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Вид документа : Статья из журнала
Шифр издания :
Автор(ы) : Chen, Yu-Hsiang, Chiang, Pei-Wen, Rogozin, Denis Yu, Degermendzhy, Andrey G., Chiu, Hsiu-Hui, Tang, Sen-Lin
Заглавие : Salvaging high-quality genomes of microbial species from a meromictic lake using a hybrid sequencing approach
Колич.характеристики :12 с
Коллективы : Ministry of Science and Technology in Taiwan through the Taiwan-Russia Joint Project [NSC 102-2923-B-001-004-MY3]; Russian Foundation for Basic Research GrantRussian Foundation for Basic Research (RFBR) [21-54-52001, MOST 105-2923-B-001-001-MY3]; Taiwan International Graduate Program (TIGP)
Место публикации : Commun. Biol.: NATURE PORTFOLIO, 2021. - Vol. 4, Is. 1. - Ст.996. - ISSN 2399-3642(eISSN), DOI 10.1038/s42003-021-02510-6
Примечания : Cited References:99. - Y This work was supported by the Ministry of Science and Technology in Taiwan through the Taiwan-Russia Joint Project Grant NSC 102-2923-B-001-004-MY3 and Russian Foundation for Basic Research Grant 21-54-52001 and MOST 105-2923-B-001-001-MY3. Y.H.C. would like to acknowledge the Taiwan International Graduate Program (TIGP) for its fellowship towards his graduate studies. We would like to thank Noah Last of Third Draft Editing for his English language editing.
Предметные рубрики: DIMETHYL SULFIDE
SULFUR BACTERIUM
SP-NOV.
CHLAMYDIALES
METAGENOME
Аннотация: Most of Earth's bacteria have yet to be cultivated. The metabolic and functional potentials of these uncultivated microorganisms thus remain mysterious, and the metagenome-assembled genome (MAG) approach is the most robust method for uncovering these potentials. However, MAGs discovered by conventional metagenomic assembly and binning are usually highly fragmented genomes with heterogeneous sequence contamination. In this study, we combined Illumina and Nanopore data to develop a new workflow to reconstruct 233 MAGs-six novel bacterial orders, 20 families, 66 genera, and 154 species-from Lake Shunet, a secluded meromictic lake in Siberia. With our workflow, the average N50 of reconstructed MAGs greatly increased 10-40-fold compared to when the conventional Illumina assembly and binning method were used. More importantly, six complete MAGs were recovered from our datasets. The recovery of 154 novel species MAGs from a rarely explored lake greatly expands the current bacterial genome encyclopedia. Chen and colleagues develop a workflow for assembling high quality metagenome-associated genomes for microbial species using long and short reads, in this case from a meromictic lake. A full, detailed workflow is provided in for use by the community.
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Вид документа : Статья из журнала
Шифр издания :
Автор(ы) : Shishatskaya E., Nemtsev I., Lukyanenko A., Vasiliev A., Kiselev E., Sukovatyi A., Volova T.
Заглавие : Polymer Films of Poly-3-hydroxybutyrate Synthesized by Cupriavidus necator from Different Carbon Sources
Место публикации : J. Polym. Environ.: Springer, 2021. - Vol. 29, Is. 3. - С. 837-850. - ISSN 15662543 (ISSN), DOI 10.1007/s10924-020-01924-3
Аннотация: Films were prepared from 2% solutions of biodegradable poly-3-hydroxybutyrate [P(3HB)] and investigated. The polymer was synthesized by the Cupriavidus necator B-10646 bacterium cultivated using various carbon sources (glucose and glycerol of different degrees of purity, containing 0.3 to 17.93% impurities). Glycerol as the substrate influenced molecular-weight properties and crystallinity of the polymer without affecting its temperature characteristics. The P(3HB) specimens synthesized from glycerol had reduced Mw (300–400 kDa) and degree of crystallinity (50–55%) compared to the specimens synthesized from glucose (860 kDa and 76%, respectively). The low-crystallinity P(3HB) specimens, regardless of the degree of purity of glycerol, produced a beneficial effect on the properties of polymer films, which had a better developed folded surface and increased hydrophilicity. The values of the highest roughness (Ra) of the films synthesized from glycerol were 1.8 to 4.0 times lower and the water angles 1.4–1.6 times smaller compared to the films synthesized from glucose (71.75 nm and 87.4°, respectively). Those films performed better as cell scaffolds: the number of viable NIH fibroblasts was 1.7–1.9 times higher than on polystyrene (control) or films of P(3HB) synthesized from glucose. © 2020, Springer Science+Business Media, LLC, part of Springer Nature.
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Вид документа : Статья из журнала
Шифр издания :
Автор(ы) : Wu Y. -T., Chiang P. -W., Tandon K., Rogozin D. Y., Degermendzhy A. G., Tang S. -L.
Заглавие : Single-cell genomics-based analysis reveals a vital ecological role of thiocapsa sp. LSW in the meromictic Lake Shunet, Siberia
Место публикации : Microb. Genomics: Microbiology Society, 2021. - Vol. 7, Is. 12. - Ст.000712. - ISSN 20575858 (ISSN), DOI 10.1099/mgen.0.000712
Аннотация: Meromictic lakes usually harbour certain prevailing anoxygenic phototrophic bacteria in their anoxic zone, such as the purple sulfur bacterium (PSB) Thiocapsa sp. LSW (hereafter LSW) in Lake Shunet, Siberia. PSBs have been suggested to play a vital role in carbon, nitrogen and sulfur cycling at the oxic–anoxic interface of stratified lakes; however, the ecological significance of PSBs in the lake remains poorly understood. In this study, we explored the potential ecological role of LSW using a deep-sequencing analysis of single-cell genomics associated with flow cytometry. An approximately 2.7 Mb draft genome was obtained based on the co-assembly of five single-cell genomes. LSW might grow photolithoautotrophically and could play putative roles not only as a carbon fixer and diazotroph, but also as a sulfate reducer/oxidizer in the lake. This study provides insights into the potential ecological role of Thiocapsa sp. in meromictic lakes. © 2021 The Authors.
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Вид документа : Статья из журнала
Шифр издания :
Автор(ы) : Prudnikova S. V., Evgrafova S. Y., Volova T. G.
Заглавие : Metabolic activity of cryogenic soils in the subarctic zone of Siberia towards “green” bioplastics
Место публикации : Chemosphere: Elsevier Ltd, 2021. - Vol. 263. - Ст.128180. - ISSN 00456535 (ISSN), DOI 10.1016/j.chemosphere.2020.128180
Аннотация: The present study investigates, for the first time, the structure of the microbial community of cryogenic soils in the subarctic region of Siberia and the ability of the soil microbial community to metabolize degradable microbial bioplastic – poly-3-hydroxybutyrate [P(3HB)]. When the soil thawed, with the soil temperature between 5-7 and 9–11 °C, the total biomass of microorganisms at a 10-20-cm depth was 226–234 mg g?1 soil and CO2 production was 20–46 mg g?1 day?1. The total abundance of microscopic fungi varied between (7.4 ± 2.3) ? 103 and (18.3 ± 2.2) ? 103 CFU/g soil depending on temperature; the abundance of bacteria was several orders of magnitude greater: (1.6 ± 0.1) ? 106 CFU g?1 soil. The microbial community in the biofilm formed on the surface of P(3HB) films differed from the background soil in concentrations and composition of microorganisms. The activity of microorganisms caused changes in the surface microstructure of polymer films, a decrease in molecular weight, and an increase in the degree of crystallinity of P(3HB), indicating polymer biodegradation due to metabolic activity of microorganisms. The clear-zone technique – plating of isolates on the mineral agar with polymer as sole carbon source – was used to identify P(3HB)-degrading microorganisms inhabiting cryogenic soil in Evenkia. Analysis of nucleotide sequences of rRNA genes was performed to identify the following P(3HB)-degrading species: Bacillus pumilus, Paraburkholderia sp., Pseudomonas sp., Rhodococcus sp., Stenotrophomonas rhizophila, Streptomyces prunicolor, and Variovorax paradoxus bacteria and the Penicillium thomii, P. arenicola, P. lanosum, Aspergillus fumigatus, and A. niger fungi. © 2020 Elsevier Ltd
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Вид документа : Статья из журнала
Шифр издания :
Автор(ы) : Wu, Yu-Ting, Chiang, Pei-Wen, Tandon, Kshitij, Rogozin, Denis Yu, Degermendzhy, Andrey G., Tang, Sen-Lin
Заглавие : Single- cell genomics-based analysis reveals a vital ecological role of Thiocapsa sp. LSW in the meromictic Lake Shunet, Siberia
Колич.характеристики :10 с
Коллективы : Ministry of Science and Technology in Taiwan through the Taiwan-Russia Joint Project [NSC102-2923-B-001-004-MY3]; Russian Foundation for Basic Research GrantRussian Foundation for Basic Research (RFBR) [21-54-52001]; MOST [105-2923-B-001-001-MY3]
Место публикации : Microb. Genomics: MICROBIOLOGY SOC, 2021. - Vol. 7, Is. 12. - Ст.000712. - ISSN 2057-5858, DOI 10.1099/mgen.0.000712
Примечания : Cited References:69. - This research was funded by the Ministry of Science and Technology in Taiwan through the Taiwan-Russia Joint Project Grant NSC102--2923-B--001--004--MY3 and by the Russian Foundation for Basic Research Grant (project no. 21--54--52001) and MOST (105--2923--B--001--001--MY3).
Предметные рубрики: PHOTOTROPHIC BACTERIAL COMMUNITY
PURPLE SULFUR BACTERIUM
SP NOV.
Аннотация: Meromictic lakes usually harbour certain prevailing anoxygenic phototrophic bacteria in their anoxic zone, such as the purple sulfur bacterium (PSB) Thiocapsa sp. LSW (hereafter LSW) in Lake Shunet, Siberia. PSBs have been suggested to play a vital role in carbon, nitrogen and sulfur cycling at the oxic-anoxic interface of stratified lakes; however, the ecological significance of PSBs in the lake remains poorly understood. In this study, we explored the potential ecological role of LSW using a deepsequencing analysis of single- cell genomics associated with flow cytometry. An approximately 2.7 Mb draft genome was obtained based on the co- assembly of five single- cell genomes. LSW might grow photolithoautotrophically and could play putative roles not only as a carbon fixer and diazotroph, but also as a sulfate reducer/oxidizer in the lake. This study provides insights into the potential ecological role of Thiocapsa sp. in meromictic lakes.
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Вид документа : Статья из журнала
Шифр издания :
Автор(ы) : Zhila N. O., Kalacheva G. S., Fokht V. V., Bubnova S. S., Volova T. G.
Заглавие : Biosynthesis of poly(3-hydroxybutyrate-co-3-hydroxyvalerate) by cupriavidus necator B-10646 from mixtures of oleic acid and 3-hydroxyvalerate precursors
Место публикации : J. Sib. Fed. Univ. - Biol.: Siberian Federal University, 2020. - Vol. 13, Is. 3. - С. 331-341. - ISSN 19971389 (ISSN), DOI 10.17516/1997-1389-0320
Аннотация: Polyhydroxyalkanoates have attracted much attention as biodegradable alternative to petroleum-based synthetic plastics. Poly(3-hydroxybutyrate-co-3-hydroxyvalerate) [P(3HB-co-3HV)] copolymer is one of the best characterized PHA copolymers because of its high commercial potential. However, commercial use of PHAs has been limited by their high price. One approach to reducing the cost of PHA production is to use inexpensive carbon sources (fatty acids, plant oils, etc.). The aim of this work was to study synthesis of P(3HB-co-3HV) by the Cupriavidus necator B-10646 bacterium grown on oleic acid and different biochemical precursors of 3HV. Bacterial cells were grown for 72 h at 30°C and 200 rpm on an incubator shaker. Salts of propionic or valeric acids were used as precursors of 3HV. The content and the composition of the polymer were determined by gas chromatography of fatty acid methyl esters. Lipids and polymer were extracted from biomass using the method of Folch. The addition of potassium propionate and valerate did not inhibit bacterial growth and polymer synthesis, the cell concentration and polymer content reaching 9.3-9.5 g/L and 80-83%, respectively. The addition of potassium valerate or propionate led to the synthesis of (P(3HB-co-3HV)) copolymer containing 21.2 and 14.3 mol% of 3HV, respectively. The number average molecular weight (Mn) of the polymer synthesized by the bacterium on oleic acid alone was 220 kDa; the polydispersity of the polymer was 3.5. The polymer synthesized in the presence of potassium valerate and propionate was characterized by a lower Mn (156-178 kDa) and a higher polydispersity of the polymer (4.4-4.9). The main fatty acids (FA) of intracellular lipids were oleic (33.26% of the total FA) and palmitic acid (27.48% of the total FA). The addition of potassium propionate or valerate did not cause any significant changes in the composition of the FA of intracellular lipids of the strain studied. This study demonstrates the ability of C. necator B-10646 to synthesize P(3HB-co-3HV) from mixtures of oleic acid and 3HV precursors. The data obtained can be used to develop and implement an economically feasible process of the P(3HB-co-3HV) production. © Siberian Federal University. All rights reserved.
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Вид документа : Статья из журнала
Шифр издания :
Автор(ы) : Rozhko T. V., Kolesnik O. V., Badun G. A., Stom D. I., Kudryasheva N. S.
Заглавие : Humic substances mitigate the impact of tritium on luminous marine bacteria. Involvement of reactive oxygen species
Место публикации : International Journal of Molecular Sciences: MDPI AG, 2020. - Vol. 21, Is. 18. - Ст.6783. - С. 1-12. - ISSN 16616596 (ISSN), DOI 10.3390/ijms21186783
Аннотация: The paper studies the combined effects of beta-emitting radionuclide tritium and Humic Substances (HS) on the marine unicellular microorganism—luminous bacteria—under conditions of low-dose radiation exposures (0.04 Gy). Tritium was used as a component of tritiated water. Bacterial luminescence intensity was considered as a tested physiological parameter. The bioluminescence response of the marine bacteria to tritium corresponded to the “hormesis” model: it included stages of bioluminescence inhibition and activation, as well as the absence of the effect. HS were shown to decrease the inhibition and activation effects of tritium, similar to those of americium-241, alpha-emitting radionuclide, studied earlier. Correlations between the bioluminescence intensity and the content of Reactive Oxygen Species (ROS) were found in the radioactive bacterial suspensions. The results demonstrate an important role of HS in natural processes in the regions of low radioactive contamination: HS can mitigate radiotoxic effects and adaptive response of microorganisms to low-dose radioactive exposures. The involvement of ROS in these processes was demonstrated. © 2020 by the authors. Licensee MDPI, Basel, Switzerland.
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Вид документа : Статья из журнала
Шифр издания :
Автор(ы) : Shishatskaya, Ekaterina, Nemtsev, Ivan, Lukyanenko, Anna, Vasiliev, Alexander, Kiselev, Evgeniy, Sukovatyi, Aleksey, Volova, Tatiana
Заглавие : Polymer Films of Poly-3-hydroxybutyrate Synthesized byCupriavidus necatorfrom Different Carbon Sources
Колич.характеристики :14 с
Коллективы : RFBRRussian Foundation for Basic Research (RFBR); KKRF [19-43-240012]; Ministry of Education and Science of the Russian FederationMinistry of Education and Science, Russian Federation [FSRZ-2020-0006]
Место публикации : J. Polym. Environ.: SPRINGER, 2020. - Article in press. - ISSN 1566-2543, DOI 10.1007/s10924-020-01924-3. - ISSN 1572-8919(eISSN)
Примечания : Cited References:54. - The reported study was funded by RFBR and KKRF Grant No. 19-43-240012 "Biological and physical principles of production of new generation biomaterials". The work was carried out as part of the State Assignment of the Ministry of Education and Science of the Russian Federation No. FSRZ-2020-0006. The authors would like to express their special thanks to Krasnoyarsk Regional Center of Research Equipment of Federal Research Center "Krasnoyarsk Science Center SB RAS" for providing equipment to ensure the accomplishment of this project.
Предметные рубрики: CHEMOMECHANICAL PROPERTIES
RALSTONIA-EUTROPHA
SURFACE-ROUGHNESS
Аннотация: Films were prepared from 2% solutions of biodegradable poly-3-hydroxybutyrate [P(3HB)] and investigated. The polymer was synthesized by theCupriavidus necatorB-10646 bacterium cultivated using various carbon sources (glucose and glycerol of different degrees of purity, containing 0.3 to 17.93% impurities). Glycerol as the substrate influenced molecular-weight properties and crystallinity of the polymer without affecting its temperature characteristics. The P(3HB) specimens synthesized from glycerol had reduced M-w(300-400 kDa) and degree of crystallinity (50-55%) compared to the specimens synthesized from glucose (860 kDa and 76%, respectively). The low-crystallinity P(3HB) specimens, regardless of the degree of purity of glycerol, produced a beneficial effect on the properties of polymer films, which had a better developed folded surface and increased hydrophilicity. The values of the highest roughness (R-a) of the films synthesized from glycerol were 1.8 to 4.0 times lower and the water angles 1.4-1.6 times smaller compared to the films synthesized from glucose (71.75 nm and 87.4 degrees, respectively). Those films performed better as cell scaffolds: the number of viable NIH fibroblasts was 1.7-1.9 times higher than on polystyrene (control) or films of P(3HB) synthesized from glucose.
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Вид документа : Статья из журнала
Шифр издания :
Автор(ы) : Rozhko, Tatiana V., Kolesnik, Olga V., Badun, Gennadii A., Stom, Devard I., Kudryasheva, Nadezhda S.
Заглавие : Humic Substances Mitigate the Impact of Tritium on Luminous Marine Bacteria. Involvement of Reactive Oxygen Species
Колич.характеристики :12 с
Коллективы : RFBR-Krasnoyarsk Regional Foundation [N 18-44-242002, 18-44-240004]
Место публикации : Int. J. Mol. Sci.: MDPI, 2020. - Vol. 21, Is. 18. - Ст.6783. - ISSN 1422-0067(eISSN), DOI 10.3390/ijms21186783
Примечания : Cited References:74. - This work was supported by RFBR-Krasnoyarsk Regional Foundation N 18-44-242002, 18-44-240004.
Предметные рубрики: IONIZING-RADIATION
OXIDATIVE STRESS
DETOXIFICATION PROCESSES
Аннотация: The paper studies the combined effects of beta-emitting radionuclide tritium and Humic Substances (HS) on the marine unicellular microorganism-luminous bacteria-under conditions of low-dose radiation exposures (0.04 Gy). Tritium was used as a component of tritiated water. Bacterial luminescence intensity was considered as a tested physiological parameter. The bioluminescence response of the marine bacteria to tritium corresponded to the "hormesis" model: it included stages of bioluminescence inhibition and activation, as well as the absence of the effect. HS were shown to decrease the inhibition and activation effects of tritium, similar to those of americium-241, alpha-emitting radionuclide, studied earlier. Correlations between the bioluminescence intensity and the content of Reactive Oxygen Species (ROS) were found in the radioactive bacterial suspensions. The results demonstrate an important role of HS in natural processes in the regions of low radioactive contamination: HS can mitigate radiotoxic effects and adaptive response of microorganisms to low-dose radioactive exposures. The involvement of ROS in these processes was demonstrated.
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10.

Вид документа : Статья из журнала
Шифр издания :
Автор(ы) : Rozhko T. V., Nogovitsyna E. I., Badun G. A., Lukyanchuk A. N., Kudryasheva N. S.
Заглавие : Reactive Oxygen Species and low-dose effects of tritium on bacterial cells
Место публикации : J. Environ. Radioact.: Elsevier Ltd, 2019. - Vol. 208-209. - Ст.106035. - ISSN 0265931X (ISSN) , DOI 10.1016/j.jenvrad.2019.106035
Аннотация: The paper continues study of exposures of luminous marine bacteria to low-dose radiation of tritium; tritiated water (HTO) was applied as a source of the irradiation. Hypothesis on involvement of Reactive Oxygen Species (ROS) to signaling mechanism of bacterial cells under exposure to low-intensity tritium radiation was verified. Bacterial bioluminescence intensity was considered as a tested physiological parameter; it was compared to the ROS production in the bacterial environment of different activity concentrations: 0.03, 4.0, and 500 MBq/L. Exposure of the bacteria to chronic low-dose tritium irradiation (<0.08 Gy) increased bioluminescence intensity and ROS production considerably (up to 300%). Spearman rank correlation coefficients were calculated and confirmed relations between the bioluminescence intensity and ROS production. Additional peculiarities of HTO effect were: independence of the bioluminescence intensity and ROS content on HTO activity concentration; low ROS content in bacteria-free aquatic environment. Effects of HTO on bacterial bioluminescence were attributed to: (1) trigger function of tritium decay products in the bacterial metabolic oxygen-dependent processes, with bioluminescence involved; (2) signaling role of ROS as intercellular messengers in “bystander effect”; (3) fixed amount of bacterial cells (3•107 cells/mL) provided the upper limits of the bioluminescence intensity and ROS content. As an outlook, in spite of low energy of tritium decay, its influence on aquatic biota via ROS production by microorganisms should be taken into consideration. © 2019 Elsevier Ltd
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11.

Вид документа : Статья из журнала
Шифр издания :
Автор(ы) : Volova T. G., Shumilova A. A., Shidlovskiy I. P., Nikolaeva E. D., Sukovatiy A. G., Vasiliev A. D., Shishatskaya E. I.
Заглавие : Antibacterial properties of films of cellulose composites with silver nanoparticles and antibiotics
Место публикации : Polym Test: Elsevier Ltd, 2018. - Vol. 65. - С. 54-68. - ISSN 01429418 (ISSN) , DOI 10.1016/j.polymertesting.2017.10.023
Ключевые слова (''Своб.индексиров.''): antibacterial activity--antibiotics--bacterial cellulose--composites--properties--silver nanoparticles--antibiotics--atoms--boron carbide--cell culture--cellulose--cellulose films--composite materials--escherichia coli--materials testing apparatus--metal nanoparticles--nanocomposite films--nanoparticles--scanning electron microscopy--silver compounds--spectrum analysis--synthesis (chemical)--tensile testing--water pollution--x ray analysis--anti-bacterial activity--antibacterial properties--bacterial cellulose--mechanical characteristics--properties--silver nanoparticles--structure and properties--tensile testing machines--silver--antibiotics--cellulose--composites--properties--silver
Аннотация: The present study describes production of bacterial cellulose composites with silver nanoparticles and antibiotics and compares their properties. Bacterial cellulose (BC) composites synthesized in the culture of the strain of acetic acid bacterium Komagataeibacter xylinus VKPM B-12068 with silver nanoparticles, BC/AgNps, were produced hydrothermally, under different AgNO3 concentrations (0.0001, 0.001, and 0.01 M) in the reaction medium. The presence of silver in the BC/AgNp composites was confirmed by elemental analysis conducted using scanning electron microscopy with a system of X-ray spectral analysis. Analysis showed that the average atomic number of silver particles in composite samples depended on the concentration of AgNO3: as AgNO3 concentration in the reaction solution was increased, silver content in the composites increased from 0.044 to 0.37 mg/cm2. BC composites with amikacin and ceftriaxone were prepared by immersing dry BC films in solutions containing different concentrations of the antibiotics. The surface structure and properties and physicochemical and mechanical characteristics of composites were investigated using SEM, DSC, X-ray analysis, the system for measuring water contact angles, and electromechanical tensile testing machine. The disk-diffusion method and the shake-flask culture method used in this study showed that all experimental composites had pronounced antibacterial activity against E. coli, Ps. eruginosa, K. pneumoniae, and St. aureus, and the BC/antibiotic composites were more active than BC/AgNp ones; S. aureus was the most susceptible to the effect of BC composites. No potential cytotoxicity was detected in any of the BC/AgNp composites in the NIH 3T3 mouse fibroblast cell culture, in contrast to the BC/antibiotic composites. These results suggest that BC composites constructed in the present study hold promise as dressings for managing wounds, including contaminated ones. © 2017 Elsevier Ltd
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12.

Вид документа : Статья из журнала
Шифр издания :
Автор(ы) : Kudryasheva N. S., Petrova A. S., Dementyev D. V., Bondar A. A.
Заглавие : Exposure of luminous marine bacteria to low-dose gamma-radiation
Место публикации : J. Environ. Radioact.: Elsevier Ltd, 2017. - Vol. 169-170. - С. 64-69. - ISSN 0265931X (ISSN) , DOI 10.1016/j.jenvrad.2017.01.002
Ключевые слова (''Своб.индексиров.''): bioassay--low-dose gamma-radiation--luminous marine bacteria--mutagenic effect--radiotoxicity--temperature dependence--bacteria--bioassay--bioluminescence--gamma rays--ionizing radiation--irradiation--phosphorescence--physiological models--radiation effects--temperature distribution--low dose--marine bacterium--mutagenic effect--radiotoxicity--temperature dependence--radiation--bacteria (microorganisms)--photobacterium phosphoreum
Аннотация: The study addresses biological effects of low-dose gamma-radiation. Radioactive 137Cs-containing particles were used as model sources of gamma-radiation. Luminous marine bacterium Photobacterium phosphoreum was used as a bioassay with the bioluminescent intensity as the physiological parameter tested. To investigate the sensitivity of the bacteria to the low-dose gamma-radiation exposure (?250 mGy), the irradiation conditions were varied as follows: bioluminescence intensity was measured at 5, 10, and 20°С for 175, 100, and 47 h, respectively, at different dose rates (up to 4100 ?Gy/h). There was no noticeable effect of gamma-radiation at 5 and 10°С, while the 20°С exposure revealed authentic bioluminescence inhibition. The 20°С results of gamma-radiation exposure were compared to those for low-dose alpha- and beta-radiation exposures studied previously under comparable experimental conditions. In contrast to ionizing radiation of alpha and beta types, gamma-emission did not initiate bacterial bioluminescence activation (adaptive response). As with alpha- and beta-radiation, gamma-emission did not demonstrate monotonic dose-effect dependencies; the bioluminescence inhibition efficiency was found to be related to the exposure time, while no dose rate dependence was found. The sequence analysis of 16S ribosomal RNA gene did not reveal a mutagenic effect of low-dose gamma radiation. The exposure time that caused 50% bioluminescence inhibition was suggested as a test parameter for radiotoxicity evaluation under conditions of chronic low-dose gamma irradiation. © 2017 Elsevier Ltd
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13.

Вид документа : Статья из журнала
Шифр издания :
Автор(ы) : Rozhko T. V., Guseynov O. A., Guseynova V. E., Bondar A. A., Devyatlovskaya A. N., Kudryasheva N. S.
Заглавие : Is bacterial luminescence response to low-dose radiation associated with mutagenicity?
Место публикации : J. Environ. Radioact.: Elsevier Ltd, 2017. - Vol. 177. - С. 261-265. - ISSN 0265931X (ISSN) , DOI 10.1016/j.jenvrad.2017.07.010
Ключевые слова (''Своб.индексиров.''): bioassay--dna--low-dose radiation--luminous marine bacteria--mutations--bacteria--bioassay--bioluminescence--chemical activation--dna--dna sequences--genes--ionizing radiation--kinetics--luminescence--nucleic acids--phosphorescence--physiological models--radioisotopes--bacterial suspensions--beta-emitting radionuclides--low dose radiation--luminescence intensity--marine bacterium--mutations--photobacterium phosphoreum--physiological parameters--radiation--bacteria (microorganisms)--photobacterium phosphoreum
Аннотация: Luminous marine bacteria are widely used in bioassays with luminescence intensity being a physiological parameter tested. The purpose of the study was to determine whether bacterial genetic alteration is responsible for bioluminescence kinetics change under low-dose radiation exposure. The alpha-emitting radionuclide 241Am and beta-emitting radionuclide 3H were used as the sources of low-dose ionizing radiation. Changes of bioluminescence kinetics of Photobacterium phosphoreum in solutions of 241Am(NO3)3, 7 kBq/L, and tritiated water, 100 MBq/L, were studied; bioluminescence kinetics stages (absence of effect, activation, and inhibition) were determined. Bacterial suspension was sampled at different stages of the bioluminescent kinetics; the doses accumulated by the samples were close or a little higher than a tentative limit of a low-dose interval: 0.10 and 0.85 Gy for 241Am, or 0.11 and 0.18 Gy for 3H. Sequence analysis of the 16S ribosomal RNA gene did not reveal a mutagenic effect of low-dose alpha and beta radiation in the bacterial samples. Previous results on bacterial DNA exposed to low-dose gamma radiation (0.25 Gy) were analyzed and compared to those for alpha and beta irradiation. It is concluded that bioluminescence activation and/or inhibition under the applied conditions of low-dose alpha, beta and gamma radioactive exposure is not associated with DNA mutations in the gene sequences tested. © 2017 Elsevier Ltd
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14.

Вид документа : Статья из журнала
Шифр издания :
Автор(ы) : Volova, Tatiana, Zhila, Natalia, Shishatskaya, Ekaterina
Заглавие : Synthesis of poly(3-hydroxybutyrate) by the autotrophic CO-oxidizing bacterium Seliberia carboxydohydrogena Z-1062
Колич.характеристики :11 с
Коллективы : Russian Academy of Sciences [01201351505]
Место публикации : J. Ind. Microbiol. Biotechnol.: SPRINGER HEIDELBERG, 2015. - Vol. 42, Is. 10. - С. 1377-1387. - ISSN 1367-5435, DOI 10.1007/s10295-015-1659-9. - ISSN 1476-5535(eISSN)
Примечания : Cited References:36. - The research was supported by the state budget allocated to the fundamental research at the Russian Academy of Sciences (project No 01201351505).
Предметные рубрики: CARBON-MONOXIDE
RALSTONIA-EUTROPHA
POLYHYDROXYALKANOATES
GROWTH
H-2
Ключевые слова (''Своб.индексиров.''): carboxydobacteria--synthesis--poly(3-hydroxybutyrate)--carbon monoxide
Аннотация: The present study addresses growth parameters and physiological and biochemical characteristics of the aerobic CO-oxidizing carboxydobacterium Seliberia carboxydohydrogena Z-1062. Poly(3-hydroxybutyrate) yields were investigated in experiments with limiting concentrations of mineral nutrients (nitrogen or sulfur or nitrogen and sulfur) in batch culture of S. carboxydohydrogena Z-1062 grown on gas mixtures consisting of CO2, O-2, H-2, and CO. CO concentrations of 10, 20, and 30 % v/v did not affect polymer synthesis, whose content after 56-h cultivation under limiting concentrations of nitrogen and sulfur was 52.6-62.8 % of biomass weight at a productivity of 0.13-0.22 g/L h. The inhibitory effect of CO on cell concentration was revealed at CO concentration of 30 % v/v. That also caused a decrease in substrate (H-2 and O-2) use efficiency. Thus, this carboxydobacterium can be regarded as a potential producer of polyhydroxyalkanoates from industrial hydrogenous sources.
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15.

Вид документа : Статья из журнала
Шифр издания :
Автор(ы) : Chiu H.-H., Rogozin D.Y., Huang S.-P., Degermendzhy A.G., Shieh W.Y., Tang S.-L.
Заглавие : 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
Место публикации : Int. J. Syst. Evol. Microbiol. - 2014. - Vol. 64, Is. PART 4. - Ст.057851. - С. 1334-1339. - ISSN 14665026 (ISSN) , DOI 10.1099/ijs.0.057851-0
Аннотация: Strain AIST, 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', 'Aliidiomarina sanyensis', Idiomarina maris and AIST formed a distinct lineage. The sequence similarities between AIST 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 AIST was ubiquinone 8 (Q-8). Predominant cellular fatty acids were iso-C17: 0, iso-C15: 0 and summed feature 9. The genomic DNA G+C content was 45.8 mol%. It is concluded that AIST 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 17761T = BCRC 80327T). Based on its fatty acid profile and our phylogenetic analysis, we propose that Idiomarina maris be transferred to the genus Aliidiomarina. © 2014 IUMS.
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16.

Вид документа : Статья из журнала
Шифр издания :
Автор(ы) : Chiu H.H., Rogozin D.Y., Huang S.P., Degermendzhy A.G., Shieh W.Y., Tang S.L.
Заглавие : 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
Колич.характеристики :6 с
Коллективы : 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]
Место публикации : Int. J. Syst. Evol. Microbiol.: SOC GENERAL MICROBIOLOGY, 2014. - Vol. 64. - С. 1334-1339. - ISSN 1466-5026, DOI 10.1099/ijs.0.057851-0. - ISSN 1466-5034
Примечания : 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.
Предметные 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.
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17.

Вид документа : Статья из журнала
Шифр издания :
Автор(ы) : Volova T., Kiselev E., Vinogradova O., Nikolaeva E., Chistyakov A., Sukovatiy A., Shishatskaya E.
Заглавие : A glucose-utilizing strain, cupriavidus euthrophus B-10646: Growth kinetics, characterization and synthesis of multicomponent PHAs
Место публикации : PLoS ONE. - 2014. - Vol. 9, Is. 2. - ISSN 19326203 (ISSN) , DOI 10.1371/journal.pone.0087551
Ключевые слова (''Своб.индексиров.''): 3 hydroxybutyrate 3 hydroxyhexanoate 3 hydroxyvalerate copolymer--3 hydroxybutyrate 4 hydroxybutyrate 3 hydroxyvalerate copolymer--copolymer--gamma butyrolactone--glucose--hexanoic acid--poly(3 hydroxybutyric acid)--polyhydroxyalkanoic acid--polystyrene--propionic acid--unclassified drug--valeric acid--animal cell--article--bacterial growth--bacterium culture--cell adhesion--cell proliferation--crystal structure--culture optimization--cupriavidus--cupriavidus euthrophus--decomposition--elasticity--film--glucose utilization--kinetics--mechanics--melting point--mouse--nonhuman--nucleotide sequence--physical chemistry--polymerization--strength--synthesis
Аннотация: This study investigates kinetic and production parameters of a glucose-utilizing bacterial strain, C. eutrophus B-10646, and its ability to synthesize PHA terpolymers. Optimization of a number of parameters of bacterial culture (cell concentration in the inoculum, physiological activity of the inoculum, determined by the initial intracellular polymer content, and glucose concentration in the culture medium during cultivation) provided cell concentrations and PHA yields reaching 110 g/L and 80%, respectively, under two-stage batch culture conditions. Addition of precursor substrates (valerate, hexanoate, propionate, ?-butyrolactone) to the culture medium enabled synthesis of PHA terpolymers, P(3HB/3HV/4HB) and P(3HB/ 3HV/3HHx), with different composition and different molar fractions of 3HB, 3HV, 4HB, and 3HHx. Different types of PHA terpolymers synthesized by C. eutrophus B-10646 were used to prepare films, whose physicochemical and physical-mechanical properties were investigated. The properties of PHA terpolymers were significantly different from those of the P3HB homopolymer: they had much lower degrees of crystallinity and lower melting points and thermal decomposition temperatures, with the difference between these temperatures remaining practically unchanged. Films prepared from all PHA terpolymers had higher mechanical strength and elasticity than P3HB films. In spite of dissimilar surface structures, all films prepared from PHA terpolymers facilitated attachment and proliferation of mouse fibroblast NIH 3T3 cells more effectively than polystyrene and the highly crystalline P3HB. Copyright: © 2014 Volova et al.
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18.

Вид документа : Статья из журнала
Шифр издания :
Автор(ы) : Volova T.G., Kiselev E.G., Shishatskaya E.I., Zhila N.O., Boyandin A.N., Syrvacheva D.A., Vinogradova O.N., Kalacheva G.S., Vasiliev A.D., Peterson I.V.
Заглавие : Cell growth and accumulation of polyhydroxyalkanoates from CO2 and H2 of a hydrogen-oxidizing bacterium, Cupriavidus eutrophus B-10646
Место публикации : Bioresource Technology. - 2013. - Vol. 146. - С. 215-222. - ISSN 09608524 (ISSN) , DOI 10.1016/j.biortech.2013.07.070
Ключевые слова (''Своб.индексиров.''): autotrophic synthesis--cupriavidus eutrophus--polyhydroxyalkanoates
Аннотация: Synthesis of polyhydroxyalkanoates (PHAs) by a new strain of Cupriavidus - Cupriavidus eutrophus B-10646 - was investigated under autotrophic growth conditions. Under chemostat, at the specific flow rate D=0.1h-1, on sole carbon substrate (CO2), with nitrogen, sulfur, phosphorus, potassium, and manganese used as growth limiting elements, the highest poly(3-hydroxybutyrate) [P(3HB)] yields were obtained under nitrogen deficiency. In batch autotrophic culture, in the fermenter with oxygen mass transfer coefficient 0.460h-1, P(3HB) yields reached 85% of dry cell weight (DCW) and DCW reached 50g/l. Concentrations of supplementary PHA precursor substrates (valerate, hexanoate, ?-butyrolactone) and culture conditions were varied to produce, for the first time under autotrophic growth conditions, PHA ter- and tetra-polymers with widely varying major fractions of 3-hydroxybutyrate, 4-hydroxybutyrate, 3-hydroxyvalerate, and 3-hydroxyhexanoate monomer units. Investigation of the high-purity PHA specimens showed significant differences in their physicochemical and physicomechanical properties. В© 2013 Elsevier Ltd.
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19.

Вид документа : Статья из журнала
Шифр издания :
Автор(ы) : Volova T.G., Zhila N.O., Kalacheva G.S., Brigham C.J., Sinskey A.J.
Заглавие : Effects of intracellular poly(3-hydroxybutyrate) reserves on physiological-biochemical properties and growth of Ralstonia eutropha
Место публикации : Research in Microbiology. - 2013. - Vol. 164, Is. 2. - С. 164-171. - ISSN 09232508 (ISSN) , DOI 10.1016/j.resmic.2012.10.008
Ключевые слова (''Своб.индексиров.''): granules--pha cycle--poly(3-hydroxybutyrate)--ralstonia eutropha--poly(3 hydroxybutyric acid)--article--bacterial growth--bacterial strain--bacterium culture--cell division--cell granule--cell size--controlled study--cupriavidus necator--electron microscopy--nonhuman--polymer production--priority journal--cupriavidus necator--cytoplasmic granules--hydroxybutyrates--microscopy, electron, transmission--polyesters--bacteria (microorganisms)--cupriavidus necator
Аннотация: Microbial polyhydroxyalkanoates (PHAs), because of their well studied complex physiology and commercial potential, are vehicles for carbon and potential storage reduction for many microbial species. Even with the wealth of studies about microbial PHAs in the scientific literature, polymer accumulation and degradation are still not comprehensively understood. Poly(3-hydroxybutyrate) (P3HB) granule formation and polymer mobility were studied here in the bacterium Ralstonia eutropha strain B5786 in autotrophic cultures. Electron microscopy studies revealed decreasing cell size concomitant with enlargement of size and number of intracellular granules, and inhibition of cell division during intracellular polymer production. Activities of key P3HB biosynthetic enzymes demonstrated correlations with each other during polymer accumulation, suggesting an intricately regulated P3HB cycle in autotrophically grown R. eutropha cells. В© 2012 .
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20.

Вид документа : Статья из журнала
Шифр издания :
Автор(ы) : Trusova M.Y., Kolmakova O.V., Gladyshev M.I.
Заглавие : Seasonal features of consumption of lysine by uncultivated bacterial plankton of Eutrophic water reservoir
Место публикации : Contemporary Problems of Ecology. - 2012. - Vol. 5, Is. 4. - С. 391-398. - ISSN 19954255 (ISSN) , DOI 10.1134/S1995425512040154
Ключевые слова (''Своб.индексиров.''): 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.
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