Труды сотрудников ИЛ им. В.Н. Сукачева СО РАН

: материалы временных коллективов / A. Ya. Larionova, A. K. Ekart, A. N. Kravchenko // Eurasian Journal of Forest Research. - 2007. - Vol. 10-2. - С. 185-192. - Библиогр. в конце ст.
Аннотация: The genetic diversity and population structure of Siberian fir (Abies sibirica LEDEB.) in Middle Siberia were studied on the basis of allozyme variation analysis at 20 loci. The vegetatives buds collected from 260 trees in nine populations representing different geographical localities and altitudinal sites were used as materials for study. Horizsontal starch gel electrophoresis was applied to analyze the isozyme patterns of 11 enzyme systems. 20% of the gene loci assayed were revealed to be polymorphic at 95%, and 35% at a 99% criterion. The mean number of alleles per locus, the mean observed heterozygosity, the mean expected heterozygosity, and the effective number of alleles were equal. The obtained data indicates a low level of genetic diversity and a weak differentiation among the A. sibirica populations studied in Middle Siberia. The most significant difference in structure was that between Kozulka and Western Sayan.

Держатели документа:
Институт леса им. В.Н. Сукачева Сибирского отделения Российской академии наук : 660036, Красноярск, Академгородок, 50, стр., 28

Доп.точки доступа:
Ekart, Alexandr Karlovich; Экарт, Александр Карлович; Kravchenko, Anna Nikolayevna; Кравченко, Анна Николаевна; Ларионова, Альбина Яковлевна
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[Text] / I. V. Tikhonova, V. L. Semerikov // Russ. J. Ecol. - 2010. - Vol. 41, Is. 5. - P372-377, DOI 10.1134/S1067413610050024. - Cited References: 39. - The study was supported by the Krasnoyarsk Regional Science Foundation and Russian Foundation for Basic Research (project no. 07-04-96808) and the Siberian Branch of the Russian Academy of Sciences (project no. 53). . - 6. - ISSN 1067-4136РУБ Ecology

Аннотация: Polymorphism of 11 enzyme systems has been studied in dwarf Scots pine trees occurring on sand dunes and crags in two populations of southern Central Siberia. High genotypic variability of dwarfs and their similarity to normal trees in basic indices of genetic diversity have been revealed. Both populations, including normal and dwarf trees, are in the Hardy-Weinberg equilibrium. The sample of dwarf trees has proved to differ from the "norm" in showing an age-related trend toward decreased heterozygosity. The observed linkage disequilibrium at some pairs of loci can be explained by unequal contributions of trees to population reproduction or by a recent bottleneck event. The populations studied are similar to other Scots pine populations from the Asian part of the species range. Increased frequencies of some rare alleles in the populations from Tuva provide evidence for the probable presence of a glacial refugium for pine in this region.

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Держатели документа:
[Tikhonova, I. V.] Russian Acad Sci, Siberian Branch, Sukachev Inst Forest, Krasnoyarsk 660036, Akademgorodok, Russia
[Semerikov, V. L.] Russian Acad Sci, Ural Branch, Inst Plant and Anim Ecol, Ekaterinburg 620144, Russia

Доп.точки доступа:
Tikhonova, I.V.; Semerikov, V.L.

[Text] / A. N. Kravchenko, A. Y. Larionova, L. I. Milyutin // Russ. J. Genet. - 2008. - Vol. 44, Is. 1. - P35-43, DOI 10.1134/S1022795408010055. - Cited References: 42 . - 9. - ISSN 1022-7954РУБ Genetics & Heredity

Аннотация: Based on the analysis of 22 loci controlling allozyme variation of MDH, SKDH, 6-PGD, IDH, PEPCA, GOT, FDH, LAP, PGI, PGM, SOD, and GDH, the data on within-and among-population variation for nine cenopopulations of Siberian spruce (Picea obovata Ledeb.) located along the Yenisei mieridian, from 65 degrees 50' NL to 52 degrees 14' NL, were obtained. It was demonstrated that 86.36% of the loci, tested in the species analyzed, were polymorphic. The mean number of alleles per locus was 2.91, and the observed and expected heterozygosity constituted 0.161 and 0.168, respectively. More than 97% of total variation occurred within the populations, while the proportion of the among-population variation constituted only 2.3% (F-st =0.0230). Genetic distance (D-N) between the populations examined varied from 0.0019 to 0.0115, averaging at 0.0051. It was shown that in the part of the Siberian spruce range examined there was no close association between the level of the genetic differentiation of the populations and the geographic distance between them. It seems likely, that this finding can be associated with the fact that Siberian spruce, growing on this territory, is the intrazonal species, i.e., it is not attached to a certain forest zone, and its distribution is mostly determined by local ecological conditions.

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Держатели документа:
[Kravchenko, A. N.
Larionova, A. Ya.
Milyutin, L. I.] Russian Acad Sci, Sukachev Inst Forest, Siberian Branch, Krasnoyarsk 660036, Russia

Доп.точки доступа:
Kravchenko, A.N.; Larionova, A.Y.; Milyutin, L.I.

[Text] / A. Y. Larionova, N. V. Yakhneva, A. P. Abaimov // Russ. J. Genet. - 2004. - Vol. 40, Is. 10. - P1127-1133, DOI 10.1023/B:RUGE.0000044756.55722.d8. - Cited References: 32 . - 7. - ISSN 1022-7954РУБ Genetics & Heredity

Аннотация: Within- and among-population diversity of Gmelin larch Larix gmelinii (Rupr.) Rupr. from Evenkia was inferred from data on 17 genes determining allozyme diversity of ten enzymes. More than 50% of the genes proved to be polymorphic. On average, each tree was heterozygous at 9.2% genes. Heterozygosity expected from the Hardy-Weinberg proportions was higher, 12.5%. A deficit of heterozygous genotypes was observed in all populations under study and attributed to inbreeding. With Wright's F statistics, average individual inbreeding was estimated at 26.6% relative to the population (F-IS) and at 27.8% relative to the species (F-IT). The greatest deficit of heterozygosity was observed for the youngest population II. Within- population variation accounted for more than 98% of the total variation, while the contribution of among-population variation was 1.66%. Genetic distance between populations varied from 0.0025 to 0.0042, averaging 0.0035.

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Держатели документа:
Russian Acad Sci, Sukachev Inst Forestry, Krasnoyarsk 660036, Russia

Доп.точки доступа:
Larionova, A.Y.; Yakhneva, N.V.; Abaimov, A.P.

/ I. V. Tikhonova // Contemp. Probl. Ecol. - 2015. - Vol. 8, Is. 4. - P457-463, DOI 10.1134/S1995425515040149 . - ISSN 1995-4255
Аннотация: The correlations of genotype heterozygosity with sex and sensitivity of a tree to the influence of ecological factors are considered. A rather close triple correlation between the considered treats is noted. The wave character of correlation of sex and heterozygosity level with sensitivity of trees to growing conditions can testify to the existence of optimal combinations of alleles of homo- and heterozygous loci for the given conditions. They are manifested in the lowering of sensitivity of trees to environmental factors at values of heterozygosity of 0.125 and 0.375. The influence of heterozygosity of trees on the stability of their sexual type in time is revealed. The pines characterized by the greatest hormonal reorganizations in reply to a change in environmental conditions have lower values of heterozygosity. © 2015, Pleiades Publishing, Ltd.

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Держатели документа:
Sukachev Institute of Forest, Siberian Branch, Russian Academy of Sciences, Akademgorodok 50/28, Krasnoyarsk, Russian Federation

Доп.точки доступа:
Tikhonova, I. V.

/ E. A. Babushkina [et al.] // Dendrochronologia. - 2016. - Vol. 38. - P26-37, DOI 10.1016/j.dendro.2016.02.005 . - ISSN 1125-7865
Аннотация: The genetic mechanisms underlying the relationship of individual heterozygosity (IndHet) with heterosis and homeostasis are not fully understood. Such an understanding, however, would have enormous value as it could be used to identify trees better adapted to environmental stress. Dendrochronology data, in particular the individual average radial increment growth of wood measured as the average tree ring width (AvTRW) and the variance of tree ring width (VarTRW) were used as proxies for heterosis (growth rate measured as AvTRW) and homeostasis (stability of the radial growth of individual trees measured as VarTRW), respectively. These traits were then used to test the hypothesis that IndHet can be used to predict heterosis and homeostasis of individual trees. Wood core and needle samples were collected from 100 trees of Siberian larch (Larix sibirica Ledeb.) across two populations located in Eastern Siberia. DNA samples were obtained from the needles of each individual tree and genotyped for eight highly polymorphic microsatellite loci. Then mean IndHet calculated based on the genotypes of eight loci for each tree was correlated with the statistical characteristics of the measured radial growth (AvTRW and VarTRW) and the individual standardized chronologies. The analysis did not reveal significant relationships between the studied parameters. In order to account for the strong dependence of the radial growth on tree age the age curves were examined. An original approach was employed to sort trees into groups based on the distance between these age curves. No relationship was found between these groups and the groups formed based on heterozygosity. However, further work with more genetic markers and increased sample sizes is needed to test this novel approach for estimating heterosis and homeostasis. © 2016 Elsevier GmbH.

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Держатели документа:
Khakasia Technical Institute, Siberian Federal University, 27 Shchetinkina St., Abakan, Russian Federation
Siberian Federal University, Pr. Svobodniy 79, Krasnoyarsk, Russian Federation
V.N. Sukachev Institute of Forest, Siberian Branch, Russian Academy of Sciences, Akademgorodok, 50/28, Krasnoyarsk, Russian Federation
Georg-August-University of Gottingen, Busgenweg 2, Gottingen, Germany
N.I. Vavilov Institute of General Genetics, Russian Academy of Sciences, 3 Gubkina St., Moscow, Russian Federation
Texas AandM University, College Station, TX, United States
Institute of Geography, Russian Academy of Sciences, 29 Staromonetniy Pereulok, Moscow, Russian Federation

Доп.точки доступа:
Babushkina, E. A.; Vaganov, E. A.; Grachev, A. M.; Oreshkova, N. V.; Belokopytova, L. V.; Kostyakova, T. V.; Krutovsky, K. V.

/ A. K. Ekart [et al.] // Russ. J. Gen. - 2016. - Vol. 52, Is. 3. - P273-280, DOI 10.1134/S1022795416030054 . - ISSN 1022-7954
Аннотация: The variability of 21 allozyme and three microsatellite loci of chloroplast DNA (cpDNA) was studied in the populations of Siberian spruce (Picea obovata Ledeb.) from Irkutsk oblast, Magadan oblast, Buryatia, and Mongolia. It was demonstrated that the highest level of genetic diversity among the examined populations at both allozyme and microsatellite loci was observed in the Tulyushka population from Irkutsk oblast. The lowest level of genetic diversity was observed in marginal isolated populations of Bogd Uul and Magadan. In the relict spruce population from Olkhon Island, differing from the other populations in the lowest allelic diversity of both types of markers, no expected decline of expected heterozygosity and haplotype diversity was observed. In this population, the variability parameters mentioned were close to the population mean. The obtained intrapopulation and intraspecific variability parameters of allozyme and microsatellite loci of chloroplast DNA and the data on the population differentiation at these loci indicate that the given markers can be used for the analysis of the population structure of Siberian spruce. © 2016, Pleiades Publishing, Inc.

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Держатели документа:
Sukachev Institute of Forest, Siberian Branch, Russian Academy of Sciences, Krasnoyarsk, Russian Federation
Institute of Plant and Animal Ecology, Ural Branch, Russian Academy of Sciences, Yekaterinburg, Russian Federation

Доп.точки доступа:
Ekart, A. K.; Semerikova, S. A.; Semerikov, V. L.; Larionova, A. Y.; Kravchenko, A. N.; Dymshakova, O. S.

/ M. M. Belokon [et al.] // Russ. J. Gen. - 2016. - Vol. 52, Is. 12. - P1263-1271, DOI 10.1134/S1022795416120036 . - ISSN 1022-7954
Аннотация: Siberian stone pine, Pinus sibirica Du Tour is one of the most economically and environmentally important forest-forming species of conifers in Russia. To study these forests a large number of highly polymorphic molecular genetic markers, such as microsatellite loci, are required. Prior to the new high-throughput next generation sequencing (NGS) methods, discovery of microsatellite loci and development of micro-satellite markers were very time consuming and laborious. The recently developed draft assembly of the Siberian stone pine genome, sequenced using the NGS methods, allowed us to identify a large number of microsatellite loci in the Siberian stone pine genome and to develop species-specific PCR primers for amplification and genotyping of 70 microsatellite loci. The primers were designed using contigs containing short simple sequence tandem repeats from the Siberian stone pine whole genome draft assembly. Based on the testing of primers for 70 microsatellite loci with tri-, tetra- or pentanucleotide repeats, 18 most promising, reliable and polymorphic loci were selected that can be used further as molecular genetic markers in population genetic studies of Siberian stone pine. © 2016, Pleiades Publishing, Inc.

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Держатели документа:
Vavilov Institute of General Genetics, Russian Academy of Sciences, Moscow, Russian Federation
Russian Center of Forest Health, Federal Forestry Agency, Pushkino, Russian Federation
Sukachev Institute of Forest, Siberian Branch of the Russian Academy of Sciences, Krasnoyarsk, Russian Federation
Genome Research and Education Center, Siberian Federal University, Krasnoyarsk, Russian Federation
Georg-August University of Gottingen, Gottingen, Germany
Texas A&M University, College Station, TX, United States

Доп.точки доступа:
Belokon, M. M.; Politov, D. V.; Mudrik, E. A.; Polyakova, T. A.; Shatokhina, A. V.; Belokon, Y. S.; Oreshkova, N. V.; Putintseva, Y. A.; Sharov, V. V.; Kuzmin, D. A.; Krutovsky, K. V.

/ N. V. Oreshkova [et al.] // Russ. J. Gen. - 2017. - Vol. 53, Is. 3. - P338-347, DOI 10.1134/S1022795417020089 . - ISSN 1022-7954
Аннотация: Variability of nuclear microsatellite loci was examined in Siberian dwarf pine. Six microsatellite loci (RPS2, RPS6, RPS12, RPS124, RPS127, Pc18) demonstrated different polymorphism levels in ten populations of Siberian dwarf pine. The average number of alleles per locus was 4.88, the average observed heterozygosity was 0.465, and the average expected heterozygosity was 0.510. About 13% of total genetic variability was explained by the genetic differences between the populations (FST = 0.129). Genetic distances between the examined populations of Pinus pumila inferred from the data on the SSR marker frequencies statistically significantly correlated with the geographical distances between the population samples. The level of genetic variability of the populations from Kamchatka Peninsula was lower than that demonstrated by continental and island populations. The genetic differentiation of the Kamchatka–Magadan and other populations of Siberian dwarf pine observed in our study can be explained in terms of their formation from different Pleistocene refugial centers. © 2017, Pleiades Publishing, Inc.

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Держатели документа:
Sukachev Institute of Forest, Siberian Branch, Russian Academy of Sciences, Krasnoyarsk, Russian Federation
Kamchatka Branch of Pacific Geographical Institute, Far East Branch, Russian Academy of Sciences, Petropavlovsk-Kamchatsky, Russian Federation
Institute of Monitoring of Climatic and Ecological Systems, Siberian Branch, Russian Academy of Sciences, Tomsk, Russian Federation

Доп.точки доступа:
Oreshkova, N. V.; Vetrova, V. P.; Goroshkevich, S. N.; Petrova, E. A.

[Текст] : научное издание / В.В. Тараканов [и др.] // Сибирский лесной журнал. - 2017. - № : 1. - С. 95-104 : табл., DOI 10.15372/SJFS20170110. - Библиогр. в конце ст. . - ISSN 2311-1410
   Перевод заглавия: VARIABILITY OF NEEDLE ANTIMICROBIC ACTIVITY IN CLONE PLANTATION OF SCOTS PINE <i>Pinus sylvestris</i> L

УДК

577.19

582.475+581.522.4 (571.1)

Аннотация: Оценена антимикробная активность летучих соединений хвои 23-летних клонов <i>Pinus sylvestris</i> L. методом «опарения» штриховых посевов микробных культур в чашках Петри. Исследования проведены 18 и 26 июля 2011 г. на трех тест-объектах - грамположительных бактериях <i>Staphylococcus epidermidis</i>, грамотрицательных бактериях <i>Esсherichia coli</i> и дрожжеподобных грибах <i>Candida albicans</i>. Оценка антимикробного действия сосны проводилась в сравнении с контролем по шкале фитонцидной активности в баллах от 0 (отсутствие эффекта) до 4 (сильный эффект). Средний балл фитонцидной активности клонов по отношению к отдельным тест-системам варьировал в пределах 0.00-3.00. Выявлены слабая дифференциация клонов сосны к <i>Staphylococcus epidermidis</i> и отсутствие достоверных межклоновых различий по воздействию эфирных масел сосны на остальные микробные тест-объекты. Частота парных сравнений, в которых обнаружены достоверные различия между клонами, составляет менее 5 % для S. epidermidis и около 1.5 % для всех тест-микробов. Наряду с этим прослеживались высокодостоверные эффекты времени проведения тестов (календарной даты), вида тест-объекта («патогена») и взаимодействия «дата тестирования - патогены» и «дата тестирования - клоны», на которые в 3-факторном дисперсионном анализе приходится около 23, 33 и 15 % соответственно. Наиболее вероятными причинами этого являются динамика состава летучих соединений хвои и взаимодействие генотип - среда, что должно стать объектом более пристальных исследований. Очень важным в этой связи является вопрос о сезоне, который оптимален для надежного выявления генотипов сосны, отличающихся максимальной фитонцидностью. Выявлена отрицательная межклоновая (генотипическая) корреляция между фитонцидностью сосны к <i>S. epidermidis</i> и к <i>C. albicans</i>. Возможно, это обусловлено обратно пропорциональной зависимостью между содержанием определенных компонентов в эфирных маслах, которые отвечают за ингибирование различных патогенных организмов. При анализе генетических особенностей протестированных клонов выделяются их совокупности, достоверно различающиеся, с одной стороны, по фитонцидности к стафилококку <i>S. epidermidis</i>, с другой - по индивидуальной гетерозиготности аллозимных локусов. Такого рода дифференциация генотипов отмечена впервые и также может быть в фокусе дальнейших исследований.
Streak inoculation of microbial test-cultures was treated with volatile emissions of needles of 23-years clones of <i>Pinus sylvestris</i> L. The study was conducted in July 2011 on three test-objects - gram-positive bacteria <i>Staphyllococcusepidermidis</i>, gram-negative bacteria <i>Esсherichia coli</i> and yeast-like fungi <i>Candida albicans</i>. Antimicrobial effect of pine volatile emissions was assessed in comparison with the control on 0 (absence of the effect) - 4 (strong effect) scale of antimicrobial activity. The mean marks of antimicrobial activity of clones, calculated in relation to separate test-systems, were within the limits of 0.00-3.00. The weak differentiation of pine clones to <i>S. epidermidis</i> is revealed. Frequency of pair comparisons in which statistically significant differences between clones was found to be less than 5 % for <i>S. epidermidis</i> and about 1.5 % for all the test-microbes. Alongside with it significant effects of the time of testing (calendar dates), a microbial species («pathogens») and interactions «date of testing-pathogens» and «date of testing-clones» were revealed: in ANOVA their effects amounted to nearly 23, 33 and 15 % of the total dispersion accordingly. The most probable reasons for it are dynamics of structure of essential oils and «genotype-environment» interaction that should become object of future research. In this connection, an important question is what is the season that is optimum for reliable revealing of the pine genotypes with maximal antimicrobial activity? Negative between-clones (between-genotypes) correlations between antimicrobial activity to <i>S. epidermidis</i> and to <i>C. albicans</i> are revealed. It is probably caused by inversely proportional dependence between concentrations of the components in essential oils, which are responsible for inhibition of various pathogenic organisms. The sample of investigated clones was divided into two sub-samples that sufficiently differed by the levels of both antimicrobial activity to <i>S. epidermidis</i> and individual heterozygosity of allozyme's loci. Such differentiation of genotypes is noted for the first time, and can be in focus of further studies.

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Держатели документа:
Институт леса им. В. Н. Сукачева СО РАН
Новосибирский государственный аграрный университет
Центральный сибирский ботанический сад СО РАН

Доп.точки доступа:
Тараканов, Вячеслав Вениаминович; Tarakanov V.V.; Чиндяева, Людмила Николаевна; Chindyaeva L.N.; Цыбуля, Наталья Владимировна; Tsybulya N.V.; Тихонова, Ирина Васильевна; Tikhonova Irina Vasil'yevna

/ N. V. Oreshkova [et al.] // Russ. J. Genet. - 2017. - Vol. 53, Is. 11. - P1194-1199, DOI 10.1134/S1022795417110096. - Cited References:12. - The study was done as a part of the project "Genomics of the Key Boreal Forest Conifer Species and Then Major Phytopathogens in the Russian Federation" funded by the Government of the Russian Federation (grant no. 14.Y26.31.0004). . - ISSN 1022-7954. - ISSN 1608-3369РУБ Genetics & Heredity

Аннотация: This special issue of the journal is devoted to the outstanding population geneticist Yuri Petrovich Altukhov, who paid much attention in his research to the development of molecular genetic markers for population studies. Over the past time markers and methods of their development have undergone significant change. Thanks to modem methods of whole genome sequencing, it has become possible to develop markers of very different types-selectively neutral, as well as functional. Among them, microsatellite markers remain the most informative, convenient, reproducible, relatively inexpensive, and polymorphic. Whole genome sequencing greatly facilitates their discovery and development. This paper is devoted to the development of new microsatellite markers for a very important species of boreal forest-Siberian larch (Larix sibirica Ledeb.). Using a draft assembly of the larch genome, several thousand contigs containing microsatellite loci with di-, tri, tetra-, and pentanucleotide motifs were selected. A total of 59 pairs of PCR primers were tested for loci with dinucleotide motifs as the most variable. From them, 11 pairs were finally selected for 11 loci with dinucleotide repeats, which showed a high level of polymorphism and can be used in various population genetic studies and to identify the origin of wood and plant material.

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Держатели документа:
Siberian Fed Univ, Genome Res & Educ Ctr, Krasnoyarsk 660036, Russia.
Russian Acad Sci, Siberian Branch, Sukachev Inst Forest, Krasnoyarsk 660036, Russia.
Georg August Univ Gottingen, D-37077 Gottingen, Germany.
Russian Acad Sci, Vavilov Inst Gen Genet, Moscow 119333, Russia.
Texas A&M Univ, College Stn, TX 77843 USA.

Доп.точки доступа:
Oreshkova, N. V.; Putintseva, Yu. A.; Sharov, V. V.; Kuzmin, D. A.; Krutovsky, K. V.; Krutovsky, Konstantin; Government of the Russian Federation [14.Y26.31.0004]

[Текст] : статья / Н. В. Орешкова [и др.] // Генетика. - 2019. - Т. 55, № 4. - С. 418-425, DOI 10.1134/S001667581904009X . - ISSN 0016-6758
   Перевод заглавия: Development of Nuclear Microsatellite Markers with Long (Tri-, Tetra-, Penta-and Hexanucleotide) Motifs for Three Larch Species Based on the de novoWhole Genome Sequencing of Siberian Larch (Larix sibirica Ledeb.)

УДК

575.113

582.475.4

Аннотация: Лиственница сибирская Larix sibirica Ledeb. является одной из преобладающих бореальных пород в Евразии и имеет высокую экономическую и экологическую ценность. Однако, несмотря на это, разработка и использование микросателлитных маркеров для ее исследования остаются недостаточными. Микросателлитные маркеры уже долгое время являются признанным инструментом для оценки популяционной изменчивости и структуры видов. В настоящей работе был проведен поиск простых три-, тетра-, пента- и гексануклеотидных тандемных повторов в геномной референсной de novo сборке лиственницы сибирской, локусы которой легко генотипируются даже путем простого гель-электрофореза. Всего было найдено более тысячи предположительных микросателлитных локусов. На основе этих данных были разработаны и проверены 60 пар олигонуклеотидных ПЦР праймеров. По итогам тестирования праймеров на образцах ДНК из трех видов лиственницы (L. sibirica Ledeb., L. gmelinii (Rupr.) Rupr. и L. cajanderi Mayr.) были отобраны 14 наиболее перспективных полиморфных локусов, которые могут успешно применяться для изучения и идентификации не только лиственницы сибирской, но также лиственниц Гмелина и Каяндера.
Siberian larch Larix sibirica Ledeb. is one of the major boreal tree species in Eurasia and has a considerable economic and ecological value. Despite that importance, the development and use of microsatellite markers in this species remain limited. Microsatellite markers are considered to be a valuable tool for estimation of population diversity and structure. Availability of draft reference assembly of the Siberian larch genome allowed us to identify 1015 microsatellite loci or simple sequence repeats (SSRs) with tri-, tetra-, penta- and hexa-nucleotide motifs. For 60 of them PCR primers were designed and tested for amplification in L. sibirica and for their cross-genus transferability to L. gmelinii (Rupr.) Rupr. and L. cajanderi Mayr. Here we present a set of 14 reliable and polymorphic nuclear SSR markers that can be used for further population genetic studies, breeding programs and timber origin identification.

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Держатели документа:
Геттингенский университет им. Георга-Августа
Институт леса им. В.Н. Сукачева Сибирского отделения Российской академии наук : 660036, Красноярск, Академгородок, 50, стр. 28
Институт общей генетики им. Н.И. Вавилова Российской академии наук
Научно-образовательный центр геномных исследований Сибирского федерального университета
Техасский АМ университет, Колледж Стейшн

Доп.точки доступа:
Орешкова, Наталья Викторовна; Бондар, Е.И.; Bondar E.I.; Путинцева, Ю.А.; Putintseva Yu. A.; Шаров, В.В.; Sharov V.V.; Кузьмин, Д.А.; Kuzmin D.A.; Крутовский, К.В.; Krutovsky K.V.

/ N. V. Oreshkova [et al.] // Russ. J. Genet. - 2019. - Vol. 55, Is. 4. - P444-450, DOI 10.1134/S1022795419040094. - Cited References:22. - The study was done as a part of the project "Genomics of the Key Boreal Forest Conifer Species and Their Major Phytopathogens in the Russian Federation" funded by the Government of the Russian Federation (grant no. 14.Y26.31.0004). . - ISSN 1022-7954. - ISSN 1608-3369РУБ Genetics & Heredity

Аннотация: Siberian larch (Larix sibirica Ledeb.) is one of the major boreal tree species in Eurasia and has a considerable economic and ecological value. Despite that importance, the development and use of microsatellite markers in this species remain limited. Microsatellite markers are considered to be a valuable tool for estimation of population diversity and structure. Availability of a draft reference assembly of the Siberian larch genome allowed us to identify 1015 microsatellite loci or simple sequence repeats (SSRs) with tri-, tetra-, penta-, and hexanucleotide motifs. For 60 of them PCR primers were designed and tested for amplification in L. sibirica and for their within-genus transferability to L. gmelinii (Rupr.) Rupr. and L. cajanderi Mayr. Here, we present a set of 14 reliable and polymorphic new nuclear SSR markers that can be used for further population genetic studies, breeding programs, and timber origin identification.

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Держатели документа:
Siberian Fed Univ, Genome Res & Educ Ctr, Krasnoyarsk 660036, Russia.
Russian Acad Sci, Siberian Branch, Sukachev Inst Forest, Krasnoyarsk 660036, Russia.
Georg August Univ Gottingen, D-37077 Gottingen, Germany.
Russian Acad Sci, Vavilov Inst Gen Genet, Moscow 119991, Russia.
Texas A&M Univ, College Stn, TX 77843 USA.

Доп.точки доступа:
Oreshkova, N. V.; Bondar, E. I.; Putintseva, Yu. A.; Sharov, V. V.; Kuzmin, D. A.; Krutovsky, K. V.; Krutovsky, Konstantin; Government of the Russian Federation [14.Y26.31.0004]

/ N. V. Oreshkova, T. S. Sedel’nikova, S. P. Efremov, A. V. Pimenov // Contemp. Probl. Ecol. - 2020. - Vol. 13, Is. 6. - P569-576, DOI 10.1134/S1995425520060116 . - ISSN 1995-4255
Аннотация: Abstract: The DNA polymorphism of seven coenopopulations of Siberian stone pine (Pinus sibirica Du Tour) growing in a region which is typical for mountain taiga pine forests—the northeastern part of the Kuznetsk Alatau—has been studied. According to the data of 11 nuclear microsatellite loci, 44 allelic variants which significantly differed between the studied coenopopulations in composition and frequency of occurrence are identified. The highest level of allelic diversity is found in the Ps_80612 and Ps_1502048 loci, in which eight and seven alleles are detected, respectively. The calculation of the main parameters of genetic diversity have shown, on the whole, a relatively low level of polymorphism of the studied samples (NA = 3.078, NE = 1.877, HE = 0.445, and HO = 0.401). An analysis of the degree of subdivision of coenopopulations has revealed that about 95% of the total genetic diversity is concentrated within populations, while the interpopulation component accounts for only about 5% (FST = 0.049). The diagnosed differences in the level of P. sibirica genetic polymorphism are determined by several factors: the presence of orographic and phytocenotic barriers between the coenopopulations, which define the directions of seed propagation vectors along the watercourses of river basins that form the Chulym River in the eastern sector of the Kuznetsk Alatau and Tom River in the western sector; a significant level of bioclimatic and environmental extremeness of habitats of coenopopulations in accordance with the height above sea level; and anthropogenic pressure, including periodic deforestation and recreational impact on coenopopulations located near settlements. These factors, which have a significant microevolutionary component, determine the adaptation trends of coenopopulations of P. sibirica and morphological singularities and reproductive potential of trees and, ultimately, they control their genetic polymorphism in the studied part of the Kuznetsk Alatau. © 2020, Pleiades Publishing, Ltd.

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Держатели документа:
Federal Research Center, Kola Scientific Center, Siberian Branch, Russian Academy of Sciences, Akademgorodok, Krasnoyarsk, 660036, Russian Federation
Siberian Federal University, Krasnoyarsk, 660041, Russian Federation
Sukachev Institute of Forestry, Siberian Branch, Russian Academy of Sciences, Akademgorodok, Krasnoyarsk, 660036, Russian Federation

Доп.точки доступа:
Oreshkova, N. V.; Sedel’nikova, T. S.; Efremov, S. P.; Pimenov, A. V.

/ N. V. Oreshkova, T. S. Sedel'nikova, S. P. Efremov, A. V. Pimenov // Contemp. Probl. Ecol. - 2020. - Vol. 13, Is. 6. - P569-576, DOI 10.1134/S1995425520060116. - Cited References:28 . - ISSN 1995-4255. - ISSN 1995-4263РУБ Ecology

Аннотация: The DNA polymorphism of seven coenopopulations of Siberian stone pine (Pinus sibirica Du Tour) growing in a region which is typical for mountain taiga pine forests-the northeastern part of the Kuznetsk Alatau-has been studied. According to the data of 11 nuclear microsatellite loci, 44 allelic variants which significantly differed between the studied coenopopulations in composition and frequency of occurrence are identified. The highest level of allelic diversity is found in the Ps_80612 and Ps_1502048 loci, in which eight and seven alleles are detected, respectively. The calculation of the main parameters of genetic diversity have shown, on the whole, a relatively low level of polymorphism of the studied samples (N-A = 3.078, N-E = 1.877, H-E = 0.445, and H-O = 0.401). An analysis of the degree of subdivision of coenopopulations has revealed that about 95% of the total genetic diversity is concentrated within populations, while the interpopulation component accounts for only about 5% (F-ST = 0.049). The diagnosed differences in the level of P. sibirica genetic polymorphism are determined by several factors: the presence of orographic and phytocenotic barriers between the coenopopulations, which define the directions of seed propagation vectors along the watercourses of river basins that form the Chulym River in the eastern sector of the Kuznetsk Alatau and Tom River in the western sector; a significant level of bioclimatic and environmental extremeness of habitats of coenopopulations in accordance with the height above sea level; and anthropogenic pressure, including periodic deforestation and recreational impact on coenopopulations located near settlements. These factors, which have a significant microevolutionary component, determine the adaptation trends of coenopopulations of P. sibirica and morphological singularities and reproductive potential of trees and, ultimately, they control their genetic polymorphism in the studied part of the Kuznetsk Alatau.

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Держатели документа:
Russian Acad Sci, Fed Res Ctr, Kola Sci Ctr, Siberian Branch, Krasnoyarsk 660036, Russia.
Siberian Fed Univ, Krasnoyarsk 660041, Russia.
Russian Acad Sci, Sukachev Inst Forestry, Siberian Branch, Krasnoyarsk 660036, Russia.

Доп.точки доступа:
Oreshkova, N., V; Sedel'nikova, T. S.; Efremov, S. P.; Pimenov, A., V

[Текст] : статья / Наталья Викторовна Орешкова, Тамара Станиславовна Седельникова, Станислав Петрович Ефремов, Александр Владимирович Пименов // Сибирский экологический журнал. - 2020. - Т. 27, № 6. - С. 677-688 . - ISSN 0869-8619

УДК

575.174.015.3

582.475.2

Аннотация: Исследован полиморфизм ДНК семи ценопопуляций сосны сибирской кедровой (Pinus sibirica Du Tour), произрастающих в характерном для горно-таежных кедровников регионе - северо-восточной части Кузнецкого Алатау. По 11 ядерным микросателлитным локусам выявлено 44 аллельных варианта, существенно отличающихся у изученных ценопопуляций по составу и частотам встречаемости. Самый высокий уровень аллельного разнообразия имеют локусы Ps _80612, Ps _1502048, в которых выявлено 8 и 7 аллелей соответственно. Расчет основных параметров генетического разнообразия показал в целом сравнительно невысокий уровень полиморфизма исследованных выборок ( NA = 3,078; NE = 1,877; HE = 0,445; HO = 0,401). Анализ степени подразделенности ценопопуляций выявил, что внутри популяций сосредоточено около 95 % всего генетического разнообразия, тогда как на межпопуляционную составляющую приходится всего около 5 % (F ST = 0,049). Диагностированные различия в уровне генетического полиморфизма P. sibirica определяются: наличием между ценопопуляциями орографических и фитоценотических барьеров, обусловливающих направления векторов распространения семян вдоль водотоков бассейнов рек, формирующих р. Чулым в восточном секторе Кузнецкого Алатау и р. Томь - в западном; значительным уровнем биоклиматической и экологической экстремальности местопроизрастаний ценопопуляций в соответствии с высотой над уровнем моря; антропогенной нагрузкой, включающей периодические рубки и рекреационное воздействие на расположенные вблизи населенных пунктов ценопопуляции. Данные факторы, имеющие выраженную микроэволюционную составляющую, детерминируют адаптивные тренды ценопопуляций P. sibirica, морфологическое своеобразие и репродуктивный потенциал деревьев и, в конечном счете, контролируют их генетический полиморфизм в исследованной части Кузнецкого Алатау.
The DNA polymorphism of 7 coenopopulations of Siberian stone pine ( Pinus sibirica Du Tour), growing in the region which is typical for mountain taiga pine forests - the north-eastern part of the Kuznetsk Alatau, was studied. According to the data of 11 nuclear microsatellite loci, 44 allelic variants, which significantly differed between the studied cenopopulations in composition and frequency of occurrence were identified. The highest level of allelic diversity is found in the Ps_80612, Ps_1502048 loci, in which 8 and 7 alleles were detected, respectively. The calculation of the main parameters of genetic diversity showed, on the whole, a relatively low level of polymorphism of the studied samples ( NA = 3,078; NE = 1,877; HE = 0,445; HO = 0,401). An analysis of the degree of subdivision of cenopopulations revealed that about 95 % of the total genetic diversity is concentrated within populations, while the interpopulation component accounts for only about 5 % ( FST = 0,049). The diagnosed differences in the level of P. sibirica genetic polymorphism are determined by several factors: the presence of orographic and phytocenotic barriers between the coenopopulations which defined the directions of seed propagation vectors along the watercourses of river basins that formed the Chulym river in the eastern sector of the Kuznetsk Alatau and Tom river in the western sector; a significant level of bioclimatic and environmental extremeness of habitats of coenopopulations in accordance with the height above sea level; anthropogenic pressure, including periodic deforestation and recreational impact on coenopopulations located near settlements. These factors, which have a significant microevolutionary component, determine the adaptation trends of cenopopulations of P. sibirica , morphological singularities and reproductive potential of trees and, ultimately, control their genetic polymorphism in the studied part of the Kuznetsk Alatau

РИНЦ

Держатели документа:
Институт леса им. В. Н. Сукачева СО РАН
Сибирский федеральный университет
ФИЦ КНЦ СО РАН

Доп.точки доступа:
Орешкова, Наталья Викторовна; Седельникова, Тамара Станиславовна; Ефремов, Станислав Петрович; Пименов, Александр Владимирович

[Текст] : научное издание / Е. В. Орешкова, Т. С. Седельникова, А. В. Пименов // Сибирский экологический журнал. - 2023. - Т. 30, № 5. - С. 650-660, DOI 10.15372/SEJ20230507 . - ISSN 0869-8619

ГРНТИ

68.47.03

Аннотация: Исследован полиморфизм ДНК ценопопуляций Larix sibirica Ledeb. и Picea obovata Ledeb., произрастающих в различных экологических условиях южной части п-ова Таймыр, выявлено их генетическое разнообразие по ядерным микросателлитным локусам: Na = 3,30, Ne = 1,75, Ho = 0,263, He = 0,366 - у L. sibirica и Na = 2,92, Ne = 1,59, Ho = 0,351, He = 0,338 - у P. obovata. В целом в исследованных популяциях лиственницы сибирской отмечен дефицит гетерозиготных генотипов (F = 0,177), а в популяциях ели сибирской - их избыток (F = -0,051). Диагностированы генетические особенности данных видов в условиях воздействия техногенных выбросов в Норильском промышленном районе. У L. sibirica большее аллельное разнообразие и более высокий уровень инбридинга выявлены в ценопопуляции из экологически благополучного участка, при этом в районе с повышенным уровнем загрязнения отмечены более высокий уровень гетерозиготности и меньшее значение коэффициента инбридинга. Сравнение ценопопуляционных выборок P. obovata показало, что генетическая структура насаждения из экологически благополучного района находится практически в равновесном состоянии, тогда как на более загрязненном участке фиксируется 10%-й избыток гетерозигот. Несмотря на определенные отличия между двумя исследованными видами, в целом для L. sibirica и P. obovata на территории Норильского промышленного района характерны более высокие значения почти всех параметров генетической изменчивости в ценопопуляциях на участках с повышенным, но приемлемым для роста деревьев уровнем техногенной нагрузки. Сделано предположение, что выявленная закономерность отражает активизацию адаптивных процессов в популяциях хвойных из экстремальных условий произрастания.
DNA polymorphism of cenopopulations Larix sibirica Ledeb. and Picea obovata Ledeb., growing in different ecological conditions of the southern part of the Taimyr Peninsula, was studied, their genetic diversity in nuclear microsatellite loci was estimated: Na = 3.30, Ne = 1.75, Ho = 0.263, He = 0.366 - in L. sibirica and Na = 2.92, Ne = 1.59, Ho = 0.351, He = 0.338 - in P. obovata. In general, a deficiency of heterozygous genotypes (F = 0.177) in the studied populations of Siberian larch, and an excess of heterozygous genotypes ( F = -0.051) in populations of Siberian spruce were noted. The genetic features of these species under the influence of technogenic emissions in the Norilsk industrial region were examined. In L. sibirica, a higher allelic diversity and a higher level of inbreeding were found in the cenopopulation from an ecologically safe area, while a higher level of heterozygosity and a lower value of the inbreeding coefficient were noted in the area with an increased level of pollution. Comparison of the cenopopulation samples of P. obovata showed that the genetic structure of the stand from the ecologically favorable area is practically in equilibrium, while a 10 % excess of heterozygotes is recorded in the more polluted area. Despite certain differences between the two studied species, in general, cenopopulations of L. sibirica and P. obovata growing in the areas with an increased, but acceptable level of technogenic load in the Norilsk industrial region are characterized by higher values of almost all parameters of genetic variability. We suggest that this pattern reflects the activation of adaptive processes in coniferous populations from extreme growing conditions.

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Держатели документа:
ИЛ СО РАН : 660036, Красноярск, Академгородок, 50, стр. 28

Доп.точки доступа:
Седельникова, Тамара Станиславовна; Sedel'nikova, Tamara Stanislavovna; Пименов, Александр Владимирович; Pimenov, Alexandr Vladimirovich