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Temperature and salt dependent long linear and branched polyamine syntheses in the thermophiles belonging to the domain Archaea 古菌属嗜热菌中依赖温度和盐的长线状和支状多胺合成
Pub Date : 1900-01-01 DOI: 10.3118/JJSE.7.1.21
K. Hamana, Ryuichi Hosoya, M. Niitsu, H. Hayashi, T. Itoh
Cellular polyamines acid-extracted from fourteen archaea (archaebacteria) belonging to the phyla, Euryarchaeota and Crenarchaeota, including nine newly validated species, grown under different culture conditions were analyzed using HPLC and GC. The following archaebacteria were studied: moderately thermophilic Methanothermobacter, Ferroplasma, Thermogymnomonas, and Acidianus species; a slightly thermophilic methanogen, Methanolinea tarda, and a mesophilic methanogen, Methanosaeta contilii, contained triamines and tetra-amines. Hyperthermophilic Thermococcus, Pyrococcus, and Ignicoccus contained a quaternary branched penta-amine, N4-bis(aminopropyl)spermidine, and two linear penta-amines, in addition to triamines and tetra-amines, respectively. When Thermococcus, Pyrococcus, and Sulfurisphaera species were cultivated under different growth temperatures (60-100°C) and salt concentrations (0.15%-2.5% NaCl), temperature and salt dependent long or branched polyamine syntheses, increasing under higher temperatures and higher salt conditions, were observed.
采用高效液相色谱法和气相色谱法对不同培养条件下生长的14种古细菌(古细菌)、Euryarchaeota和Crenarchaeota,包括9种新证实的种进行了细胞多胺酸的提取。研究了以下几种古细菌:中度嗜热甲烷菌、铁原菌、热单胞菌和酸化菌;稍嗜热的产甲烷菌methanolinetarda和中嗜热的产甲烷菌Methanosaeta contilii含有三胺和四胺。超嗜热性热球菌、焦球菌和火球菌除含有三胺和四胺外,还分别含有一种季支五胺n4 -双(氨基丙基)亚精胺和两种线性五胺。在不同生长温度(60 ~ 100℃)和盐浓度(0.15% ~ 2.5% NaCl)下培养热球菌(Thermococcus)、焦球菌(Pyrococcus)和硫双球菌(sulphisphaera),发现温度和盐依赖性长支胺或多胺的合成在高温和高盐条件下增加。
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引用次数: 3
Improvement of alkaliphily of thermostable GH family 10 xylanase from Thermotoga maritima by directed evolution 定向进化改良海洋热藓耐热GH家族10木聚糖酶的嗜碱性
Pub Date : 1900-01-01 DOI: 10.3118/JJSE.9.15
Wataru Tsukimura, K. Watanabe, C. Morokuma, R. Yatsunami, T. Fukui, Satoshi Nakamura
Xylanase B (XynTB) from hyperthermophilic bacterium Thermotoga maritima MSB8 is a thermostable xylanase classified into glycoside hydrolase family 10. XynTB is most active at pH 6.0, and shows lower activity at alkaline pHs. Improvement of alkaliphily of XynTB was attempted by directed evolution. One mutant enzyme that showed slightly higher activity under high temperature and alkaline pH conditions was acquired from a newly constructed random mutant library. Protein engineering study of this mutant revealed that the amino acid substitution N92D (Asn92 was substituted by Asp) could contribute to the improvement of alkaliphily.
木聚糖酶B (xyyntb)是一种耐热木聚糖酶,属于糖苷水解酶家族10。XynTB在pH 6.0时活性最强,在碱性pH下活性较低。通过定向进化的方法,尝试改善XynTB的碱度。从新构建的随机突变体文库中获得了一个在高温和碱性条件下表现出较高活性的突变体酶。对该突变体的蛋白质工程研究表明,氨基酸取代N92D (Asn92被Asp取代)有助于改善其碱性。
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引用次数: 1
Device genetics for programmed cell death 程序性细胞死亡的设备遗传学
Pub Date : 1900-01-01 DOI: 10.3118/JJSE.7.2.31
Y. Tashiro, M. Kobayashi
The growing body of research reveal that the programmed cell death (PCD) is ubiquitously distributed in microorganisms, plays key roles in developmental processes and inkeeping the integrity of bacterial communities. Inspired by this, bioengineers are making their original version of PCD devices for the temporal and/or spatial control of the bacteria communities. In this review, we discuss how PCD system should be designed and/or implemented into the bacteria to make a faithful and long-lasting &39;robots&39; for the real-world applications.
越来越多的研究表明,程序性细胞死亡(programmed cell death, PCD)普遍存在于微生物中,在微生物的发育过程和维持细菌群落的完整性中起着关键作用。受此启发,生物工程师正在制造他们的原始版本的PCD设备,用于时间和/或空间控制细菌群落。在这篇综述中,我们讨论了PCD系统应该如何设计和/或实施到细菌中,以制造忠实和持久的机器人。对于现实世界的应用程序。
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引用次数: 0
Use of a Thermus thermophilus host-vector system for expression of genes from the hyperthermophilic archaeon Pyrococcus horikoshii 利用嗜热热菌宿主载体系统表达嗜热古细菌堀氏焦球菌的基因
Pub Date : 1900-01-01 DOI: 10.3118/JJSE.3.1_28
G. Takayama, T. Kosuge, S. Sunamura, I. Matsui, K. Ishikawa, A. Nakamura, T. Hoshino
Genes annotated to threonine dehydrogenase, α-mannosidase, and glutamate dehydrogenase of the hyperthermophilic archaeon Pyrococcus horikoshii OT3 were used to test the expression system of the thermophilic eubacterium Thermus thermophilus HB27. Using the previously described P215 promoter, the three genes were successfully expressed, but at significantly lower levels than in the Escherichia coli expression system with the T7 promoter. Replacement of the promoter region with P31 or Pslp_promoter improved the expression to a level comparable to or exceeding that in the E. coli system. Notably, α-mannosidase activity was clearly detected with the P31 and Pslp_promoters, which could not be detected in the E. coli system. Moreover, with 6 x His-tag fusions of these enzymes at their COOH- or NH2-termini, these proteins could be detected in the crude extracts of T. thermophilus by Western blotting, indicating that the increment of each enzyme activity was actually the result of enzyme production. These results demonstrate that the host-vector system of T. thermophilus is useful for expression of genes from hyperthermophiles.
利用嗜热古细菌horikoshipyrococcus OT3中苏氨酸脱氢酶、α-甘露糖苷酶和谷氨酸脱氢酶的注释基因,检测嗜热真细菌Thermus thermophilus HB27的表达系统。使用先前描述的P215启动子,这三个基因成功表达,但其表达水平明显低于使用T7启动子的大肠杆菌表达系统。用P31或Pslp_promoter替换启动子区域,将表达提高到与大肠杆菌系统相当或超过的水平。值得注意的是,α-甘露糖苷酶活性可以通过P31和pslp_启动子清楚地检测到,而在大肠杆菌系统中无法检测到。此外,在这些酶的COOH-或nh2端有6次His-tag的融合,通过Western blotting可以在嗜热T.的粗提取物中检测到这些蛋白,这表明每种酶活性的增加实际上是酶生产的结果。这些结果表明嗜热T.嗜热菌的宿主-载体系统对嗜热T.嗜热菌基因的表达是有用的。
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引用次数: 6
Enhancing tolerance of rice to alkaline soils using genes involved in Fe acquisition in plants. 利用植物铁获取基因增强水稻对碱性土壤的耐受性。
Pub Date : 1900-01-01 DOI: 10.3118/JJSE.7.2.15
N. Nishizawa
One of the widest ranging abiotic stresses in world agriculture arises from low iron (Fe) availability due to high soil pH, with 30% of arable land too alkaline for optimal crop production. To aquire Fe, Graminaceous plants use a chelation strategy and release phytosiderophores from their roots to chelate Fe (III) in the soil. Non-graminaceous plants differ from graminaceous plants in acquiring Fe, ferric reduction on root surface being the first step of iron uptake. Rice is very susceptible to low Fe availability. We enhanced the tolerance of rice to Fe deficiency in calcareous soils by introducing the barley genes participating in the phytosiderophore synthesis and tested these transgenic rice lines in a field experiment on a calcareous soil under paddy conditions. We showed that introducing barley genes involved in the synthesis of phytosiderophore into rice is an effective, practical method to improve agricultural productivity in calcareous soils. We also improved the tolerance of rice to Fe deficiency by increasing the ferric reductase activity of root cells by introducing the engineered gene refre1-372. To understand the molecular mechanisms that regulate Fe acquisition in plants, we analyzed the promoter region of the barley Fe deficiency inducible IDS2 gene and identified two novel cis-acting elements, IDE1 and IDE2. We identified two rice transcription factors, IDEF1 and IDEF2, which specifically bind to IDE1 and IDE2, respectively. The enhanced expression of transcription factors resulted in increased phytosiderophore secretion and tolerance to low Fe availability in a calcareous soil.
世界农业中最广泛的非生物胁迫之一是由于土壤pH值高导致铁(Fe)可用性低,30%的耕地碱性太强,无法实现最佳作物生产。为了获得铁,禾本科植物采用螯合策略,从根部释放植物铁载体来螯合土壤中的铁(III)。非禾本科植物与禾本科植物获取铁的方式不同,根表面的铁还原是吸收铁的第一步。水稻很容易受到低铁利用率的影响。通过引入参与植物铁素合成的大麦基因,提高了水稻在钙质土壤中对缺铁的耐受性,并在水稻条件下对这些转基因水稻品系进行了田间试验。结果表明,在水稻中引入参与植物铁素合成的大麦基因是提高钙质土壤农业生产力的一种有效、实用的方法。通过引入工程基因refre1-372,提高了水稻根细胞的铁还原酶活性,提高了水稻对缺铁的耐受性。为了了解植物铁获取调控的分子机制,我们分析了大麦缺铁诱导基因IDS2的启动子区域,并鉴定出两个新的顺式作用元件IDE1和IDE2。我们鉴定出两个水稻转录因子IDEF1和IDEF2,它们分别特异性结合IDE1和IDE2。在钙质土壤中,转录因子表达的增强导致植物铁素分泌增加,对低铁有效性的耐受性增强。
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引用次数: 0
Characterization of Andriashevia natsushimae, a new species of eelpout (Pisces, Perciformes: Zoarcidae) from Sagami Bay, Japan, and its phylogenic status as inferred from 16S rRNA 日本相模湾鳗鲡新种(双鱼,鲈形目:鱼科)Andriashevia natsushimae的鉴定及其16S rRNA的系统发育地位
Pub Date : 1900-01-01 DOI: 10.3118/JJSE.8.20
Y. Nishiguchi, T. Miwa, S. Kubota, M. Taru, M. Okada
A new zoarcid fish, Andriashevia natsushimae (Japanese name: Natsushimachojyagenge), is described on the basis of 2 specimens collected in Sagami Bay, Japan, at the depth of 850 m. This species has no pectoral fins and no pelvic fins, indicating it to be Andriashevia. It has a round body and a moderate-sized mouth in contrast to Andriashevia aptera which has a flat body and a large mouth. Phylogenic tree based on 16S ribosomal RNA (16S rRNA) sequence indicates the species had diverted at the early stage in the evolution of eelpouts.
根据在日本相模湾850米深处采集的2个标本,描述了一种新的动物科鱼类——natsushima Andriashevia natsushimae(日文名称:Natsushimachojyagenge)。这种鱼没有胸鳍和腹鳍,表明它是安德里亚鱼。它有一个圆形的身体和一个中等大小的嘴,与之形成鲜明对比的是,安德里亚什维亚有一个扁平的身体和一个大嘴巴。基于16S核糖体RNA (16S rRNA)序列的系统发育树表明,该物种在鳗类进化的早期阶段发生了转移。
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引用次数: 1
Physiological properties of Pseudomonas sp. strain MT-1, denitrifier from the 11,000 m-depth of Mariana Trench 马里亚纳海沟11000 m深度反硝化菌MT-1假单胞菌的生理特性
Pub Date : 1900-01-01 DOI: 10.3118/JJSE.4.25
H. Tamegai, S. Nakamura, M. Miyazaki, Y. Nogi, R. Kasahara, C. Kato, K. Horikoshi
In the present study, we investigated the physiological properties of Pseudomonas sp. strain MT-1 isolated from the mud of Mariana Trench. Strain MT-1 was closely related with members of the genus Pseudomonas, especially with Pseudomonas chloritidismutans and Pseudomonas stutzeri on the basis of 16S rDNA sequence. The DNA-DNA hybridization values between strain MT-1 and Pseudomonas reference strains were significantly lower than those accepted as the phylogenetic definition of a species. MT-1 had polar flagellum, and was facultative anaerobe. The growth occurred in an NaCl concentration of about 0-10% (optimum: 1-2%), in pH of about 6-10 (optimum: 7-8), and in temperature of about 4-45 °C (optimum: 32-35 °C). The G+C content of the DNA was 60.5% mol%. The major quinone was ubiquinone-9. The major fatty acid in strain MT-1 was C16:0 (hexadecanoic acid), C16:1 (hexadecenoic acid) and C18:1 (octadecenoic acid). The organism showed adaptational properties to deep-sea environment compared with the reference strains.
本文研究了从马里亚纳海沟泥中分离的假单胞菌MT-1菌株的生理特性。菌株MT-1在16S rDNA序列上与假单胞菌属成员亲缘关系密切,特别是与绿变形假单胞菌和假单胞菌。菌株MT-1与假单胞菌参考菌株之间的DNA-DNA杂交值明显低于被接受的物种系统发育定义。MT-1具有极鞭毛,为兼性厌氧菌。NaCl浓度约为0 ~ 10%(最适为1 ~ 2%),pH约为6 ~ 10(最适为7 ~ 8),温度约为4 ~ 45℃(最适为32 ~ 35℃)。DNA中G+C含量为60.5% mol%。主要的醌是泛醌-9。菌株MT-1的主要脂肪酸为C16:0(十六酸)、C16:1(十六烯酸)和C18:1(十八烯酸)。与对照菌株相比,该菌对深海环境表现出较强的适应能力。
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引用次数: 5
The symbiotic mechanism between the chemoautotrophic symbiotic bacteria and its host deep-sea Calyptogena clams, and the reductive genome evolution of these symbionts 趋化自养共生细菌与寄主深海蛤的共生机制及其还原性基因组进化
Pub Date : 1900-01-01 DOI: 10.3118/JJSE.7.2.29
H. Kuwahara
Dense animal communities at hydrothermal vents and cold seeps rely on symbioses with chemoautotrophic bacteria. To reveal the symbiotic mechanism, we sequenced the genome of chemoautotrophic intracellular symbiont in deep-sea clam, Calyptogena okutanii. On the other hand, C. magnifica symbiont genome sequenced in USA. The genomes appear to have been reduced. To understand their reductive genome evolution (RGE), we compared their genomes. They have small genomes containing chemoautotrophic and intracellular symbiotic features, and lack most genes for DNA recombination and repair e.g. recA and mutY. Their genome structures were highly conserved excepting one inversion. Many deletions from small (1 kbp up to 11 kbp) sizes were detected and deletion numbers decreased exponentially with size. Densities of deletions, short-repeat density and A+T content were higher in non-coding regions than in coding regions. Because Calyptogena symbiont genomes lack recA, we deduced that deletions and the inversion occurred by RecA-independent recombination (RIR) at short-repeats with simultaneous consumption of repeats, and that short-repeats were regenerated by high rate of mutation with enhanced A+T bias in the absence of mutY. We proposed that an active RGE is ongoing by short-repeats dependent RIR with regeneration of short-repeats in extant Calyptogena symbionts.
在热液喷口和冷渗漏处密集的动物群落依赖于与趋化自养细菌的共生。为了揭示这种共生机制,我们对深海蛤胞内趋化自养共生体Calyptogena okutanii的基因组进行了测序。另一方面,研究人员对美国产的黄曲霉共生体进行了基因组测序。基因组似乎减少了。为了了解它们的还原基因组进化(RGE),我们比较了它们的基因组。它们具有较小的基因组,包含化学自养和细胞内共生特征,并且缺乏大多数用于DNA重组和修复的基因,例如recA和mutY。除1个反转外,它们的基因组结构高度保守。许多小(1kbp到11kbp)的缺失被检测到,缺失数量随着大小呈指数下降。非编码区缺失密度、短重复密度和A+T含量均高于编码区。由于Calyptogena共生体基因组缺乏recA,我们推断,短重复序列的缺失和反转是通过recA独立重组(RIR)在同时消耗重复序列的情况下发生的,而短重复序列是通过高突变率和增强的A+T偏倚在没有mutY的情况下再生的。我们认为,在现存的水蛭属共生体中,一个活跃的RGE是通过依赖短重复序列的RIR和短重复序列的再生来进行的。
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引用次数: 1
Microbial tetraether lipids as an environmental tracer 微生物四醚脂作为环境示踪剂
Pub Date : 1900-01-01 DOI: 10.3118/JJSE.6.45
T. Kitajima
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引用次数: 0
Identification and characterization of the stator-force generator, MotPS, for motility of alkaliphilic Bacillus pseudofirumus OF4 嗜碱假假芽孢杆菌OF4的定子力发生器mops的鉴定与特性
Pub Date : 1900-01-01 DOI: 10.3118/JJSE.3.1_42
政博 伊藤
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引用次数: 0
期刊
Journal of Japanese Society for Extremophiles
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