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論文

Hydrogen-based metabolism as an ancestral trait in lineages sibling to the Cyanobacteria

Carnevali, P. B. M.*; Schulz, F.*; Castelle, C. J.*; Kantor, R. S.*; Shih, P. M.*; Sharon, I.*; Santini, J.*; Olm, M. R.*; 天野 由記; Thomas, B. C.*; et al.

Nature Communications (Internet), 10, p.463_1 - 463_15, 2019/01

 被引用回数:1 パーセンタイル:17.48(Multidisciplinary Sciences)

The metabolic platform in which microbial aerobic respiration evolved is tightly linked to the origins of Cyanobacteria (Oxyphotobacteria). Melainabacteria and Sericytochromatia, close phylogenetic neighbores to Oxyphotobacteria comprise both fermentative and aerobic representatives, or clades that are capablee of both. Here, we predict the metabolisms of Margulisbacteria from two distinct environments and Saganbacteria, and compare them to genomes of organisms from the related lineages. Melainabacteria BJ4A obtained from Mizunami site are potentially able to use O$$_{2}$$ and other terminal electron acceptors. The type C heme-copper oxygen reductase found in Melainabacteria BJ4A may be adapted to low O$$_{2}$$ levels, as expected for microaerophilic or anoxic environments such as the subsurface. Notably, Melainabacteria BJ4A seems to have a branched electron transport chain, with one branch leading to a cytochrome d ubiquinol oxidoreductase and the other one leading to the type C heme-copper oxygen reductase. Both these enzymes have high affinity for O$$_{2}$$, thus are adapted to low O$$_{2}$$ levels. These contemporary lineages have representatives with fermentative H$$_{2}$$-based metabolism, lineages capable of aerobic or anaerobic respiration, and lineages with both. Our findings support the idea that the ancestor of these lineages was an anaerobe in which fermentation and H$$_{2}$$ metabolism were central metabolic features.

論文

Ecological and genomic profiling of anaerobic methane-oxidizing archaea in a deep granitic environment

伊能 康平*; Hernsdorf, A. W.*; 今野 勇太*; 幸塚 麻里子*; 柳川 克則*; 加藤 信吾*; 砂村 道成*; 広田 秋成*; 東郷 陽子*; 伊藤 一誠*; et al.

ISME Journal, 12(1), p.31 - 47, 2018/01

岐阜県瑞浪市の超深地層研究所において、深度300メートルの地下水を地下坑道から採取し、地下微生物の生態系を調査した。その結果、花崗岩深部でマグマ由来のメタンに依存した微生物生態系が存在することを明らかにした。

論文

Removal of soluble strontium via incorporation into biogenic carbonate minerals by halophilic bacterium Bacillus sp. strain TK2d in a highly saline solution

堀池 巧*; 土津田 雄馬*; 中野 友里子*; 落合 朝須美*; 宇都宮 聡*; 大貫 敏彦; 山下 光雄*

Applied and Environmental Microbiology, 83(20), p.e00855-17_1 - e00855-17_11, 2017/10

 被引用回数:2 パーセンタイル:59.73(Biotechnology & Applied Microbiology)

福島第一原子力発電所事故により、放射性ストロンチウムの一部が海洋に漏出した。塩濃度が高い条件では一般的な吸着剤によるSrの除去効率が低いので、本研究では生物起源鉱物による塩水中からの水溶性Srの除去を検討した。海底堆積物から単離したバチルス属細菌のTK2k株は、塩水中のSrの99%以上を除去した。Srはまず細胞表面に吸着し、その後細胞外に形成した炭酸塩鉱物に取り込まれることを明らかにした。

論文

Effect of flavin compounds on uranium(VI) reduction- kinetic study using electrochemical methods with UV-vis spectroscopy

山崎 信哉*; 田中 万也; 香西 直文; 大貫 敏彦

Applied Geochemistry, 78, p.279 - 286, 2017/03

 パーセンタイル:100(Geochemistry & Geophysics)

環境中において、水溶性の六価ウランから難溶性の四価ウランへの還元反応はウランの移動度が劇的に変化するため、重要な反応である。本研究では、嫌気性微生物に由来し酸化還元能を有するフラビン化合物が六価ウラン還元反応に与える影響を電気化学的手法を用いて検討した。フラビンを電気化学的に還元すると、フラビンから六価ウランに電子が移動して四価ウランになることが紫外可視吸収スペクトルから確かめられた。また電気化学測定の結果から、フラビンから六価ウランへの電子移動速度を決定した。また、フラビン化合物が存在することで、六価ウランの見かけ上の還元電位が0.2V上昇し、より還元されやすくなることが新たに分かった。

論文

Potential for microbial H$$_{2}$$ and metal transformations associated with novel bacteria and archaea in deep terrestrial subsurface sediments

Hernsdorf, A. W.*; 天野 由記; 宮川 和也; 伊勢 孝太郎; 鈴木 庸平*; Anantharaman, K.*; Probst, A. J.*; Burstein, D.*; Thomas, B. C.*; Banfield, J. F.*

ISME Journal, 11, p.1915 - 1929, 2017/03

AA2016-0002.pdf:2.21MB

 被引用回数:20 パーセンタイル:2.68(Ecology)

地層処分システムにおける微生物影響の可能性を評価するために、北海道の幌延深地層研究センター地下施設を利用して、堆積岩地下の生態系における微生物群集構造と代謝機能について調査を行った。全体として、微生物生態系は多様な系統群からなる微生物種で構成されており、その多くはこれまで培養されていない生物門に属していることが示された。大部分の微生物種は、酸化型[NiFe]ヒドロゲナーゼあるいはフェレドキシンをベースとする代謝経路を可能にする電子分岐型[FeFe]ヒドロゲナーゼを介して水素代謝をおこなうことが明らかになった。水素代謝と関連して、多くの微生物が炭素,窒素,鉄および硫黄を代謝することが推定された。特に、ANME-2dというメタン酸化を行う古細菌として知られている未培養微生物が、鉄関連の代謝反応を行う可能性が示唆された。得られた結果から、幌延堆積岩環境における微生物群集の生態学的概念モデルを推定した。

論文

A New view of the tree of life

Hug, L. A.*; Baker, B. J.*; Anantharaman, K.*; Brown, C. T.*; Probst, A. J.*; Castelle, C. J.*; Butterfield, C. N.*; Hernsdorf, A. W.*; 天野 由記; 伊勢 孝太郎; et al.

Nature Microbiology (Internet), 1(5), p.16048_1 - 16048_6, 2016/05

 被引用回数:387 パーセンタイル:0.02(Microbiology)

生命の系統樹は生物学において最も重要な中心テーマの一つである。遺伝子調査によると、莫大な数のブランチの存在が示唆されているが、フルスケールに近い系統樹でさえわかりにくいのが現状である。本研究では、これまでに報告されてきた配列情報に加えて、新たに取得した未培養生物のゲノム情報を用いて、バクテリア,アーキア,真核生物を含む系統樹を更新した。系統樹の描写は、全体的な概容とそれぞれの主要な系統における多様性のスナップショットの両方について行った。その結果、バクテリアの多様化の優勢性が示され、培養されていない生物種の重要性とともに主要な放射構造においてそれらの生物種の重要な進化が集中している現象が強調された。

論文

Deep microbial life in high-quality granitic groundwater from geochemically and geographically distinct underground boreholes

伊能 康平*; 今野 祐大*; 幸塚 麻里子*; 廣田 明成*; 東郷 洋子*; 福田 朱里*; 小松 大介*; 角皆 潤*; 田辺 章文*; 山本 智*; et al.

Environmental Microbiology Reports (Internet), 8(2), p.285 - 294, 2016/04

 被引用回数:8 パーセンタイル:36.5(Environmental Sciences)

瑞浪超深地層研究所の深度300mの花崗岩中の地下水を対象として、ボーリング孔を利用した微生物特性の調査を行った。ボーリング孔から得られた地下水は、当初、好気性の水素酸化に関わるHydrogenophaga spp.が優勢種であったが、3年後にはNitrospirae門の微生物が優勢種となった。後者の微生物種は系統学的に深部地下水や陸域の温泉水において観察される種であり、この地域の土着の微生物種と考えられた。

論文

Screening of cesium-accumulating mutant of radioresistant bacterium ${it Deinococcus radiodurans}$ by ion beam breeding technology

佐藤 勝也; 上田 涼史郎*; 長谷 純宏; 鳴海 一成*; 大野 豊

JAEA-Review 2015-022, JAEA Takasaki Annual Report 2014, P. 100, 2016/02

Bioremediation uses biological organisms to solve an environmental problem. However, microorganisms are sometimes not enough effective to achieve efficient recovery. Therefore, enhancing the functionality of microorganisms is needed to promote the active use of bioremediation. This study began with the purpose of development of Cs-accumulating bacteria by ion beam breeding technology. Previously, we suggested that ${it Deinococcus radiodurans}$ is the most suitable species for the development of high Cs-accumulating bacteria by ion beam breeding technology. Candidates of Cs-accumulating mutant were screened from the mutagenized cells by ion beam breeding technology on the basis of the luminescent intensity and the cell area as indicators of intracellular Cs level and cell growth, respectively. As a result, we obtained 33 candidates, whose Cs-accumulating abilities were over 2-fold higher than that of the wild-type, from the population of mutagenized cells.

論文

Improvement of symbiotic performance of ${it Sinorhizobium}$ with ${it Vigna marina}$ under high salt conditions using the ion beam mutation breeding

丸山 雄大*; 武田 喜代子*; 友岡 憲彦*; 佐藤 勝也; 大野 豊; 横山 正*

JAEA-Review 2015-022, JAEA Takasaki Annual Report 2014, P. 99, 2016/02

${it Vigna marina}$ is one of wild legumes, which called as Hamaazuki, are distributed at the vicinity of the coast from tropical to sub-tropical regions and have high salt tolerance among terrestrial plants. ${it V. marina}$ can grow at 400 mM NaCl condition. Furthermore, the root nodules on ${it V. marina}$ have a symbiotic relationship with rhizobia that related to the genus ${it Sinorhizobium}$ having high stress tolerance (500 mM NaCl, 45 $$^{circ}$$C, pH 10.5). Above both symbiotic partners showed extremely high salt tolerance, however, ${it V. marina}$ cannot develop root nodules with ${it Sinorhizobium}$ at over 80 mM NaCl conditions. To improve symbiotic performance of ${it V. marina}$ with ${it Sinorhizobium}$ under high salt conditions, ${it Sinorhizobium}$ bacterial cells were irradiated by carbon ion-beam at TIARA. However, so far, we could not obtain promising mutants having good symbiotic performance with Vigna marina under high salt conditions, yet.

論文

Breeding of high ethanol producing yeast by screening from mutant library

荻野 千秋*; Kahar, P.*; Lee, J. M.*; 佐藤 勝也; 大野 豊; 近藤 昭彦*

JAEA-Review 2015-022, JAEA Takasaki Annual Report 2014, P. 105, 2016/02

Ethanol fermentation from hydrolyzed lignocellulosic biomass with yeast is very important. However, in common sense, there are several chemical inhibitors for yeast from hydrolyzed biomass. Therefore, screening of yeast strain, possessing the tolerance properties against these chemical inhibitors, should be found from nature resources or mutant libraries. To overcome the problem, we have screened yeast strains tolerant to many chemical inhibitors contained in bagasse sugar lysate (BSL) at high temperature (35 $$^{circ}$$C) from 1500 strains out of national bio-resource center yeast collection. We found that F118 strain could grow and ferment BSL and produce ethanol. For increasing of the yield and ethanol fermentation efficiency of F118 strain, the adaptation of F118 strain to high temperature was conducted, followed by carbon ion beam irradiation. Consequently, we have successfully obtained F118S88 strain as a good candidate for ethanol production from BSL at high temperature.

論文

Accumulation of cesium and its association with intracellular polyphosphate in ${it Deinococcus radiodurans}$

上田 涼史郎*; 佐藤 勝也; 林 秀謙*; 鳴海 一成*; 大野 豊

JAEA-Review 2015-022, JAEA Takasaki Annual Report 2014, P. 101, 2016/02

It is suggesting a possibility that the polyphosphate granules in cells could accumulate harmful metal ions such as radiocesium to protect the cells from cytotoxicity. In this study, we investigated the accumulation of cesium and its association with intracellular polyphosphate in ${it Deinococcus radiodurans}$ using the gene disruptant and overexpressing strains. The cesium accumulation level in the disruptant and overexpressing strains was compared with that of the wild-type strain. The cesium accumulations in the ${it ppk}$ disruptant and overexpressing strains were slightly decreased and almost same, respectively. Like the intracellular polyphosphate level, the cesium accumulation level was significantly increased in the ${it ppx}$ disruptant strain. These results suggested that the intracellular polyphosphate level was positively correlated with the cesium accumulation level in ${it D. radiodurans}$.

論文

イオンビーム育種により得られた高カプロン酸エチル生産清酒酵母のゲノム配列解析,2

増渕 隆*; 渡口 和樹*; 林 秀謙*; 池永 裕*; 佐藤 勝也; 大野 豊

JAEA-Review 2015-022, JAEA Takasaki Annual Report 2014, P. 106, 2016/02

We conducted the gene function analysis of the high ethyl caproate producing sake yeast mutant (No.227) generated by ion beam breeding in order to develop a new method for sake yeast screening and find factors contributing the reduced ability to alcohol fermentation. The genome sequences of the No.227 and Kyokai 901 (its parental strain) were determined by a whole-genome shotgun strategy using pyrosequencing method. And the determined sequences were compared with that of the sake yeast strain Kyokai 7, which is characterized by the fermentation properties. Consequently, the No.227 carried mutations in the ${it FAS2}$ and ${it ERR2}$ genes as heterozygous state. It was suggested that these mutations in the ${it FAS2}$ and ${it ERR2}$ genes in the No.227 might be attributed to the high ethyl caproate production and the low alcohol fermentation ability, respectively.

論文

土壌微生物群集によって誘引される炭素鋼腐食とそのメカニズムの解析

平野 伸一*; 長岡 亨*; 伊勢 孝太郎; 天野 由記; 松本 伯夫*

材料と環境, 64(12), p.535 - 539, 2015/12

本研究では、土壌環境微生物を対象として腐食ポテンシャルおよびそのメカニズムについて知見を得るために、一般的な湖沼底泥を植菌源として炭素鋼とともに培養を行った。その結果、いずれの培養条件でも炭素鋼を腐食、減損する活性が見られ、特に有機物添加・汽水培地において硫酸還元活性、メタン生成活性とともに高い腐食活性が得られた。土壌埋設設備への微生物の腐食影響を適切に評価するためには、硫酸還元菌, メタン生成菌などの相互作用を踏まえた評価が必要と考えられる。

論文

Sorption of trivalent cerium by a mixture of microbial cells and manganese oxides; Effect of microbial cells on the oxidation of trivalent cerium

大貫 敏彦; Jiang, M.*; 坂本 文徳; 香西 直文; 山崎 信哉*; Yu, Q.; 田中 万也; 宇都宮 聡*; Xia, X.*; Yange, K.*; et al.

Geochimica et Cosmochimica Acta, 163, p.1 - 13, 2015/08

 被引用回数:5 パーセンタイル:61.37(Geochemistry & Geophysics)

微生物細胞表面における3価Ceのリン酸塩ナノ粒子の生成により、Mn酸化物によるCeの酸化収着が遅延されることを明らかにした。

論文

Development of cesium-accumulating bacteria by ion beam breeding technology

佐藤 勝也; 上田 涼史郎; 長谷 純宏; 鳴海 一成*; 大野 豊

JAEA-Review 2014-050, JAEA Takasaki Annual Report 2013, P. 117, 2015/03

Bioremediation uses biological organisms to solve an environmental problem. However, microorganisms are sometimes not enough effective to achieve efficient recovery. Therefore, enhancing the functionality of microorganisms is needed to promote the active use of bioremediation. This study began with the purpose of development of Cs-accumulating bacteria by ion beam breeding technology. We investigated which members are better suited for Cs-accumulation in the genus ${it Deinococcus}$ (${it D. radiodurans}$, ${it D. grandis}$, ${it D. proteolyticus}$, ${it D. radiopugnans}$, ${it D. geothermalis}$ and ${it D. murrayi}$) exhibit extraordinary radioresistant. The Cs concentration in the ${it Deinococcus}$ cells exhibited over 4-fold compared with that of the ${it E. coli}$ by atomic absorption spectrometer analysis. This result suggested that ${it D. radiodurans}$ and ${it D. grandis}$ are best two suitable species for the development of high Cs-accumulating bacteria by ion beam breeding technology.

論文

Molecular analysis of polyphosphate biosynthesis-related genes in ${it Deinococcus radiodurans}$

上田 涼史郎; 佐藤 勝也; 林 秀謙*; 鳴海 一成*; 大野 豊

JAEA-Review 2014-050, JAEA Takasaki Annual Report 2013, P. 118, 2015/03

It is suggesting a possibility that the polyphosphate granules in cells could accumulate harmful metal ions such as radiocesium to protect the cells from cytotoxicity. ${it Deinococcus radiodurans}$ has been considered as a microorganism for bioremediation under highly radioactive contaminated environments. We generated the polyphosphate biosynthesis-related genes (${it ppk}$ and ${it ppx}$) disruptant strains and characterized their disruption effect to clarify the role of polyphosphate for the accumulation of cesium in ${it D. radiodurans}$. The intracellular levels of polyphosphates in the ${it ppk}$ disruptant and overexpressing strains were almost same and slightly increased, respectively. On other hand, the intracellular level of polyphosphates significantly increased in the ${it ppx}$ disruptant strains, suggesting that the ${it ppx}$gene plays an important role in the accumulation of polyphosphate in ${it D. radiodurans}$.

論文

Genome analysis of the high temperature tolerant mutant of ${it Bradyrhizobium japonicum}$ USDA110 generated by ion-beam irradiation

武田 喜代子*; 佐藤 勝也; 鳴海 一成*; 大野 豊; 大津 直子*; 横山 正*

JAEA-Review 2014-050, JAEA Takasaki Annual Report 2013, P. 120, 2015/03

Major constraint of biofertilizer utilization in agricultural practice is a viability loss of beneficial microorganisms in biofertilizers by high temperature stress during both storage and transportation. Therefore, we have tried to improve high temperature tolerance of ${it Bradyrhizobium japonicum}$ USDA110 using carbon-ion beams accelerated by an AVF cyclotron at TIARA. Consequently, we have obtained a high temperature tolerant mutant that can maintain a high survival rate at 42 $$^{circ}$$C for at least 7 days in yeast-mannitol broth medium, and named it as M14. The genome sequence of M14 was determined by a whole-genome shotgun strategy. The acquirement of high temperature tolerance in M14 could be attributed to 18 base mutations and/or a large-scale inversion (1.27 Mb). In the future, we will conduct further analysis on these mutations in order to decipher the molecular mechanisms of high temperature tolerance of M14.

論文

Thermotolerant mutants of entomopathogenic fungi obtained by ion beam- and $$gamma$$ ray-induced mutagenesis

西東 力*; Fitriana, Y.*; 佐藤 勝也; 大野 豊; 鳴海 一成*

JAEA-Review 2014-050, JAEA Takasaki Annual Report 2013, P. 121, 2015/03

Entomopathogenic fungi, such as ${it Metarhizium anisopliae}$, are economically important agents for integrated pest management programmes of insect pests. However, negative effects of temperature, such as heat stress that exceeds 35 $$^{circ}$$C, can have serious deleterious effects on conidial germination and persistence, vegetative growth, sporulation, and/or the infection process in these entomopathogenic fungi. In this study, we attempted to enhance thermotolerance in a model entomopathogenic fungus, ${it M. anisopliae}$, by mutagenesis using ion beams or $$gamma$$ rays and evaluated the relative virulence of the resulting mutants compared with the wild-type isolates. In conclusion, ion beams and $$gamma$$ rays are useful tools for improving biological characteristics, such as thermotolerance and fungicide-tolerance, in entomopathogenic fungi, but the mutants obtained in this study must be carefully evaluated for unpredictable negative side effects.

論文

Screening of yeast strain for ethanol fermentation after carbon ion beam irradiation

荻野 千秋*; 山田 良祐*; 佐藤 勝也; 大野 豊

JAEA-Review 2014-050, JAEA Takasaki Annual Report 2013, P. 122, 2015/03

Ethanol fermentation from hydrolyzed lignocellulosic biomass with yeast is very important. However, in common sense, there are several chemical inhibitors for yeast from hydrolyzed biomass. Therefore, screening of yeast strain, possessing the tolerance properties against these chemical inhibitors, should be found from nature resources or mutant libraries. In this research, by carbon ion beam irradiation, the screening of candidate yeast strains was performed. Compared with wild type strain, the ethanol production yield was improved in the case of selected strain. It was assumed that the carbon ion beam irradiation could be influence to yeast cell, and improve the metabolic pathway. In future, by using this selected yeast, the ethanol fermentation from hydrolyzed biomass with high efficiency would be performed.

論文

Genome analysis of high ethyl caproate producing sake yeasts generated by ion beam breeding

増渕 隆*; 日向 弘和*; 上田 涼史郎; 林 秀謙*; 池永 裕*; 佐藤 勝也; 大野 豊

JAEA-Review 2014-050, JAEA Takasaki Annual Report 2013, P. 123, 2015/03

We analyzed genome sequence of the high ethyl caproate producing sake yeast mutant (No.227) generated by ion beam breeding in order to investigated factors contributing the reduced ability to alcohol fermentation. In the high ethyl caproate producing sake yeast, four pyruvate decarboxylase genes (PDC), six alcohol dehydrogenase genes (ADH), two biotin synthesis genes (BIO) and chitinase gene (CTS1) might be involved in the reduced ability to alcohol fermentation. The genome sequence of the strain No.227 was determined by a whole-genome shotgun strategy using pyrosequencing method and compared with the whole-genome sequence of the sake yeast strain Kyokai 7, which is characterized by the fermentation property, as a reference sequence. For the PDC, ADH, BIO and CTS1 loci, no mutation was found in the strain No.227, suggesting that these genes did not involved in the reduced ability to alcohol fermentation.

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