Hostname: page-component-78c5997874-xbtfd Total loading time: 0 Render date: 2024-11-05T10:25:33.155Z Has data issue: false hasContentIssue false
  • English
  • Français

Phylogenetic analysis of wheat cultivars in Kazakhstan based on the wheat 90 K single nucleotide polymorphism array

Published online by Cambridge University Press:  30 July 2015

Yerlan Turuspekov ,
Joerg Plieske ,
Martin Ganal ,
Eduard Akhunov  and
Saule Abugalieva
Yerlan Turuspekov*
Affiliation:
Institute of Plant Biology and Biotechnology, Almaty050040, Kazakhstan
Joerg Plieske
Affiliation:
TraitGenetics Gmbh, 06466Gatersleben, Germany
Martin Ganal
Affiliation:
TraitGenetics Gmbh, 06466Gatersleben, Germany
Eduard Akhunov
Affiliation:
Kansas State University, Manhattan, KS, USA
Saule Abugalieva
Affiliation:
Institute of Plant Biology and Biotechnology, Almaty050040, Kazakhstan
*
*Corresponding author. E-mail: [email protected]
Get access Rights & Permissions [Opens in a new window]

Abstract

The recent introduction of Illumina single nucleotide polymorphism (SNP) arrays is an important step towards comprehensive genome-wide studies of genetic diversity in wheat. In this study, 90 cultivars of hexaploid spring wheat growing in Kazakhstan were genotyped using the high-density wheat 90 K Illumina SNP array. The analysis allowed the identification of 30,288 polymorphic SNPs. A subset of 3541 high-quality SNPs were used for a comparison of 690 wheat accessions representing landraces and varieties, including those from Asia, Australia, Canada, Europe, Kazakhstan, USA and other parts of the world. Phylogenetic analysis showed a clear separation of wheat cultivars according to their geographic origin. In the phylogenetic tree, accessions from Kazakhstan and the USA formed two neighbouring clusters with a common node, and they were distinct from accessions from other regions of the world, including Europe. The results provide important new insights into the genetic relationships between diverse wheat accessions.

Keywords

genetic diversitygenotypingIllumina arraywheat
Type
Research Article
Information
Plant Genetic Resources , Volume 15 , Issue 1 , February 2017 , pp. 29 - 35
Copyright
Copyright © NIAB 2015 

Access options

Get access to the full version of this content by using one of the access options below. (Log in options will check for institutional or personal access. Content may require purchase if you do not have access.)

References

Abugalieva, SI, Volkova, LA, Ermekbaev, KA and Turuspekov, EK (2012) Genotyping of commercial cultivars of spring bread wheat from Kazakhstan by microsatellite DNA-markers. Biotechnology. Theory and Practice 2: 35–45. doi:http://dx.doi.org/10.11134/btp.2.2012.4.Google Scholar
Cavanagh, CR, Chao, S, Wang, S, Huang, BE, Stephen, S, Kiani, S, Forrest, K, Saintenac, C, Brown-Guedira, GL, Akhunova, A, See, D, Bai, G, Pumphrey, M, Tomar, L, Wong, D, Kong, S, Reynolds, M, Lopez da Silva, M, Bockelman, H, Talbert, L, Anderson, JA, Dreisigacker, S, Baenziger, S, Carter, A, Korzun, V, Morrel, PL, Dubcovsky, J, Morell, MK, Sorrells, ME, Hayden, M and Akhunov, E (2013) Genome-wide comparative diversity uncovers multiple targets of selection for improvement in hexaploid wheat landraces and cultivars. Proceedings of the National Academy of Sciences of the United States of America 110: 8057–8062.CrossRefGoogle ScholarPubMed
FAO(2013) FAOSTAT. Available at http://faostat3.fao.org/home/E (accessed accessed 12 December 2014).Google Scholar
Flaksberger, K (1909) In relation to variability of wheat in agricultural exhibitions in Poltava, Rostov-na-Donu, and Tashkent in 1909. Proceedings of the Bureau of Applied Botany 2: 671–683 (in Russian).Google Scholar
Flaksberger, K (1910) The ariability of wheat in Semirechye oblast. Proceedings of the Bureau of Applied Botany 3: 62–165 (in Russian).Google Scholar
Gomez-Becerra, HF, Abugalieva, A, Morgounov, A, Abdullaev, K, Bekenova, L, Yessimbekova, M, Sereda, G, Shpigun, S, Tsygankov, V, Zelenskiy, Y, Pena, RH and Cakmak, I (2010) Phenotypic correlations, G × E interactions and broad sense heritability analysis of grain and flour quality characteristics in high latitude spring bread wheats from Kazakhstan and Siberia. Euphytica 171: 23–38.Google Scholar
Jost, M and Cox, TS (1989) History of wheat breeding in Yugoslavia. Podravka, Koprivnica 7: 1–18.Google Scholar
Khlestkina, EK, Roder, MS, Efremova, TT, Borner, A and Shumny, VK (2004) The genetic diversity of old and modern Siberian varieties of common spring wheat as determined by microsatellite markers. Plant Breeding 123: 122–127.Google Scholar
Martynov, SP, Dobrovotvorskaya, TV, Morvounov, AI, Urazaliev, RA and Absattarova, AS (2005) Genealogical analysis of diversity of spring bread wheat cultivars released in Kazakhstan from 1929–2004. Acta Agronomica Hungary 53: 261–272.Google Scholar
Martynov, SP, Dobrotvorskaya, TV, Hon, I and Faberova, I (2006) Wheat Pedigree and Identified Alleles of Genes on Line. Available at http://genbank.vurv.cz/wheat/pedigree / (accessed 10 November 2014). Google Scholar
Morgounov, A, Gomez-Becerra, HG, Abugalieva, A, Dzhunusova, M, Yessimbekova, M, Miminjanov, H, Zelenskiy, Y, Ozturk, L and Cakmak, I (2007) Iron and zinc grain density in common wheat grown in Central Asia. Euphytica 155: 193–203.CrossRefGoogle Scholar
Olmstead, A and Rhode, P (2002) The Red Queen and the Hard Reds: productivity growth in American wheat, 1800–1940. The Journal of Economic History 62: 929–966.Google Scholar
Paulsen, GM and Shroyer, JP (2008) Early history of wheat improvement in the Great Plains. Celebrate the Centennial. Agronomy Journal 100 (Suppl.): S70–S78.Google Scholar
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
Peakall, R and Smouse, PE (2012) GenAlEx 6.5: genetic analysis in Excel. Population genetic software for teaching and research – an update. Bioinformatics 28: 2537–2539.Google Scholar
Quisenberry, K and Reitz, L (1974) Turkey wheat: the cornerstone of an empire. Agricultural History 48: 98–110.Google Scholar
Rohlf, FJ (2008) NTSYSpc: Numerical Taxonomy System, Ver. 2.11X. Setauket, NY: Exeter Publishing, Ltd.Google Scholar
Shavrukov, Y, Sucheski, R, Eliby, S, Abugalieva, A, Kenenbayev, S and Langridge, P (2014) Application of next-generation sequencing technology to study genetic diversity and identify unique SNP markers in bread wheat from Kazakhstan. BMC Plant Biology 14: 258–271.Google Scholar
State Register of Breeding Achievements Allowed to Grow in the Republic of Kazakhstan. Plant Cultivars,(2013) Official issue 2013 by the State Seed Trial Commission of the Ministry of Agriculture of the Republic of Kazakhstan. Kazakhstan: Almaty, 118 pp. (in Russian).Google Scholar
Wang, S, Wong, D, Forrest, K, Allen, A, Chao, S, Huang, BE, Maccaferri, M, Salvi, S, Milner, SG, Cattivelli, L, Mastrangelo, AM, Whan, A, Stephen, S, Barker, G, Wieseke, R, Plieske, J, Lillemo, M, Mather, D, Appels, R, Dolferus, R, Brown-Guedira, G, Korol, A, Akhunova, AR, Feuillet, C, Salse, J, Morgante, M, Pozniak, C, Luo, MC, Dvorak, J, Morell, M, Dubcovsky, J, Ganal, M, Tuberosa, R, Lawley, C, Mikoulitch, I, Cavanagh, C, Edwards, KJ, Hayden, M and Akhunov, E (2014) Characterization of polyploid wheat genomic diversity using a high-density 90,000 single nucleotide polymorphism array. Plant Biotechnology Journal 12: 787–796. doi: 10.1111/pbi.12183.Google Scholar
Udachin, R and Shahmedov, I (1984) Wheats of Central Asia. Tashkent: FAN, USSR, 135pp. (in Russian).Google Scholar
Supplementary material: File

Turuspekov supplementary material

Table S1

Download Turuspekov supplementary material(File)
File 23.7 KB