References

vavilov

Вавиловский журнал генетики и селекции

Vavilov Journal of Genetics and Breeding

2500-3259

Institute of Cytology and Genetics of Siberian Branch of the RAS

10.18699/VJ20.640

vavilov-2712

Research Article

ГЕНЕТИЧЕСКИЕ РЕСУРСЫ И БИОКОЛЛЕКЦИИ

PLANT GENETICS

Идентификация видов рода Nitraria L. (Nitrariaceae) на основе нуклеотидной изменчивости ядерной рибосомной ДНК

Identification of species in the genus Nitraria L. (Nitrariaceae) based on nucleotide variability of nuclear ribosomal DNA

https://orcid.org/0000-0002-8258-127X

Полякова

Т. А.

Poliakova

T. A.

tat-polyakova@yandex.ru

https://orcid.org/0000-0003-1314-8429

Банаев

Е. В.

Banaev

E. V.

alnus2005@mail.ru

https://orcid.org/0000-0002-0307-5919

Томошевич

М. А.

Tomoshevich

M. A.

Институт общей генетики им. Н.И. Вавилова Российской академии наукРоссияVavilov Institute of General Genetics of the Russian Academy of SciencesRussian Federation

Центральный сибирский ботанический сад Сибирского отделения Российской академии наукРоссияCentral Siberian Botanical Garden of Siberian Branch of the Russian Academy of SciencesRussian Federation

2020

28082020

245481488

2020

Полякова Т.А., Банаев Е.В., Томошевич М.А.

Poliakova T.A., Banaev E.V., Tomoshevich M.A.

This work is licensed under a Creative Commons Attribution 4.0 License.

https://vavilov.elpub.ru/jour/article/view/2712

Проведен сравнительный анализ внутригеномного полиморфизма последовательностей внутренних транскрибируемых спейсеров ITS1 и ITS2 ядерной рибосомной ДНК у 33 образцов, принадлежащих трем видам Nitraria – N. schoberi, N. sibirica, N. komarovii. Выявлена нуклеотидная изменчивость региона ITS у изученных видов Nitraria в виде однонуклеотидных замен (преимущественно транзиции) и однонуклеотидной делеции. Сведения о нуклеотидной изменчивости фрагментов приводятся впервые нами. Регион ITS1-5.8S-ITS2 у изученных видов Nitraria содержит 17 филогенетически информативных однонуклеотидных замен. В межгенном спейсере ITS1 выявлено 11 однонуклеотидных замен – транзиций (C/T). Спейсер ITS2 содержит 273–274 п.н. и отличается большей консервативностью. Всего в ITS2 у изученных образцов выявлено пять филогенетически информативных однонуклеотидных замен (четыре транзиции: C/T, G/A, одна трансверсия: G/C), одна однонуклеотидная делеция (T/–). Среднее значение содержания G+C составляет 61.5 %. Величина содержания GC-состава ниже у N. sibirica (59.2 %), чем у N. schoberi и N. komarovii (62.7 %). В сравнении с полноразмерным фрагментом ITS, более короткий ITS2 является подходящим молекулярным маркером, дискриминирующим виды, из-за низкой межвидовой изменчивости и одновременно выраженной внутривидовой вариабельности. Филогенетические ML и BI деревья, построенные как отдельно по спейсерам ITS1 и ITS2, так и отдельно по полноразмерному ITS-региону и спейсеру ITS2, оказались конгруэнтны. Полученные результаты по внутривидовой дифференциации N. sibirica позволяют выделить среди образцов этого вида два основных риботипа: основной сибирский sibirica-риботип и основной казахстанский sibirica-риботип. Географические особенности распространения риботипов N. sibirica, а также наличие существенных различий между основными сибирским и казахстанским sibirica-риботипами (три однонуклеотидные замены) свидетельствуют о существенных межпопуляционных различиях и таксономической неоднородности N. sibirica. Вероятнее всего, в настоящее время продолжаются процессы гомогенизации рибосомной ДНК образцов N. sibirica, происхождение которых связано с гибридизацией и видообразованием.

Intragenomic polymorphism of ITS1 and ITS2 of nuclear ribosomal DNA sequences was analysed in 33 samples belonging to the Nitraria species N. schoberi, N. sibirica, and N. komarovii. The nucleotide variability of the ITS region was detected in the Nitraria species as single-nucleotide substitutions (mainly transitions) and single-nucleotide deletion. Information about the nucleotide variability of fragments is given for the first time by us. The ITS1-5.8S-ITS2 region contained 17 phylogenetically informative single-nucleotide polymorphisms. Eleven single-nucleotide substitutions (transitions, C/T) were detected in ITS1. The ITS2 spacer contained 273–274 bp and was more conservative. A total of 5 phylogenetically informative single-nucleotide polymorphisms (4 transitions: C/T, G/A, one transversion: G/C), one single-nucleotide deletion (T/–) were detected in ITS2. The average GC content was 61.5 %. The GC content was lower in N. sibirica (59.2 %) than in N. schoberi and N. komarovii (62.7 %). It has been shown that the shorter ITS2 is a suitable molecular marker separating these species, due to the low interspecific variability and simultaneous available intraspecific variability. Phylogenetic ML and BI trees constructed separately for the ITS1 and ITS2 spacers, as well as separately for the full-size ITS region and the ITS2 spacer, were congruent. The results obtained on the intraspecific differentiation of N. sibirica revealed two main ribotypes among the samples of this species: the main Siberian sibirica-ribotype and the main Kazakh sibiricaribotype. Geographical features of the distribution of N. sibirica ribotypes, as well as the presence of significant differences between the main Siberian and Kazakh sibirica-ribotypes (3 single-nucleotide substitutions) indicated significant inter-population differences and taxonomic heterogeneity of N. sibirica. Most likely, the processes of homogenization of nuclear ribosomal DNA of N. sibirica samples, the origin of which is associated with hybridization and speciation, are currently continuing.

NitrariaN. schoberiN. sibiricaN. komaroviiгенетическая изменчивостьтаксономиямолекулярная идентификацияITSтранзиция

NitrariaN. schoberiN. sibiricaN. komaroviigenetic variabilitytaxonomymolecular identificationITStransition

This research was supported by the Project VI.52.1.2 “Analysis of the intraspecific structure of resource plants in Asian Russia, selection and conservation of the gene pool” (АААА-А17-117012610054-6) and is carried out within the framework of the topic “Genomic research and genetic polymorphism of cells, organisms and populations” (0112-2020-0001)

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The authors declare that there are no conflicts of interest present.