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

[Text] / R. A. BALMAN, T. P. KROLICHENKO // Microbiology. - 1980. - Vol. 49, Is. 1. - P27-29. - Cited References: 9 . - 3. - ISSN 0026-2617РУБ Microbiology


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Держатели документа:
NA SUKACHEV INST FORESTRY & WOOD PROD,DEPT MICROBIOL,KRASNOYARSK,USSR
Доп.точки доступа:
BALMAN, R.A.; KROLICHENKO, T.P.

[Text] / O. V. Masyagina, S. G. Prokushkin, M. Y. Sadilova // Contemp. Probl. Ecol. - 2009. - Vol. 2, Is. 6. - P611-619, DOI 10.1134/S1995425509060198. - Cited References: 30. - This work is partially supported with a grant from Krasnoyarsk Regional Scientific Fund and grant 08-04-00034 from the Russian Foundation for Basic Research, integrated project no. 76. . - 9. - ISSN 1995-4255РУБ Ecology

Аннотация: The influence of optimal and contrasting temperatures on the fractional composition of proteins and respiration of germinating seeds of Gmelin larch (Larix gmelinii (Rupr.) Rupr.) and Siberian larch (Larix sibirica Ledeb.) was revealed. The dominance of globulins (salt-soluble fraction) and insoluble proteins was noted in viable air-dry seeds of larch. Optimal and contrasting temperatures of germination of seeds caused significant changes in the content and dynamics of separate fractions of protein, the contrasting temperatures causing greater changes: increasing in the content of insoluble proteins, intense consumption of globulins at separate stages of germination. Respiration of the seeds during germination at contrasting temperatures also increased more than at an optimal temperature. Thermal regime of germination affected the character of relations between the respiration rate and contents of different protein fractions.

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Держатели документа:
[Masyagina, O. V.
Prokushkin, S. G.
Sadilova, M. Yu.] Russian Acad Sci, Siberian Branch, VN Sukachev Inst Forest, Krasnoyarsk 660036, Russia

Доп.точки доступа:
Masyagina, O.V.; Prokushkin, S.G.; Sadilova, M.Y.; Krasnoyarsk Regional Scientific Fund; Russian Foundation for Basic Research [08-04-00034]

[Text] / I. . Ensminger [et al.] // Glob. Change Biol. - 2004. - Vol. 10, Is. 6. - P995-1008, DOI 10.1111/j.1365-2486.2004.00781.x. - Cited References: 57 . - 14. - ISSN 1354-1013РУБ Biodiversity Conservation + Ecology + Environmental Sciences

Аннотация: During winter and early spring, evergreen boreal conifers are severely stressed because light energy cannot be used when photosynthesis is pre-empted by low ambient temperatures. To study photosynthetic performance dynamics in a severe boreal climate, seasonal changes in photosynthetic pigments, chloroplast proteins and photochemical efficiency were studied in a Scots pine forest near Zotino, Central Siberia. In winter, downregulation of photosynthesis involved loss of chlorophylls, a twofold increase in xanthophyll cycle pigments and sustained high levels of the light stress-induced zeaxanthin pigment. The highest levels of xanthophylls and zeaxanthin did not occur during the coldest winter period, but rather in April when light was increasing, indicating an increased capacity for thermal dissipation of excitation energy at that time. Concomitantly, in early spring the D1 protein of the photosystem II (PSII) reaction centre and the light-harvesting complex of PSII dropped to their lowest annual levels. In April and May, recovery of PSII activity, chloroplast protein synthesis and rearrangements of pigments were observed as air temperatures increased above 0degreesC. Nevertheless, severe intermittent low-temperature episodes during this period not only halted but actually reversed the physiological recovery. During these spring low-temperature episodes, protective processes involved a complementary function of the PsbS and early light-induced protein thylakoid proteins. Full recovery of photosynthesis did not occur until the end of May. Our results show that even after winter cold hardening, photosynthetic activity in evergreens responds opportunistically to environmental change throughout the cold season. Therefore, climate change effects potentially improve the sink capacity of boreal forests for atmospheric carbon. However, earlier photosynthesis in spring in response to warmer temperatures is strongly constrained by environmental variation, counteracting the positive effects of an early recovery process.

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Держатели документа:
Max Planck Inst Biogeochem, D-07701 Jena, Germany
Umea Univ, Dept Plant Physiol, S-90187 Umea, Sweden
Mt Allison Univ, Sackville, NB E4L 1G7, Canada
Umea Univ, Dept Biochem, S-90187 Umea, Sweden
Russian Acad Sci, Inst Forest, Siberian Branch, Krasnoyarsk 660036, Russia

Доп.точки доступа:
Ensminger, I...; Sveshnikov, D...; Campbell, D.A.; Funk, C...; Jansson, S...; Lloyd, J...; Shibistova, O...; Oquist, G...

[Text] / J. . SUOMELA, V. . OSSIPOV, E. . HAUKIOJA // J. Chem. Ecol. - 1995. - Vol. 21, Is. 10. - P1421-1446, DOI 10.1007/BF02035143. - Cited References: 81 . - 26. - ISSN 0098-0331РУБ Biochemistry & Molecular Biology + Ecology

Аннотация: Leaf quality of the mountain birch (Betula pubescens ssp. tortuosa) for herbivores was studied at several hierarchical levels: among trees, among ramets within trees, among branches within ramets, and among short shoots within branches. The experimental units at each level were chosen randomly. The indices of leaf quality were the growth rate of the larvae of a geometrid, Epirrita autumnata, and certain biochemical traits of the leaves (total phenolics and individual phenolic compounds, total carbohydrates and individual sugars, free and protein-bound amino acids). We also discuss relationships between larval growth rate and biochemical foliage traits. Larval growth rates during two successive years correlated positively at the level of tree, the ramet, and the branch, indicating that the relationships in leaf quality remained constant between seasons both among and within trees. The distribution of variation at different hierarchical levels depended on the trait in question. In the case of larval growth rate, ramets and short shoots accounted for most of the explained variation. In the case of biochemical compounds, trees accounted for most of the variance in the content of total phenolics and individual low-molecular-weight phenolics. In the content of carbohydrates (total carbohydrates, starch, fructose, glucose, and sucrose) and amino acids, variation among branches was generally larger than variation among trees. Variation among ramets was low for most compounds. No single leaf trait played a paramount role in larval growth. Secondary compounds, represented by phenolic compounds, or primary metabolites, particularly sugars, may both be important in determining the suitability of birch leaves for larvae. If phenols are causally more important, genet-specific analyses of foliage chemistry are needed. If sugars are of primary importance, within-genet sampling and analysis of foliage chemistry are necessary.

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TURKU UNIV,KEVO SUBARCTIC RES STN,SF-20500 TURKU,FINLAND
INST FOREST,KRASNOYARSK 660036,RUSSIA

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SUOMELA, J...; OSSIPOV, V...; HAUKIOJA, E...

/ B. Wild [et al.] // Soil Biology and Biochemistry. - 2013. - Vol. 67. - P85-93, DOI 10.1016/j.soilbio.2013.08.004 . - ISSN 0038-0717
Аннотация: Turbic Cryosols (permafrost soils characterized by cryoturbation, i.e., by mixing of soil layers due to freezing and thawing) are widespread across the Arctic, and contain large amounts of poorly decomposed organic material buried in the subsoil. This cryoturbated organic matter exhibits retarded decomposition compared to organic material in the topsoil. Since soil organic matter (SOM) decomposition is known to be tightly linked to N availability, we investigated N transformation rates in different soil horizons of three tundra sites in north-eastern Siberia and Greenland. We measured gross rates of protein depolymerization, N mineralization (ammonification) and nitrification, as well as microbial uptake of amino acids and NH4 + using an array of 15N pool dilution approaches. We found that all sites and horizons were characterized by low N availability, as indicated by low N mineralization compared to protein depolymerization rates (with gross N mineralization accounting on average for 14% of gross protein depolymerization). The proportion of organic N mineralized was significantly higher at the Greenland than at the Siberian sites, suggesting differences in N limitation. The proportion of organic N mineralized, however, did not differ significantly between soil horizons, pointing to a similar N demand of the microbial community of each horizon. In contrast, absolute N transformation rates were significantly lower in cryoturbated than in organic horizons, with cryoturbated horizons reaching not more than 32% of the transformation rates in organic horizons. Our results thus indicate a deceleration of the entire N cycle in cryoturbated soil horizons, especially strongly reduced rates of protein depolymerization (16% of organic horizons) which is considered the rate-limiting step in soil N cycling. В© 2013 The Authors.

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University of Vienna, Department of Microbiology and Ecosystem Science, Division of Terrestrial Ecosystem Research, Althanstrasse 14, 1090 Vienna, Austria
Austrian Polar Research Institute, 1090 Vienna, Austria
University of South Bohemia, Department of Ecosystems Biology, Branisovska 31, 37005 Ceske Budejovice, Czech Republic
Leibniz Universitat Hannover, Institut fur Bodenkunde, Herrenhauser Strasse 2, 30419 Hannover, Germany
International Institute for Applied Systems Analysis (IIASA), Schlossplatz 1, 2361 Laxenburg, Austria
Central Siberian Botanical Garden, Siberian Branch of Russian Academy of Sciences, St. Zolotodolinskaya 101, 630090 Novosibirsk, Russian Federation
VN Sukachev Institute of Forest, Siberian Branch of Russian Academy of Sciences, Akademgorodok, 660036 Krasnoyarsk, Russian Federation
University of Vienna, Department of Ecogenomics and Systems Biology, Althanstrasse 14, 1090 Vienna, Austria
University of Bergen, Department of Biology/Centre for Geobiology, Allegaten 41, 5007 Bergen, Norway
Northeast Scientific Station, Pacific Institute for Geography, Far-East Branch of Russian Academy of Sciences, 678830 Chersky, Republic of Sakha, Russian Federation

Доп.точки доступа:
Wild, B.; Schnecker, J.; Barta, J.; Capek, P.; Guggenberger, G.; Hofhansl, F.; Kaiser, C.; Lashchinsky, N.; Mikutta, R.; Mooshammer, M.; Santruckova, H.; Shibistova, O.; Urich, T.; Zimov, S.A.; Richter, A.

/ V. V. Ivanov, N. V. Ratnikova, U. A. Vasin // Molekulyarnaya Biologiya. - 1974. - Vol. 8, Is. 5. - С. 711-715 . - ISSN 0026-8984

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Держатели документа:
L.V. Kirensky Inst. Phys., V.N. Sukachev Inst. Forest Wood, Siberian Branch, Acad. Sci. USSR, Krasnoyarsk, Russia

Доп.точки доступа:
Ivanov, V.V.; Ratnikova, N.V.; Vasin, U.A.

[Text] / G. F. ANTONOVA, V. V. STASOVA // SOVIET PLANT PHYSIOLOGY. - 1990. - Vol. 37, Is. 4. - P547-554. - Cited References: 23 . - 8. - ISSN 0038-5719РУБ Plant Sciences

Аннотация: We conducted a comparative study on the composition of water soluble carbohydrate-protein complexes of primary cell walls and cytoplasm in xylem cells of Siberian larch (Larix sibirica Ldb.). Preparations were obtained in the process of isolating protoplasts from xylem cells at the stage of elongation. Water-soluble high-molecular-weight compounds were fractionated on DEAE cellulose. It was found that the dominant fraction in composition of these compounds consists of a carbohydrate-protein complex. Comparison of the composition of neutral sugars, uronic acids, and amino acids of these complexes showed that water-soluble arabinogalactan proteins were absent in the cytoplasm, but present in the solution after plasmolysis. They were bound with pectins and arabinoxylans, detected in solutions obtained after isolation and purification of protoplasts, and capable of forming a gel at low water content and low temperature. It is hypothesized that arabinogalactan proteins are components of primary cell walls, that they are located for the most part on the surface, and that their solubility in an aqueous medium depends upon binding with pectins of the middle plate and with other cell wall components.

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ANTONOVA, G.F.; STASOVA, V.V.

[Text] / B. . Wild [et al.] // Soil Biol. Biochem. - 2014. - Vol. 75. - P143-151, DOI 10.1016/j.soilbio.2014.04.014. - Cited References: 47. - This study was funded by the Austrian Science Fund (FWF) as part of the International Program CryoCARB (Long-term Carbon Storage in Cryoturbated Arctic Soils; FWF - I370-B17). . - ISSN 0038-0717РУБ Soil Science

Аннотация: Rising temperatures in the Arctic can affect soil organic matter (SOM) decomposition directly and indirectly, by increasing plant primary production and thus the allocation of plant-derived organic compounds into the soil. Such compounds, for example root exudates or decaying fine roots, are easily available for microorganisms, and can alter the decomposition of older SUM ("priming effect"). We here report on a SUM priming experiment in the active layer of a permafrost soil from the central Siberian Arctic, comparing responses of organic topsoil, mineral subsoil, and cryoturbated subsoil material (i.e., poorly decomposed topsoil material subducted into the subsoil by freeze-thaw processes) to additions of C-13-labeled glucose, cellulose, a mixture of amino acids, and protein (added at levels corresponding to approximately 1% of soil organic carbon). SUM decomposition in the topsoil was barely affected by higher availability of organic compounds, whereas SUM decomposition in both subsoil horizons responded strongly. In the mineral subsoil, SUM decomposition increased by a factor of two to three after any substrate addition (glucose, cellulose, amino acids, protein), suggesting that the microbial decomposer community was limited in energy to break down more complex components of SOM. In the cryoturbated horizon, SUM decomposition increased by a factor of two after addition of amino acids or protein, but was not significantly affected by glucose or cellulose, indicating nitrogen rather than energy limitation. Since the stimulation of SUM decomposition in cryoturbated material was not connected to microbial growth or to a change in microbial community composition, the additional nitrogen was likely invested in the production of extracellular enzymes required for SUM decomposition. Our findings provide a first mechanistic understanding of priming in permafrost soils and suggest that an increase in the availability of organic carbon or nitrogen, e.g., by increased plant productivity, can change the decomposition of SUM stored in deeper layers of permafrost soils, with possible repercussions on the global climate. (C) 2014 The Authors. Published by Elsevier Ltd. This is an open access article under the CC BY license (http://creativecommons.org/licenses/by/3.0/).

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Держатели документа:
[Wild, Birgit
Schnecker, Joerg
Watzka, Margarete
Richter, Andreas] Univ Vienna, Dept Microbiol & Ecosyst Sci, Div Terr Ecosyst Res, Vienna, Austria
[Wild, Birgit
Schnecker, Joerg
Alves, Ricardo J. Eloy
Gittel, Antje
Urich, Tim
Richter, Andreas] Austrian Polar Res Inst, Vienna, Austria
[Alves, Ricardo J. Eloy
Urich, Tim] Univ Vienna, Dept Ecogen & Syst Biol, Div Archaea Biol & Ecogen, Vienna, Austria
[Barsukov, Pavel
Shibistova, Olga] Russian Acad Sci, Siberian Branch, Inst Soil Sci & Agrochem, Novosibirsk, Russia
[Barta, Jiri
Capek, Petr
Santruckova, Hana] Univ South Bohemia, Dept Ecosyst Biol, Ceske Budejovice, Czech Republic
[Gentsch, Norman
Guggenberger, Georg
Mikutta, Robert
Shibistova, Olga] Leibniz Univ Hannover, Inst Soil Sci, D-30167 Hannover, Germany
[Gittel, Antje] Univ Bergen, Ctr Geobiol, Dept Biol, Bergen, Norway
[Lashchinskiy, Nikolay] Russian Acad Sci, Siberian Branch, Cent Siberian Bot Garden, Novosibirsk, Russia
[Shibistova, Olga
Zrazhevskaya, Galina] Russian Acad Sci, Siberian Branch, VN Sukachev Inst Forest, Krasnoyarsk, Russia
ИЛ СО РАН

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Wild, B...; Schnecker, J...; Alves, RJE; Barsukov, P...; Barta, J...; Capek, P...; Gentsch, N...; Gittel, A...; Guggenberger, G...; Lashchinskiy, N...; Mikutta, R...; Rusalimova, O...; Santruckova, H...; Shibistova, O...; Urich, T...; Watzka, M...; Zrazhevskaya, G...; Richter, A...; Austrian Science Fund (FWF) as part of the International Program CryoCARB [FWF - I370-B17]

/ S. P. Makarenko [et al.] // Russ. J. Plant Physiol. - 2016. - Vol. 63, Is. 2. - P252-258, DOI 10.1134/S1021443716020102 . - ISSN 1021-4437
Аннотация: Fatty acid (FA) composition of total lipids in embryogenic and nonembryogenic calli of Siberian larch (Larix sibirica Ledeb.) was investigated by the method of GC-MS. We detected a high content of oleic acid in total lipids of embryogenic cell culture (32–56% by weight of total FA), which apparently depends on a high activity of acyl carrier protein (stearoyl-ACP-Δ9-desat-urase). At the same time, activity of Δ12-desaturase in the cells of embryogenic calli was considerably (2–3 times) lower than in nonembryogenic calli. We discuss a possibility that concentration of FA (oleic and linoleic acids) may be used as a marker of embryogenic potential when promising cell lines of Siberian larch are screened in the stage of early embryogenesis. © 2016, Pleiades Publishing, Ltd.

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Держатели документа:
Siberian Institute of Plant Physiology and Biochemistry, Siberian Branch, Russian Academy of Sciences, ul. Lermontova 132, Irkutsk, Russian Federation
Sukachev Institute of Forestry, Siberian Branch, Russian Academy of Sciences, Akademgorodok 50/28, Krasnoyarsk, Russian Federation

Доп.точки доступа:
Makarenko, S. P.; Shmakov, V. N.; Dudareva, L. V.; Stolbikova, A. V.; Semenova, N. V.; Tret’yakova, I. N.; Konstantinov, Y. M.

[Текст] : научное издание / С. Г. Прокушкин, В. В. Панова // Сибирский лесной журнал. - 2017. - № : 1. - С. 37-43 : табл., DOI 10.15372/SJFS20170104. - Библиогр. в конце ст. . - ISSN 2311-1410
   Перевод заглавия: CHANGES IN THE CONTENT OF NITROGEN FRACTIONS WITH LOOSING VITAL CAPACITY OF THE SIBERIAN FIR Abies sibirica Ledeb. SEEDS

УДК

581.42

Аннотация: Одной из причин потери всхожести семенами пихты сибирской в процессе хранения является изменение фракционного состава азотистых соединений и особенно белковых фракций. В связи с этим рассмотрены изменения этих соединений в нежизнеспособных семенах пихты в зависимости от эколого-фитоценотических условий, степени роста и развития деревьев (I и IV классов Крафта), а также морфоструктуры кроны. Показано, что содержание общего и белкового азота в нежизнеспособных семенах деревьев пихты I и IV классов роста зависит от фитоценотических условий и положения семян в кроне и изменяется в широком диапазоне. При этом максимальное содержание общего и белкового азота отмечено в семенах с верхней части генеративной сферы деревьев пихты, тогда как в семенах со средней и нижней частей кроны оно значительно ниже. Среди отдельных фракций белков в семенах с верхней части кроны деревьев I и IV классов роста преобладает труднорастворимая. Однако в пределах генеративной сферы деревьев труднорастворимая фракция так же, как и проламины, изменялась неравномерно. Различия в содержании глютелинов в семенах из различных частей генеративной сферы незначительны. Отмечено равномерное снижение количества альбуминов и глобулинов от верхней к нижней части кроны. При сравнении содержания отдельных форм азота в жизне- и нежизнеспособных семенах установлено существенное снижение общего и белкового азота, особенно у деревьев IV класса роста. У потерявших всхожесть семян во всей генеративной части кроны наблюдаются увеличение труднорастворимой фракции белка и резкое снижение альбуминов и глобулинов. Количество же глютелинов и проламинов в них изменяется незначительно. Выявленные изменения в количественном соотношении отдельных фракций белков наряду с другими физиолого-биохимическими процессами являются одной из причин потери семенами пихты сибирской жизнеспособности при хранении.
Siberian fir seeds often lose their germinating capacity during storage. This results from, among other factors, changing contents of nitrogen compounds in the seeds, especially those of protein fractions. This paper focuses on analyzing changes of these compounds in nonviable seeds of the species depending on ecological and conditions and stand location, as well as on tree growth class (Kraft growth classes I and IV). The contents of the total and protein nitrogen in the nonviable seeds of the trees of growth classes I and IV appeared to vary widely and to depend on stand location and seed location in the tree crown. The maximum contents were in the seeds located in the upper part of the crown. The seeds from the middle and lower crown parts contained much less total and protein nitrogen. The hard-to-solve protein fraction dominated over other protein fraction in the seeds from the upper part of the crowns of the trees of growth classes I and IV. However, this fraction, like prolamines, changed uniformly throughout the crowns, whereas seed glutelin content varied insignificantly among the crown parts. Albumins and globulins showed a uniform crown top-to-bottom decrease. A comparison of viable seed with unviable seeds for contents of the nitrogen forms revealed a marked decrease in the total and protein nitrogen in the latter, especially for the trees of growth class IV. The seeds that lost their germinating capacity exhibited increasingly hard-to-solve protein fraction and drastically decreasing albumins and globulins wherever the seeds were in the crown. Their glutelin and prolamine contents changed inconsiderably.The changes of the quantitative ratio between the protein fractions found by the study cause, along with other physiological and biochemical factors, the loss of viability of Siberian fir seeds during storage.

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Держатели документа:
Институт леса им. В. Н. Сукачева СО РАН

Доп.точки доступа:
Прокушкин, Анатолий Станиславович; Панова, Валерия Витальевна; Panova V.V.; Prokushkin, Anatoly Stanislavovich

/ B. Wild [et al.] // Environ. Res. Lett. - 2018. - Vol. 13, Is. 3. - Ст. 034002, DOI 10.1088/1748-9326/aaa4fa. - Cited References:85. - This study is part of the CryoCARB project (Long-term Carbon Storage in Cryoturbated Arctic Soils), co-funded by the Austrian Science Fund (FWF): I370-B17, the German Federal Ministry of Education and Research (03F0616A), the Czech Ministry of Education, Youth and Sports (MSM 7E10073-CryoCARB), the Russian Ministry of Education and Science (No. 14.B25.31.0031), the Swedish Research Council (824-2009-77357), and the Norwegian Research Fund (NFR): NFR-200411, and was further supported by a JPI Climate Project (COUP-Austria; BMWFW-6.020/0008) awarded to Andreas Richter. Jiri Barta and Tim Urich received additional funding from the Czech Science Foundation (16-18453S). . - ISSN 1748-9326РУБ Environmental Sciences + Meteorology & Atmospheric Sciences

Аннотация: Arctic plant productivity is often limited by low soil N availability. This has been attributed to slow breakdown of N-containing polymers in litter and soil organic matter (SOM) into smaller, available units, and to shallow plant rooting constrained by permafrost and high soil moisture. Using N-15 pool dilution assays, we here quantified gross amino acid and ammonium production rates in 97 active layer samples from four sites across the Siberian Arctic. We found that amino acid production in organic layers alone exceeded literature-based estimates of maximum plant N uptake 17-fold and therefore reject the hypothesis that arctic plant N limitation results from slow SOM breakdown. High microbial N use efficiency in organic layers rather suggests strong competition of microorganisms and plants in the dominant rooting zone. Deeper horizons showed lower amino acid production rates per volume, but also lower microbial N use efficiency. Permafrost thaw together with soil drainage might facilitate deeper plant rooting and uptake of previously inaccessible subsoil N, and thereby promote plant productivity in arctic ecosystems. We conclude that changes in microbial decomposer activity, microbial N utilization and plant root density with soil depth interactively control N availability for plants in the Arctic.

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Держатели документа:
Univ Vienna, Dept Microbiol & Ecosyst Sci, Vienna, Austria.
Austrian Polar Res Inst, Vienna, Austria.
Univ Gothenburg, Dept Earth Sci, Gothenburg, Sweden.
Stockholm Univ, Dept Environm Sci & Analyt Chem, Stockholm, Sweden.
Stockholm Univ, Bolin Ctr Climate Res, Stockholm, Sweden.
Univ Vienna, Dept Ecogen & Syst Biol, Vienna, Austria.
Univ South Bohemia, Dept Ecosyst Biol, Ceske Budejovice, Czech Republic.
Leibniz Univ Hannover, Inst Soil Sci, Hannover, Germany.
Russian Acad Sci, VN Sukachev Inst Forest, Siberian Branch, Krasnoyarsk, Russia.
Stockholm Univ, Dept Phys Geog, Stockholm, Sweden.
Stanford Univ, Dept Earth Sci, Stanford, CA 94305 USA.
Russian Acad Sci, Cent Siberian Bot Garden, Siberian Branch, Novosibirsk, Russia.
Martin Luther Univ Halle Wittenberg, Soil Sci & Soil Protect, Halle, Saale, Germany.
Univ New Hampshire, Dept Nat Resources & Environm, Durham, NH 03824 USA.
Univ Lancaster, Lancaster Environm Ctr, Lancaster, England.
Ernst Moritz Arndt Univ Greifswald, Inst Microbiol, Greifswald, Germany.

Доп.точки доступа:
Wild, Birgit; Alves, Ricardo J. Eloy; Barta, Jiri; Capek, Petr; Gentsch, Norman; Guggenberger, Georg; Hugelius, Gustaf; Knoltsch, Anna; Kuhry, Peter; Lashchinskiy, Nikolay; Mikutta, Robert; Palmtag, Juri; Prommer, Judith; Schnecker, Joerg; Shibistova, Olga; Takriti, Mounir; Urich, Tim; Richter, Andreas; Alves, Ricardo; Austrian Science Fund (FWF) [I370-B17]; German Federal Ministry of Education and Research [03F0616A]; Czech Ministry of Education, Youth and Sports [MSM 7E10073-CryoCARB]; Russian Ministry of Education and Science [14.B25.31.0031]; Swedish Research Council [824-2009-77357]; Norwegian Research Fund (NFR) [NFR-200411]; JPI Climate Project (COUP-Austria) [BMWFW-6.020/0008]; Czech Science Foundation [16-18453S]

/ I. V. Kornienko [et al.] // Mitochondrial DNA Part B Resour. - 2018. - Vol. 3, Is. 2. - P596-598, DOI 10.1080/23802359.2018.1473721 . - ISSN 2380-2359
Аннотация: We present a complete sequence and an annotation of the mitochondrial genome of the woolly mammoth (Mammuthus primigenius) found in 2012 on Maly Lyakhovsky Island (North-Eastern Siberia, Russia). The genome was 16,851 bp long and contained 13 protein-coding, 22 tRNA, and 2 rRNA genes. It was AT reach (61.3%) with A = 32.9%, T = 28.4%, C = 25.3%, and G = 13.4%. © 2018 The Author(s). Published by Informa UK Limited, trading as Taylor & Francis Group.

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Department of Strategic Research, Southern Scientific Centre, Russian Academy of Sciences, Rostov-on-Don, Russian Federation
Laboratory of Biological Objects Identification, Southern Federal University, Rostov-on-Don, Russian Federation
Department of Forensic Medicine, Mechnikov North-Western State Medical University, Russian Federation
Laboratory of Forest Genetics and Selection, V. N. Sukachev Institute of Forest, Siberian Branch of Russian Academy of Sciences, Krasnoyarsk, Russian Federation
Laboratory of Forest Genomics, Genome Research and Education Center, Siberian Federal University, Krasnoyarsk, Russian Federation
Institute of Applied Ecology of the North, North-Eastern Federal University, Yakutsk, Russian Federation
Department of Forest Genetics and Forest Tree Breeding, Georg-August University of Gottingen, Gottingen, Germany
Laboratory of Population Genetics, Vavilov Institute of General Genetics, Russian Academy of Sciences, Moscow, Russian Federation
Department of Ecosystem Science and Management, Texas A&M University, College Station, TX, United States

Доп.точки доступа:
Kornienko, I. V.; Faleeva, T. G.; Oreshkova, N. V.; Grigoriev, S. E.; Grigoreva, L. V.; Simonov, E. P.; Kolesnikova, A. I.; Putintseva, Y. A.; Krutovsky, K. V.

/ E. I. Bondar [et al.] // BMC Bioinformatics. - 2019. - Vol. 20: 11th International Multiconference on Bioinformatics of Genome (AUG 20-25, 2018, Novosibirsk, RUSSIA). - Ст. 38, DOI 10.1186/s12859-018-2571-x. - Cited References:25. - The presented study was a part of the project "Genomic studies of major boreal coniferous forest tree species and their most dangerous pathogens in the Russian Federation" funded by the Government of the Russian Federation (grant No 14.Y26.31.0004). Publication costs are funded by the BioMed Central Membership of the University of Gottingen. . - ISSN 1471-2105РУБ Biochemical Research Methods + Biotechnology & Applied Microbiology

Аннотация: BackgroundThe main objectives of this study were sequencing, assembling, and annotation of chloroplast genome of one of the main Siberian boreal forest tree conifer species Siberian larch (Larix sibirica Ledeb.) and detection of polymorphic genetic markers - microsatellite loci or simple sequence repeats (SSRs) and single nucleotide polymorphisms (SNPs).ResultsWe used thedata of the whole genome sequencing of three Siberian larch trees from different regions - theUrals, Krasnoyarsk, and Khakassia, respectively. Sequence reads were obtained using the Illumina HiSeq2000 in the Laboratory of Forest Genomics at the Genome Research and Education Center ofthe Siberian Federal University. The assembling was done using the Bowtie2 mapping program and the SPAdes genomic assembler. The genome annotation was performed using the RAST service. We used the GMATo program for the SSRs search, and the Bowtie2 and UGENE programs for the SNPs detection. Length of the assembled chloroplast genome was 122,561bp, which is similar to 122,474bp in the closely related European larch (Larix decidua Mill.). As a result of annotation and comparison of the data with theexisting data available only for three larch species - L. decidua, L. potaninii var. chinensis (complete genome 122,492bp), and L. occidentalis (partial genome of 119,680bp), we identified 110 genes, 34 of which represented tRNA, 4 rRNA, and 72 protein-coding genes. In total, 13 SNPs were detected; two of them were in the tRNA-Arg and Cell division protein FtsH genes, respectively. In addition, 23 SSR loci were identified.ConclusionsThe complete chloroplast genome sequence was obtained for Siberian larch for the first time. The reference complete chloroplast genomes, such as one described here, would greatly help in the chloroplast resequencing and search for additional genetic markers using population samples. The results of this research will be useful for further phylogenetic and gene flow studies in conifers.

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Держатели документа:
Siberian Fed Univ, Genome Res & Educ Ctr, Lab Forest Genom, Krasnoyarsk 660036, Russia.
Russian Acad Sci, VN Sukachev Inst Forest, Lab Forest Genet & Select, Siberian Branch, Krasnoyarsk 660036, Russia.
Georg August Univ Gottingen, Dept Forest Genet & Forest Tree Breeding, Busgenweg 2, D-37077 Gottingen, Germany.
Russian Acad Sci, Vavilov Inst Gen Genet, Lab Populat Genet, Moscow 119333, Russia.
Texas A&M Univ, Dept Ecosyst Sci & Management, College Stn, TX 77843 USA.

Доп.точки доступа:
Bondar, Eugeniya I.; Putintseva, Yuliya A.; Oreshkova, Nataliya V.; Krutovsky, Konstantin V.; Krutovsky, Konstantin; Government of the Russian Federation [14.Y26.31.0004]; University of Gottingen

[Текст] : статья / Г. Г. Полякова, Н. В. Пашенова, В. А. Сенашова // Известия РАН. Серия Биологическая. - 2020. - № 1. - С. 44-50, DOI 10.31857/S0002332920010105 . - ISSN 0002-3329
   Перевод заглавия: Influence of Chronical Partial Defoliation of Larch by Casebeareron Stem Physiological Parameters

УДК	581.1:632.938

Аннотация: В очаге лиственничной чехликовой моли Coleophora sibiricella Falkovitsh в чистом лиственничнике исследован защитный ответ флоэмы ствола лиственницы сибирской Larix sibirica Ledeb. на поранение или инокуляцию ствола грибным индуктором. В качестве грибного инокулята использовали мицелий офиостомового гриба Ceratocystis laricicola Redfern & Minter, его экстракт и белковую фракцию, полученную из экстракта. Содержание лигнина, крахмала, конденсированных дубильных веществ (проантоцианидинов) во флоэме определено в начале опыта (0 сут), через 7 и 14 сут. С помощью анализа ANOVA показано, что параметры ответа флоэмы не зависели от формы грибного инокулята (р ≥ 0.918), но зависели от других факторов (р ≤ 0.005) – повреждения кроны молью, времени от начала опыта, наличия инокулята в ране
In the long-term explosion of mass reproduction of larch casebearer Coleophora sibiricella Falkovitsh in pure larch stand the stem phloem responses of larch trees (Larix sibirica Ledeb.) to wounding damage or inoculation of the trunk with the fungal inductor. Mycelium of the ophiostomoid fungus Ceratocystis laricicola Redfern & Minter, its extractive and protein fraction obtained from the extractive were used as a fungal inductor. The content of lignin, starch, condensed tannins (proanthocyanidins) in the phloem was determined at the beginning of the experiment (0 days), after 7 and 14 days. Using ANOVA analysis, it was shown that the response parameters of the phloem did not depend on the shape of the fungal inoculum (p ≥ 0.918), but depended on other factors (p ≤ 0.005) - damage to the crown by the moth, time from the start of the experiment, and the presence of the inoculum in the wound

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Держатели документа:
Институт леса им. В.Н. Сукачева СО РАН

Доп.точки доступа:
Полякова, Галина Геннадьевна; Polyakova Galina Gennad'yevna; Пашенова, Наталья Вениаминовна; Pashenova, Natal'ya Veniaminovna; Сенашова, Вера Александровна; Syenashova Vera Alexandrovna

/ G. G. Polyakova, N. V. Pashenova, V. A. Senashova // Biol. Bull. - 2020. - Vol. 47, Is. 1. - P49-55, DOI 10.1134/S1062359020010100. - Cited References:28. - This work was supported by the Russian Foundation for Basic Research, project no. 15-04-06575. . - ISSN 1062-3590. - ISSN 1608-3059РУБ Biology

Аннотация: In the long-term explosion of mass reproduction of the larch casebearer (Coleophora sibiricella Falkovitsh) in a pure larch stand, the stem phloem responses of larch trees (Larix sibirica Ledeb.) to wounding damage or inoculation of the trunk with the fungal inductor were studied. The mycelium of the ophiostomatoid fungus Ceratocystis laricicola Redfern & Minter and its extractive and the protein fraction obtained from the extractive were used as a fungal inductor. The content of lignin, starch, and condensed tannins (proanthocyanidins) in the phloem was determined at the beginning of the experiment (zero days), and after seven and 14 days. Using ANOVA analysis, it was shown that the response parameters of the phloem did not depend on the kind of the fungal inoculum (P = 0.918), but depended on other factors (P

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Держатели документа:
Sukachev Inst Forest, Akademgorodok 50-28, Krasnoyarsk 660036, Russia.

Доп.точки доступа:
Polyakova, G. G.; Pashenova, N. V.; Senashova, V. A.; Russian Foundation for Basic ResearchRussian Foundation for Basic Research (RFBR) [15-04-06575]

/ I. N. Tretyakova, E. A. Rogozhin, M. E. Pak [et al.] // Biol. Bull. - 2020. - Vol. 47, Is. 3. - P225-236, DOI 10.1134/S1062359020030097. - Cited References:38. - This work was conducted within the framework of a Budget Project of Sukachev Institute of Forests, Siberian Branch, Russian Academy of Sciences, Federal Research Center Krasnoyarsk Science Center, Siberian Branch, Russian Academy of Sciences"(project no. 0356-2017-0741) and supported by the Russian Foundation for Basic Research, the Government of Krasnoyarsk region, and the Krasnoyarsk Regional Science Foundation within the framework of research project no. 16-44-240509 "The Development of Biotechnology for the Production of Embryogenic Cultures of Siberian Larch Resistant to Fungal Diseases and Pests with the Use of Protective Antimicrobial Peptides in vitro" and no. 18-44-243004 "In vitro Studies of the Effect of Biologically Active Peptides of Plant and Microbial Origin on the Growth and Development of Conifers in Early Ontogenesis." . - ISSN 1062-3590. - ISSN 1608-3059РУБ Biology

Аннотация: The effect of plant antimicrobial peptides on the initiation of callus and embryonal suspensor masses, formation of somatic embryos, and germination of regenerants of Siberian larch has been studied. Protein/peptide extracts isolated fromAmarantus retroflexus(seeds),Nigella sativa(seeds), andElytrigia elongata(spikelets) have been used as objects of plant origin. Peptides have been introduced into the nutrient media at the stage of initiation of embryogenic cultures and somatic embryo germination. The stimulating effect of peptides on the formation of embryogenic cultures of Siberian larch has been found. No other differences in the dynamics of growth in the control and experimental regenerants have been observed. This study is supposed to contribute to enhancing the immunity of the clonal planting stock of Siberian larch.

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Держатели документа:
Russian Acad Sci, Sukachev Inst Forests, Siberian Branch, Div Fed Res Ctr Krasnoyarsk Sci Ctr, Krasnoyarsk 660036, Russia.
Russian Acad Sci, Shemyakin Ovchinnikov Inst Bioorgan Chem, Moscow 117997, Russia.
Gause Inst New Antibiot, Moscow 119021, Russia.
Tyumen State Univ, Tyumen 625003, Russia.
Siberian Fed Univ, Krasnoyarsk 660041, Russia.

Доп.точки доступа:
Tretyakova, I. N.; Rogozhin, E. A.; Pak, M. E.; Petukhova, I. A.; Shuklina, A. S.; Pahomova, A. P.; Sadykova, V. S.; Federal Research Center Krasnoyarsk Science Center, Siberian Branch, Russian Academy of Sciences [0356-2017-0741]; Russian Foundation for Basic ResearchRussian Foundation for Basic Research (RFBR); Government of Krasnoyarsk region; Krasnoyarsk Regional Science Foundation [16-44-240509, 18-44-243004]

/ I. N. Tretyakova, E. A. Rogozhin, M. E. Pak [et al.] // Biol. Bull. - 2020. - Vol. 47, Is. 3. - P225-236, DOI 10.1134/S1062359020030097 . - ISSN 1062-3590
Аннотация: Abstract: The effect of plant antimicrobial peptides on the initiation of callus and embryonal suspensor masses, formation of somatic embryos, and germination of regenerants of Siberian larch has been studied. Protein/peptide extracts isolated from Amarantus retroflexus (seeds), Nigella sativa (seeds), and Elytrigia elongata (spikelets) have been used as objects of plant origin. Peptides have been introduced into the nutrient media at the stage of initiation of embryogenic cultures and somatic embryo germination. The stimulating effect of peptides on the formation of embryogenic cultures of Siberian larch has been found. No other differences in the dynamics of growth in the control and experimental regenerants have been observed. This study is supposed to contribute to enhancing the immunity of the clonal planting stock of Siberian larch. © 2020, Pleiades Publishing, Inc.

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Держатели документа:
Sukachev Institute of Forests, Siberian Branch, Russian Academy of Sciences, Division of Federal Research Center “Krasnoyarsk Science Center, Siberian Branch, Russian Academy of Sciences”, Krasnoyarsk, 660036, Russian Federation
Shemyakin–Ovchinnikov Institute of Bioorganic Chemistry, Russian Academy of Sciences, Moscow, 117997, Russian Federation
Gause Institute of New Antibiotics, Moscow, 119021, Russian Federation
Tyumen State University, Tyumen, 625003, Russian Federation
Siberian Federal University, Krasnoyarsk, 660041, Russian Federation

Доп.точки доступа:
Tretyakova, I. N.; Rogozhin, E. A.; Pak, M. E.; Petukhova, I. A.; Shuklina, A. S.; Pahomova, A. P.; Sadykova, V. S.

/ V. S. Akulova, V. V. Sharov, A. I. Aksyonova [et al.] // BMC Genomics. - 2020. - Vol. 21. - Ст. 534, DOI 10.1186/s12864-020-06964-6. - Cited References:48. - This work including the study and collection, analysis and interpretation of data, and writing the manuscript was supported by research grant. 14.Y26.31.0004 from the Government of the Russian Federation with partial funding from the Federal Research Center "Krasnoyarsk Scientific Center", Siberian Branch, Russian Academy of Sciences (grants No 0287-2019-0002, No 0356-2016-0704, and No 0356-2019-0024). The funding agencies played no role in the design of the study and collection material, analysis and interpretation of data, and in writing the manuscript. Publication cost have been funded by the Open Access Publication Funds of the University of Gottingen. . - ISSN 1471-2164РУБ Biotechnology & Applied Microbiology + Genetics & Heredity

Аннотация: Background: Massive forest decline has been observed almost everywhere as a result of negative anthropogenic and climatic effects, which can interact with pests, fungi and other phytopathogens and aggravate their effects. Climatic changes can weaken trees and make fungi, such as Armillaria more destructive. Armillaria borealis (Marxm. & Korhonen) is a fungus from the Physalacriaceae family (Basidiomycota) widely distributed in Eurasia, including Siberia and the Far East. Species from this genus cause the root white rot disease that weakens and often kills woody plants. However, little is known about ecological behavior and genetics of A. borealis. According to field research data, A. borealis is less pathogenic than A. ostoyae, and its aggressive behavior is quite rare. Mainly A. borealis behaves as a secondary pathogen killing trees already weakened by other factors. However, changing environment might cause unpredictable effects in fungus behavior. ResultsThe de novo genome assembly and annotation were performed for the A. borealis species for the first time and presented in this study. The A. borealis genome assembly contained similar to 68 Mbp and was comparable with similar to 60 and similar to 79.5 Mbp for the A. ostoyae and A. mellea genomes, respectively. The N50 for contigs equaled 50,544bp. Functional annotation analysis revealed 21,969 protein coding genes and provided data for further comparative analysis. Repetitive sequences were also identified. The main focus for further study and comparative analysis will be on the enzymes and regulatory factors associated with pathogenicity. ConclusionsPathogenic fungi such as Armillaria are currently one of the main problems in forest conservation. A comprehensive study of these species and their pathogenicity is of great importance and needs good genomic resources. The assembled genome of A. borealis presented in this study is of sufficiently good quality for further detailed comparative study on the composition of enzymes in other Armillaria species. There is also a fundamental problem with the identification and classification of species of the Armillaria genus, where the study of repetitive sequences in the genomes of basidiomycetes and their comparative analysis will help us identify more accurately taxonomy of these species and reveal their evolutionary relationships.

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Держатели документа:
Siberian Fed Univ, Inst Fundamental Biol & Biotechnol, Lab Forest Genom, Genome Res & Educ Ctr, Krasnoyarsk 660036, Russia.
Russian Acad Sci, Krasnoyarsk Sci Ctr, Siberian Branch, Lab Genom Res & Biotechnol,Fed Res Ctr, Krasnoyarsk 660036, Russia.
Siberian Fed Univ, Inst Space & Informat Technol, Dept High Performance Comp, Krasnoyarsk 660074, Russia.
Russian Acad Sci, Siberian Branch, VN Sukachev Inst Forest, Lab Forest Genet & Select, Krasnoyarsk 660036, Russia.
Natl Res Tech Univ, Dept Informat, Irkutsk 664074, Russia.
Russian Acad Sci, Siberian Branch, Limnol Inst, Irkutsk 664033, Russia.
Russian Acad Sci, Siberian Branch, VN Sukachev Inst Forest, Lab Reforestat Mycol & Plant Pathol, Krasnoyarsk 660036, Russia.
Reshetnev Siberian State Univ Sci & Technol, Dept Chem Technol Wood & Biotechnol, Krasnoyarsk 660049, Russia.
Georg August Univ Gottingen, Dept Forest Genet & Forest Tree Breeding, D-37077 Gottingen, Germany.
George August Univ Gottingen, Ctr Integrated Breeding Res, D-37075 Gottingen, Germany.
Russian Acad Sci, NI Vavilov Inst Gen Genet, Lab Populat Genet, Moscow 119333, Russia.
Texas A&M Univ, Dept Ecosyst Sci & Management, College Stn, TX 77843 USA.

Доп.точки доступа:
Akulova, Vasilina S.; Sharov, Vadim V.; Aksyonova, Anastasiya I.; Putintseva, Yuliya A.; Oreshkova, Natalya V.; Feranchuk, Sergey I.; Kuzmin, Dmitry A.; Pavlov, Igor N.; Litovka, Yulia A.; Krutovsky, Konstantin V.; Krutovsky, Konstantin; Government of the Russian Federation [14.Y26.31.0004]; Federal Research Center "Krasnoyarsk Scientific Center", Siberian Branch, Russian Academy of Sciences [0287-2019-0002, 0356-2016-0704, 0356-2019-0024]; University of Gottingen

/ Y. A. Putintseva, E. I. Bondar, E. P. Simonov [et al.] // BMC Genomics. - 2020. - Vol. 21, Is. 1. - P654, DOI 10.1186/s12864-020-07061-4 . - ISSN 1471-2164
Аннотация: BACKGROUND: Plant mitochondrial genomes (mitogenomes) can be structurally complex while their size can vary from ~?222 Kbp in Brassica napus to 11.3 Mbp in Silene conica. To date, in comparison with the number of plant species, only a few plant mitogenomes have been sequenced and released, particularly for conifers (the Pinaceae family). Conifers cover an ancient group of land plants that includes about 600 species, and which are of great ecological and economical value. Among them, Siberian larch (Larix sibirica Ledeb.) represents one of the keystone species in Siberian boreal forests. Yet, despite its importance for evolutionary and population studies, the mitogenome of Siberian larch has not yet been assembled and studied. RESULTS: Two sources of DNA sequences were used to search for mitochondrial DNA (mtDNA) sequences: mtDNA enriched samples and nucleotide reads generated in the de novo whole genome sequencing project, respectively. The assembly of the Siberian larch mitogenome contained nine contigs, with the shortest and the largest contigs being 24,767?bp and 4,008,762?bp, respectively. The total size of the genome was estimated at 11.7 Mbp. In total, 40 protein-coding, 34 tRNA, and 3 rRNA genes and numerous repetitive elements (REs) were annotated in this mitogenome. In total, 864 C-to-U RNA editing sites were found for 38 out of 40 protein-coding genes. The immense size of this genome, currently the largest reported, can be partly explained by variable numbers of mobile genetic elements, and introns, but unlikely by plasmid-related sequences. We found few plasmid-like insertions representing only 0.11% of the entire Siberian larch mitogenome. CONCLUSIONS: Our study showed that the size of the Siberian larch mitogenome is much larger than in other so far studied Gymnosperms, and in the same range as for the annual flowering plant Silene conica (11.3 Mbp). Similar to other species, the Siberian larch mitogenome contains relatively few genes, and despite its huge size, the repeated and low complexity regions cover only 14.46% of the mitogenome sequence.

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Держатели документа:
Laboratory of Forest Genomics, Genome Research and Education Center, Institute of Fundamental Biology and Biotechnology, Siberian Federal University, Krasnoyarsk, 660036, Russian Federation
Laboratory of Genomic Research and Biotechnology, Federal Research Center "Krasnoyarsk Science Center", Russian Academy of Sciences, Siberian Branch, Krasnoyarsk, 660036, Russian Federation
Institute of Environmental and Agricultural Biology (X-BIO), University of Tyumen, Tyumen, 625003, Russian Federation
Department of High Performance Computing, Institute of Space and Information Technologies, Siberian Federal University, Krasnoyarsk, 660074, Russian Federation
Laboratory of Forest Genetics and Selection, V. N. Sukachev Institute of Forest, Russian Academy of Sciences, Siberian Branch, Krasnoyarsk, 660036, Russian Federation
Laboratory of Plant Genetic Engineering, Siberian Institute of Plant Physiology and Biochemistry, Russian Academy of Sciences, Siberian Branch, Irkutsk, 664033, Russian Federation
Institute of Computational Modeling, Russian Academy of Sciences, Siberian Branch, Krasnoyarsk, 660036, Russian Federation
Department of Plant Physiology, UPSC, Umea University, Umea, S-90187, Sweden
Department of Forest Genetics and Forest Tree Breeding, Georg-August University of Gottingen, Gottingen37077, Germany
Center for Integrated Breeding Research, George-August University of Gottingen, Gottingen37075, Germany
Laboratory of Population Genetics, N.I. Vavilov Institute of General Genetics, Russian Academy of SciencesMoscow 119333, Russian Federation
Department of Ecosystem Science and Management, Texas A&M University, TX, College Station, United States

Доп.точки доступа:
Putintseva, Y. A.; Bondar, E. I.; Simonov, E. P.; Sharov, V. V.; Oreshkova, N. V.; Kuzmin, D. A.; Konstantinov, Y. M.; Shmakov, V. N.; Belkov, V. I.; Sadovsky, M. G.; Keech, O.; Krutovsky, K. V.

/ Y. A. Putintseva, E. I. Bondar, E. P. Simonov [et al.] // BMC Genomics. - 2020. - Vol. 21, Is. 1. - Ст. 654, DOI 10.1186/s12864-020-07061-4. - Cited References:70. - This study was supported by research grants No 14.Y26.31.0004 from the Russian Federation Government for the "Genomics of the key boreal forest conifer species and their major phytopathogens in the Russian Federation" project and. 16-04-01400 from the Russian Foundation for Basic Research. OK was supported by TC4F and the KEMPE Foundations. Open Access funding enabled and organized by Projekt DEAL. . - ISSN 1471-2164РУБ Biotechnology & Applied Microbiology + Genetics & Heredity

Аннотация: Background: Plant mitochondrial genomes (mitogenomes) can be structurally complex while their size can vary from similar to 222 Kbp inBrassica napusto 11.3 Mbp inSilene conica. To date, in comparison with the number of plant species, only a few plant mitogenomes have been sequenced and released, particularly for conifers (the Pinaceae family). Conifers cover an ancient group of land plants that includes about 600 species, and which are of great ecological and economical value. Among them, Siberian larch (Larix sibiricaLedeb.) represents one of the keystone species in Siberian boreal forests. Yet, despite its importance for evolutionary and population studies, the mitogenome of Siberian larch has not yet been assembled and studied. Results: Two sources of DNA sequences were used to search for mitochondrial DNA (mtDNA) sequences: mtDNA enriched samples and nucleotide reads generated in the de novo whole genome sequencing project, respectively. The assembly of the Siberian larch mitogenome contained nine contigs, with the shortest and the largest contigs being 24,767 bp and 4,008,762 bp, respectively. The total size of the genome was estimated at 11.7 Mbp. In total, 40 protein-coding, 34 tRNA, and 3 rRNA genes and numerous repetitive elements (REs) were annotated in this mitogenome. In total, 864 C-to-U RNA editing sites were found for 38 out of 40 protein-coding genes. The immense size of this genome, currently the largest reported, can be partly explained by variable numbers of mobile genetic elements, and introns, but unlikely by plasmid-related sequences. We found few plasmid-like insertions representing only 0.11% of the entire Siberian larch mitogenome. Conclusions: Our study showed that the size of the Siberian larch mitogenome is much larger than in other so far studied Gymnosperms, and in the same range as for the annual flowering plantSilene conica(11.3 Mbp). Similar to other species, the Siberian larch mitogenome contains relatively few genes, and despite its huge size, the repeated and low complexity regions cover only 14.46% of the mitogenome sequence.

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Держатели документа:
Siberian Fed Univ, Lab Forest Genom, Genome Res & Educ Ctr, Inst Fundamental Biol & Biotechnol, Krasnoyarsk 660036, Russia.
Russian Acad Sci, Lab Genom Res & Biotechnol, Fed Res Ctr, Siberian Branch,Krasnoyarsk Sci Ctr, Krasnoyarsk 660036, Russia.
Univ Tyumen, Inst Environm & Agr Biol XBIO, Tyumen 625003, Russia.
Siberian Fed Univ, Inst Space & Informat Technol, Dept High Performance Comp, Krasnoyarsk 660074, Russia.
Russian Acad Sci, VN Sukachev Inst Forest, Lab Forest Genet & Select, Siberian Branch, Krasnoyarsk 660036, Russia.
Russian Acad Sci, Siberian Inst Plant Physiol & Biochem, Lab Plant Genet Engn, Siberian Branch, Irkutsk 664033, Russia.
Russian Acad Sci, Inst Computat Modeling, Siberian Branch, Krasnoyarsk 660036, Russia.
Umea Univ, Dept Plant Physiol, UPSC, S-90187 Umea, Sweden.
August Univ Gottingen, Dept Forest Genet & Forest Tree Breeding, D-37077 Gottingen, Germany.
George August Univ Gottingen, Ctr Integrated Breeding Res, D-37075 Gottingen, Germany.
Russian Acad Sci, NI Vavilov Inst Gen Genet, Lab Populat Genet, Moscow 119333, Russia.
Texas A&M Univ, Dept Ecosyst Sci & Management, College Stn, TX 77843 USA.

Доп.точки доступа:
Putintseva, Yuliya A.; Bondar, Eugeniya I.; Simonov, Evgeniy P.; Sharov, Vadim V.; Oreshkova, Natalya V.; Kuzmin, Dmitry A.; Konstantinov, Yuri M.; Shmakov, Vladimir N.; Belkov, Vadim I.; Sadovsky, Michael G.; Keech, Olivier; Krutovsky, Konstantin V.; Krutovsky, Konstantin; Russian Federation Government [14.Y26.31.0004]; Russian Foundation for Basic ResearchRussian Foundation for Basic Research (RFBR) [16-04-01400]; TC4F Foundation; KEMPE Foundation; Projekt DEAL