Analysis of diversity and genetic interactions of potato varieties (Solanum tuberosum L.) based on morphological characteristics and SSR markers

Abstract

Purpose. To estimate a correlation between SSR-markers and morphological features by genetic distances on the basis of polymorphism of potato varieties. Methods. PCR analysis, cluster and correlation-regression analysis. Results. The results of analysis of potatoes varieties polymorphism based on molecular genetic and morphological marker features are presented. Varieties polymorphism was assessed on four microsatellite markers: STM0019, STM3009, STM3012, STM5136 and 42 morphological markers. According to the results of PCR analysis, it was determined that the frequency of identified alleles ranged from 0.021 to 0.33, the index of polymorphism on the average for studied markers was 0.76. Using cluster analysis, the genetic distances between varieties based on SSR and morphological markers were determined, and similar varieties and varieties that differ among themselves were identified. According to the obtained distribution, the correlation between the genetic distances by Mantel test are estimated, namely, a regression, in which the variables are similarity matrices, summing the pairwise similar values between the sampling points was defined. As a result of the estimation of genetic distances between the investigated genotypes of potatoes, it was revealed that the varieties 'Skarbnytsia' and 'Yavir' were the most similar by markers STM0019, STM3009, STM3012, STM5136. The distance between these varieties was 2.45, while the greatest distance-3.74 was found among the varieties 'Levada' and 'Dovira', 'Fantaziia' and 'Dovira'. According to marker morphological signs, the least value of genetic distances was 8.9 for varieties 'Slovianka' and 'Poliske Dzherelo', the most distant ones were 'Okolytsia' and 'Dovira', with values of 18.2. It was revealed that the potato variety 'Dovira' with the value of genetic distances of 18.2 and 3.74 for morphological and SSR markers respectively was the most distant from other investigated genotypes. The correlations were not found by Mantel test as a result of the analysis of genetic distances based on SSR-markers and morphological signs. Conclusions. The use of a complex of studies containing a description of morphological features and microsatellite markers is promising for identifying potato varieties, creating collections of well-known varieties and determining their differences.

SSR analysis of modern Russian potato varieties using DNA samples of nomenclatural standards

“…Особую популярность приобрел набор PGI -Potato genetic identity kit (Ghislain et al, 2009), который содержит 24 пары праймеров, специфичных к последовательностям однокопийных SSR-локусов, при этом на каждой хромосоме генома картофеля картировано по два локуса. Различное число SSR-маркеров из набора PGI активно используется в генбанках, исследовательских и селекционных центрах для генотипирования и изучения разнообразия аборигенных южно-американских сортов (Ghislain et al, 2004(Ghislain et al, , 2006(Ghislain et al, , 2009Spooner et al, 2007;Gavrilenko et al, 2010), местных и селекционных сортов (Spooner et al, 2005;Favoretto et al, 2011;Kandratiuk et al, 2012;Shvachko, 2012;Yessimseitova et al, 2015;Antonova et al, 2016;Ghebreslassie et al, 2016;Bali et al, 2017;Kolobova et al, 2017;Prysiazhniuk et al, 2018;Tiwari et al, 2018). В цитированных выше работах было показано, что однозначная идентификация сортов картофеля может быть осуществлена с применением меньшего, чем 24, числа SSR-маркеров из набора PGI.…”