships within cultivated potato (Solanum tuberosum). Theoretical and Applied Genetics 92: 1078–1084.CrossRefGoogle ScholarPubMed
Skrabule, I (2010) Evaluation of potato breeding clones in organic and conventional growing conditions. In: EUCARPIA 2nd Conference of the “Organic and Low-input Agriculture” Section. Paris, pp. 102–105.Google Scholar
Skrabule, I and Bebre, G (2013) Development of potato varieties in Latvia. Proceedings of the Latvian Academy of Science 67: 296–301.Google Scholar
Śliwka, J, Jakuczun, H, Chmielarz, M, Hara-Skrzypiec, A, Tomczyńska, I, Kilian, A and Zimnoch-Guzowska, E (2012) A resistance gene against potato late blight originating from Solanum × michoacanum maps to potato chromosome VII. Theoretical and Applied Genetics 124: 397–406.CrossRefGoogle ScholarPubMed
Traini, A, Iorizzo, M, Mann, H, Bradeen, JM, Carputo, D, Frusciante, L and Chiusano, ML (2013) Genome microscale heterogeneity among wild potatoes revealed by diversity arrays technology marker sequences. International Journal of Genomics 2013: 257218. doi:10.1155/2013/257218.CrossRefGoogle ScholarPubMed
Tyrka, M, Bednarek, PT, Kilian, A, Wedzony, M, Hura, T and Bauer, E (2011) Genetic map of triticale compiling DArT, SSR, and AFLP markers. Genome 54: 391–401.CrossRefGoogle ScholarPubMed
van de Wouw, M, van Hintum, T, Kik, C, van Treuren, R and Visser, B (2010) Genetic diversity trends in twentieth century crop cultivars: a meta analysis. Theoretical and Applied Genetics 120: 1241–1252.CrossRefGoogle ScholarPubMed
Wenzl, P, Carling, J, Kudrna, D, Jaccoud, D, Huttner, E, Kleinhofs, A and Kilian, A (2004) Diversity Arrays Technology (DArT) for whole-genome profiling of barley. Proceedings of the National Academy of Sciences USA 101: 9915–9920.CrossRefGoogle ScholarPubMed
Zhuk, A, Veinberga, I, Skrabule, I and Rungis, D (2008) Characterization of Latvian potato genetic resources by DNA fingerprinting with SSR markers. Agronomijas Vestis 11: 171–178.Google Scholar
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