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Biodegradation of polyhydroxyalkanoates (PHAs) in tropical coastal waters and identification of PHA-degrading bacteria / T. G. Volova [et al.] // Polymer Degradation and Stability. - 2010. - Vol. 95, Is. 12. - P2350-2359, DOI 10.1016/j.polymdegradstab.2010.08.023 . - ISSN 0141-3910
Кл.слова (ненормированные):
Biopolymers in marine environment -- Degradation of polymers -- PHA properties -- PHA-degrading microorganisms -- Polyhydroxyalkanoates, PHA -- 16S rRNA -- 3-hydroxybutyric acid -- Amorphous phase -- Bacillus sp -- Biodegradation rate -- Chemical compositions -- Coastal waters -- Degradation rate -- Degrading bacteria -- Degree of crystallinity -- Enterobacter -- Hydroxyvalerate -- Marine environment -- PHA properties -- PHA-degrading microorganisms -- Polydispersity indices -- Polyhydroxyalkanoates -- Polymer chains -- Preparation technique -- Sole carbon source -- South China Sea -- Viet Nam -- Acids -- Bacteriology -- Biodegradable polymers -- Biodegradation -- Biomolecules -- Biopolymers -- Microorganisms -- Organic polymers -- Polydispersity -- Polymer films -- Polymers -- RNA -- Seawater -- Degradation
Аннотация: Biodegradability patterns of two PHAs: a polymer of 3-hydroxybutyric acid (3-PHB) and a copolymer of 3-hydroxybutyric and 3-hydroxyvaleric acids (3-PHB/3-PHV) containing 11 mol% of hydroxyvalerate, were studied in the tropical marine environment, in the South China Sea (Nha Trang, Vietnam). No significant differences have been observed between degradation rates of 3-PHB and 3-PHB/3-PHV specimens; it has been found that under study conditions, biodegradation is rather influenced by the shape of the polymer item and the preparation technique than by the chemical composition of the polymer. Biodegradation rates of polymer films in seawater have been found to be higher than those of compacted pellets. As 3-PHB and 3-PHB/3-PHV are degraded and the specimens lose their mass, molecular weight of both polymers is decreased, i.e. polymer chains get destroyed. The polydispersity index of the PHAs grows significantly. However, the degree of crystallinity of both PHAs remains unchanged, i.e. the amorphous phase and the crystalline one are equally disintegrated. PHA-degrading microorganisms were isolated using the clear-zone technique, by inoculating the isolates onto mineral agar that contained PHA as sole carbon source. Based on the 16S rRNA analysis, the PHA-degrading strains were identified as Enterobacter sp. (four strains), Bacillus sp. and Gracilibacillus sp.В© 2010 Elsevier Ltd. All rights reserved.

Scopus
Держатели документа:
Institute of Biophysics, Siberian Branch, Russian Academy of Sciences, Akademgorodok, Krasnoyarsk 660036, Russian Federation
Siberian Federal University, 79 Svobodny av., Krasnoyarsk 660041, Russian Federation
L.V. Kirensky Institute of Physics, Siberian Branch, Russian Academy of Sciences, Akademgorodok, Krasnoyarsk 660036, Russian Federation
A.N. Severtsov Institute of Ecology and Evolution RAS, 33 Leninskij Prospect, Moscow 119071, Russian Federation
Institute of Chemical Biology and Fundamental Medicine, Siberian Branch, Russian Academy of Sciences, 8 Lavrentiev Ave., Novosibirsk 630090, Russian Federation
Joint Russian-Vietnam Tropical Research and Test Centre, Coastal Branch, 30 Nguyen Thien Thuat, Nha Trang, Viet Nam : 660036, Красноярск, Академгородок, д. 50, стр. 50

Доп.точки доступа:
Volova, T.G.; Boyandin, A.N.; Vasiliev, A.D.; Karpov, V.A.; Prudnikova, S.V.; Mishukova, O.V.; Boyarskikh, U.A.; Filipenko, M.L.; Rudnev, V.P.; Ba Xuan, B.; Vit Dung, V.; Gitelson, I.I.

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Physiological-biochemical properties and the ability to synthesize polyhydroxyalkanoates of the glucose-utilizing strain of the hydrogen bacterium Ralstonia eutropha B8562. / T. G. Volova [et al.] // Applied microbiology and biotechnology. - 2006. - Vol. 73, Is. 2. - P429-433, DOI 10.1007/s00253-006-0460-0 . - ISSN 0175-7598
Кл.слова (ненормированные):
beta hydroxyvaleric acid -- beta-hydroxyvaleric acid -- carbon dioxide -- ester -- fatty acid -- fructose -- glucose -- hexanoic acid derivative -- hydrogen -- hydroxyacid -- oxygen -- polymer -- ribosome RNA -- valeric acid derivative -- article -- biotechnology -- chemistry -- metabolism -- methodology -- Wautersia eutropha -- Biotechnology -- Carbon Dioxide -- Cupriavidus necator -- Esters -- Fatty Acids -- Fructose -- Glucose -- Hexanoic Acids -- Hydrogen -- Hydroxy Acids -- Oxygen -- Pentanoic Acids -- Polymers -- RNA, Ribosomal
Аннотация: Physiological-biochemical, genetic, and cultural properties of the glucose-utilizing mutant strain Ralstonia eutropha B8562 have been compared with those of its parent strain R. eutropha B5786. It has been shown that growth characteristics of the strain cultured on glucose as the sole carbon and energy source are comparable with those of the parent strain. Strain B8562 is characterized by high polyhydroxyalkanoate (PHA) yields on different carbon sources (CO(2), fructose, and glucose). PHA accumulation in the strain batch cultured on glucose under nitrogen deficiency reaches 90 %. The major monomer in the PHA is beta-hydroxybutyric acid (more than 99 mol %); the identified minor components are beta-hydroxyvaleric acid (0.25-0.72 mol %) and beta-hydroxyhexanoic acid (0.08-1.5 mol %). The strain is a promising PHA producer on available sugar-containing media with glucose.

Scopus
Держатели документа:
Institute of Biophysics, Siberian Branch of Russian Academy of Sciences, Akademgorodok, 660036 Krasnoyarsk, Russia. : 660036, Красноярск, Академгородок, д. 50, стр. 50

Доп.точки доступа:
Volova, T.G.; Trusova, M.Y.; Kalacheva, G.S.; Kozhevnicov, I.V.

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Physiological and biochemical characteristics and capacity for polyhydroxyalkanoates synthesis in a glucose-utilizing strain of hydrogen-oxidizing bacteria, Ralstonia eutropha B8562 / T. G. Volova [и др.] // Mikrobiologiya. - 2005. - Vol. 74, Is. 6. - С. 788-794 . - ISSN 0026-3656
Кл.слова (ненормированные):
Glucose-utilizing strain -- Hydrogen-oxidizing bacteria -- Polyhydroxyalkanoates -- Synthesis -- Bacteria (microorganisms) -- Cupriavidus necator -- bacterial RNA -- glucose -- hydrogen -- hydroxybutyric acid -- polymer -- RNA 16S -- article -- culture medium -- genetics -- growth, development and aging -- metabolism -- mutation -- oxidation reduction reaction -- physiology -- Wautersia eutropha -- Culture Media -- Cupriavidus necator -- Glucose -- Hydrogen -- Hydroxybutyrates -- Mutation -- Oxidation-Reduction -- Polymers -- RNA, Bacterial -- RNA, Ribosomal, 16S
Аннотация: The physiological, biochemical, genetic, and cultural characteristics of the glucose-utilizing mutant strain Ralstonia eutropha B8562 were investigated in comparison with the parent strain R. eutropha B5786. The morphological, cultural, and biochemical characteristics of strain R. eutropha B8562 were similar to those of strain R. eutropha B5786. Genetic analysis revealed differences between the 16S rRNA gene sequences of these strains. The growth characteristics of the mutant using glucose as the sole carbon and energy source were comparable with those of the parent strain grown on fructose. Strain B8562 was characterized by high yields of polyhydroxyalkanoate (PHA) from different carbon sources (CO 2, fructose, and glucose). In batch culture with glucose under nitrogen limitation, PHA accumulation reached 90% of dry weight. In PHA, ?-hydroxybutyrate was predominant (over 99 mol %); ?-hydroxyvalerate (0.25-0.72 mol %) and ?-hydroxyhexanoate (0.008-1.5 mol %) were present as minor components. The strain has prospects as a PHA producer on glucose-containing media.

Scopus
Держатели документа:
Institute of Biophysics, Siberian Division, Russian Academy of Sciences, Krasnoyarsk, Russian Federation
Krasnoyarsk State University, Krasnoyarsk, Russian Federation : 660036, Красноярск, Академгородок, д. 50, стр. 50

Доп.точки доступа:
Volova, T.G.; Kozhevnikov, I.V.; Dolgopolova, Yu.B.; Trusova, M.Yu.; Kalacheva, G.S.; Aref'eva, Yu.V.

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Cytotoxicity of polyhydroxyalkanoates in animal cell cultures. / E. I. Shishatskaya [et al.] // Doklady Biological Sciences. - 2000. - Vol. 374, Is. 1-6. - P539-542 . - ISSN 0012-4966
Кл.слова (ненормированные):
DNA -- hydroxybutyric acid -- poly(3 hydroxybutyrate) co (3 hydroxyvalerate) -- poly(3 hydroxybutyric acid) -- poly(3-hydroxybutyrate)-co-(3-hydroxyvalerate) -- poly-beta-hydroxybutyrate -- polyester -- RNA -- thymidine -- uridine -- animal -- article -- biosynthesis -- cell division -- cell strain 3T3 -- cell survival -- cytology -- drug effect -- liver -- liver cell -- metabolism -- mouse -- vascular endothelium -- 3T3 Cells -- Animals -- Cell Division -- Cell Survival -- DNA -- Endothelium, Vascular -- Hepatocytes -- Hydroxybutyrates -- Liver -- Mice -- Polyesters -- RNA -- Thymidine -- Uridine

Scopus
Держатели документа:
Institute of Biophysics, Siberian Division, Russian Academy of Sciences, Krasnoyarsk, Russia. : 660036, Красноярск, Академгородок, д. 50, стр. 50

Доп.точки доступа:
Shishatskaya, E.I.; Eremeev, A.V.; Gitel'zon, I.I.; Setkov, N.A.; Volova, T.G.

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Seasonal features of consumption of lysine by uncultivated bacterial plankton of Eutrophic water reservoir / M. Y. Trusova, O. V. Kolmakova, M. I. Gladyshev // Contemporary Problems of Ecology. - 2012. - Vol. 5, Is. 4. - P391-398, DOI 10.1134/S1995425512040154 . - ISSN 1995-4255
Кл.слова (ненормированные):
16S ribosomal RNA -- biogeochemical function -- denaturing gradient gel electrophoresis -- eutrophic water reservoir -- lysine -- microecosystem (MES) -- uncultivated bacterial plankton -- amino acid -- bacterioplankton -- bacterium -- biogeochemistry -- electrokinesis -- eutrophication -- laboratory method -- microbial community -- polymerase chain reaction -- reservoir -- seasonal variation -- specialization -- Bacteria (microorganisms)
Аннотация: Dynamics of bacterial plankton community of eutrophic water reservoir in laboratory microecosystems with amino acid lysine was studied using PCR-DGGE technique. The addition of lysine to the microecosystems resulted in changes in the composition of the bacterial plankton in summer; in particular, a number of Lys1 and Lys2 species (genotypes) that consume this amino acid grew fast in the bacterial community. The plank tonic bacterial communities did not respond to the addition of lysine in spring and late summer. The obtained data confirm the hypothesis for the narrow specialization of bacterial plankton species to the consumption of individual organic substances. В© 2012 Pleiades Publishing, Ltd.

Scopus
Держатели документа:
Institute of Biophysics of Siberian Branch of Russian Academy of Sciences, Akademgorodok 50-50, Krasnoyarsk 660036, Russian Federation
Siberian Federal University, Svobodnii prosp. 79, Krasnoyarsk 660041, Russian Federation : 660036, Красноярск, Академгородок, д. 50, стр. 50

Доп.точки доступа:
Trusova, M.Y.; Kolmakova, O.V.; Gladyshev, M.I.

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Species composition of winter bacterioplankton in blooming and nonblooming reservoirs as determined by 16S rRNA sequences / M. Yu. Trusova, M. I. Gladyshev // Doklady Biological Sciences. - 2005. - Vol. 405, Is. 1-6. - P443-445, DOI 10.1007/s10630-005-0160-4 . - ISSN 0012-4966
Кл.слова (ненормированные):
fresh water -- RNA 16S -- article -- bacterium -- classification -- genetic variability -- genetics -- isolation and purification -- microbiology -- molecular genetics -- phylogeny -- plankton -- Russian Federation -- season -- species difference -- Bacteria -- Fresh Water -- Molecular Sequence Data -- Phylogeny -- Plankton -- RNA, Ribosomal, 16S -- Seasons -- Siberia -- Species Specificity -- Variation (Genetics) -- Water Microbiology

Scopus
Держатели документа:
Institute of Biophysics, Siberian Division, Russian Academy of Sciences, Akademgorodok, Krasnoyarsk, 660036, Russian Federation
Krasnoyarsk State University, Krasnoyarsk, 660062, Russian Federation : 660036, Красноярск, Академгородок, д. 50, стр. 50

Доп.точки доступа:
Trusova, M.Yu.; Gladyshev, M.I.

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Phylogenetic diversity of winter bacterioplankton of eutrophic Siberian reservoirs as revealed by 16S rRNA gene sequences / M. Yu. Trusova, M. I. Gladyshev // Microbial Ecology. - 2002. - Vol. 44, Is. 3. - P252-259, DOI 10.1007/s00248-002-2020-1 . - ISSN 0095-3628
Кл.слова (ненормированные):
bacterioplankton -- community composition -- community dynamics -- genetic variation -- phylogenetics -- reservoir -- winter -- Russian Federation -- Actinobacteria -- Bacteria (microorganisms) -- Bacteroides -- Betaproteobacteria -- Cyanobacteria -- Cytophaga -- Flavobacterium -- Prokaryota -- Proteobacteria -- bacterial DNA -- fresh water -- RNA 16S -- animal -- article -- bacterium -- chemistry -- DNA sequence -- genetic variability -- genetics -- microbiology -- molecular genetics -- phylogeny -- plankton -- Russian Federation -- season -- Animals -- Bacteria -- DNA, Bacterial -- Fresh Water -- Molecular Sequence Data -- Phylogeny -- Plankton -- RNA, Ribosomal, 16S -- Seasons -- Sequence Analysis, DNA -- Siberia -- Variation (Genetics)
Аннотация: Using 16S rRNA gene sequence analyses we investigated the bacterial diversity of winter bacterioplankton of two eutrophic Siberian reservoirs. These reservoirs show similarity in phytoplankton community composition in spring and autumn but tend to differ in summer in exhibiting cyanobacterial bloom. Forty-eight unique partial 16S RNA gene sequences retrieved from two libraries were mostly affiliated with the class Actinobacteria, ? subdivision of the class Proteobacteria, and the phylum Cytophaga-Flavobacterium-Bacteroides. The clone library of the pond exhibiting summer cyanobacterial bloom showed more diversity in sequence composition. A significant number of bacterial 16S rRNA gene clones were closely related to freshwater bacteria previously found in different aquatic ecosystems. This finding confirms the assumption that some bacterial clades are globally distributed.

Scopus
Держатели документа:
Inst. of Biophys. of Siberian Branch, Russian Academy of Sciences, Krasnoyarsk, Russian Federation : 660036, Красноярск, Академгородок, д. 50, стр. 50

Доп.точки доступа:
Trusova, M.Yu.; Gladyshev, M.I.

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Species composition of winter bacterioplankton in two Siberian ponds determined by the 16s rRNA sequence analysis. / M. Y. Trusova, M. I. Gladyshev // Doklady Biological Sciences. - 2002. - Vol. 382. - P51-54 . - ISSN 0012-4966
Кл.слова (ненормированные):
bacterial RNA -- RNA 16S -- animal -- article -- bacterium -- classification -- ecosystem -- genetics -- microbiology -- molecular cloning -- molecular genetics -- plankton -- Russian Federation -- season -- species difference -- Animals -- Bacteria -- Cloning, Molecular -- Ecosystem -- Molecular Sequence Data -- Plankton -- RNA, Bacterial -- RNA, Ribosomal, 16S -- Seasons -- Siberia -- Species Specificity -- Water Microbiology

Scopus
Держатели документа:
Institute of Biophysics, Siberian Division, Russian Academy of Sciences, Akademgorodok, Krasnoyarsk, 660036 Russia. : 660036, Красноярск, Академгородок, д. 50, стр. 50

Доп.точки доступа:
Trusova, M.Y.; Gladyshev, M.I.

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MN2+-ACTIVATED LUMINESCENCE OF THE PHOTOPROTEIN OBELIN [Text] / E. S. VYSOTSKI [et al.] // Arch. Biochem. Biophys. - 1995. - Vol. 316, Is. 1. - P92-99, DOI 10.1006/abbi.1995.1014. - Cited References: 38 . - 8. - ISSN 0003-9861

РУБ Biochemistry & Molecular Biology + Biophysics
Рубрики:
CALCIUM-ACTIVATED PHOTOPROTEINS
   CTENOPHORES MNEMIOPSIS SP
   CA-2+-ACTIVATED PHOTOPROTEIN
   MESSENGER-RNA
   BEROE-OVATA
   AEQUORIN
   PURIFICATION
   PROTEIN
   CDNA
   EXTRACTION
Аннотация: The light emission of obelin may be initiated by Mn2+ under alkaline conditions. The luminescence takes place in a pH range from 7 to 12 with a sharp optimum at 11.75. The first-order rate constant for Mn2+-activated luminescence decay is more than 9 s(-1), while that for Ca2+-activated luminescence decay is only 6.9 s(-1). The Mn2+ concentration-effect curve for obelin determined with simple dilutions of manganese salt is a sigmoid curve, The slope of the curve is moderately dependent on the pH and was not more than 1 within the pH range tested. The maximal light emission, which is initiated by 3.6 X 10(-5) M Mn2+ at pH 11.75 was about 10% of the maximal Ca2+-activated luminescence. Mg2+ ions inhibit the Mn2+-activated luminescence of obelin. The addition of OH. and O-2(-) scavengers did not influence the Mn2+-activated luminescence, but when singlet oxygen quenchers were added, the Mn2+-dependent light emission was inhibited. This suggests that the O-1(2) might be formed and itself be responsible for chromophore oxidation attended with light emission. NEM and Na2S2O4 inhibit the Mn2+-initiated light emission of obelin completely, showing that endogenous hydroperoxide and SH-group(s) of the photoprotein are essential for both Ca2+-activated and Mn2+-activated light emission of obelin. (C) 1995 Academic Press, Inc.
: 660036, Красноярск, Академгородок, д. 50, стр. 50

Доп.точки доступа:
VYSOTSKI, E.S.; TROFIMOV, C.P.; BONDAR, V.S.; FRANK, L.A.; MARKOVA, S.V.; ILLARIONOV, B.A.

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10.

Recombinant obelin: Cloning and expression of cDNA, purification, and characterization as a calcium indicator [Text] / B. A. Illarionov [et al.] // Methods Enzymol. - 2000. - Vol. 305. - P223-249. - Cited References: 58 . - ISSN 0076-6879

РУБ Biochemical Research Methods + Biochemistry & Molecular Biology
Рубрики:
PHOTOPROTEIN OBELIN
   MESSENGER-RNA
   CA-2+-ACTIVATED PHOTOPROTEIN
   DIRECTED MUTAGENESIS
   SEQUENCE-ANALYSIS
   HYDROID OBELIA
   AEQUORIN
   PROTEIN
   BIOLUMINESCENCE
   LUMINESCENCE

Держатели документа:
Russian Acad Sci, Inst Biophys, Photobiol Lab, Krasnoyarsk 660036, Russia
Univ Washington, Friday Harbor Labs, Friday Harbor, WA 98250 USA
ИБФ СО РАН : 660036, Красноярск, Академгородок, д. 50, стр. 50

Доп.точки доступа:
Illarionov, B.A.; Frank, L.A.; Illarionova, V.A.; Bondar, V.S.; Vysotski, E.S.; Blinks, J.R.

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11.

Cotranslational formation of active photoprotein obelin in a cell-free translation system: Direct ultrahigh sensitive measure of the translation course [Text] / N. G. Berestovskaya [et al.] // Anal. Biochem. - 1999. - Vol. 268, Is. 1. - P72-78, DOI 10.1006/abio.1998.3051. - Cited References: 22 . - ISSN 0003-2697

РУБ Biochemical Research Methods + Biochemistry & Molecular Biology + Chemistry, Analytical
Рубрики:
SEQUENCE-ANALYSIS
   MESSENGER-RNA
   CA-2+-ACTIVATED PHOTOPROTEIN
   LIGHT-EMISSION
   AEQUORIN
   CDNA
   CLONING
   EXPRESSION
Аннотация: Translation of apoobelin mRNA in a cell-free wheat germ translation system in the presence of coelenterazine and molecular oxygen results in cotranslational formation of active photoprotein. Active obelin formation is recorded by its luminescence, either direct in the translation mixture in the presence of coelenterazine and calcium ions or in aliquots from the translation mixture. In the second case translation is carried out with coelenterazine and EGTA. Registration of the translation course by luminescence of the synthesized product in both cases allows use of apoobelin mRNA at very low concentrations as an internal marker for immediate measure of protein biosynthesis activity of in vitro translation systems. It is shown that the simultaneous translation of any other mRNA does not affect translation of photoprotein mRNAs under standard conditions. Continuous registration of luminescence in a cuvette of a liquid scintillation counter in photon-counting mode varies the time of signal accumulation in a wide temporal range, thus increasing the numerical values of the recorded signals. Registration of photoprotein luminescence during translation can be used to obtain additional information about the translation process, for example codon reading speed, about protein folding, and about the formation of active proteins on ribosomes. (C) 1999 Academic Press.

Держатели документа:
Russian Acad Sci, Branch Inst Bioorgan Chem, Pushchino 142292, Russia
Russian Acad Sci, Siberian Branch, Inst Biophys, Krasnoyarsk 660036, Russia
Tech Univ Berlin, Inst Biochem & Mol Biol, D-10587 Berlin, Germany
ИБФ СО РАН : 660036, Красноярск, Академгородок, д. 50, стр. 50

Доп.точки доступа:
Berestovskaya, N.G.; Shaloiko, L.A.; Gorokhovatsky, A.Y.; Bondar, V.S.; Vysotski, E.S.; Maximov, J.E.; von Doehren, H...; Alakhov, Y.B.

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12.

Cell-free bioluminescent screening of translation inhibitors [Text] / A. Y. Gorokhovatsky [et al.] // Biotechnol. Appl. Biochem. - 1998. - Vol. 27. - P259-263. - Cited References: 21 . - ISSN 0885-4513

РУБ Biochemistry & Molecular Biology + Biotechnology & Applied Microbiology
Рубрики:
DIPHTHERIA-TOXIN
   MESSENGER-RNA
   SYSTEM
   PROTEINS
Аннотация: The possibility of creating new screening methods with a cell-free translation system has been demonstrated with a quantitative determination of diphtheria toxin and some antibiotics (puromycin, kanamycin and tetracycline) as examples. The approach proposed follows from the ability of various substances to inhibit protein synthesis. We used a wheat-germ cell-free translation system stabilized by freeze-drying in the presence of trehalose with the mRNA of the Ca2+-activated photoprotein obelin as a reporter template. This freeze-dried cell-free translation system allows prolonged storage of the detecting system before it is required, increases the reproducibility of the results and simplifies the application procedure. The obelin mRNA extends the sensitivity of the method owing to the high sensitivity of detection of the synthesized protein.

Держатели документа:
Russian Acad Sci, Branch Inst Bioorgan Chem, Pushchino 142292, Moscow Region, Russia
RAS, Inst Biophys, Siberian Branch, Krasnoyarsk 660036, Russia
Tech Univ Berlin, Inst Biochem & Mol Biol, D-10587 Berlin, Germany
ИБФ СО РАН : 660036, Красноярск, Академгородок, д. 50, стр. 50

Доп.точки доступа:
Gorokhovatsky, A.Y.; Shaloiko, L.A.; Bondar, V.S.; Vysotski, E.S.; Maximov, E.E.; von Doehren, H...; Alakhov, Y.B.

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13.

Large-scale, high-throughput validation of short hairpin RNA sequences for RNA interference [Text] / L. H. Lamarcq [et al.] // J. Biomol. Screen. - 2006. - Vol. 11, Is. 3. - P236-246, DOI 10.1177/1087057105284342. - Cited References: 50 . - ISSN 1087-0571

РУБ Biochemical Research Methods + Biotechnology & Applied Microbiology + Chemistry, Analytical
Рубрики:
ENZYME FRAGMENT COMPLEMENTATION
   ORFEOME VERSION 1.1
   SMALL NUCLEAR-RNA
   MAMMALIAN-CELLS
   GENE-EXPRESSION
   SIRNA SEQUENCES
   POLYMERASE-III
   SELECTION
   TRANSCRIPTION
   MICROARRAYS
Кл.слова (ненормированные):
RNAi -- high-throughput screening -- target validation -- shRNA -- reporter assay
Аннотация: (shRNAs) is described. Using this approach, 464 shRNAs auainst 116 different genes were screened for knockdown efficacy, enabling rapid identification of effective shRNAS against 74 genes. Statistical analysis of the effects of various criteria on the activity of the shRNAs confirmed that some of the rules thought to govern small interfering RNA (siRNA) activity also apply to shRNAs. These include moderate GC content, absence of internal hairpins, and asymmetric thermal stability. However, the authors did not find strong support for position-specific rules. In addition, analysis of the data suggests that not all genes are equally susceptible to RNA interference (RNAi).

Держатели документа:
Clontech Labs, Mountain View, CA 94043 USA
BD Biosci Pharmingen, La Jolla, CA USA
Bayer Healthcare AG, Pharma Res, Mol Screening Technol, Wuppertal, Germany
Russian Acad Sci, Inst Biophys, Photobiol Lab, Siberian Branch, Krasnoyarsk, Russia
ИБФ СО РАН : 660036, Красноярск, Академгородок, д. 50, стр. 50

Доп.точки доступа:
Lamarcq, L.H.; Scherer, B.J.; Phelan, M.L.; Kalnine, N.N.; Nguyen, Y.H.; Kabakova, T...; Chen, X.Y.; Tan, M...; Chang, C...; Berlon, C...; Campos-Gonzalez, R...; Gao, G.J.; Golz, S...; Vysotski, E.S.; Farmer, A.A.

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14.

OBELIN MESSENGER-RNA - A NEW TOOL FOR STUDIES OF TRANSLATION IN CELL-FREE SYSTEMS [Text] / S. V. MATVEEV [et al.] // Anal. Biochem. - 1995. - Vol. 231, Is. 1. - P34-39, DOI 10.1006/abio.1995.1499. - Cited References: 17 . - ISSN 0003-2697

РУБ Biochemical Research Methods + Biochemistry & Molecular Biology + Chemistry, Analytical
Рубрики:
MESSENGER-RNA
   AEQUORIN
   PROTEIN
   CLONING
   CDNA
Аннотация: Obelin mRNA obtained in vitro with the aid of SP6 RNA polymerase was translated in a wheat germ cell-free system, Only the polypeptide with a molecular mass of about 20 kDa was synthesized. The activation of apoobelin with a synthetic coelenterazine revealed a luminescence activity initiated by calcium. The specific activity was 3.6 +/- 0.4 x 10(15) photons per mg of the in vitro synthesized obelin (k = 6.9 s(-1)). The luminescence of the obelin was in a good correlation with the protein concentration calculated by the incorporation of [C-14]Leu. The determination of the amount of de novo synthesized obelin based on measurement of its luminescence is one-thousand times more sensitive than the approach based on the incorporation of labeled amino acid. Thus, obelin mRNA has some advantages for evaluating the efficiency of cell-free translation when compared with standard methods. (C) 1995 Academic Press, Inc.

Держатели документа:
RUSSIAN ACAD SCI,INST BIOPHYS,KRASNOYARSK 660036,RUSSIA
ИБФ СО РАН : 660036, Красноярск, Академгородок, д. 50, стр. 50

Доп.точки доступа:
MATVEEV, S.V.; ILLARIONOV, B.A.; VYSOTSKI, E.S.; BONDAR, V.S.; MARKOVA, S.V.; ALAKHOV, Y.B.

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15.

RNA-CONTENT IN ERYTHROCYTES AS A MEASURE OF THE RATE OF ERYTHROPOIESIS [Text] / S. N. OSIPOVA, V. V. MEZHEVIKIN, I. I. GITELZON // Bull. Exp. Biol. Med. - 1983. - Vol. 96, Is. 7. - P998-1000, DOI 10.1007/BF00833063. - Cited References: 5 . - ISSN 0007-4888

РУБ Medicine, Research & Experimental

: 660036, Красноярск, Академгородок, д. 50, стр. 50
Доп.точки доступа:
OSIPOVA, S.N.; MEZHEVIKIN, V.V.; GITELZON, I.I.

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16.

Ca2+-Regulated Photoproteins: Effective Immunoassay Reporters [Text] / L. A. Frank // Sensors. - 2010. - Vol. 10, Is. 12. - P11287-11300, DOI 10.3390/s101211287. - Cited References: 70. - This work was supported by the grant No. 76 of the Russian Academy of Sciences, Siberian Branch. . - ISSN 1424-8220

РУБ Chemistry, Analytical + Electrochemistry + Instruments & Instrumentation
Рубрики:
POLYMERASE-CHAIN-REACTION
   CYTOKINE MESSENGER-RNA
   BIOLUMINESCENT IMMUNOASSAY
   MYCOBACTERIUM-TUBERCULOSIS
   BIOTINYLATED AEQUORIN
   RECOMBINANT AEQUORIN
   ANGSTROM RESOLUTION
   FUSION PROTEIN
   PCR ASSAY
   OBELIN
Кл.слова (ненормированные):
bioluminescence -- Ca2+-regulated photoprotein -- immunoassay -- PCR-ELISA -- multiplex assay -- re-engineered photoproteins
Аннотация: Ca2+-regulated photoproteins of luminous marine coelenterates are of interest and a challenge for researchers as a unique bioluminescent system and as a promising analytical instrument for both in vivo and in vitro applications. The proteins are comprehensively studied as to biochemical properties, tertiary structures, bioluminescence mechanism, etc. This knowledge, along with available recombinant proteins serves the basis for development of unique bioluminescent detection systems that are "self-contained", triggerable, fast, highly sensitive, and non-hazardous. In the paper, we focus on the use of photoproteins as reporters in binding assays based on immunological recognition element-bioluminescent immunoassay and hybridization immunoassay, their advantages and prospects.

Держатели документа:
Russian Acad Sci, Inst Biophys, Siberian Branch, Krasnoyarsk 660036, Russia
ИБФ СО РАН : 660036, Красноярск, Академгородок, д. 50, стр. 50

Доп.точки доступа:
Frank, L.A.

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17.

    Effect of radioisotope tritium on bioluminescence and mutations in luminous bacteria P. phosphoreum 1883 IBSO [Text] / O. . Guseynov [et al.] // Luminescence. - 2014. - Vol. 29. - P77-78. - Cited References: 6 . - ISSN 1522-7235. - ISSN 1522-7243
Рубрики:
RIBOSOMAL-RNA
   FRAGMENT
   AM-241

WOS
Держатели документа:
[Guseynov, Oleg
Litvinova, Irina
Karpenok, Polina
Guseynova, Valeriya
Petrova, Alena
Kudryasheva, Nadezhda] Siberian Fed Univ, Krasnoyarsk, Russia
[Selivanova, Maria
Kudryasheva, Nadezhda] Inst Biophys SB RAS, Krasnoyarsk, Russia
ИБФ СО РАН : 660036, Красноярск, Академгородок, д. 50, стр. 50

Доп.точки доступа:
Guseynov, O...; Selivanova, M...; Litvinova, I...; Karpenok, P...; Guseynova, V...; Petrova, A...; Kudryasheva, N...

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18.

Aliidiomarina shirensis sp nov., a halophilic bacterium isolated from Shira Lake in Khakasia, southern Siberia, and a proposal to transfer Idiomarina maris to the genus Aliidiomarina [Text] / H. H. Chiu [et al.] // Int. J. Syst. Evol. Microbiol. - 2014. - Vol. 64. - P1334-1339, DOI 10.1099/ijs.0.057851-0. - Cited References: 22. - We thank Dr Egor S. Zadereev and Dr Vladimir V. Zykov at the Institute of Biophysics, Siberian Division, Russian Academy of Sciences, Krasnoyarsk, for assistance with sampling. This study was supported by Russia Taiwan joint project funding (NSC 99-2923-B-001-001-MY3) from the National Science Council, Taiwan, the Russian Foundation for Basic Research, Grant No. 14-04-01060-a and Siberian Branch of Russian Academy of Sciences, joint Taiwan-Siberian Project No. 11. . - ISSN 1466-5026. - ISSN 1466-5034

РУБ Microbiology
Рубрики:
SHALLOW COASTAL WATER
   RIBOSOMAL-RNA GENE
   EMENDED DESCRIPTION
   PSEUDIDIOMARINA
   PHYLOTYPES
   SEQUENCE
   TAIWAN
Аннотация: Strain AIS(T), an aerobic halophilic, Gram-reaction-negative, heterotrophic bacterium isolated from the water of Shira Lake in Khakasia, southern Siberia, was characterized using a polyphasic approach. Our analysis of the 16S rRNA gene sequences showed that 'Aliidiomarina haloalkalitolerans', 'Allidiomarina sanyensis', Idiomarina maris and AIS(T) formed a distinct lineage. The sequence similarities between AIS(T) and the type strains of species of the genera Idiomarina and Aliidiomarina were 91.6-95.1 % and 94.0-96.9 %, respectively. The major isoprenoid quinone of AIS(T) was ubiquinone 8 (Q-8). Predominant cellular fatty acids were iso-C-17:0, iso-C-15:0 and summed feature 9. The genomic DNA G+C content was 45.8 mol%. It is concluded that AIS(T) represents a novel species of the genus Aliidiomarina, and the name Aliidiomarina shirensis sp. nov. is herein proposed for it. The type strain is AIST (=JCM 17761(T)=BCRC 80327(T)). Based on its fatty acid profile and our phylogenetic analysis, we propose that Idiomarina mans be transferred to the genus Aliidiomarina.

WOS
Держатели документа:
[Chiu, Hsiu-Hui
Tang, Sen-Lin] Acad Sinica, Biodivers Res Ctr, Taipei 115, Taiwan
[Rogozin, Denis Yu.
Degermendzhy, Andrei G.] Russian Acad Sci, Inst Biophys, Siberian Div, Krasnoyarsk, Russia
[Rogozin, Denis Yu.] Siberian Fed Univ, Krasnoyarsk, Russia
[Huang, Ssu-Po
Shieh, Wung Yang] Natl Taiwan Univ, Inst Oceanog, Taipei 10764, Taiwan
ИБФ СО РАН : 660036, Красноярск, Академгородок, д. 50, стр. 50

Доп.точки доступа:
Chiu, H.H.; Rogozin, D.Y.; Huang, S.P.; Degermendzhy, A.G.; Shieh, W.Y.; Tang, S.L.; National Science Council, Taiwan [NSC 99-2923-B-001-001-MY3]; Russian Foundation for Basic Research [14-04-01060-a]; Siberian Branch of Russian Academy of Sciences, joint Taiwan-Siberian Project [11]

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19.

RNA aptamer against autoantibodies associated with multiple sclerosis and bioluminescent detection probe on its basis [] / M. A. Vorobjeva [et al.] // Anal. Chem. - 2014. - Vol. 86, Is. 5. - P2590-2594, DOI 10.1021/ac4037894 . - ISSN 0003-2700
Кл.слова (ненормированные):
Autoantibodies -- Detection probes -- Developed model -- High affinity -- Laboratory test -- Microplate assay -- Multiple sclerosis -- Myelin basic protein -- Antibodies -- RNA -- Bioluminescence
Аннотация: Nowadays, there are no specific laboratory tests for establishing the diagnosis of multiple sclerosis (MS). The presence of proteolytic autoantibodies against myelin basic protein is now considered as a characteristic feature of MS. New 2?-F-containing RNA aptamer of high affinity and specificity to these antibodies was selected. Covalent conjugate of this aptamer and Ca 2+-regulated photoprotein obelin was obtained for the first time and applied as a label in bioluminescent microplate assay to detect target antibodies. The developed model solid-phase microassay is simple, fast, and highly sensitive. © 2014 American Chemical Society.

Scopus
Держатели документа:
Institute of Chemical Biology and Fundamental Medicine, Siberian Branch, Russian Academy of Sciences, Novosibirsk 630090, Russian Federation
Institute of Biophysics, Siberian Branch, Russian Academy of Sciences, Krasnoyarsk 660036, Russian Federation
Siberian Federal University, Krasnoyarsk 660041, Russian Federation : 660036, Красноярск, Академгородок, д. 50, стр. 50

Доп.точки доступа:
Vorobjeva, M.A.; Krasitskaya, V.V.; Fokina, A.A.; Timoshenko, V.V.; Nevinsky, G.A.; Venyaminova, A.G.; Frank, L.A.

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20.

RNA-CONTENT IN ERYTHROCYTES AS A MEASURE OF THE RATE OF ERYTHROPOIESIS [Text] / S. N. OSIPOVA, V. V. MEZHEVIKIN, I. I. GITELZON // Bull. Exp. Biol. Med. - 1983. - Vol. 96, Is. 7. - P. 998-1000, DOI 10.1007/BF00833063. - Cited References: 5 . - ISSN 0007-4888

РУБ Medicine, Research & Experimental

WOS : 660036, Красноярск, Академгородок, д. 50, стр. 50
Доп.точки доступа:
OSIPOVA, S.N.; MEZHEVIKIN, V.V.; GITELZON, I.I.

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