Біоінформатичний аналіз генів рису посівного (<em>Oryza sativa</em> L.), асоційованих зі стійкістю проти пірикуляріозу

К. В. Бондаренко; Г. І. Сліщук; Н. Е. Волкова

doi:10.21498/2518-1017.13.3.2017.110708

Authors

К. В. Бондаренко Institute of rice of NAAS of Ukraine, Ukraine https://orcid.org/0000-0003-1468-1233
Г. І. Сліщук Plant Breeding and Genetics Institute – National Center of Seed and Cultivar Investigation, Ukraine https://orcid.org/0000-0003-4245-8557
Н. Е. Волкова Plant Breeding and Genetics Institute – National Center of Seed and Cultivar Investigation, Ukraine https://orcid.org/0000-0002-9333-4872

DOI:

https://doi.org/10.21498/2518-1017.13.3.2017.110708

Keywords:

Genes Pib, Pi54, Pi4, sequence alignment, phylogenetic analysis, evolution, single nucleotide polymorphism, indels

Abstract

Purpose. To investigate rice blast resistance genes polymorphism by using bioinformatic methods.

Methods. Global and local nucleotide alignment, phylogenetic analysis, HyPhy test.

Results. For Pib gene, numerous single nucleotide substitutions and deletions of 1–3 bp were established. The phylogeny of this gene has been studied and homologues have been found both in various rice species and in other cereals. These sequences can encode proteins that «recognize» the phytopathogens effectors, and can also be associated with resistance to phytopathogens. The Pi4 gene is characterized by single nucleotide substitutions, insertions and deletions; the number of non-synonymous substitutions exceeds the number of synonymous ones. The Pi54 gene variability is significantly lower than that of the Pi4 and Pib genes. The predominant types of polymorphism were single nucleotide substitutions and small-sized indels. It was found that non-synonymous substitutions in Pi54, Pi4 and Pib genes were in close proximity, sometimes forming clusters, while some coding regions were either superconservative or contained predominantly synonymous substitutions. On philodendrograms, cultivated rice samples were clustered with samples of ancestral wild-growing species.

Conclusions. Evolution of the rice blast resistance genes Pi4, Pib and Pi54 is characterized by diversification selection. Considering that tense coevolution and significant rate of adaptation and creation of new pathogen races are typical for a plant and a parasite, these genes are subjected to intensive selection aimed at increasing diversity for obtaining the resistance to new races of the pathogen.

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Author Biographies

К. В. Бондаренко, Institute of rice of NAAS of Ukraine

KaterinaBondarenko

Г. І. Сліщук, Plant Breeding and Genetics Institute – National Center of Seed and Cultivar Investigation

Heorhii Slishchuk

Н. Е. Волкова, Plant Breeding and Genetics Institute – National Center of Seed and Cultivar Investigation

Nataliia Volkova

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