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doi: 10.15389/agrobiology.2021.1.32eng

UDC: 635.21:575.1:577.21

Acknowledgements:
Plants were grown in an experimental artificial climate chamber EACC (Institute of Bioengineering, Federal Research Center Fundamentals of Biotechnology RAS).
Supported financially by the Russian Foundation for Basic Research (grant No. 18-29-07007) and the Federal Research Program for 2017-2025, Sub-Program “Potato breeding and seed production”

 

VARIABILITY OF GENOMIC RGA-LOCI OF MODERN RUSSIAN POTATO CULTIVARS: NBS-PROFILING DATA

E.A. Dyachenko ✉, A.V. Kulakova, E.Z. Kochieva, A.V. Shchennikova

Institute of Bioengineering, Federal Research Center Fundamentals of Biotechnology RAS, 33/2, Leninskii prospect, Moscow, 119071 Russia, e-mail dyachenko-el@yandex.ru (✉ corresponding author), kulakova_97@mail.ru, ekochieva@yandex.ru, shchennikova@yandex.ru

ORCID:
Dyachenko E.A. orcid.org/0000-0002-0570-9751
Kochieva E.Z. orcid.org/0000-0002-6091-0765
Kulakova A.V. orcid.org/0000-0002-3124-525X
Shchennikova A.V. orcid.org/0000-0003-4692-3727

Received June 12, 2020

 

The plant immunity is aimed at protecting against biotic and abiotic stresses and, therefore, at adapting to adverse environmental conditions. At the first protection step, a wide range of phytopathogenic receptors encoded by resistance R-genes is employed. The presence of a conserved NBS-domain in the receptors makes it possible to profile the plant genome by amplification of R-gene analogues. The method of multilocus NBS-profiling makes it possible to efficiently characterize the plant genome in terms of the representativeness and variability of the NBS-domain containing R-genes. This method is used to study the diversity of R-gene loci in crops and related wild species, as well as the introgressive hybridization phenomena and the R-gene evolution in plant species with varying degrees of pathogen resistance. NBS-profiling is also applied for genotyping GenBank collections, developing markers and saturating genetic maps. The requirement for cultivar genotype certification and profiling, along with a limited number of similar studies in Russia, makes research on the molecular profiling of domestic and foreign cultivars farmed in the Russian Federation relevant. In the present work, NBS-profiling was used for genotyping 65 potato Solanum tuberosum cultivars of mainly modern domestic breeding, as well as the related species Solanum stoloniferum (as an outgroup). Using two primer/enzyme combinations (NBS7/MseI and NBS9/MseI), 204 NBS fragments were generated, of which 144 (70.6 %) were polymorphic and one fragment was unique to cv. Gala. For each cultivar, a specific spectrum of NBS fragments was determined. Analysis of genetic distance matrix revealed a high level of polymorphism (GD = 0.18-0.45 with an average value of 0.33) among the studied cultivars. Genetic distances within the analyzed cultivars varied more than between the cultivars and the accession of S. stoloniferum (GD = 0.27-0.40). The most related cultivars were Solnechny/Pamyati Rogacheva (GD = 0.18) and Velikan/Vympel (GD = 0.19) originated from Lorch Potato Research Institute, and the most distant cultivars were Charoito/Red Scarlett (GD = 0.45). Statistical analysis of NBS-profiling data clustered studied potato cultivars in accordance with the pedigree and resistance to phytopathogens. On the dendrogram and graphs generated using the PAST and Structure 2.3.4, a pronounced tendency to group cultivars by traits of resistance to the Potato virus Y (Potyvirus, Potyviridae) and the Potato leafroll virus (Polerovirus, Luteoviridae) was shown. The primer/enzyme systems used in this study for NBS-profiling can be applied to study the mechanisms of potato resistance to biotic stresses.

Keywords: Solanum tuberosum, Russian cultivars, foreign cultivars, genomic polymorphism, NBS-LRR-profiling, RGA-analysis.

 

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