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Journal Articles

Commissioning of Versatile Compact Neutron Diffractometer (VCND) at the B-3 beam port of Kyoto University Research Reactor (KUR)

Mori, Kazuhiro*; Okumura, Ryo*; Yoshino, Hirofumi*; Kanayama, Masaya*; Sato, Setsuo*; Oba, Yojiro; Iwase, Kenji*; Hiraka, Haruhiro*; Hino, Masahiro*; Sano, Tadafumi*; et al.

JPS Conference Proceedings (Internet), 33, p.011093_1 - 011093_6, 2021/03

no abstracts in English

Journal Articles

The Role of ${it Deinococcus radiodurans}$ RecFOR proteins in homologous recombination

Sato, Katsuya; Kikuchi, Masahiro; Ishaque, A. M.*; Oba, Hirofumi*; Yamada, Mitsugu; Tejima, Kohei; Onodera, Takefumi; Narumi, Issei

DNA Repair, 11(4), p.410 - 418, 2012/04

 Times Cited Count:23 Percentile:60.06(Genetics & Heredity)

In an effort to gain insights into the role of ${it D. radiodurans}$ RecFOR proteins in homologous recombination, we generated ${it recF}$, ${it recO}$ and ${it recR}$ disruptant strains and characterized the disruption effects. Disruption of ${it recR}$ resulted in severe reduction of the transformation efficiency. On the other hand, the ${it recF}$ disruptant strain was the most sensitive phenotype to $$gamma$$ rays, UV irradiation and mitomycin C among the three disruptants. In the ${it recF}$ disruptant strain, the intracellular level of the LexA1 protein did not decrease following $$gamma$$ irradiation. These results demonstrate that the RecF protein plays a crucial role in the homologous recombination repair process by facilitating RecA activation. Thus, the RecF and RecR proteins are involved in the RecA activation and the stability of incoming DNA, respectively, during RecA-mediated homologous recombination processes that initiated the ESDSA pathway in ${it D. radiodurans}$.

Journal Articles

Assessing the role of RecA protein in the radioresistant bacterium ${it Deinococcus geothermalis}$

Sghaier, H.*; Sato, Katsuya; Oba, Hirofumi*; Narumi, Issei

African Journal of Biochemistry Research, 4(4), p.111 - 118, 2010/04

Journal Articles

${it Deinococcus aetherius}$ sp. nov., isolated from the stratosphere

Yang, Y.*; Ito, Takashi*; Yokobori, Shinichi*; Shimada, Haruo*; Itahashi, Shiho*; Sato, Katsuya; Oba, Hirofumi*; Narumi, Issei; Yamagishi, Akihiko*

International Journal of Systematic and Evolutionary Microbiology, 60, p.776 - 779, 2010/04

 Times Cited Count:26 Percentile:50.72(Microbiology)

Journal Articles

Development of ${it Deinococcus grandis/Escherichia coli}$ shuttle vector

Sato, Katsuya; Tu, Z.*; Oba, Hirofumi*; Narumi, Issei

JAEA-Review 2009-041, JAEA Takasaki Annual Report 2008, P. 81, 2009/12

no abstracts in English

Journal Articles

Development of versatile shuttle vectors for ${it Deinococcus grandis}$

Sato, Katsuya; Tu, Z.*; Oba, Hirofumi; Narumi, Issei

Plasmid, 62(1), p.1 - 9, 2009/07

 Times Cited Count:10 Percentile:26.44(Genetics & Heredity)

To develop new shuttle vectors for ${it Deinococcus}$ species, the nucleotide sequence of the small cryptic plasmid pUE30 from Deinococcus radiopugnans ATCC19172 was determined. The 2,467-bp plasmid possesses two open reading frames, one encoding 88 amino acid residues (Orf1) and the other encoding 501 amino acid residues (Orf2). The predicted amino acid sequence encoded by Orf1 exhibits similarity to the N-terminal regions of replication proteins encoded by ${it repABC}$-type plasmids of $$alpha$$-proteobacteria. On the other hand, the predicted amino acid sequence encoded by Orf2 exhibits similarity to replication proteins encoded by plasmids of ${it D. radiodurans}$ SARK and ${it Thermus}$ species. Hybrid plasmids consisting of pUE30 and pKatCAT5, which replicates in ${it E. coli}$ with a chloramphenicol resistance determinant, were shown to autonomously replicate in ${it D. grandis}$ ATCC43672. Deletion analysis revealed that Orf2 was necessary for replication of the plasmids in ${it D. grandis}$. On the other hand, a DNA fragment encompassing the Orf1-coding region was involved in the instability of the plasmid in ${it D. grandis}$. An expression plasmid that possesses the ${it D. radiodurans}$ minimal ${it groE}$ promoter was constructed, and a firefly luciferase gene was successfully expressed in ${it D. grandis}$. The ${it D. grandis}$ host-vector system developed in this study should prove useful in the bioremediation of radioactive waste and for the investigation of DNA repair mechanisms.

Journal Articles

Identification of PprM; A Modulator of the PprI-dependent DNA damage response in ${it Deinococcus radiodurans}$

Oba, Hirofumi; Sato, Katsuya; Sghaier, H.; Yanagisawa, Tadashi*; Narumi, Issei

Extremophiles, 13(3), p.471 - 479, 2009/05

 Times Cited Count:18 Percentile:40.59(Biochemistry & Molecular Biology)

${it Deinococcus radiodurans}$ possesses a DNA damage response mechanism that acts via the PprI protein to induce RecA and PprA proteins, both of which are necessary in conferring extreme radioresistance. In an effort to further delineate the nature of the DNA damage response mechanism in ${it D. radiodurans}$, we set out to identify novel components of the PprI-dependent signal transduction pathway in response to radiation stress. Here we demonstrate the discovery of a novel regulatory protein, PprM (a modulator of the PprI-dependent DNA damage response), which is a homolog of cold shock protein (Csp). Disruption of the ${it pprM}$ gene rendered ${it D. radiodurans}$ significantly sensitive to $$gamma$$-rays. PprM regulates the induction of PprA but not that of RecA. PprM belongs in a distinct clade of a subfamily together with Csp homologs from ${it D. geothermalis}$ and ${it Thermus thermophilus}$. Purified PprM is present as a homodimer under physiological conditions, as the case with ${it Escherichia coli}$ CspD. The ${it pprA pprM}$ double-disruptant strain exhibited higher sensitivity than the ${it pprA}$ or ${it pprM}$ single disruptant strains, suggesting that PprM regulates other hitherto unknown protein(s) important for radioresistance besides PprA. This study strongly suggests that PprM is involved in the radiation response mediated by PprI in ${it D. radiodurans}$.

Journal Articles

Effects of ionizing radiation on locomotory behavior and mechanosensation in ${it Caenorhabditis elegans}$

Suzuki, Michiyo; Sakashita, Tetsuya; Yanase, Sumino*; Kikuchi, Masahiro; Oba, Hirofumi; Higashitani, Atsushi*; Hamada, Nobuyuki*; Funayama, Tomoo; Fukamoto, Kana; Tsuji, Toshio*; et al.

Journal of Radiation Research, 50(2), p.119 - 125, 2009/04

 Times Cited Count:8 Percentile:29.65(Biology)

Journal Articles

${it Deinococcus aerius}$ sp. nov., isolated from the high atmosphere

Yang, Y.*; Ito, Takashi*; Yokobori, Shinichi*; Itahashi, Shiho*; Shimada, Haruo*; Sato, Katsuya; Oba, Hirofumi; Narumi, Issei; Yamagishi, Akihiko*

International Journal of Systematic and Evolutionary Microbiology, 59, p.1862 - 1866, 2009/00

 Times Cited Count:31 Percentile:56.69(Microbiology)

An orange pigmented, non-motile, coccoid bacterial strain, TR0125, was isolated from dust samples collected in the high atmosphere above Japan. Phylogenetic analysis based on 16S rRNA gene sequences showed that it was within the radiation of ${it Deinococcus}$ species. Major peptidoglycan amino acids were D-glutamic acid, glycine, D-alanine, L-alanine and ornithine. Predominant fatty acids were 17:0 iso, iso 17:1 $$omega$$ 9c and 15:0 iso. Strong resistance to desiccation, UV-C and $$gamma$$-radiation, high DNA G+C content also supported the affiliation of strain TR0125$$^{T}$$ to the genus ${it Deinococcus}$. TR0125$$^{T}$$ had a highest similarity value (95.7 %) of the 16S rRNA gene sequence to the type strain of the species ${it D. apachensis}$, and phylogenetic analysis shows that it was further separated from ${it D. apachensis}$ than from ${it D. geothermalis}$, indicating that strain TR0125$$^{T}$$ was not a member of these two ${it Deinococcus}$ species. Besides, there were phenotypic differences between strain TR0125$$^{T}$$ and type strains of the two species. Therefore, we propose a new species of the genus ${it Deinococcus}$, ${it Deinococcus aerius}$ sp. nov. (type strain, TR0125$$^{T}$$ = JCM 11750$$^{T}$$ = DSM 21212$$^{T}$$), to accommodate this isolate.

Journal Articles

Discovery of a novel key protein in the radiation response mechanism of ${it Deinococcus radiodurans}$

Oba, Hirofumi; Sato, Katsuya; Kikuchi, Masahiro; Sghaier, H.; Yanagisawa, Tadashi*; Narumi, Issei

JAEA-Review 2008-055, JAEA Takasaki Annual Report 2007, P. 57, 2008/11

no abstracts in English

Journal Articles

The Mystery behind the extraordinary radioresistance of ${it Deinococcus radiodurans}$

Oba, Hirofumi; Sato, Katsuya; Narumi, Issei

Hoshasen To Sangyo, (118), p.50 - 53, 2008/06

no abstracts in English

Journal Articles

Role of LexA2 in radiation response mechanism of ${it Deinococcus radiodurans}$

Sato, Katsuya; Oba, Hirofumi; Sghaier, H.; Narumi, Issei

JAEA-Review 2007-060, JAEA Takasaki Annual Report 2006, P. 92, 2008/03

no abstracts in English

Journal Articles

Problems with the current deinococcal hypothesis; An Alternative theory

Sghaier, H.; Narumi, Issei; Sato, Katsuya; Oba, Hirofumi; Mitomo, Hiroshi*

Theory in Biosciences, 126(1), p.43 - 45, 2007/03

 Times Cited Count:15 Percentile:85.71(Biology)

no abstracts in English

Journal Articles

${it Deinococcus radiodurans}$ DNA repair-promoting protein; Applications to biotech industry

Narumi, Issei; Oba, Hirofumi; Sghaier, H.; Sato, Katsuya

JAEA-Review 2006-042, JAEA Takasaki Annual Report 2005, P. 69, 2007/02

no abstracts in English

Journal Articles

The Radiation responsive promoter of the ${it Deinococcus radiodurans pprA}$ gene

Oba, Hirofumi; Sato, Katsuya; Yanagisawa, Tadashi*; Narumi, Issei

JAEA-Review 2006-042, JAEA Takasaki Annual Report 2005, P. 70, 2007/02

no abstracts in English

Journal Articles

Down-regulation of radioresistance by LexA2 in ${it Deinococcus radiodurans}$

Sato, Katsuya; Oba, Hirofumi; Sghaier, H.; Narumi, Issei

Microbiology, 152(11), p.3217 - 3226, 2006/11

In an effort to gain an insight into the role of LexA2 in the radiation response mechanism, ${it lexA2}$ disruptant strain was generated and investigated. The ${it lexA2}$ disruptant strains exhibited a much higher resistance to $$gamma$$ rays than the wild-type strain. Furthermore, a luciferase assay showed that ${it pprA}$ promoter activation was enhanced in the ${it lexA2}$ disruptant strain following $$gamma$$ irradiation. The increase in radioresistance of the ${it lexA2}$ disruptant strain is explained in part by the enhancement of ${it pprA}$ promoter activation.

Journal Articles

A Novel DNA repair promoting protein from the radioresistant bacterium

Sato, Katsuya; Oba, Hirofumi; Narumi, Issei

Seibutsu Butsuri, 46(5), p.270 - 274, 2006/09

no abstracts in English

Journal Articles

The Radiation responsive promoter of the ${it Deinococcus radiodurans pprA}$ gene

Oba, Hirofumi*; Sato, Katsuya*; Yanagisawa, Tadashi*; Narumi, Issei

Gene, 363, p.133 - 141, 2005/12

 Times Cited Count:33 Percentile:54.75(Genetics & Heredity)

Three transcriptional start points for the ${it Deinococcus radioduans pprA}$ were located at positions -156, -154 and -22 upstream from the ${it pprA}$ translation initiation site. The amount of the three extended products increased in cells exposed to 2-kGy followed by a 0.5-h post-incubation, suggesting the existence of at least two radiation responsive promoters for ${it pprA}$ expression. A luciferase reporter assay revealed that the distal promoter is located between positions -208 and -156 from the translation initiation site, while the proximal promoter is located between positions -57 and -22. The region located between positions -57 and -38 was indispensable for proximal promoter activity. Site-directed mutagenesis of a thymine positioned at -33 resulted in severe impairment of promoter activity, and suggested that the thymine functions as a master base for the proximal radiation responsive promoter. The results also suggested that up-regulation of ${it pprA}$ expression by the ${it pprI}$ gene product is triggered at the promoter level.

Journal Articles

Characterization and distribution of IS${it 8301}$ in the radioresistant bacterium ${it Deinococcus radiodurans}$

Islam, M. S.*; Hua, Y.*; Oba, Hirofumi; Sato, Katsuya; Kikuchi, Masahiro; Yanagisawa, Tadashi*; Narumi, Issei

Genes and Genetic Systems, 78(5), p.319 - 327, 2003/10

 Times Cited Count:14 Percentile:27.67(Biochemistry & Molecular Biology)

no abstracts in English

Oral presentation

Analysis of the radiation responsive promoter of the ${it Deinococcus radiodurans pprA}$ gene

Oba, Hirofumi*; Sato, Katsuya*; Yanagisawa, Tadashi*; Narumi, Issei

no journal, , 

no abstracts in English

46 (Records 1-20 displayed on this page)