九州大学 研究者情報
論文一覧
田代 康介(たしろ こうすけ) データ更新日:2021.10.27

准教授 /  農学研究院 生命機能科学部門 システム生物工学


原著論文
1. Abdul-Mutalib, N.-A., Nordin, S.A., Osman, M., Roslan, A.M., Ishida, N., Sakai, K., Tashiro, Y., Tashiro, K., Maeda, T., Shirai, Y., The prevalence of foodborne pathogenic bacteria on cutting boards and their ecological correlation with background biota, AIMS Microbiology, 10.3934/MICROBIOL.2016.2.138, 2, 2, 138-151, 2016.07.
2. Mori, K., Kadooka, C., Nishitani, A., Okutsu, K., Yoshizaki, Y., Takamine, K., Tashiro, K., Goto, M., Tamaki, H., Futagami, T., Chromosome-level genome sequence of the black koji fungus aspergillus luchuensis rib2601, Microbiology Resource Announcements, 10.1128/MRA.00384-21, 10, 29, 2021.07.
3. Takahashi, M., Hamoya, T., Narita, T., Fujii, G., Totsuka, Y., Hagio, M., Tashiro, K., Komiya, M., Mutoh, M., Complex modulating effects of dietary calcium intake on obese mice, In Vivo, 10.21873/INVIVO.12480, 35, 4, 2107-2114, 2021.07.
4. Chen, K., Iwasaki, N., Qiu, X., Xu, H., Takai, Y., Tashiro, K., Shimasaki, Y., Oshima, Y., Obesogenic and developmental effects of TBT on the gene expression of juvenile Japanese medaka (Oryzias latipes), Aquatic Toxicology, 10.1016/j.aquatox.2021.105907, 237, 105907, 2021.10.
5. Pham, K.D., Hakozaki, Y., Takamizawa, T., Yamazaki, A., Yamazaki, H., Mori, K., Aburatani, S., Tashiro, K., Kuhara, S., Takaku, H., Shida, Y., Ogasawara, W., Analysis of the light regulatory mechanism in carotenoid production in Rhodosporidium toruloides NBRC 10032, Bioscience, Biotechnology and Biochemistry, 10.1093/bbb/zbab109, 85, 8, 1899-1909, 2021.10.
6. Ikegami, H., Shirasawa, K., Yakushiji, H., Yabe, S., Sato, M., Hayashi, T., Tashiro, K., Nogata, H., Analysis of the Segregation Distortion of FcRAN1 Genotypes Based on Whole-Genome Resequencing of Fig (Ficus carica L.) Breeding Parents, Frontiers in Plant Science, 10.3389/fpls.2021.647599, 12, 2021.10.
7. Futagami, T., Mori, K., Kadooka, C., Niihara, H., Tashiro, K., Tamaki, H., Tanaka, T., Chromosome-level genome sequence of aspergillus puulaauensis mk2, a fungus isolated from a dead hard tick, Microbiology Resource Announcements, 10.1128/MRA.00372-21, 10, 36, 2021.10.
8. Kadooka, C., Mori, K., Okutsu, K., Yoshizaki, Y., Takamine, K., Tashiro, K., Tamaki, H., Futagami, T., Chromosome-level genome sequence of aspergillus chevalieri M1, isolated from katsuobushi, Microbiology Resource Announcements, 10.1128/MRA.00385-21, 10, 36, 2021.10.
9. Hamano, M., Esaki, K., Moriyasu, K., Yasuda, T., Mohri, S., Tashiro, K., Hirabayashi, Y., Furuya, S., Hepatocyte-specific phgdh-deficient mice culminate in mild obesity, insulin resistance, and enhanced vulnerability to protein starvation, Nutrients, 10.3390/nu13103468, 13, 10, 3468, 2021.10.
10. Yoshitake, K., Kimura, G., Sakami, T., Watanabe, T., Taniuchi, Y., Kakehi, S., Kuwata, A., Yamaguchi, H., Kataoka, T., Kawachi, M., Ikeo, K., Tan, E., Igarashi, Y., Ohtsubo, M., Watabe, S., Suzuki, Y., Asakawa, S., Ishino, S., Tashiro, K., Ishino, Y., Kobayashi, T., Mineta, K., Gojobori, T., Development of a time-series shotgun metagenomics database for monitoring microbial communities at the Pacific coast of Japan, Scientific Reports, 10.1038/s41598-021-91615-3, 11, 1, 2021.02.
11. Michiyuki, S., Tomita, N., Mori, Y., Kanda, H., Tashiro, K., Notomi, T., Discrimination of a single nucleotide polymorphism in the haptoglobin promoter region, rs5472, using a competitive fluorophore-labeled probe hybridization assay following loop-mediated isothermal amplification, Bioscience, biotechnology, and biochemistry, 10.1093/bbb/zbaa012, 85, 2, 359-368, 2021.02.
12. Kato-Unoki, Y., Umemura, K., Tashiro, K., Fingerprinting of hatchery haplotypes and acquisition of genetic information by whole-mitogenome sequencing of masu salmon, Oncorhynchus masou masou, in the Kase River system, Japan, PLoS ONE, 10.1371/journal.pone.0240823, 15, 11, e0240823, 2020.11.
13. Nishikawa, M.U., Iwaki, M., Tashiro, K., Kurose, K., Identification of gene expression markers and development of evaluation method using cell-based and RT-PCR-based assay for skin sensitising potential of chemicals, Xenobiotica, 10.1080/00498254.2020.1767320, 50, 11, 1359-1369, 2020.10.
14. Chen, K., Iwasaki, N., Qiu, X., Xu, H., Takai, Y., Tashiro, K., Shimasaki, Y., Oshima, Y., Adipogenesis of perfluorooctanesulfonate (pfos) on japanese medaka (oryzias latipes) embryo using ovo-nanoinjection-mRNA seq analysis, Journal of the Faculty of Agriculture, Kyushu University, 10.1038/s41598-020-60002-9, 65, 2, 295-303, 2020.06, [URL].
15. Yujiro Higuchi, Hitomi Matsufuji, Masanari Tanuma, Takatoshi Arakawa, Kazuki Mori, Chihaya Yamada, Risa Shofia, Emiko Matsunaga, Kosuke Tashiro, Shinya Fushinobu, Kaoru Takegawa, Identification and characterization of a novel β-D-galactosidase that releases pyruvylated galactose , Scientific reports, 10.1038/s41598-020-60002-9, 10, 1, 2020.12, [URL].
16. Saeko Adachi, Takahiro Hamoya, Gen Fujii, Takumi Narita, Masami Komiya, Shingo Miyamoto, Yurie Kurokawa, Maiko Takahashi, Tetsuji Takayama, Hideki Ishikawa, Kosuke Tashiro, Michihiro Mutoh, Theracurmin inhibits intestinal polyp development in Apc-mutant mice by inhibiting inflammation-related factors, Cancer Science, 10.1111/cas.14329, 111, 4, 1367-1374, 2020.04, [URL], Colorectal cancer (CRC) is the second leading cause of cancer death worldwide. Therefore, it is important to establish useful methods for preventing CRC. One prevention strategy involves the use of cancer chemopreventive agents, including functional foods. We focused on the well-known cancer chemopreventive agent curcumin, which is derived from turmeric. However, curcumin has the disadvantage of being poorly soluble in water due to its high hydrophobicity. To overcome this problem, the formation of submicron particles with surface controlled technology has been applied to curcumin to give it remarkably improved water solubility, and this derived compound is named Theracurmin. To date, the preventive effects of Theracurmin on hereditary intestinal carcinogenesis have not been elucidated. Thus, we used Apc-mutant mice, a model of familial adenomatous polyposis, to evaluate the effects of Theracurmin. First, we showed that treatment with 10-20 µM Theracurmin for 24 hours reduced nuclear factor-κB (NF-κB) transcriptional activity in human colon cancer DLD-1 and HCT116 cells. However, treatment with curcumin mixed in water did not change the NF-κB promoter transcriptional activity. As NF-κB is a regulator of inflammation-related factors, we next investigated the downstream targets of NF-κB: monocyte chemoattractant protein-1 (MCP-1) and interleukin (IL)-6. We found that treatment with 500 ppm Theracurmin for 8 weeks inhibited intestinal polyp development and suppressed MCP-1 and IL-6 mRNA expression levels in the parts of the intestine with polyps. This report provides a proof of concept for the ongoing Theracurmin human trial (J-CAP-C study)..
17. Khanh Dung Pham, Yosuke Shida, Atsushi Miyata, Takeru Takamizawa, Yoshiyuki Suzuki, Satoshi Ara, Harutake Yamazaki, Kazuo Masaki, Kazuki Mori, Sachiyo Aburatani, Hideki Hirakawa, Kosuke Tashiro, Satoru Kuhara, Hiroaki Takaku, Wataru Ogasawara, Effect of light on carotenoid and lipid production in the oleaginous yeast Rhodosporidium toruloides, Bioscience, Biotechnology and Biochemistry, 10.1080/09168451.2020.1740581, 2020.01, [URL], The oleaginous yeast Rhodosporodium toruloides is receiving widespread attention as an alternative energy source for biofuels due to its unicellular nature, high growth rate and because it can be fermented on a large-scale. In this study, R. toruloides was cultured under both light and dark conditions in order to understand the light response involved in lipid and carotenoid biosynthesis. Our results from phenotype and gene expression analysis showed that R. toruloides responded to light by producing darker pigmentation with an associated increase in carotenoid production. Whilst there was no observable difference in lipid production, slight changes in the fatty acid composition were recorded. Furthermore, a two-step response was found in three genes (GGPSI, CAR1, and CAR2) under light conditions and the expression of the gene encoding the photoreceptor CRY1 was similarly affected..
18. G. Han, Y. Ouchi, T. Hirota, S. Haraguchi, T. Miyazaki, T. Arakawa, N. Masuhara, W. Mizunoya, R. Tatsumi, K. Tashiro, T. Bungo, M. Furuse, V. S. Chowdhury, Effects of l -leucine in ovo feeding on thermotolerance, growth and amino acid metabolism under heat stress in broilers, Animal, 10.1017/S1751731120000464, 2020.01, [URL], Recently, we found that in ovo feeding of l-leucine (l-Leu) afforded thermotolerance, stimulated lipid metabolism and modified amino acid metabolism in male broiler chicks. However, the effects of in ovo feeding of l-Leu on thermoregulation and growth performance until marketing age of broilers are still unknown. In this study, we investigated the effects of in ovo feeding of l-Leu on body weight (BW) gain under control thermoneutral temperature or chronic heat stress. We measured changes of body temperature and food intake, organ weight, as well as amino acid metabolism and plasma metabolites under acute and chronic heat stress in broilers. A total of 168 fertilized Chunky broiler eggs were randomly divided into 2 treatment groups in experiments. The eggs were in ovo fed with l-Leu (34.5 μmol/500 μl per egg) or sterile water (500 μl/egg) during incubation. After hatching, male broilers were selected and assigned seven to nine replicates (one bird/replicate) in each group for heat challenge experiments. Broilers (29- or 30-day-old) were exposed to acute heat stress (30 ± 1°C) for 120 min or a chronic heat cyclic and continued heat stress (over 30 ± 1°C; ages, 15 to 44 days). In ovo feeding of l-Leu caused a significant suppression of enhanced body temperature without affecting food intake, plasma triacylglycerol, non-esterified fatty acids, ketone bodies, glucose, lactic acid or thyroid hormones under acute heat stress. Daily body temperature was significantly increased by l-Leu in ovo feeding under chronic heat stress. Interestingly, in ovo feeding of l-Leu caused a significantly higher daily BW gain compared with that of the control group under chronic heat stress. Moreover, some essential amino acids, including Leu and isoleucine, were significantly increased in the liver and decreased in the plasma by l-Leu in ovo feeding under acute heat stress. These results suggested that l-Leu in ovo feeding afforded thermotolerance to broilers under acute heat stress mainly through changing amino acid metabolism until marketing age..
19. Jiro Nakayama, Koichi Watanabe, Jiahui Jiang, Kazunori Matsuda, Shiou Huei Chao, Pri Haryono, Orawan La-ongkham, Martinus Agus Sarwoko, I. Nengah Sujaya, Liang Zhao, Kang Ting Chen, Yen Po Chen, Hsueh Hui Chiu, Tomoko Hidaka, Ning Xin Huang, Chikako Kiyohara, Takashi Kurakawa, Naoshige Sakamoto, Kenji Sonomoto, Kousuke Tashiro, Hirokazu Tsuji, Ming Ju Chen, Vichai Leelavatcharamas, Chii Cherng Liao, Sunee Nitisinprasert, Endang S. Rahayu, Fa Zheng Ren, Ying Chieh Tsai, Yuan Kun Lee, Diversity in gut bacterial community of school-age children in Asia (Scientific Reports, (2015), 5, 1, (8397), 10.1038/srep08397), Scientific reports, 10.1038/s41598-019-42780-z, 9, 1, 2019.12, [URL], A correction has been published and is appended to both the HTML and PDF versions of this paper. The error has not been fixed in the paper..
20. Guofeng Han, Hui Yang, Yunhao Wang, Shogo Haraguchi, Takuro Miyazaki, Takashi Bungo, Kosuke Tashiro, Mitsuhiro Furuse, Vishwajit S. Chowdhury, L-Leucine increases the daily body temperature and affords thermotolerance in broiler chicks, Asian-Australasian Journal of Animal Sciences, 10.5713/ajas.18.0677, 32, 6, 842-848, 2019.06, [URL], Objective: Heat stress poses an increasing threat for poultry production. Some amino acids have been found to play critical roles in affording thermotolerance. Recently, it was found that in ovo administration of L-leucine (L-Leu) altered amino acid metabolism and afforded thermotolerance in heat-exposed broiler chicks. Methods: In this study, two doses (35 and 70 μmol/egg) of L-Leu were administered in ovo on embryonic day 7 to determine their effect on rectal temperature (RT), body weight (BW) and thyroid hormones at hatching. Changes in RT, BW, and thermotolerance in post-hatched chicks were also analyzed. Results: It was found that in ovo administration of L-Leu dose-dependently reduced RT and plasma thyroxine (T4) level just after hatching. In post-hatched neonatal broiler chicks, however, the higher dose of L-Leu administered in ovo significantly increased RT without affecting BW gain. In chicks that had been exposed to heat stress, the RT was significantly lowered by in ovo administration of L-Leu (high dose) in comparison with the control chicks under the same high ambient temperature (HT: 35°C±1°C, 120 min). Conclusion: In ovo administration of L-Leu in a high dose contributed to an increased daily body temperature and afforded thermotolerance under HT in neonatal broiler chicks..
21. Yuka Sugihara, Shiori Onoue, Kosuke Tashiro, Mikako Sato, Takanori Hasegawa, Yoshinori Katakura, Carnosine induces intestinal cells to secrete exosomes that activate neuronal cells, PloS one, 10.1371/journal.pone.0217394, 14, 5, 2019.05, [URL], Recently, we showed that imidazole dipeptide such as carnosine contained abundantly in chicken breast meat improves brain function in a double-blind randomized controlled trial. However, the underlying molecular mechanisms remain unknown. Here, we investigated whether carnosine activates intestinal epithelial cells and induces the secretion of factors that activate brain function. We focused on exosomes derived from intestinal epithelial cells as mediators of brain-gut interaction. Results showed that exosomes derived from Caco-2 cells treated with carnosine significantly induced neurite growth in SH-SY5Y cells. To clarify the molecular basis of this finding, we performed integrated analysis of microRNAs (miRNAs) with altered expression in exosomes in response to carnosine treatment and mRNAs with altered expression in target cells in response to exosome treatment to identify related miRNAs and their target genes. The combination of miR-6769-5p and its target gene ATXN1 was found to be involved in the exosome-induced activation of neuronal cells..
22. Y. Nakashima, M. Kounoura, C. Malasuk, K. Nakakubo, N. Watanabe, S. Iwata, K. Morita, Y. Oki, S. Kuhara, K. Tashiro, Y. Nakanishi, Continuous cell culture monitoring using a compact microplate reader with a silicone optical technology-based spatial filter, Review of Scientific Instruments, 10.1063/1.5054824, 90, 3, 2019.04, [URL], Continuous cell monitoring is very important for the maintenance and control of cell multiplication and differentiation. This paper presents a compact microplate reader that is able to continuously measure a 24-well microplate (6 × 4 wells) using the optical absorption measurement method. The 24-channel plate reader consisted of a spatial filter, light emitting diode light source, and color sensors and was similarly sized with the cell culture microwell plates. A spatial filter was previously fabricated by our group using silicone optical technology (SOT). This SOT-based spatial filter has an excellent noise reduction effect. Light reflection at the optical path interface can be absorbed and only forward light can be transmitted; accordingly, a larger S/N ratio than that of conventional optical systems is expected. The fabricated 24-channel plate reader permits real-time cell monitoring during cultivation on the clean bench and in cell culture conditions by incorporating the SOT spatial filter. Using the device, it was possible to continuously evaluate the concentration and pH of reagents in the 24 wells in real time. Moreover, cell activity and protein production were detectable using the device. These results suggest that the newly fabricated device is a promising tool for the evaluation of cell behaviors for cell management..
23. G. Han, H. Yang, Y. Wang, R. Zhang, K. Tashiro, T. Bungo, M. Furuse, V. S. Chowdhury, Effects of in ovo feeding of L-leucine on amino acids metabolism and heat-shock protein-70, and -90 mRNA expression in heat-exposed chicks, Poultry science, 10.3382/ps/pey444, 98, 3, 1243-1253, 2019.05, [URL], Recently, we found that in ovo feeding of L-leucine (L-Leu) stimulated the metabolism of lipids and afforded thermotolerance in male Chunky broiler chicks. In this study, we investigated the effects of feeding L-Leu in ovo on the metabolism of amino acids and on the cellular stress response mainly in the central and peripheral tissues in neonatal male broiler chicks and partly in embryonic tissues. Chicks (9 d old) were exposed to high ambient temperature (HT: 35 ± 1°C) or control thermoneutral temperature (CT: 28 ± 1°C) for 180 min. The ambient temperatures were based on our recent reports and the recommendation of the Chunky broiler manual in which 28°C has been suggested as a normal ambient temperature for 5 to 9-d-old broiler chicks. In ovo feeding of L-Leu caused a significant (P < 0.05) decline in diencephalic arginine concentrations but it increased the diencephalic and plasma lysine concentrations when compared with the control chicks under HT. Notably, in ovo feeding of L-Leu significantly (P < 0.05) attenuated the increment of hepatic arginine compared with the control chicks under HT. Interestingly, in ovo feeding of L-Leu significantly (P < 0.05) attenuated the diencephalic gene expression of heat-shock protein (HSP) -70 and -90 in heat-exposed chicks. The gene expressions of mammalian target of rapamycin (mTOR) and its downstream genes (ribosomal protein S6 kinase (S6K1) and eukaryotic initiation factor 4E binding protein 1 (4E-BP1)) in the central and peripheral tissues were not influenced in the chicks under heat stress. We found that the gene expressions of mTOR, S6K1, and 4E-BP1 were significantly (P < 0.05) stimulated only in the embryonic breast muscle, and not in the other embryonic tissues, by in ovo feeding of L-Leu. In conclusion, in ovo feeding of L-Leu caused a change in the metabolism of amino acids in response to heat stress in broiler chicks. Attenuated gene expressions of HSP-70 and -90 under heat stress further suggests that in ovo feeding of L-Leu may afford thermotolerance in broilers..
24. Hiroki Hirasawa, Koki Shioya, Kazuki Mori, Kosuke Tashiro, Sachiyo Aburatani, Yosuke Shida, Satoru Kuhara, Wataru Ogasawara, Cellulase productivity of Trichoderma reesei mutants developed in Japan varies with varying pH conditions, Journal of Bioscience and Bioengineering, 10.1016/j.jbiosc.2019.03.005, 2019.01, [URL], The ascomycete Trichoderma reesei is known to produce a variety of cellulases and hemicellulases and the hyper-cellulolytic mutants of this fungus are useful as industrial cellulase producers. In Japan, PC-3-7, derived from the early mutant QM9414, is well-known as a cellulase hyperproducing mutant. In addition to the productivity of enzymes, the composition of secreted enzymes greatly influences biomass saccharification. Therefore, we evaluated the cellulase productivity of T. reesei mutants in Japan at different pH as a factor influencing enzyme production. At higher pH values, QM9414 exhibited reduced cellulase productivity whereas PC-3-7 maintained high cellulase productivity and gene expression at the transcriptional level. The gene encoding the pH-responsive transcription factor PACI did not mutate in PC-3-7, and its expression pattern against different pH conditions was similar between QM9414 and PC-3-7. Furthermore, the deletion of pac1 encoding PACI caused different expression patterns of cellulase genes between QM9414 and PC-3-7. Therefore, we suggest that T. reesei possesses a pH-responsive cellulase production mechanism that is different from the PACI-related mechanism. Finally, we identified that N-25, a strain developed at an early stage of mutant development acquired cellulase productivity at a higher pH. In this investigation, we also found and tested candidate genes possibly affecting pH response using comparative genome analysis..
25. Mai Morishita, Akitsu Masuda, Hiroaki Mon, Man Lee, Takahiro Kusakabe, Kosuke Tashiro, Chisa Yasunaga-Aoki, Kazuhiro Iiyama, Identification of an insecticidal toxin produced by Enterobacter sp. strain 532 isolated from diseased Bombyx mori silkworms, FEMS microbiology letters, 10.1093/femsle/fny295, 366, 2, 2019.01, [URL], Although Enterobacter sp. 532 shows pathogenicity in Bombyx mori, the insecticidal mechanisms are unclear. Here, we identified and characterised an insecticidal protein from Enterobacter. The insecticidal protein was purified from the strain and inoculated into B. mori larvae. Intracellular proteins were prepared, purified and separated by preparative native polyacrylamide gel electrophoresis (PAGE); one protein band had insecticidal activity. Sodium dodecyl sulfate-PAGE showed the presence of several bands, indicating that the insecticidal protein formed a complex. Peptide mass fingerprinting of a prominent 255.3-kDa band revealed 64 peptides that matched one protein with 33.0% sequence coverage. This protein was a homologue of the A component of the toxin complex (Tc), and the VRP1 domain was conserved; thus, the gene was named itcA (insecticidal toxin complex A). In the itcA downstream region, B and C component gene homologues were found, and these genes were located on an 86.2-kb contig sequence. Two repA genes and 27 genes related to conjugation transfer of plasmids were located on the contig, suggesting that the contig originated from a mobilisable plasmid. Therefore, these findings suggested that the strain may have acquired the Tc genes by horizontal transfer. This is the first description of Tc produced by the genus Enterobacter..
26. Masatoshi Matsunami, Miyuki Suzuki, Yoshikazu Haramoto, Akimasa Fukui, Takeshi Inoue, Katsushi Yamaguchi, Ikuo Uchiyama, Kazuki Mori, Kosuke Tashiro, Yuzuru Ito, Takashi Takeuchi, Ken Ichi T. Suzuki, Kiyokazu Agata, Shuji Shigenobu, Toshinori Hayashi, A comprehensive reference transcriptome resource for the Iberian ribbed newt Pleurodeles waltl, an emerging model for developmental and regeneration biology, DNA Research, 10.1093/dnares/dsz003, 26, 3, 217-229, 2019.01, [URL], Urodele newts have unique biological properties, notably including prominent regeneration ability. The Iberian ribbed newt, Pleurodeles waltl, is a promising model amphibian distinguished by ease of breeding and efficient transgenic and genome editing methods. However, limited genetic information is available for P. waltl. We conducted an intensive transcriptome analysis of P. waltl using RNA-sequencing to build and annotate gene models. We generated 1.2 billion Illumina reads from a wide variety of samples across 12 different tissues/organs, unfertilized egg, and embryos at eight different developmental stages. These reads were assembled into 1,395,387 contigs, from which 202,788 non-redundant ORF models were constructed. The set is expected to cover a large fraction of P. waltl protein-coding genes, as confirmed by BUSCO analysis, where 98% of universal single-copy orthologs were identified. Ortholog analyses revealed the gene repertoire evolution of urodele amphibians. Using the gene set as a reference, gene network analysis identified regeneration-, developmental-stage-, and tissue-specific co-expressed gene modules. Our transcriptome resource is expected to enhance future research employing this emerging model animal for regeneration research as well as for investigations in other areas including developmental biology, stem cell biology, and cancer research. These data are available via our portal website, iNewt (http://www.nibb.ac.jp/imori/main/)..
27. Ryo Ozuru, Shohei Wakao, Takahiro Tsuji, Naoya Ohara, Takashi Matsuba, Muhammad Y. Amuran, Junko Isobe, Morio Iino, Naoki Nishida, Sari Matsumoto, Kimiharu Iwadate, Noriko Konishi, Kaori Yasuda, Kosuke Tashiro, Misato Hida, Arisato Yadoiwa, Shinsuke Kato, Eijiro Yamashita, Sohkichi Matsumoto, Yoichi Kurozawa, Mari Dezawa, Jun Fujii, Rescue from Stx2-Producing E. coli-Associated Encephalopathy by Intravenous Injection of Muse Cells in NOD-SCID Mice, Molecular Therapy, 10.1016/j.ymthe.2019.09.023, 2019.01, [URL], Shiga toxin-producing Escherichia coli (STEC) causes hemorrhagic colitis, hemolytic uremic syndrome, and acute encephalopathies that may lead to sudden death or severe neurologic sequelae. Current treatments, including immunoglobulin G (IgG) immunoadsorption, plasma exchange, steroid pulse therapy, and the monoclonal antibody eculizumab, have limited effects against the severe neurologic sequelae. Multilineage-differentiating stress-enduring (Muse) cells are endogenous reparative non-tumorigenic stem cells that naturally reside in the body and are currently under clinical trials for regenerative medicine. When administered intravenously, Musecells accumulate to the damaged tissue, where they exert anti-inflammatory, anti-apoptotic, anti-fibrotic, and immunomodulatory effects, and replace damaged cells by differentiating into tissue-constituent cells. Here, severely immunocompromised non-obese diabetic/severe combined immunodeficiency (NOD-SCID) mice orally inoculated with 9 × 109 colony-forming units of STEC O111 and treated 48 h later with intravenous injection of 5 × 104 Muse cells exhibited 100% survival and no severe after-effects of infection. Suppression of granulocyte-colony-stimulating factor (G-CSF) by RNAi abolished the beneficial effects of Muse cells, leading to a 40% death and significant body weight loss, suggesting the involvement of G-CSF in the beneficial effects of Muse cells in STEC-infected mice. Thus, intravenous administration of Muse cells could be a candidate therapeutic approach for preventing fatal encephalopathy after STEC infection..
28. Yujiro Higuchi, Hitomi Matsufuji, Masanari Tanuma, Takatoshi Arakawa, Kazuki Mori, Chihaya Yamada, Risa Shofia, Emiko Matsunaga, Kosuke Tashiro, Shinya Fushinobu, Kaoru Takegawa, Identification and characterization of a novel β-D-galactosidase that releases pyruvylated galactose, Scientific reports, 10.1038/s41598-018-30508-4, 8, 1, 2018.12, [URL], Pyruvyl modification of oligosaccharides is widely seen in both prokaryotes and eukaryotes. Although the biosynthetic mechanisms of pyruvylation have been investigated, enzymes that metabolize and degrade pyruvylated oligosaccharides are not well known. Here, we searched for a pyruvylated galactose (PvGal)-releasing enzyme by screening soil samples. We identified a Bacillus strain, as confirmed by the 16S ribosomal RNA gene analysis, that exhibited PvGal-ase activity toward p-nitrophenyl-β-D-pyruvylated galactopyranose (pNP-β-D-PvGal). Draft genome sequencing of this strain, named HMA207, identified three candidate genes encoding potential PvGal-ases, among which only the recombinant protein encoded by ORF1119 exhibited PvGal-ase activity. Although ORF1119 protein displayed broad substrate specificity for pNP sugars, pNP-β-D-PvGal was the most favorable substrate. The optimum pH for the ORF1119 PvGal-ase was determined as 7.5. A BLAST search suggested that ORF1119 homologs exist widely in bacteria. Among two homologs tested, BglC from Clostridium but not BglH from Bacillus showed PvGal-ase activity. Crystal structural analysis together with point mutation analysis revealed crucial amino acids for PvGal-ase activity. Moreover, ORF1119 protein catalyzed the hydrolysis of PvGal from galactomannan of Schizosaccharomyces pombe, suggesting that natural polysaccharides might be substrates of the PvGal-ase. This novel PvGal-catalyzing enzyme might be useful for glycoengineering projects to produce new oligosaccharide structures..
29. Hiroki Shibata, Takahito Chijiwa, Naoko Oda-Ueda, Hitomi Nakamura, Kazuaki Yamaguchi, Shousaku Hattori, Kazumi Matsubara, Yoichi Matsuda, Akifumi Yamashita, Akiko Isomoto, Kazuki Mori, Kosuke Tashiro, Satoru Kuhara, Shinichi Yamasaki, Manabu Fujie, Hiroki Goto, Ryo Koyanagi, Takeshi Takeuchi, Yasuyuki Fukumaki, Motonori Ohno, Eiichi Shoguchi, Kanako Hisata, Noriyuki Satoh, Tomohisa Ogawa, The habu genome reveals accelerated evolution of venom protein genes, Scientific reports, 10.1038/s41598-018-28749-4, 8, 1, 2018.12, [URL], Evolution of novel traits is a challenging subject in biological research. Several snake lineages developed elaborate venom systems to deliver complex protein mixtures for prey capture. To understand mechanisms involved in snake venom evolution, we decoded here the ~1.4-Gb genome of a habu, Protobothrops flavoviridis. We identified 60 snake venom protein genes (SV) and 224 non-venom paralogs (NV), belonging to 18 gene families. Molecular phylogeny reveals early divergence of SV and NV genes, suggesting that one of the four copies generated through two rounds of whole-genome duplication was modified for use as a toxin. Among them, both SV and NV genes in four major components were extensively duplicated after their diversification, but accelerated evolution is evident exclusively in the SV genes. Both venom-related SV and NV genes are significantly enriched in microchromosomes. The present study thus provides a genetic background for evolution of snake venom composition..
30. Sayed A.A. Musavi, Seiya Yamashita, Taisuke Fujihara, Hironori Masaka, Md Rashedul Islam, Sangwan Kim, Takafumi Gotoh, Manabu Kawahara, Kosuke Tashiro, Nobuhiko Yamauchi, Analysis of differentially expressed genes and the promoters in bovine endometrium throughout estrus cycle and early pregnancy, Animal Science Journal, 10.1111/asj.13091, 89, 11, 1609-1621, 2018.11, [URL], Endometrial gene expression is primarily regulated by the ovarian steroids and pregnancy recognition factors. This study was aimed to characterize differential expression genes (DEGs) in bovine endometrium together with the analysis of their promoter region. Bovine uteri at follicular stage (FS), luteal stage (LS), and implantation stage (IS) at Day 18 of pregnancy were collected. Total RNA extracted and prepared cDNA were then subjected to high-throughput sequencing. For promoter analysis, 1 kb upstream promoter region of each DEG was analyzed. The numbers of highly expressed DEGs were 496 and 597 at FS and LS, respectively. When compared the gene expression of IS with LS, 383 and 346 DEGs showed higher and lower expression at IS, respectively. It was also observed that 20–30 transcription factors (TFs) were included in each DEGs. In addition, promoter analyses estimated 150–160 TFs for each stage. DLX4 and interferon regulatory factor 4 (IRF4) at FS, and IRF5, IRF9, STAT1, and STAT2 at IS were in common to DEGs and estimated TFs, respectively. This study highlighted potential molecular mechanisms controlling endometrial function during estrus cycle and IS, which will further guide to better understand the endometrial functions in future studies..
31. Yujiro Higuchi, Hitomi Matsufuji, Kazuki Mori, Emiko Matsunaga, Kosuke Tashiro, Kaoru Takegawa, Draft genome sequence of Bacillus sp. HMA207, a strain that exhibits -D-galactosidase activity to release pyruvylated galactose, Microbiology Resource Announcements, 10.1128/MRA.01169-18, 7, 10, 2018.09, [URL], The genome sequence of the Bacillus sp. strain HMA207, the culture supernatant of which exhibited -D-galactosidase activity to release pyruvylated galactose (PvGal), was examined to identify a PvGal-ase-encoding gene. We report here the result of whole-genome shotgun sequencing, which revealed putative PvGal-ase genes..
32. Yasuhiro Kajiwara, Kazuki Mori, Kosuke Tashiro, Yujiro Higuchi, Kaoru Takegawa, Hideharu Takashita, Genomic sequence of Saccharomyces cerevisiae BAW-6, a yeast strain optimal for brewing barley shochu, Genome Announcements, 10.1128/genomeA.00228-18, 6, 14, 2018.04, [URL], Here, we report the draft genome sequence of Saccharomyces cerevisiae strain BAW-6, which is used for the production of barley shochu, a traditional Japanese spirit. This genomic information can be used to elucidate the genetic basis underlying the high alcohol production capacity and citric acid tolerance of shochu yeast..
33. Yukihiro Tashiro, Kosuke Kanda, Yuya Asakura, Toshihiko Kii, Huijun Cheng, Pramod Poudel, Yuki Okugawa, Kosuke Tashiro, Kenji Sakai, A unique autothermal thermophilic aerobic digestion process showing a dynamic transition of physicochemical and bacterial characteristics from the mesophilic to the thermophilic phase, Applied and Environmental Microbiology, 10.1128/AEM.02537-17, 84, 6, 2018.03, [URL], A unique autothermal thermophilic aerobic digestion (ATAD) process has been used to convert human excreta to liquid fertilizer in Japan. This study investigated the changes in physicochemical and bacterial community characteristics during the full-scale ATAD process operated for approximately 3 weeks in 2 different years. After initiating simultaneous aeration and mixing using an air-inducing circulator (aerator), the temperature autothermally increased rapidly in the first 1 to 2 days with exhaustive oxygen consumption, leading to a drastic decrease and gradual increase in oxidation-reduction potential in the first 2 days, reached > 50°C in the middle 4 to 6 days, and remained steady in the final phase. Volatile fatty acids were rapidly consumed and diminished in the first 2 days, whereas the ammonia nitrogen concentration was relatively stable during the process, despite a gradual pH increase to 9.3. Principal-coordinate analysis of 16S rRNA gene amplicons using next-generation sequencing divided the bacterial community structures into distinct clusters corresponding to three phases, and they were similar in the final phase in both years despite different transitions in the middle phase. The predominant phyla (closest species, dominancy) in the initial, middle, and final phases were Proteobacteria (Arcobacter trophiarum, 19 to 43%; Acinetobacter towneri, 6.3 to 30%), Bacteroidetes (Moheibacter sediminis, 43 to 54%), and Firmicutes (Thermaerobacter composti, 11 to 28%; Heliorestis baculata, 2.1 to 16%), respectively. Two predominant operational taxonomic units (OTUs) in the final phase showed very low similarities to the closest species, indicating that the process is unique compared with previously published ones. This unique process with three distinctive phases would be caused by the aerator with complete aeration..
34. Yibo Huang, Yujiro Higuchi, Kazuki Mori, Ryoko Yamashita, Nozomu Okino, Kosuke Tashiro, Kaoru Takegawa, Draft genome sequence of Sphingobacterium sp. strain HMA12, which encodes endo-β-Nacetylglucosaminidases and can specifically hydrolyze fucose-containing oligosaccharides, Genome Announcements, 10.1128/genomeA.01525-17, 6, 8, 2018.02, [URL], The genome sequence of the soil bacterium Sphingobacterium sp. strain HMA12, the culture supernatant of which exhibited endo-β-N-acetylglucosaminidase (ENGase) activity, was examined for ENGase-encoding genes. Here, we report the characterization of new genes of ENGases, obtained by whole-genome shotgun sequencing, that are capable of specifically hydrolyzing fucose-containing oligosaccharides..
35. Kazuki Mori, Kenta Shirasawa, Hitoshi Nogata, Chiharu Hirata, Kosuke Tashiro, Tsuyoshi Habu, Sangwan Kim, Shuichi Himeno, Satoru Kuhara, Hidetoshi Ikegami, Corrigendum
Identification of RAN1 orthologue associated with sex determination through whole genome sequencing analysis in fig (Ficus carica L.) (Scientific Reports, (2017), 7, 1, (41124), 10.1038/srep41124), Scientific reports, 10.1038/srep46784, 7, 1, 2017.09, [URL], Scientific Reports 7: Article number: 41124; published online: 25 January 2017; updated: 10 May 2017 This Article contains errors. In the legend of Figure 1: ‘(D) Genetics of sex determination in F. carica. G, dominant allele for gynoecious flowers short-style pistils’ Should read: ‘(D) Genetics of sex determination in F..
36. Shunichiro Takano, Midori Tuda, Keiji Takasu, Naruto Furuya, Yuya Imamura, Sangwan Kim, Kosuke Tashiro, Kazuhiro Iiyama, Matias Tavares, Acacio Cardoso Amaral, Unique clade of alphaproteobacterial endosymbionts induces complete cytoplasmic incompatibility in the coconut beetle, Proceedings of the National Academy of Sciences of the United States of America, 10.1073/pnas.1618094114, 114, 23, 6110-6115, 2017.06, [URL], Maternally inherited bacterial endosymbionts in arthropods manipulate host reproduction to increase the fitness of infected females. Cytoplasmic incompatibility (CI) is one such manipulation, in which uninfected females produce few or no offspring when they mate with infected males. To date, two bacterial endosymbionts, Wolbachia and Cardinium, have been reported as CI inducers. Only Wolbachia induces complete CI, which causes 100% offspring mortality in incompatible crosses. Here we report a third CI inducer that belongs to a unique clade of Alphaproteobacteria detected within the coconut beetle, Brontispa longissima. This beetle comprises two cryptic species, the Asian clade and the Pacific clade, which show incompatibility in hybrid crosses. Different bacterial endosymbionts, a unique clade of Alphaproteobacteria in the Pacific clade and Wolbachia in the Asian clade, induced bidirectional CI between hosts. The former induced complete CI (100% mortality), whereas the latter induced partial CI (70% mortality). Illumina MiSeq sequencing and denaturing gradient gel electrophoresis patterns showed that the predominant bacterium detected in the Pacific clade of B. longissima was this unique clade of Alphaproteobacteria alone, indicating that this endosymbiont was responsible for the complete CI. Sex distortion did not occur in any of the tested crosses. The 1,160 bp of 16S rRNA gene sequence obtained for this endosymbiont had only 89.3% identity with that of Wolbachia, indicating that it can be recognized as a distinct species. We discuss the potential use of this bacterium as a biological control agent..
37. Inoue, A., Obayashi, K., Sonoda, Y., (...), Kuhara, S., Tashiro, K., Regulation of matrix metalloproteinase-1 and alpha-smooth muscle actin expression by interleukin-1 alpha and tumour necrosis factor alpha in hepatic stellate cells, Cytotechnology, 69, 3, 461-468, 2017.06.
38. Emiko Matsunaga, Yujiro Higuchi, Kazuki Mori, Kosuke Tashiro, Kaoru Takegawa, Draft genome sequence of Streptomyces sp. JHA26, a strain that harbors a PA14 domain containing β-D-galactofuranosidase, Genome Announcements, 10.1128/genomeA.00190-17, 5, 15, 2017.04, [URL], The genome sequence of Streptomyces sp. strain JHA26, the culture supernatant of which exhibited β-D-galactofuranosidase (Galf-ase) activity, was analyzed to search for a Galf-ase-encoding gene. We report here the results of wholegenome shotgun sequencing and reveal the identity of a new Galf-ase gene..
39. Zainudin, M.H.M., Ramli, N., Hassan, M.A., Shirai, Y., Tashiro, K., Sakai, K., Tashiro, Y., Bacterial community shift for monitoring the co-composting of oil palm empty fruit bunch and palm oil mill effluent anaerobic sludge, Journal of Industrial Microbiology and Biotechnology, 10.1007/s10295-017-1916-1, 44, 6, 869-877, 2017.02.
40. Mori, K., Shirasawa, K., Nogata, H., Hirata, C., Tashiro, K., Habu, T., Kim, S., Himeno, S., Kuhara, S., Ikegami, H., Identification of RAN1 orthologue associated with sex determination through whole genome sequencing analysis in fig (Ficus carica L.), Scientific Reports, 10.1038/srep41124, 7, 41124, 2017.01.
41. Chen, K., Tsutsumi, Y., Yoshitake, S., Qiu, X., Xu, H., Hashiguchi, Y., Honda, M., Tashiro, K., Nakayama, K., Hano, T., Suzuki, N., Hayakawa, K., Shimasaki, Y., Oshima, Y., Alteration of development and gene expression induced by in ovo-nanoinjection of 3-hydroxybenzo[c]phenanthrene into Japanese medaka (Oryzias latipes) embryos, Aquatic Toxicology, 10.1016/j.aquatox.2016.11.020, 182, 194-204, 2017.01.
42. Kazuhiro Iiyama, Mai Morishita, Man Lee, Hiroaki Mon, Takahiro Kusakabe, Kosuke Tashiro, Taiki Akasaka, Chisa Yasunaga-Aoki, Kazuhisa Miyamoto, A reconsideration of the taxonomic position of two bacterial strains isolated from Flacherie-Diseased silkworms in 1965, Journal of Insect Biotechnology and Sericology, 10.11416/jibs.86.2_035, 86, 2, 35-41, 2017.01, [URL], Recent advances in bacterial characterization methodologies have made taxonomic categorization significantly more accurate. Here, we re-evaluated the position of bacterial strains (532 and 652) belonging to the genus Hafnia, isolated from flacherie-diseased silkworms in 1965. Phylogenetic analysis based on the 16S rRNA gene sequences of these strains suggests that they belong to genus Enterobacter. Using multilocus sequence analysis (MLSA), these strains were further classified to MLSA group A, which is a “core” group of Enterobacter containing E. cloacae (the type species of the genus). Although these strains were closely related to E. mori, E. tabaci, and E. asburiae, they also had other MLSA characteristics that distinguished them from these neighboring bacterial species. These data were supported by further biochemical analysis. Thus, it appears that the 532 and 652 strains isolated almost half a century ago belong to genus Enterobacter, and their unique characteristics strongly suggest that they are a novel bacterial species..
43. Emiko Matsunaga, Yujiro Higuchi, Kazuki Mori, Nao Yairo, Saki Toyota, Takuji Oka, Kosuke Tashiro, Kaoru Takegawa, Characterization of a PA14 domain-containing galactofuranose-specific β-D-galactofuranosidase from Streptomyces sp., Bioscience, Biotechnology and Biochemistry, 10.1080/09168451.2017.1300518, 81, 7, 1314-1319, 2017.01, [URL], As a constituent of polysaccharides and glycoconjugates, β-D-galactofuranose (Galf) exists in several pathogenic microorganisms. Although we recently identified a β-D-galactofuranosidase (Galf-ase) gene, ORF1110, in the Streptomyces strain JHA19, very little is known about the Galf-ase gene. Here, we characterized a strain, named JHA26, in the culture supernatant of which exhibited Galf-ase activity for 4-nitrophenyl β-D-galactofuranoside (pNP-β-D-Galf) as a substrate. Draft genome sequencing of the JHA26 strain revealed a putative gene, termed ORF0643, that encodes Galf-ase containing a PA14 domain, which is thought to function in substrate recognition. The recombinant protein expressed in Escherichia coli showed the Galf-specific Galf-ase activity and also released galactose residue of the polysaccharide galactomannan prepared from Aspergillus fumigatus, suggesting that this enzyme is an exo-type Galf-ase. BLAST searches using the amino acid sequences of ORF0643 and ORF1110 Galf-ases revealed two types of Galf-ases in Acti-nobacteria, suggesting that Galf-specific Galf-ases may exhibit discrete substrate specificities..
44. Giao Ngoc Nguyen, Yoshiyuki Yamagata, Yuko Shigematsu, Miyako Watanabe, Yuta Miyazaki, Kazuyuki Doi, Kosuke Tashiro, Satoru Kuhara, Hiroyuki Kanamori, Jianzhong Wu, Takashi Matsumoto, Hideshi Yasui, Atsushi Yoshimura, Duplication and loss of function of genes encoding RNA polymerase III subunit C4 causes hybrid incompatibility in rice, G3: Genes, Genomes, Genetics, 10.1534/g3.117.043943, 7, 8, 2565-2575, 2017.01, [URL], Reproductive barriers are commonly observed in both animals and plants, in which they maintain species integrity and contribute to speciation. This report shows that a combination of loss-offunction alleles at two duplicated loci, DUPLICATED GAMETOPHYTIC STERILITY 1 (DGS1) on chromosome 4 and DGS2 on chromosome 7, causes pollen sterility in hybrid progeny derived from an interspecific cross between cultivated rice, Oryza sativa, and an Asian annual wild rice, O. nivara. Male gametes carrying the DGS1 allele from O. nivara (DGS1-nivaras) and the DGS2 allele from O. sativa (DGS2-T65s) were sterile, but female gametes carrying the same genotype were fertile. We isolated the causal gene, which encodes a protein homologous to DNA-dependent RNA polymerase (RNAP) III subunit C4 (RPC4). RPC4 facilitates the transcription of 5S rRNAs and tRNAs. The loss-of-function alleles at DGS1-nivaras and DGS2-T65s were caused by weak or nonexpression of RPC4 and an absence of RPC4, respectively. Phylogenetic analysis demonstrated that gene duplication of RPC4 at DGS1 and DGS2 was a recent event that occurred after divergence of the ancestral population of Oryza from other Poaceae or during diversification of AA-genome species..
45. Tashiro, Y., Tabata, H., Itahara, A., Shimizu, N., Tashiro, K., Sakai, K., Unique hyper-thermal composting process in Kagoshima City forms distinct bacterial community structures, Journal of Bioscience and Bioengineering, 10.1016/j.jbiosc.2016.04.006, 122, 5, 606-612, 2016.11.
46. Sakata, M., Seno, M., Matsusaka, H., Takahashi, K., Nakamura, Y., Yamagata, Y., Angeles, E.R., Mochizuki, T., Kumamaru, T., Sato, M., Enomoto, A., Tashiro, K., Kuhara, S., Satoh, H., Yoshimura, A., Development and evaluation of rice giant embryo mutants for high oil content originated from a high-yielding cultivar ‘Mizuhochikara’, Breeding Science, 10.1270/jsbbs.15135, 66, 3, 425-433, 2016.05.
47. Yamagami, K., Islam, M.R., Yoshii, Y., Mori, K., Tashiro, K., Yamauchi, N., Preimplantation embryo-secreted factors modulate maternal gene expression in rat uterus, Cell and Tissue Research, 10.1007/s00441-015-2336-z, 364, 2, 453-463, 2016.05.
48. Morita, H., Toh, H., Oshima, K., Nakano, A., Hano, C., Yoshida, S., Nguyen, T.T.T., Wulijideligen, Tashiro, K., Arakawa, K., Miyamoto, T., Draft genome sequence of leuconostoc mesenteroides 406 isolated from the traditional fermented mare milk airag in Tuv Aimag,Mongolia, Genome Announcements, 10.1128/genomeA.00166-16, 4, 2, e00166-16, 2016.03.
49. Morita, H., Toh, H., Oshima, K., Nakano, A., Hano, C., Yoshida, S., Bolormaa, T., Burenjargal, S., Nguyen, C.T.K., Tashiro, K., Arakawa, K., Miyamotoa, T., Draft genome sequence of leuconostoc mesenteroides 213m0, isolated from traditional fermented mare milk airag in bulgan aimag,Mongolia, Genome Announcements, 10.1128/genomeA.00178-16, 4, 2, e00178-16, 2016.03.
50. Nagayoshi, Y., Kumagae, K., Mori, K., Tashiro, K., Nakamura, A., Fujino, Y., Hiromasa, Y., Iwamoto, T., Kuhara, S., Ohshima, T., Doi, K., Physiological properties and genome structure of the hyperthermophilic filamentous phage φOH3 which infects Thermus thermophilus HB8, Frontiers in Microbiology, 10.3389/fmicb.2016.00050, 7, FEB, 2016.02.
51. Inoue, A., Obayashi, K., Sonoda, Y., Nakamura, A., Ueno, T., Kuhara, S., Tashiro, K., Regulation of matrix metalloproteinase-1 and alpha-smooth muscle actin expression by interleukin-1 alpha and tumour necrosis factor alpha in hepatic stellate cells, Cytotechnology, 10.1007/s10616-016-9948-3, 1-8, 2016.01.
52. Toh, H., Nakano, A., Nguyen, C.T.K., Mimura, I., Arakawa, K., Tashiro, K., Kikusui, T., Morita, H., Draft genome sequence of coccoid Lactobacillus equigenerosi NRIC 0697T isolated from the gastrointestinal tracts of healthy thoroughbreds, Genome Announcements, 10.1128/genomeA.01679-15, 4, 1, e01679-15, 2016.01.
53. Hikima, J.-I., Sakai, M., Aoki, T., Takeyama, H., Hawke, J., Mori, K., Tashiro, K., Kuhara, S., Draft genome sequence of the fish pathogen Mycobacterium pseudoshottsii strain JCM15466, a species closely related to M. marinum, Genome Announcements, 10.1128/genomeA.01630-15, 4, 1, e01630-15, 2016.01.
54. Takagi, M., Nakano, A., Toh, H., Oshima, K., Arakawa, K., Nakajima, F., Tashiro, K., Kikusui, T., Yanagida, F., Morita, H., Draft genome sequence of Streptococcus orisasini SH06, isolated from a healthy thoroughbred gastrointestinal tract, Genome Announcements, 10.1128/genomeA.01566-15, 4, 1, e01566-15, 2016.01.
55. Nobuya Hayashi, Reoto Ono, Riku Nakano, Masaharu Shiratani, Kosuke Tashiro, Satoru Kuhara, Kaori Yasuda, Hiroko Hagiwara, DNA microarray analysis of plant seeds irradiated by active oxygen species in oxygen plasma, Plasma Medicine, 10.1615/PlasmaMed.2016018933, 6, 3-4, 459-471, 2016.01, [URL], Gene expressions in plant seeds irradiated by oxygen plasma were investigated using DNA microarray bioinformatics analysis to clarify the pathways responsible for growth enhancement of plants. Gene expressions involved in photosynthesis and energy production by active oxygen species in oxygen plasma affect the growth enhancement of plants. The growth enhancement effect is not passed on to the next generation, and there is no significant change in gene expression in second-generation seeds by the plasma irradiation. The observed growth enhancement of plants is brought about by epigenetics..
56. Riku Nakano, Kosuke Tashiro, Reona Aijima, Nobuya Hayashi, Effect of oxygen plasma irradiation on gene expression in plant seeds induced by active oxygen species, Plasma Medicine, 10.1615/PlasmaMed.2016019093, 6, 3-4, 303-313, 2016.01, [URL], We investigated the mechanism of gene expression in plant seeds induced by low-pressure oxygen radio frequency plasma irradiation using microarray analysis and quantification of DNA methylation. A decrease in the amount of gene expression of AT2G30620 indicated that the chromatin structure is modified by active oxygen species generated in oxygen plasma. The increase in the DNA methylation level in plant seeds was determined by using a DNA methylation quantification method. Gene expression in plant seeds induced by active oxygen species was influenced by the epigenetic variation of DNA methylation and chromatin structure..
57. Satoshi Watanabe, Reoto Ono, Nobuya Hayashi, Masaharu Shiratani, Kosuke Tashiro, Satoru Kuhara, Asami Inoue, Kaori Yasuda, Hiroko Hagiwara, Growth enhancement and gene expression of Arabidopsis thaliana irradiated with active oxygen species, Japanese Journal of Applied Physics, 10.7567/JJAP.55.07LG10, 55, 7S2, 2016.01, [URL], The characteristics of plant growth enhancement effect and the mechanism of the enhancement induced by plasma irradiation are investigated using various active species in plasma. Active oxygen species in oxygen plasma are effective for growth enhancement of plants. DNA microarray analysis of Arabidopsis thaliana indicates that the genes coding proteins that counter oxidative stresses by eliminating active oxygen species are expressed at significantly high levels. The size of plant cells increases owing to oxygen plasma irradiation. The increases in gene expression levels and cell size suggest that the increase in the expression level of the expansin protein is essential for plant growth enhancement phenomena..
58. Arakawa, F., Kimura, Y., Yoshida, N., Miyoshi, H., Doi, A., Yasuda, K., Nakajima, K., Kiyasu, J., Niino, D., Sugita, Y., Tashiro, K., Kuhara, S., Seto, M., Ohshima, K., Identification of miR-15b as a transformation-related factor in mantle cell lymphoma, International Journal of Oncology, 10.3892/ijo.2015.3295, 48, 2, 485-492, 2015.12.
59. Yamagami K, Islam MR, Yoshii Y, Mori K, KOSUKE TASHIRO, Nobuhiko Yamauchi, Preimplantation embryo-secreted factors modulate maternal gene expression in rat uterus, Cell Tissue Res. , 19, 2015.12.
60. Shida Y, Yamaguchi K, Nitta M, Nakamura A, Takahashi M, Kidokoro S, Mori K, KOSUKE TASHIRO, Satoru Kuhara, Matsuzawa T, Yaoi K, Sakamoto Y, Tanaka N, Morikawa Y, Ogasawara W, The impact of a single-nucleotide mutation of bgl2 on cellulase induction in a Trichoderma reesei mutant, Biotechnol Biofuels. , 8:230, 2015.12.
61. Ikegami, H., Habu, T., Mori, K., Nogata, H., Hirata, C., Hirashima, K., Tashiro, K., Kuhara, S., Erratum to: De novo sequencing and comparative analysis of expressed sequence tags from gynodioecious fig (Ficus carica L.) fruits: caprifig and common fig, Tree Genetics and Genomes, 10.1007/s11295-015-0958-7, 11, 6, 1, 2015.12.
62. Yosuke Shida, Kaori Yamaguchi, Mikiko Nitta, Ayana Nakamura, Machiko Takahashi, Shun Ichi Kidokoro, Kazuki Mori, Kosuke Tashiro, Satoru Kuhara, Tomohiko Matsuzawa, Katsuro Yaoi, Yasumitsu Sakamoto, Nobutada Tanaka, Yasushi Morikawa, Wataru Ogasawara, The impact of a single-nucleotide mutation of bgl2 on cellulase induction in a Trichoderma reesei mutant, Biotechnology for Biofuels, 10.1186/s13068-015-0420-y, 8, 1, 2015.12, [URL], Background: The filamentous fungus Trichoderma reesei (anamorph of Hypocrea jecorina) produces increased cellulase expression when grown on cellulose or its derivatives as a sole carbon source. It has been believed that β-glucosidases of T. reesei not only metabolize cellobiose but also contribute in the production of inducers of cellulase gene expression by their transglycosylation activity. The cellulase hyper-producing mutant PC-3-7 developed in Japan has enhanced cellulase production ability when cellobiose is used as the inducer. The comparative genomics analysis of PC-3-7 and its parent revealed a single-nucleotide mutation within the bgl2 gene encoding intracellular β-glucosidase II (BGLII/Cel1a), giving rise to an amino acid substitution in PC-3-7, which could potentially account for the enhanced cellulase expression when these strains are cultivated on cellulose and cellobiose. Results: To analyze the effects of the BGLII mutation in cellulase induction, we constructed both a bgl2 revertant and a disruptant. Enzymatic analysis of the transformant lysates showed that the strain expressing mutant BGLII exhibited weakened cellobiose hydrolytic activity, but produced some transglycosylation products, suggesting that the SNP in bgl2 strongly diminished cellobiase activity, but did not result in complete loss of function of BGLII. The analysis of the recombinant BGLII revealed that transglycosylation products might be oligosaccharides, composed probably of glucose linked β-1,4, β-1,3, or a mixture of both. PC-3-7 revertants of bgl2 exhibited reduced expression and inducibility of cellulase during growth on cellulose and cellobiose substrates. Furthermore, the effect of this bgl2 mutation was reproduced in the common strain QM9414 in which the transformants showed cellulase production comparable to that of PC-3-7. Conclusion: We conclude that BGLII plays an important role in cellulase induction in T. reesei and that the bgl2 mutation in PC-3-7 brought about enhanced cellulase expression on cellobiose. The results of the investigation using PC-3-7 suggested that other mutation(s) in PC-3-7 could also contribute to cellulase induction. Further investigation is essential to unravel the mechanism responsible for cellulase induction in T. reesei..
63. Araki H, Pang X, Komatsu N, Soejima M, Miyata N, Takaki M, Shigeru Muta, Sasada T, Noguchi M, Koda Y, Itoh K, Satoru Kuhara, KOSUKE TASHIRO, Haptoglobin promoter polymorphism rs5472 as a prognostic biomarker for peptide vaccine efficacy in castration-resistant prostate cancer patients, Cancer Immunol Immunother, 64, 64(12):1565-73, 2015.11.
64. Matsunaga E, Higuchi Y, Mori K, KOSUKE TASHIRO, Satoru Kuhara, Takegawa K, Draft Genome Sequence of Streptomyces sp. JHA19, a Strain That Possesses β-d-Galactofuranosidase Activity, Genome Announc, 8;3(5). pii: e01171-15, 2015.11.
65. Sakihara K, Maeda J, KOSUKE TASHIRO, Fujino Y, Satoru Kuhara, Ohshima T, Ogata S, Katsumi DOI, Draft Genome Sequence of Thiostrepton-Producing Streptomyces azureus ATCC 14921, Genome Announc, 22;3(5). pii: e01183-15, 2015.11.
66. Udono M, Fujii K, Harada G, Tsuzuki Y, Kadooka K, Zhang P, Fujii H, Amano M, Nishimura S, KOSUKE TASHIRO, Satoru Kuhara, Yoshinori Katakura, Impaired ATP6V0A2 expression contributes to Golgi dispersion and glycosylation changes in senescent cells., Sci Rep. , 27;5:17342, 2015.11.
67. Matsunaga E, Higuchi Y, Mori K, Yairo N, Oka T, Shinozuka S, KOSUKE TASHIRO, Izumi M, Satoru Kuhara, Takegawa K, Identification and Characterization of a Novel Galactofuranose-Specific β-D-Galactofuranosidase from Streptomyces Species, PLoS One, 10, 10(9):e0137230, 2015.09, Matsunaga E, Higuchi Y, Mori K, Yairo N, Oka T, Shinozuka S, Tashiro K, Izumi M, Kuhara S, Takegawa K.
68. Eguchi R, Yoshigai E, Koga T, Satoru Kuhara, KOSUKE TASHIRO, Spatiotemporal expression of Prdm genes during Xenopus development, Cytotechnology, 67, 67(4):711-9, 2015.07.
69. Abdul-Mutalib NA, Amin Nordin S, Osman M, Ishida N, KOSUKE TASHIRO, Sakai K, Yukihiro Tashiro, Maeda T, Shirai Y, Pyrosequencing analysis of microbial community and food-borne bacteria on restaurant cutting boards collected in Seri Kembangan, Malaysia, and their correlation with grades of food premises, Int J Food Microbiol., 4, 4;200:57-65, 2015.05.
70. Kazuhiro Iiyama, Mon H, Mori K, Mitsudome T, Lee JM, takahiro kusakabe, KOSUKE TASHIRO, Asano S, Chisa Yasunaga-Aoki, Characterization of KfrA proteins encoded by a plasmid of Paenibacillus popilliae ATCC 14706(T), Meta Gene, 20, 20;4:29-44, 2015.05.
71. Higuchi, Y., Mori, K., Suyama, A., Huang, Y., Tashiro, K., Kuhara, S., Takegawa, K., Draft genome sequence of Bacillus clausii AKU0647, a strain that produces endo-β-Nacetylglucosaminidase A, Genome Announcements, 10.1128/genomeA.00310-16, 4, 3, e00310-16 , 2015.05.
72. Keishi Kadooka, Kaoru Fujii, Takashi Matsumoto, Mikako Sato, Fumiki Marimatsu, KOSUKE TASHIRO, Satoru Kuhara, Yoshinori Katakura, Mechanisms and consequences of carnosine-induced activation of intestinal epithelial cells, Journal of Functional Foods, 13, 13, 32-37, 2015.03.
73. Nagayoshi K, Ueki T, KOSUKE TASHIRO, Mizuuchi Y, Manabe T, Araki H, Oda Y, Satoru Kuhara, Tanaka M, Galanin plays an important role in cancer invasiveness and is associated with poor prognosis in stage II colorectal cancer, Oncol Rep., 33(2):539-46, 539-546, 33(2) 539-46, 2015.02.
74. Nakayama, J., Watanabe, K., Jiang, J., Matsuda, K., Chao, S.-H., Haryono, P., La-Ongkham, O., Sarwoko, M.-A., Sujaya, I.N., Zhao, L., Chen, K.-T., Chen, Y.-P., Chiu, H.-H., Hidaka, T., Huang, N.-X., Kiyohara, C., Kurakawa, T., Sakamoto, N., Kenji Sonomoto, Diversity in gut bacterial community of school-age children in Asia, Scientific Reports, 10.1038/srep08397, Volume 5, 8397, 2015.02, Asia differs substantially among and within its regions populated by diverse ethnic groups, which maintain their own respective cultures and dietary habits. To address the diversity in their gut microbiota, we characterized the bacterial community in fecal samples obtained from 303 school-age children living in urban or rural regions in five countries spanning temperate and tropical areas of Asia. The microbiota profiled for the 303 subjects were classified into two enterotype-like clusters, each driven by Prevotella (P-type) or Bifidobacterium/Bacteroides (BB-type), respectively. Majority in China, Japan and Taiwan harbored BB-type, whereas those from Indonesia and Khon Kaen in Thailand mainly harbored P-type. The P-type microbiota was characterized by a more conserved bacterial community sharing a greater number of type-specific phylotypes. Predictive metagenomics suggests higher and lower activity of carbohydrate digestion and bile acid biosynthesis, respectively, in P-type subjects, reflecting their high intake of diets rich in resistant starch. Random-forest analysis classified their fecal species community as mirroring location of resident country, suggesting eco-geographical factors shaping gut microbiota. In particular, children living in Japan harbored a less diversified microbiota with high abundance of Bifidobacterium and less number of potentially pathogenic bacteria, which may reflect their living environment and unique diet. © 2015 Macmillan Publishers Limited..
75. Futagami T, Mori K, Wada S, Ida H, Kajiwara Y, Takashita H, Tashiro K, Yamada O, Omori T, Kuhara S, Goto M., Transcriptomic analysis of temperature responses of Aspergillus kawachii during barley koji production., Appl Environ Microbiol, 12, 2014.12.
76. Hashikawa K, Yasumoto S, Nakashima K, Arakawa F, Kiyasu J, Kimura Y, Saruta H, Nakama T, Yasuda K, Tashiro K, Kuhara S, Hashimoto T, Ohshima K., Microarray analysis of gene expression by microdissected epidermis and dermis in mycosis fungoides and adult T-cell leukemia/lymphoma., Int J Oncol., 45, 1200-1208, 2014.09.
77. Oba T, Kusumoto K, Kichise Y, Izumoto E, Nakayama S, Tashiro K, Kuhara S, Kitagaki H., Variations in mitochondrial membrane potential correlate with malic acid production by natural isolates of Saccharomyces cerevisiae sake strains., FEMS Yeast Res., 14, 789-796, 2014.08.
78. Kato K, Toh H, Sakamoto N, Mori K, Tashiro K, Hibi N, Sonomoto K, Nakayama J., Draft Genome Sequence of Lactobacillus namurensis Chizuka 01, Isolated from Nukadoko, a Pickling Bed of Fermented Rice Bran, Genome Announc., 2, e01263-1, 2014.06.
79. Makoto Chuma, Naoya Sakamoto, Akira Nakai, Shuhei Hige, Mitsuru Nakanishi, Mitsuteru Natsuizaka, Goki Suda, Takuya Sho, Kanako Hatanaka, Yoshihiro Matsuno, Hideki Yokoo, Toshiya Kamiyama, Akinobu Taketomi, Gen Fujii, Kosuke Tashiro, Yoko Hikiba, Mitsuaki Fujimoto, Masahiro Asaka, and Shin Maeda, Heat shock factor 1 accelerates hepatocellular carcinoma development by activating nuclear factor-κB/mitogen-activated protein kinase, Carcinogenesis, 35, 272-281, 2014.04.
80. Hirakawa H, Shirasawa K, Kosugi S, Tashiro K, Nakayama S, Yamada M, Kohara M, Watanabe A, Kishida Y, Fujishiro T, Tsuruoka H, Minami C, Sasamoto S, Kato M, Nanri K, Komaki A, Yanagi T, Guoxin Q, Maeda F, Ishikawa M, Kuhara S, Sato S, Tabata S, Isobe SN., Dissection of the octoploid strawberry genome by deep sequencing of the genomes of Fragaria species, DNA Res., 21, 169-181, 2014.04.
81. Miwa Sohda, Yoshio Misumi, Kosuke Tashiro, Manabu Yamazaki, Takashi Saku and Kimimitsu Oda, Identification of a soluble isoform of human IL-17RA generated by alternative splicing, Cytokine, 2013 Sep 28, 2013.09.
82. Kimura Y, Arakawa F, Kiyasu J, Miyoshi H, Yoshida M, Ichikawa A, Niino D, Sugita Y, Okamura T, Doi A, Yasuda K, Tashiro K, Kuhara S, Ohshima K, The Wnt signaling pathway and mitotic regulators in the initiation and evolution of mantle cell lymphoma: Gene expression analysis, Int. J. Oncol, 43(2):457-68, 2013.08.
83. Nakamura Y, Mori K, Saitoh K, Oshima K, Mekuchi M, Sugaya T, Shigenobu Y, Ojima N, Muta S, Fujiwara A, Yasuike M, Oohara I, Hirakawa H, Chowdhury VS, Kobayashi T, Nakajima K, Sano M, Wada T, Tashiro K, Ikeo K, Hattori M, Kuhara S, Gojobori T, Inouye K, Evolutionary changes of multiple visual pigment genes in the complete genome of Pacific bluefin tuna, Proc. Natl. Acad. Sci. USA., 110 (27) 11061-11066, 2013.06.
84. Pang X, Tashiro K, Eguchi R, Komatsu N, Sasada T, Itoh K, Kuhara S, Haptoglobin Proved a Prognostic Biomarker in Peripheral Blood of Patients with Personalized Peptide Vaccinations for Advanced Castration-Resistant Prostate Cancer., Biosci Biotechnol Biochem., 77(4):766-770, 2013.06.
85. Porciuncula Jde O, Furukawa T, Mori K, Shida Y, Hirakawa H, Tashiro K, Kuhara S, Nakagawa S, Morikawa Y, Ogasawara W., Single Nucleotide Polymorphism Analysis of a Trichoderma reesei Hyper-Cellulolytic Mutant Developed in Japan., Biosci Biotechnol Biochem., 77(3):534-43, 2013.04.
86. Ohtani K, Hirakawa H, Paredes-Sabja D, Tashiro K, Kuhara S, Sarker MR, Shimizu T., Unique regulatory mechanism of sporulation and enterotoxin production in Clostridium perfringens., Journal of Bacteriology, in press, 2013.04.
87. Jairin J, Kobayashi T, Yamagata Y, Sanada-Morimura S, Mori K, Tashiro K, Kuhara S, Kuwazaki S, Urio M, Suetsugu Y, Yamamoto K, Matsumura M, Yasui H, A simple sequence repeat- and single-nucleotide polymorphism-based genetic linkage map of the brown planthopper, Nilaparvata lugens., DNA Res., 20(1):17-30, 2013.02.
88. Doi K, Mori K, Tashiro K, Fujino Y, Nagayoshi Y, Hayashi Y, Kuhara S, Ohshima T., Draft Genome Sequence of Pediococcus lolii NGRI 0510Q(T) Isolated from Ryegrass Silage., Genome Announc., 1(1). pii: e00156-12, 2013.01.
89. Yoshikazu Chujo, Namiki Fujii, Naoyuki Okita, Tomokazu Konishi, Takumi Narita, Atsushi Yamada, Yushi Haruyama, Kosuke Tashiro, Takuya Chiba, Isao Shimokawa & Yoshikazu Higami, Caloric restriction-associated remodeling of rat white adipose tissue: Effects on the growth hormone/insulin-like growth factor-1 axis, sterol regulatory element binding protein-1 and macrophage infiltration, AGE., in press, 2012.07.
90. Yoshikazu Chujo, Namiki Fujii, Naoyuki Okita, Tomokazu Konishi, Takumi Narita, Atsushi Yamada, Yushi Haruyama, Kosuke Tashiro, Takuya Chiba, Isao Shimokawa & Yoshikazu Higami, Caloric restriction-associated remodeling of rat white adipose tissue: Effects on the growth hormone/insulin-like growth factor-1 axis, sterol regulatory element binding protein-1 and macrophage infiltration, AGE., in press, 2012.07.
91. Yoshida S, Arakawa F, Higuchi F, Ishibashi Y, Goto M, Sugita Y, Nomura Y, Niino D, Shimizu K, Aoki R, Hashikawa K, Kimura Y, Yasuda K, Tashiro K, Kuhara S, Nagata K, Ohshima K., Gene expression analysis of rheumatoid arthritis synovial lining regions by cDNA microarray combined with laser microdissection: up-regulation of inflammation-associated STAT1, IRF1, CXCL9, CXCL10, and CCL5., Scand J Rheumatol., 41, 170-9., 2012.05.
92. Hurley D, Araki H, Tamada Y, Dunmore B, Sanders D, Humphreys S, Affara M, Imoto S, Yasuda K, Tomiyasu Y, Tashiro K, Savoie C, Cho V, Smith S, Kuhara S, Miyano S, Charnock-Jones DS, Crampin EJ, Print CG., Gene network inference and visualization tools for biologists: application to new human transcriptome datasets, Nucleic Acids Res., 40, 2377-98, 2012.04.
93. Matsuzawa T; Mori K., Kadowaki, T ., Shimada, M., Tashiro K., Kuhara S., Inagawa H., Soma G., Takegawa K., Genome Sequence of Pantoea agglomerans Strain IG1, JOURNAL OF BACTERIOLOGY, 194, 1258-1259, 2012.03.
94. Mishina T, Fuchimukai K, Igarashi K, Tashiro K, Shiokawa K., Modification of secondary head-forming activity of microinjected ∆β-catenin mRNA by co-injected spermine and spermidine in Xenopus early embryos, Amino Acids, 42, 791-801, 2012.01.
95. Futagami T, Mori K, Yamashita A, Wada S, Kajiwara Y, Takashita H, Omori T, Takegawa K, Tashiro K, Kuhara S, Goto M., Genome Sequence of the White Koji Mold Aspergillus kawachii IFO 4308, Used for Brewing the Japanese Distilled Spirit Shochu, EUKARYOTIC CELL, 10, 1586-1587, 2011.11.
96. Komatsu N, Matsueda S, Tashiro K, Ioji T,Shichijo S, Noguchi M, Yamada A, Doi A, Suekane S, Moriya F, Matsuoka K, Kuhara S, Itoh K, Sasada T, Gene expression profiles in peripheral blood as a biomarker in cancer patients receiving peptide vaccination, Cancer, 2011.10.
97. Oba T, Suenaga H, Nakayama S, Mitsuiki S, Kitagaki H, Tashiro K, Kuhara S, Properties of a High Malic Acid-Producing Strains of Saccharomyces cerevisiae Isolated from Sake Mash, Bioscience, Biotechnology, and Biochemistry, 75, 2025-2029, 2011.09.
98. Nakamura A, Ueno T, Yagi Y, Okuda K, Ogata T, Nakamura T, Torimura T, Iwamoto H, Ramadoss S, Sata M, Tsutsumi V, Yasuda K, Tomiyasu Y, Obayashi K, Tashiro K, Kuhara S., Human primary cultured hepatic stellate cells can be cryopreserved, Med Mol Morphol, 43(2):107-15, 2010.06.
99. Ohtani K, Hirakawa H, Tashiro K, Yoshizawa S, Kuhara S, Shimizu T, Identification of a two-component VirR/VirS regulon in Clostridium perfringens. Anaerobe., Anaerobe, 16(3):258-64, 2010.06.
100. Shiokawa K., Aso M., Kondo T., Takai J., Yoshida J., Nishina T., Fuchimukai K., Ogasawara T., Kariya T., Tashiro K., Igarashi K, Effects of S-adenosylmethionine decarboxylase, polyamines, amino acids, and weak Bases (amines and ammonia) on development and ribosomal RNA synthesis in Xenopus embryos., Amino Acids, 38, 439-449, 2010.06.
101. Araki H*, Tamada Y*, Imoto S*, Dunmore B, Sanders D, Humphrey S, Nagasaki M, Doi A, Nakanishi Y, Yasuda K, Tomiyasu Y, Tashiro K, Print C, Charnock-Jones DS, Kuhara S, Miyano S, Analysis of PPARalpha-dependent and PPARalpha-independent transcript regulation following fenofibrate treatment of human endothelial cells, Angiogenesis, 2009.12.
102. Tamada Y*, Araki H*, Imoto S*, Nagasaki M, Doi A, Nakanishi Y, Tomiyasu Y, Yasuda K, Dunmore B, Sanders D, Humphreys S, Print C, Charnock-Jones DS, Tashiro K, Kuhara S, Miyano S, Unraveling dynamic activities of autocrine pathways that control drug-response transcriptome networks, Pac Symp Biocompu, 251-63, 2009.10.
103. Noriko Nakanishi, Kosuke Tashiro, Satoru Kuhara, Tetsuya Hayashi, Nakaba Sugimoto, and Toru Tobe, Regulation of virulence by butyrate sensing in enterohemorrhagic Escherichia coli., Microbiology, 378, 428-432, 2009.04.
104. Emi Yoshigai, Shinobu Kawamura, Satoru Kuhara and Kosuke Tashiro, Trim36/Haprin plays a critical role in the arrangement of somites during Xenopus embryogenesis, Biochemical and Biophysical Research Communications, 378, 428-432, 2009.04.
105. Takayuki Fujiwara, Osami Misumi, Kosuke Tashiro, Yamato Yoshida, Keiji Nishida, Fumi Yagisawa, Sousuke Imamura, Masaki Yoshida, Yoshiyuki Mori, Kan Tanaka, Haruko Kuroiwa and Tsuneyoshi Kuroiwa, Periodic Gene Expression Patterns during the highly synchronized cell nucleus and organelle division cycles in the unicellular red alga Cyanidioschyzon merolae, DNA Research, 16, 59-72, 2009.04.
106. Kei Nakayama, Hisato Iwata, Lin Tao, Kurunthachalam Kannan, Mai Imoto, Eun-Young Kim, Kosuke Tashiro, and Shinsuke Tanabe, Potential effects of perfluorinated compounds in common cormorants from Lake Biwa, Japan: An implication from the hepatic gene expression profiles by microarray, Environmental Toxicology and Chemistry, 27, 2378–2386, 2008.11.
107. Takahiro Oba, Kosuke Tashiro and Satoru Kuhara, Trifluoroleucine-resistant mutant of Saccharomyces cerevisiae also exhibits pleiotropic drug resistance, Annals of Microbiology, 58(2) 293-296, 2008.10.
108. Takahiro Oba, Hikaru Suenaga, Shigeru Muta, Kosuke Tashiro, Satoru Kuhara, Properties of a Sucrose-tolerant Mutant of Saccharomyces cerevisiae, World Journal of Microbiology & Biotechnology, 24, 1233-1238, 2008.04.
109. Izutsu, K., Kurokawa, K., Tashiro, K., Kuhara, S., Hayashi, T., Honda, T., and Iida, T, Comparative genomic analysis using microarray demonstrates strong correlation between presence of Vp-PAI and pathogenicity in Kanagawa phenomenon-positive Vibrio parahaemolyticus, Infection and Immunity, 76(3), 1016-1023, 2008.04.
110. Yumihiko Yagi, Yuzuru Ito, Satoru Kuhara and Kosuke Tashiro, Cephalic hedgehog expression is regulated directly by Sox17 in endoderm development of Xenopus laevis, Cytotechnology, 2008.04.
111. Shinobu Kawamura, Emi Yoshigai, Satoru Kuhara and Kosuke Tashiro, smyd1 and smyd2 are expressed in muscle tissue in Xenopus laevis, Cytotechnology, 2008.04.
112. Koshiro Miura, Hidehiro Toh, Hideki Hirakawa, Manabu Sugii, Masayuki Murata, Kenta Nakai, Kosuke Tashiro, Satoru Kuhara, Yoshinao Azuma and Mutsunori Shirai, Genome-wide Analysis of Chlamydophila pneumoniae Gene Expression at the Late Stage of Infection, DNA Research, 15,83-91, 2008.04.
113. Shuji Muramatsu, Makoto Wakabayashi, Takeshi Ohno, Katsuhiko Amano, Rika Ooishi, Toshinori Sugahara, Satoshi Shiojiri, Kosuke Tashiro, Yutaka Suzuki, Riko Nishimura, Satoru Kuhara, Sumio Sugano, Toshiyuki Yoneda, Akio Matsuda, Functional gene screening system identified TRPV4 as a regulator of chondrogenic differentiation, J. Biol. Chem., 282(44) 32158-32167, 2007.11.
114. T. Fujiki, M. Maura, H. Shiraishi, S. Nishimura, Y. Imada, N. Uehara, K. Tashiro, S. Shirahata, Y. Katakura, TAK1 represses transcription of the human telomerase reverse transcriptase gene, Oncogene, 26, 5258-5266, 2007.09.
115. Satoshi Yoshida, Kaori Hashimoto, Emiko Shimada, Tatsuji Ishiguro, Toshiko Minato, Satoru Mizutani, Hiroyuki Yoshimoto, Kosuke Tashiro, Satoru Kuhara, Osamu Kobayashi, Identification of bottom-fermenting yeast genes expressed during larger beer fermentation, Yeast, 24, 599-606, 2007.05.
116. Takahiro Oba, Yoshitsugu Yamamoto, Shuji Nomiyama, Hikaru Suenaga, Shigeru Muta, Kosuke Tashiro, and Satoru Kuhara, Properties of s trifluoroleucine-resistant mutant of Saccharomyces cerevisiae, Biosci. Biotechnol. Biochem., 70(7), 1776-1779, 2006.07.
117. Kei Nakayama, Hisato Iwata, Eue-Young Kim, Kosuke Tashiro and Shinsuka Tanabe, Gene expression profiling in common cormorant liver with an oligo array: Assessing the potential toxic effects of environmental contaminants, Environmental Science Technology, 40, 1076-1083, 2006.07.
118. Yoshitoshi Ogura, Ken Kurokawa, Tadasuke Ooka, Kousuke Tashiro, Toru Tobe, Makoto Ohnishi, Keisuke Nakayama, Takuya Morimoto, Jun Terajima, Haruo Watanabe, Satoru Kuhara, and Tetsuya Hayashi, Complexity of the Genomic Diversity in Enterohemorrhagic Escherichia coli O157 Revealed by the Combinational Use of the O157 Sakai OligoDNA Microarray and the Whole Genome PCR scanning, DNA Research, 13, 3-14, 2006.01.
119. Noriko Nakanishi, Hiroyuki Abe, Yoshitoshi Ogura, Tetsuya Hayashi, Kosuke Tashiro, Satoru Kuhara, Nakaba Sugimoto and Toru Tobe, ppGpp with DksA controls gene expression in the locus of enterocyte effacement (LEE) pathogenicity island of enterohaemorrhagic Escherichia coli through activation of two virulence regulatory genes, Molecular Microbiology, 61(1), 194-205, 2006.01.
120. Toru Tobe, Hiroki Ando, Hiroko Ishikawa, Hiroyuki Abe, Kosuke Tashiro, Tetsuya Hayashi, Satoru Kuhara, Nakabe Sugimoto, Dual regulatory pathways integrating the RcsC-RcsD-RcsB signaling system control enterohaemorrhagic Escherichia coli patheogenicity, Molecular Microbiology, 10.1111/j.1365-2958.2005.04828.x, 58, 1, 320-333, 58, 32-333, 2005.01.
121. Takahiro Oba, Shuni Nomiyama, Hideki Hirakawa, Kosuke Tashiro, Satoru Kuhara, Asp578 in LEU4p is one of the key residues for leucine feedback inhibition release in Sake Yeast, Biosci. Biotechnol, Biochem, 10.1271/bbb.69.1270, 69, 7, 1270-1273, 69, 1270-1273, 2005.01.
122. Todaka Y, Wang Y, Tashiro K, Nakashima N, Nishimoto T, Sekiguchi T., Association of the GTP-Binding Protein Gtr1p With Rpc19p, a Shared Subunit of RNA Polymerase I and III in Yeast Saccharomyces cerevisiae, Genetics, 10.1534/genetics.105.042366, 170, 4, 1515-1524, 170, 1515-24, 2005.01.
123. Shizuka Uchida, Yuichiro Nishida, Kenji Satou, Shigeru Muta, Kosuke Tashiro, Satoru Kuhara, Detection and normalization of biases present in spotted cDNA microarray data: A composite method addressing dye, intensity-dependent, spatially-dependent, and print-order biases, DNA Research, 10.1093/dnares/12.1.1, 12, 1, 1-7, 12, 1-7, 2005.01.
124. Naoki Sato, Masayuki Ohmori, Masahiko Ikeuchi, Kosuke Tashiro, C.Peter Wolk, Takakazu Kaneko, Katsuhiko Okada, Mikio Tsuzuki, Shigeki Katoh, Shinobu Okamoto, Hidehisa Yoshimura, Takatomo Fujisawa, Ayako Kamei, Shizue Yoshihara, Rei Narikawa, Takashi Hamon, Use of segment-based microarray in the analysis of global gene expression in esponse to various environmental stresses in the syanobacterium Anabaena sp. PCC 7120, J. Gen. Appl. Microbiol., 10.2323/jgam.50.1, 50, 1, 1-8, 50, 1-8, 2004.01.
125. Takashi Sekiya, Shungo Adachi, Kazuyoshi Kohu, Tatsuya Yamada, Osamu, Higuchi, Yoichi Furukawa, Yusuke Nakamura, Tsutomu Nakamura, Kousuke Tashiro, Satoru Kuhara, Susumu Ohwada Tetsu Akiyama, Identification of BAMBI, an inhibitor of TGF-b signaling, as a target of the b-catenin pathway in colorectal tumor cells, Journal Biol. Chem., 279, 6840-6846, 2004.01.
126. S. Imoto, T. Higuchi, T. Goto, K. Tashiro, S. Kuhara S. Miyano, Combining microarrays and biological knowledge for estimating gene networks via Bayesian networks, JBCB, 2, 77-98, 2004.01.
127. Y. Tamada, S. Kim, H. Bannai, S. Imoto, K. Tashiro, S. Kuhara, S. Miyano, Combining Gene Expression Data with DNA Sequence Information for Estimating Gene Networks Using Bayesian Network Model, Genome Informatics, 14, 32-353, 2003.01.
128. T. Kamimura, H. Shimodaira, S. Imoto, S. Kim, K. Tashiro, S. Kuhara, S. Miyano, Multiscale Bootstrap of Gene Networks Based on Bayesian Neworks and Nonparametric Regression, Genome Informatics, 14, 350-35, 2003.01.
129. S. Imoto, T. Higuchi, T. Goto, K. Tashiro, S. Kuhara and S. Miyano, Combining microarrays and biological knowledge for estimating gene networks via Bayesian networks, Proc. 2nd IEEE Computer Society Bioinformatics Conference, 104-113, 2003.01.
130. Y. Tamada, S. Kim, H. Bannai, S. Imoto, K. Tashiro, S. Kuhara and S. Miyano, Estimating gene networks from gene expression data by combining Bayesian network model with promoter element detection, Bioinformatics, 10.1093/bioinformatics/btg1082, 19, II227-II236, 19, ii227-ii236, 2003.01.
131. S. Imoto, S. Kim, T. Goto, S. Aburatani, K. Tashiro, S. Kuhara and S. Miyano, Bayesian network and nonparametric heteroscedastic regression for nonlinear modeling of genetic network, Journal of Bioinformatics and Computational Biology, 1(2), 231-252, 2003.01.
132. K. Sakaki, K. Tashiro, S. Kuhara, K. Mihara, Response of genes associated with mitochondrial function to mild heat stress in yeast Saccharomyces cerevisiae, J. Biochemistry, 10.1093/jb/mvg155, 134, 3, 373-384, 134, 373-384, 2003.01.
133. S. Aburatani, K. Tashiro, C. J. Savoie, M. Nishizawa, K. Hayashi, Y. Ito, S. Muta, K. Yamamoto, M. Ogawa, A. Enomoto, M. Masaki, S. Watanabe, Y. Maki, Y. Takahashi, Y. Eguchi, Y. Sakaki, S. Kuhara, Discovery of novel transcription control relationships with gene regulatory networks generated from multiple-disruption full genome expression libraries, DNA Research, 10.1093/dnares/10.1.1, 10, 1, 1-8, 10, 1-8, 2003.01.
134. G. J. Savoie, S. Aburatani, S. Watanabe, Y. Eguchi, S. Muta, S. Imoto, S. Miyano, S. Kuhara, K. Tashiro, Use of gene networks from full genome microarray libraries to identify functionally relevant drug-affected genes and gene regulation cascades, DNA Research, 10.1093/dnares/10.1.19, 10, 1, 19-25, 10, 19-25, 2003.01.
135. S. Imoto, S. Y. Kim, H. Shimodaira, S. Aburatani, K. Tashiro, S. Kuhara, S. Miyano, Bootstrap Analysis of Gene Networks Based on Bayesian Networks and Nonparametric Regression, Genome Informatics, 13, 369-370, 2002.01.
136. Imoto, S,, Kim, S., Goto, T., Aburatani,S., Tashiro,K., Kuhara, S., and Miyano, S., Bayesian network and nonparametric heteroscedastic regression for nonlinear modeling of genetic network, IEEE Computer Society Bioinformatics Conference, Computer Society Press, 219-227, 2002.01.
137. S.Aburatani, K.Horimoto, H. Toh, A. Shinohara, K. Iida, K. Tashiro, S. Kuhara, Correspondence between a Genetic Network Inferred from Expression Profiles by Strategic Disruptions and the Known Regulatory Relationships, Genome Informatics, 12, 268-269, 2001.01.
138. Y.Ito, S.Kuhara and K.Tashiro, In synergy with noggin and follistatin, Xenopus nodal-related gene induces sonic hedgehog on notochord and floor plate, Biochem. Biophys. Res. Commun., 10.1006/bbrc.2001.4386, 281, 3, 714-719, 281, 714-719, 2001.01.
139. G.Arimura, K.Tashiro, S.Kuhara, T.Nishioka, R.Ozawa, J.Takabayash, Gene responses in bean leaves nduced by herbivory and Herbivore-induced volatiles, Biochemical Biophysical Research Communications, 10.1006/bbrc.2000.3672, 277, 2, 305-310, 277, 305-310, 2000.01.
140. T.Ito, K. Tashiro, S. Muta, R. Ozawa, T. Chiba, M. Nishizawa, K. Yamamoto, S. Kuhara and Y. Sakaki, Toward a protein-protein interaction map of the buddin yeast: A comprehensive system to examine two-hybrid interactions in all possible combinations between the yeast proteins, Proc. Natl. Acad. Sci. USA, 10.1073/pnas.97.3.1143, 97, 3, 1143-1147, 97, 1143-1147, 2000.01.
141. T. Nagano, Y. Itoh, K. Tashiro, Y. Kobayakawa and M. Sakai, Dorsal induction from dorsal vegetal cells in Xenopus occurs after mid-blastula transition, Mech. Devel, 10.1016/S0925-4773(00)00251-3, 93, 1-2, 3-14, 93, 3-14, 2000.01.
142. G. Fujii, R. Tsuchiya, Y. Itoh, K. Tashiro and S. Hirohashi, Molecular cloning and expression of Xenopus p300/CBP, Biochimica et Biophysica Acta, 10.1016/S0167-4781(98)00179-1, 1443, 1-2, 41-54, 1443, 41-5, 1998.01.
143. M. Kudo, E. Takayama, K. Tashiro, H. Fukamachi, T. Nakata, T. Tadakuma, K. Kitajima, Y. Inoue, K. Shiokawa, Cloning and expression of an a-2,8-polysialyltransferase (STX) from Xenopus laevis, Glycobiology, 8, 771-777, 1998.01.
144. T. Hojyo, O. Tooi, K. Tashiro, K. Shiokawa, Exogastrula formation in Xenopus laevis embryos depleted with maternal XmN-cadherin mRNA by antisense S-oligo DNA, Biochemical and Biophysical Research Communications, vol. 242
pp170-175, 1998.01.

九大関連コンテンツ

pure2017年10月2日から、「九州大学研究者情報」を補完するデータベースとして、Elsevier社の「Pure」による研究業績の公開を開始しました。
 
 
九州大学知的財産本部「九州大学Seeds集」