バイオデザイン研究グループ
研究成果(2007年以降)

著書

  1. Suenaga H, and Miyazaki K: Extradiol dioxygenases retrieved from the metagenome. Encyclopedia of Metagenomics. SpringerReference: Springer-Verlag GmbH, 2014
  2. 小池 英明、町田 雅之:菌類の事典,「基礎編13.1:ゲノム」「基礎編13.3.1:核内遺伝子」「基礎編13.5.10:二次代謝産物合成にかかわる遺伝子」,朝倉書店、2013
  3. Kojima N, Komatsu Y: Synthesis and application of highly reactive amino linkers for functional oligonucleotides. Current Protocols in Nucleic Acid Chemistry, Unit 4.48. 1-23, Egli M, Herdewijn P, Matsuda A, Sanghvi YS eds., John Wiley & Sons, Ltd., 2012
  4. 小池 英明、町田 雅之:発酵・醸造食品の最新技術と機能性Ⅱ,第20章 コウジ酸の生合成遺伝子,麹菌培養条件に応答した遺伝子発現機構,シーエムシー出版、2011
  5. Kojima N, Komatsu Y: Hydroxylamine, oxime and hydroxamic acid derivatives of nucleic acids. The chemistry of hydroxylamines, oximes and hydroxamic acids, Vol. 2, Chap. 13. Rappoport, Z, Liebman JF eds., John Wiley & Sons, Ltd., 807-851, 2010
  6. 藤森 一浩、河原林 裕:もっと知りたいPCR実験(塩基配列決定とPCR), 講談社サイエンティフィク, 2010
  7. 末永光、宮崎健太郎:芳香族化合物分解酵素、酵素利用技術体系, エヌ・ティー・エス, 2010
  8. Suenaga H, Miyazaki K: Exploration of a microbial community for novel genetic resources using activity-based screening of a metagenomic library.  Metagenomics and its Applications in Agriculture, Biomedicine and Environmental studies. Nova Science Publishers, Inc., 2010
  9. Suenaga H, Kanagawa T, Miyazaki K: A culture-independent novel approach to the monitoring of the activity and stability of activated sludge in wastewater treatment. Sludge: Types, Treatment Processes and Disposal. Nova Science Publishers, Inc., 2009

総説

  1. Matsuzawa T, Yaoi K: GH74 xyloglucanases: Structures and modes of activity. Trends in Glycoscience and Glycotechnology, 28:E63-E70.
  2. Umemura M, Koike H, Machida M: Motif-independent de novo detection of secondary metabolite gene clusters--toward identification from filamentous fungi. Frontiers in microbiology 6: 371, 2015
  3. 末永光:メタゲノム手法は微生物培養法を凌駕するのか?(未開拓遺伝子資源アクセスツールとしてのパフォーマンス比較)、化学と生物(日本農芸化学会誌)、53:488-490、2015
  4. 末永光、小山芳典:たかがアセンブリ?―次世代シーケンス解析はじめの一歩―、生物工学会誌、92:28、2014
  5. 奥田徹哉、近江谷克裕:抗体の標識/修飾 - 酵素標識 -    新機能抗体開発ハンドブック(浜窪隆雄監修)  (株)エヌ・ティー・エス、205-208, 2012
  6. 矢追克郎: キシログルカンとそのオリゴ糖、応用糖質科学(日本応用糖質科学会誌)2: 185-190、2012
  7. 小池 英明:糸状菌ゲノム解析への招待(2)、日本菌学会会報 53: 43-46、2012
  8. 小池英明、町田雅之:ゲノム科学に基づくコウジ酸生合成遺伝子の解明、バイオサイエンスとインダストリー 70-3:206-208、2012
  9. Suenaga H: Targeted metagenomics: a high-resolution metagenomics approach for specific gene clusters in complex microbial communities. Environ. Microbiol. 14: 13-22, 2012
  10. 古川鋼一、近藤裕史、奥田徹哉、古川圭子:グロボ系糖脂質欠損マウス  生物機能モデルと新しいリソース・リサーチツール Seriesモデル動物利用マニュアル(小幡裕一、城石俊彦編集) (株)エル・アイ・シー、311-313, 2011
  11. 扇谷悟、佐原健彦、栃木裕貴、佐藤なつ子、呉純、近江谷克裕:(2011):産業技術総合研究所における酵母を用いた研究の事例 -発現系・レポーターアッセイの実用化,組換え体の安全管理-  生物工学会誌 89, 539-543. 2011.
  12. 小池 英明:糸状菌ゲノム解析への招待(1)、日本菌学会会報,52,75-81、2011
  13. 末永光、宮崎健太郎:メタゲノム解析により明らかにされた環境中の芳香族化合物分解遺伝子の姿、化学と生物(日本農芸化学会誌)、48:100-106、 2010
  14. 伊藤公夫、末永光、宮崎健太郎、中村和憲:メタゲノム解析を利用した安水含有フェノール分解関連酵素の解明、用水と廃水、51:65-70、2009
  15. 藤森 一浩、平野 隆:次世代シーケンサー~その技術と拓く未来~、応用物理学会誌,78-12,1103-111, 2009
  16. 西村麻里江、町田 雅之、小池 英明:糸状菌ゲノム解析のインパクト、化学と生物,46-1, 32-40、2008
  17. 末永光、宮崎健太郎:酵素スクリーニングの新技術―メタゲノム解析の意義と課題―、生化学(日本生化学会誌)、80:666-669、2008
  18. 佐原健彦、扇谷悟:出芽酵母における低温条件を利用した蛋白質生産  バイオサイエンスとインダストリー 65, 130-131. 2007.
  19. 奥田徹哉、徳田典代、古川圭子、古川鋼一:細菌毒素と糖脂質受容体:O157感染を中心に. 実験医学増刊号 25, 949-953, 2007

原著論文

  1. Yagi H, Maehara T, TanakaT, Takehara R, Teramoto K, Yaoi K, Kaneko S: 4-O-Methyl modifications of glucuronic acids in xylans are indispensable for substrate discrimination by GH67 α-glucuronidase from Bacillus halodurans C-125. J. Appl. Glycosci. in press
  2. Maehara T, Yagi H, Sato T, Ohnishi-Kameyama M, Fujimoto Z, Kamino K, Kitamura K, John F, Yaoi K, Kaneko S: Characterization of a GH30 glucuronoxylan specific xylanase from Streptomyces turgidiscabies C56. Appl. Environ. Microbiol. 84: e01850-17, 2017
  3. Ishi T, Matsuoka K, Ono H, Ohnishi-Kameyama M, Yaoi K, Nakano Y, Ohtani M, Demura T, Iwai H, Sato S: Characterization of xylan in the early stages of secondary cell wall formation in tobacco bright yellow-2 cells. Carbohydrate Polymers 176: 2017
  4. Matsuzawa T*, Watanabe M*, Yaoi K: Improved thermostability of a metagenomic glucose-tolerant β-glycosidase based on its X-ray crystal structure. Appl. Microbiol. Biotechnol. 101: 8353-8363, 2017 (*contributed equally)
  5. Kameta N, Matsuzawa T, Yaoi K, Fukuda J, Masuda M: Glycolipid-based nanostructures with thermal-phase transition behavior functioning as solubilizers and refolding accelerators for protein aggregates. Soft Matter 13: 3084-3090, 2017
  6. Matsuzawa T, Kaneko S, Kishine N, Fujimoto Z, Yaoi K: Crystal structure of metagenomic β-xylosidase/α-L-arabinofuranosidase activated by calcium. J Biochem 162: 173-181, 2017
  7. Kameta N, Matsuzawa T, Yaoi K, Masuda M: Short Polyethylene Glycol Chains Densely Bound to Soft Nanotube Channels for Inhibition of Protein Aggregation. RSC Advances 6: 36744-36750, 2016
  8. Kobayashi Y, Sahara T, Suzuki T, Kamachi S, Matsushika A, Hoshino T, Ohgiya S, Kamagata Y, Fujimori KE: Genetic improvement of xylose metabolism by enhancing the expression of pentose phosphate pathway genes in Saccharomyces cerevisiae IR-2 for high-temperature ethanol production. J Ind Microbiol Biotechnol. 2017 Feb 8. doi: 10.1007/s10295-017-1912-5. [Epub ahead of print]
  9. Matsuzawa T, Yaoi K: Screening, identification, and characterization of a novel saccharide-stimulated β-glycosidase from a soil metagenomic library. Appl. Microbiol. Biotechnol. 101: 633-646, 2017
  10. Okuda, T: Altered expression of O-GlcNAc-modified proteins in a mouse model whose glycemic status is controlled by a low carbohydrate ketogenic diet. Data in Brief. 10, 449-453, 2017.
  11. Saika A, Koike H, Fukuoka T, Yamamoto S, Kishimoto T, Morita T: A Gene Cluster for Biosynthesis of Mannosylerythritol Lipids Consisted of 4-O-β-D-Mannopyranosyl-(2R,3S)-erythritol as the Sugar Moiety in a Basidiomycetous Yeast Pseudozyma tsukubaensis. PLoS One,11: e0157858-, 2016
  12. Sato Y, Koike H, Kondoh S, Hori T, Kanno M, Kimura T, Morita T, Kirimura K, Habe H: Draft Genome Sequence of Burkholderia stabilis LA20W, a Trehalose Producer that Uses Levulinic Acid as a Substrate. Genome announcements,4: e00795-16, 2016
  13. Koitabashi M, Yamashita Y, Koike H, Sato T, Moriwaki J, Morita T, Watanabe A, Yoshida S, Kitamoto H: Biodegradable Plastic-degrading Activity of Various Species of Paraphoma. Journal of Oleo Science,65: 621-627, 2016
  14. Okuda, T., and Morita, N: A very low carbohydrate ketogenic diet increases hepatic glycosphingolipids related to regulation of insulin signalling. J. Funct. Foods. 21, 70-74, 2016
  15. Matsuzawa T, Kaneko S, Yaoi K: Improvement of thermostability and activity of Trichoderma reesei endo-xylanase Xyn III on insoluble substrates. Appl. Microbiol. Biotechnol. 100: 8043-8051, 2016
  16. Matsuzawa T*, Jo T*, Uchiyama T, Manninen JA, Arakawa T, Miyazaki K, Fushinobu S, Yaoi K: Crystal structure and identification of a key amino acid for glucose tolerance, substrate specificity, and transglycosylation activity of metagenomic β-glucosidase Td2F2. FEBS J. 283: 2340-2353, 2016 (*contributed equally)
  17. Matsuzawa T, Kimura N, Suenaga H, Yaoi K: Screening, identification, and characterization of α-xylosidase from a soil metagenome. J. Biosci. Bioeng. 122: 393-399, 2016
  18. Matsuzawa T, Mitsuishi Y, Kameyama A, Yaoi K: Identification of the gene encoding isoprimeverose-producing oligoxyloglucan hydrolase in Aspergillus oryzae. J. Biol. Chem. 291: 5080-5087, 2016
  19. Tsujimoto Y, Saito R, Furuya H, Ishihara D, Sahara T, Kimura N, Nishino T, Tsuruoka N, Shigeri Y, Watanabe K: Caenibacillus caldisaponilyticus gen. nov., sp. nov., a thermophilic, spore-forming and phospholipid-degrading bacterium isolated from acidulocompost. Int J Syst Evol Microbiol 66:2684–2690, 2016.
  20. Shida Y, Yamaguchi K, Nitta M, Nakamura A, Takahashi M, Kidokoro S, Mori K, Tashio K, Kuhara S, Matsuzawa T, Yaoi K, Sakamoto Y, Tanaka N, Morikawa Y, Ogasawara W: The impact of a single-nucleotide mutation of bgl2 on cellulose induction in a Trichoderma reesei mutant. Biotechnol. Biofuels 8: 230, 2015
  21. Mori A, Hara S, Sugahara T, Kojima T, Iwasaki Y, Kawarasaki Y, Sahara T, Ohgiya S, Nakano H: Signal peptide optimization tool for the secretion of recombinant protein from Saccharomyces cerevisiae. J Biosci Bioeng 120:518–525, 2015.
  22. Matsuzawa T, Kaneko S, Yaoi K: Screening, identification, and characterization of a GH43 family β-xylosidase/α-arabinofuranosidase from a compost microbial metagenome. Appl. Microbiol. Biotechnol. 99: 8943-8954, 2015
  23. Matsuzawa T, Koike H, Saika A, Fukuoka T, Sato S, Habe H, Kitamoto D, Morita T: Draft genome sequence of the yeast Starmerella bombicola NBRC10243, a producer of sophorolipids, glycolipid biosurfactants. Genome announcements, 3: e00176-15, 2015
  24. Uchiyama T, Yaoi K, Miyazaki K: Glucose-tolerant β-glucosidase retrieved from a Kusaya gravy metagenome. Front. Microbiol. 6: 548, 2015
  25. Suenaga H, Yamazoe A, Hosoyama A, Kimura N, Hirose J, Watanabe T, Fujihara H, Futagami T, Goto M, and Furukawa K: Draft genome sequence of the polychlorinated biphenyl-degrading bacterium Pseudomonas putida KF703 (NBRC 110666). Genome Announcement 3:e00142. 2015
  26. Suenaga H, Yamazoe A, Hosoyama A, Kimura N, Hirose J, Watanabe T, Fujihara H, Futagami T, Goto M, and Furukawa K: Draft genome sequence of the polychlorinated biphenyl-degrading bacterium Cupriavidus bacilensis KF708 (NBRC 110671). Genome Announcement 3:e00143. 2015
  27. Wongwarangkana C, Fujimori KE, Akiba M, Kinoshita S, Teruya M, Nezuo M, Tsukahara M, Watabe S and Asakawa S: Deep sequencing, profiling and detailed annotation of microRNAs in Takifugu rubripes. BMC Genomics 16:457, 2015
  28. Watanabe T, Suzuki K, Sato I, Morita T, Koike H, Shinozaki Y, Ueda H, Koitabashi M, Kitamoto H: Simultaneous bioethanol distillery wastewater treatment and xylanase production by the phyllosphere yeast Pseudozyma antarctica GB-4 (0). AMB Express 5: 121-121, 2015
  29. Fujii T, Koike H, Sawayama S, Yano S, Inoue H:  Draft genome sequence of Talaromyces cellulolyticus Y-94, a source of lignocellulosic biomass-degrading enzymes. Genome announcements, 3: e00014-15, 2015
  30. Tamano K, Bruno KS, Koike H, Ishii T, Miura A, Umemura M, Baker SE, Machida M: Increased production of fatty acids by deletion of one of the six predicted acyl-CoA synthetases in Aspergillus oryzae. Appl. Microbiol. Biotech. 99: 3103-3113, 2015
  31. Tuomivaara ST, Yaoi K, O'Neill MA, York WS: Generation and structural validation of a library of diverse xyloglucan-derived oligosaccharides, including an update on xyloglucan nomenclature. Carbohydr. Res. 402: 56-66, 2015.
  32. Sahara T, Fujimori KE, Nezuo M, Tsukahara M, Tochigi Y, Ohgiya S, Tang Y-Q, Kida K, Taguchi H, Akamatsu T, Kamagata Y: Draft Genome Sequence of Saccharomyces cerevisiae NAM34-4C, a Lactic Acid-Assimilating Industrial Yeast Strain. Genome Announc 2:e01145–13–e01145–13, 2014.
  33. Sahara T, Fujimori KE, Nezuo M, Tsukahara M, Tochigi Y, Ohgiya S, Kamagata Y. Draft Genome Sequence of Saccharomyces cerevisiae IR-2, a Useful Industrial Strain for Highly Efficient Production of Bioethanol. Genome Announc 2:e01160–13–e01160–13, 2014.
  34. Suenaga H, Mizuta S, Miyazaki K, Yaoi K: Diversity of extradiol dioxygenases in aromatic-degrading microbial community explored using both culture-dependent and culture-independent approaches. FEMS Microbiol Ecol 90: 367-379, 2014
  35. Matsuzawa T, Saito Y, Yaoi K: Key amino acid residues for the endo-processive activity of GH74 xyloglucanase. FEBS Lett. 588(9): 1731-1738, 2014
  36. Morita T, Koike H, Hagiwara H, Ito E, Machida M, Sato S, Habe H, Kitamoto D: Genome and Transcriptome Analysis of the Basidiomycetous Yeast Pseudozyma antarctica Producing Extracellular Glycolipids. Mannosylerythritol Lipids. PLoS ONE 9:e86490, 2014
  37. Takeda I, Tamano K, Yamane N, Ishii T, Miura A, Umemura M, Terai G, Baker SE, Koike H, Machida M : Genome sequence of the mucoromycotina fungus Umbelopsis isabellina. an effective producer of lipids. Genome announcements 2: e00071-14, 2014
  38. Umemura M, Koike H, Nagano N, Ishii T, Kawano J, Yamane N, Kozone I, Horimoto K, Shin-ya K, Asai K, Yu J, Bennett JW, Machida M, MIDDAS-M: Motif-independent de novo detection of secondary metabolite gene clusters through the integration of genome sequencing and transcriptome data. PLoS ONE 8:e84082, 2014
  39. Umemura M, Nagano N, Koike H, Kawano J, Ishii T, Miyamura Y, Kikuchi M, Tamano K, Yu J, Shin-ya K, Machida M: Characterization of the biosynthetic gene cluster for the ribosomally synthesized cyclic peptide ustiloxin B in Aspergillus flavus. Fungal Genet Biol. 68:23-30, 2014
  40. Takeda I, Umemura M, Koike H, Asai K, Machida M: Motif-independent prediction of a secondary metabolism gene cluster using comparative genomics: Application to sequenced genomes of Aspergillus and ten other filamentous fungal species. DNA Research 21: dsu010, 2014
  41. Saika A, Koike H, Hori T, Fukuoka T, Sato S, Habe H, Kitamoto D, Morita T: Draft genome sequence of the yeast Pseudozyma antarctica type strain JCM10317, a producer of the glycolipid biosurfactants, mannosylerythritol lipids. Genome announcements 2: e00878-14, 2014
  42. Koike H, Aerts A, LaButti K, Grigoriev IV, Baker SE: Comparative genomics analysis of Trichoderma reesei strains. Industrial Biotechnology 9: 352-367, 2014
  43. Okuda, T., Fukui, A., and Morita, N: Altered expression of O-GlcNAc-modified proteins in a mouse model whose glycemic status is controlled by a low carbohydrate ketogenic diet. Glycoconj. J. 30, 781-789, 2013
  44. Yoshida K, Sakamoto S, Kawai T, Kobayashi Y, Sato K, Ichinose Y, Yaoi K, Akiyoshi-Endo M, Sato H, Takamizo T, Ohme-Takagi M, Mitsuda N: Engineering the Oryza sativa cell wall with rice NAC transcription factors regulating secondary wall formation. Frontiers in Plant Biotechnology 4:Article 383, 2013
  45. Sato S, Umemura M, Koike H, Habe H: Draft genome sequence of Gluconobacter frateurii NBRC 103465, a glyceric acid-producing strain. Genome Announcements 1:e00369-13, 2013
  46. Morita T, Koike H, Koyama Y, Hagiwara H, Ito E, Fukuoka T, Imura T, Machida M, Kitamoto D: Genome sequence of the basidiomycetous yeast Pseudozyma antarctica T-34, a producer of the glycolipid biosurfactants, mannosylerythritol lipids. Genome Announcements 1:e0006413, 2013
  47. Tamano K, Bruno KS, Karagiosis SA, Culley DE, Deng S, Collett JR, Umemura M, Koike H, Baker SE, Machida M: Increased production of fatty acids and triglycerides in Aspergillus oryzae by enhancing expressions of fatty acid synthesis-related genes. Appl Microbiol Biotech 97: 269-281, 2013
  48. Umemura M, Koyama Y, Takeda I, Hagiwara H, Ikegami T, Koike H, Machida M: Fine De novo sequencing of a fungal genome using only SOLiD short read data: verification on Aspergillus oryzae RIB40. PLOS One 8: e63673, 2013
  49. Uchiyama T, Miyazaki K, Yaoi K: Characterization of a Novel β-Glucosidase from a Compost microbial metagenome with strong transglycosylation activity. J Biol Chem, 288: 18325-18334, 2013
  50. Okuda, T., and Morita, N: A very low carbohydrate ketogenic diet prevents the progression of hepatic steatosis caused by hyperglycemia in a juvenile obese mouse model. Nutr. Diabetes 2, e50, 2012
  51. Umemura M, Koike H, Yamane N, Koyama Y, Satou Y, Kikuzato I, Teruya M, Tsukahara M, Imada Y, Wachi Y, Miwa Y, Yano S, Tamano K, Kawarabayasi Y, Fujimori KE, Machida M, Hirano T.: Comparative genome analysis between Aspergillus oryzae strains reveals close relationship between sites of mutation localization and regions of highly divergent genes among Aspergillus species. DNA RESEARCH 19: 375-382, 2012
  52. Ichinose H, Araki Y, Michikawa M, Harazono K, Yaoi K, Karita S, Kaneko S: Characterization of an endo-processive type xyloglucanase having β-1,4-glucan binding module and an endo-type xyloglucanase from Streptomyces avermitilis. Appl Environ Microbiol 78: 7939-7945, 2012
  53. Fujimori KE, Hazama K, Kawasaki T, Deguchi T, Yuba S: Intergenic region between TATA-box binding protein and proteasome subunit C3 genes of Medaka function as the bidirectional promoter in vitro and in vivo. Gene 511: 177-186, 2012
  54. Mie Y, Kowata K, Kojima N, Komatsu Y: Electrochemical properties of interstrand cross-linked DNA duplexes labeled with nile blue. Langmuir 28: 17211-17216, 2012
  55. Deguchi T, Fujimori KE, Kawasaki T, Maruyama K, Yuba S: In vivo visualization of the lymphatic vessels in pFLT4-EGFP transgenic medaka. Genesis 50: 625-634, 2012
  56. Yaoi K, Miyazaki K: Cloning and expression of isoprimeverose-producing oligoxyloglucan hydrolase from actinomycetes species, Oerskovia sp. Y1. J Appl Glycosci 59: 83-88, 2012
  57. Ichikawa K, Kojima N, Hirano Y, Takebayashi T, Kowata K, Komatsu Y: Interstrand cross-link of DNA by covalently linking a pair of abasic sites. Chem Commun48:2143-2145, 2012
  58. Mie Y, Kojima N, Kowata K, Komatsu Y: End-tether structure of DNA alters electron-transfer pathway of redox-labeled oligo-DNA duplex at electrode surface. Chem Lett 41:62-64, 2012
  59. Marui J, Yamane N, Ohashi-Kunihiro S, Ando T, Terabayashi Y, Sano M, Ohashi S, Ohshima E, Tachibana K, Higa Y, Nishimura M, Koike H, Machida M: Kojic acid biosynthesis in Aspergillus oryzae is regulated by a Zn(II)2Cys6 transcriptional activator and induced by kojic acid at the transcriptional level. J Biosci Bioeng. 112:40-3, 2011
  60. Terabayashi Y, Morita K, Park JY, Saito S, Shiina T, Inoko H, Ishiwata I, Fujimori KE, Hirano T: Construction of Japanese BAC library Yamato-2 (JY2): A set of 330K clone resources of damage-minimized DNA taken from a genetically established Japanese individual. Hum Cell. 24: 135-145, 2011
  61. Fujii R, Minami A, Tsukagoshi T, Sato N, Sahara T, Ohgiya S, Gomi K, Oikawa H: Total biosynthesis of diterpene aphidicolin, a specific inhibitor of DNA polymerase alpha: Heterologous expression of four biosynthetic genes in Aspergillus oryzae. Biosci Biotechnol Biochem 75:1813-1817, 2011
  62. Kojima N, Komatsu Y: Development of novel chemical reagents for reliable genetic analyses. Synthesiology English Ed.4: 1-8, 2011
  63. Okuda, T., Nakakita, S. I., and Nakayama, K: Structural characterization and dynamics of globotetraosylceramide in vascular endothelial cells under TNF-alpha stimulation. Glycoconj. J. 27, 287-296, 2010
  64. 小松康雄、小島直:遺伝子解析の精度向上と試薬の開発 ライフサイエンスに用いる化学試薬の製品化, シンセシオロジー 3:223-230, 2010
  65. Marui J, Ohashi-Kunihiro S, Ando T, Nishimura M, Koike H, Machida M: Penicillin biosynthesis in Aspergillus oryzae and its overproduction by genetic engineering. J Biosci Bioeng. 110:8-11, 2010
  66. Terabayashi Y, Sano M, Yamane N, Marui J, Tamano K, Sagara J, Dohmoto M, Oda K, Ohshima E, Tachibana K, Higa Y, Ohashi S, Koike H, Machida M: Identification and characterization of genes responsible for biosynthesis of kojic acid, an industrially important compound from Aspergillus oryzae. Fungal Genet Biol. 47:953-61, 2010
  67. Tochigi Y, Sato N, Sahara T, Wu C, Saito S, Irie T, Fujibuchi W, Goda T, Yamaji R, Ogawa M, Ohmiya Y, Ohgiya S: A sensitive and convenient yeast reporter assay for high-throughput analysis by using a secretory luciferase from Cypridina noctiluca. Analy Chemistry 82:5768-5776, 2010
  68. Marui J, Yoshimi A, Hagiwara D, Fujii-Watanabe Y, Oda K, Koike H, Tamano K, Ishii T, Sano M, Machida M, Abe K: Use of the Aspergillus oryzae actin gene promoter in a novel reporter system for exploring antifungal compounds and their target genes. Appl Microbiol Biotechnol. 87:1829-40, 2010
  69. Oda S, Mikami S, Urushihara U, Murata Y, Deguchi T, Kamei Y, Kitano T, Fujimori K, Yuba S, Todo T, Mitani H: Identification of a functional Medaka heat shock promoter and characterization of its ability to induce in vitro and in vivo exogenous gene expression in Medaka Zool Sci 27:410-415, 2010
  70. Kato Y, Ota K, Hidano Y, Azuma Y, Onaka T, Yaoi K, Mitsuishi Y: Further structural study of the xyloglucanase-derived eggplant xyloglucan oligo-saccharides. J Appl Glycosci 54: 265-268, 2010
  71. Suenaga H, Nonaka K, Fujihara H, Goto M, Furukawa K: Hybrid pseudomonads engineered by two-step homologous recombination acquire novel degradation abilities toward aromatics and polychlorinated biphenyls. Appl Microbiol Biotechnol 88: 915-923, 2010
  72. Kawashima, N., Tsuji, D., Okuda, T., Itoh, K. and Nakayama, K: Mechanism of abnormal growth in astrocytes derived from a mouse model of GM2 gangliosidosis. J. Neurochem. 111, 1031-1041, 2009
  73. Anas, A., Okuda, T., Kawashima, N., Nakayama, K., Itoh, T., Ishikawa, M. and Biju, V: Clathrin-Mediated Endocytosis of Quantum DotPeptide Conjugates in Living Cells. ACS Nano. 3, 2419-2429, 2009
  74. Okuda, T., Furukawa, K. and Nakayama, K: A novel, promoter-based, target specific assay identifies 2-deoxy-d-glucose as an inhibitor of the globotriaosylceramide biosynthesis. FEBS J. 276, 5191-5202, 2009
  75. Fujimori KE: Characterization of the regulatory region of the dopa decarboxylase gene in Medaka: an in vivo green fluorescent protein reporter assay combined with a simple TA-cloning method. Mol Biotech 41:224-235 , 2009
  76. Itoh J, Suyama M, Imamura Y, Deguchi T, Fujimori K, Yuba S, Kawarahayasi Y, Kawasaki T: Functional and comparative genomics analyses of pmp22 in medaka fish. BMC Neurosci 10:60, 2009
  77. Kamei Y, Suzuki M, Watanabe K, Fujimori K, Kawasaki T, Deguchi T, Yoneda Y, Todo T, Takagi S, Funatsu T, Yuba S: Infrared laser-mediated gene induction in targeted single cells in vivo, Nature Methods 6:79-81, 2009
  78. Deguchi T, Fujimori K.E. Kawasaki T., Ohgushi H., Yuba S.: Molecular cloning and gene expression of the prox1a and prox1b genes in the medaka Oryzias latipes. Gene Exp Patterns 9:341-347, 2009
  79. Deguchi T, Fujimori KE, Takashi K, Ohgushi H: Expression patterns of the Egr1 and Egr3 genes during medaka embryonic development. Gene Exp Patterns 9:209-214, 2009
  80. Yaoi K, Kondo H, Hiyoshi A, Noro N, Sugimoto H, Tsuda S, Miyazaki K: The crystal structure of a xyloglucan-specific endo-β-1,4-glucanase from Geotrichum sp. M128 xyloglucanase reveals a key amino acid residue for substrate specificity. FEBS J 276: 5094-5100, 2009
  81. Kojima N, Takebayashi T, Mikami A, Ohtsuka E, Komatsu Y: Construction of highly reactive probes for abasic site detection by introduction of an aromatic and a guanidine residue into an aminooxy group. J Am Chem Soc 131:13208-13209, 2009
  82. Kojima N, Takebayashi T, Mikami A, Ohtsuka E, Komatsu Y: Efficient synthesis of oligonucleotide conjugates on solid-support using an (aminoethoxycarbonyl)aminohexyl group for 5'-terminal modification. Bioorg Med Chem Lett19:2144-2147, 2009
  83. Kojima N, Takebayashi T, Mikami A, Ohtsuka E, Komatsu Y: Development of novel chemical probes to detect abasic sites in DNA. Nucleic Acids Symp Ser 53:45-46, 2009
  84. Suenaga H, Mizuta S, Miyazaki K: The molecular basis for adaptive evolution in novel extradiol dioxygenases retrieved from the metagenome. FEMS Microbiol Ecol 69: 472-480, 2009
  85. Suenaga H, Koyama Y, Miyakoshi M, Miyazaki R, Yano H, Sota M, Ohtsubo Y, Tsuda M, Miyazaki M: Novel organization of aromatic degradation pathway genes in a microbial community as revealed by metagenomic analysis. ISME J 3: 1335-1348, 2009
  86. Okuda, T. and Nakayama, K: Identification and characterization of the human Gb3/CD77 synthase gene promoter. Glycobiology 18, 1028-1035, 2008
  87. Tamano K, Sano M, Yamane N, Terabayashi Y, Toda T, Sunagawa M, Koike H, Hatamoto O, Umitsuki G, Takahashi T, Koyama Y, Asai R, Abe K, Machida M.: Transcriptional regulation of genes on the non-syntenic blocks of Aspergillus oryzae and its functional relationship to solid-state cultivation. Fungal Genet Biol. 45:139-51, 2008
  88. Kawasaki T, Saito K, Deguchi T, Fujimori KE, Tadokoro M, Yuba S, Ohgushi H, Kawarabayasi Y: Pharmacological characterization of isoproterenol-treated medaka fish. Pharmacol Res 58:348-355, 2008
  89. Fujimori KE, Kawasaki T, Deguchi T, Yuba S: Characterization of a nervous system-specific promoter for growth-associated protein 43 in Medaka (Oryzias latipes). Brain Res 1245:1-15, 2008
  90. MinSun K, Okuyama M, Yaoi K, Mitsuishi Y, Kim YM, Mori H, Kimura A: Glycoside hydrolase family 31 Escherichia coli α-xylosidase. Biocat Biotransform 26: 96-103, 2008
  91. Yamamoto S, Sahara T, Sato D, Kawasaki K, Ohgiya S, Inoue A, Ojima T: Catalytically important amino acid residues of abalone alginate lyase HdAly assessed by site-directed mutagenesis. Enzyme and Microbial Biotechnology 43:396-402, 2008
  92. Komatsu Y, Kojima N, Sugino M, Mikami A, Nonaka K, Fujinawa Y, Sugimoto T, Sato K, Matsubara K, Ohtsuka E: Novel amino linkers enabling efficient labeling and convenient purification of amino-modified oligonucleotides. Bioor Med Chem 16:941-949, 2008
  93. Kojima N, Takebayashi T, Mikami A, Sugino M, Ohtsuka E, Komatsu Y: Comparison of the chemical properties of a novel amino-linker with various amino modifications. Nucleic Acids Symp Ser52:463-464, 2008
  94. Komatsu Y, Kojima N, Takebayashi T, Mikami A, Sugino M, Ohtsuka E: Construction of an aminooxy derivative for RNA and DNA labeling. Nucleic Acids Symp Ser 52:393-394, 2008
  95. Mori T, Suenaga H, Miyazaki K: Metagenomic Approach to the Identification of UDP-Glucose 4-Epimerase as a Menadione Resistant Protein. Biosci Biotechnol Biochem 72: 1611-1614, 2008
  96. Mori T, Mizuta S, Suenaga H, Miyazaki K: Metagenomic screening for bleomycin resistance genes. Appl Environ Microbiol 74: 6803-6805. 2008
  97. Furukawa, K., Tajima, O., Okuda, T., Tokuda, N., and Furukawa, K: Knockout mice and glycolipids. COMPREHENSIVE GLYCOSCIENCE 4, 149-157, 2007.
  98. Okamura H, Yokoyama K, Koike H, Yamada M, Shimowasa A, Kabasawa M, Kawashima T, Suzuki M: A structural dode for discriminating between transcription signals revealed by the Feast/Famine regulatory protein DM1 in complex with ligands. Structure 15:1325-38, 2007
  99. Yokoyama K, Ishijima SA, Koike H, Kurihara C, Shimowasa A, Kabasawa M, Kawashima T, Suzuki M: Feast/Famine regulation by transcription factor FL11 for the survival of the hperthermophilic archaeon Pyrococcus OT3.  Structure 15:1542-54, 2007
  100. MinSunK, Okuyama M, Yaoi K, Mitsuishi Y, Kim YM, Mori H, Kimura A: Aglycone specificity of Escherichia coli α-xylosidase investigated by transxylosylation. FEBS J 274: 6074-6084,2007
  101. Ishida T, Yaoi K, Hiyoshi A, Igarashi K, Samejima M: Substrate recognition by glycoside hydrolase family 74 xyloglucanase from the basidiomycete Phanerochaete chrysosporium. FEBS J 274: 5727-5736,2007
  102. Yaoi K, Kondo H, Hiyoshi A, Noro N, Sugimoto H, Tsuda S, Mitsuishi Y, Miyazaki K: The structural basis for the exo-mode of action in GH74 oligoxyloglucan reducing end-specific cellobiohydrolase. J Mol Biol 370: 53-62, 2007
  103. Ishikawa H, Hoshino Y, Motoki Y, Kawahara T, Kitajima M, Kitami M, Watanabe A, Bravo A, Soberon M, Honda A, Yaoi K, Sato R: A system for the directed evolution of the insecticidal protein from Bacillus thuringiensis. Mol Biotechnol 36: 90-101,2007
  104. Yaoi K, Hiyoshi A, Mitsuishi Y: Screening, Purification, and Characterization of a Prokaryotic Isoprimeverose-producing Oligoxyloglucan Hydrolase from Oerskovia sp. Y1. J Appl Glycosci 54: 91-94, 2007
  105. Suenaga H, Ohnuki T, Miyazaki K: Functional Screening of metagenomic library for genes involved in microbial degradation of aromatic compounds. Environ Microbiol 9: 2289-2297, 2007

特許

国内

  1. 特願2017-006497(優先出願:特願2016-076125):生成物阻害耐性および基質阻害耐性を有するβ-グルコシダーゼ、それをコードする遺伝子(松沢智彦、渡邊真宏、矢追克郎) 2017年1月18日出願
  2. 特願2016-076125:生成物阻害耐性および基質阻害耐性を有するβ-グルコシダーゼ、それをコードする遺伝子(松沢智彦、矢追克郎) 2016年4月15日出願
  3. 特願2017-008703、MEL-Dの製造方法,森田友岳(8)、雜賀あずさ(12)、福岡徳馬(8)、小池英明(7)、北本大(5)、山本周平(30)、岸本高英(30),2017/01/20
  4. 特願2016-191438:モノアシル型MEL (森田友岳、雜賀あずさ、福岡徳馬、小池英明、北本大、山本周平、岸本高英) 2016年9月29日出願
  5. 特願2016-164104、 ストレス応答プロモーター、藤森一浩、小林洋介、佐原健彦、扇谷悟、鎌形洋一、H28.8.24
  6. 特願2016-140286(優先権出願、特願2015-142214):タンパク質発現用塩基配列及びそれを用いるタンパク質の製造方法 (町田雅之、小池英明、國永万保子、萩原央子、光澤 茂信、新川 智、田中 麻衣子) 2016年7月15日出願
  7. 特願2016-131142:含油廃水処理方法およびそれを用いた処理装置 (佐藤由也、小池英明、堀知行、稲葉知大、尾形敦、羽部浩) 2016年6月30日出願
  8. 特 5946149(登録):二次代謝系遺伝子を含む遺伝子クラスタの予測方法、予測プログラム及び予測装置 (町田雅之、梅村舞子、小池英明、竹田至)2016年6月10日登録
  9. 特願2016-112087:バイオサーファクタント産生組み換え微生物 (森田友岳、雜賀あずさ、小池英明、福岡徳馬、北本大、山本周平、岸本高英) 2016年6月3日出願
  10. 特願2016-062838:変異型キシロース代謝酵素とその利用(清家泰介、藤森一浩、小林洋介、佐原健彦、扇谷悟、鎌形洋一)2016年03月25日出願
  11. 特願2015-092216:耐熱性を有するキシラナーゼ(矢追克郎、松沢智彦)2015年4月28日出願
  12. 特開2015-033342:キシロースの発酵能が強化された酵母とその利用(扇谷 悟、鎌形 洋一、藤森 一浩、佐原 健彦、赤松 隆、田口久貴) H27/02/19公開
  13. 特許5598875号:排水中のカテコールの分解方法(末永光、宮崎健太郎、中村和憲、伊藤公夫)2014年8月登録
  14. 特許第5578598号:新規な芳香環水酸化酵素及びその遺伝子(末永光、宮崎健太郎)2014.07成立
  15. 特願2015-514756:糖鎖抗原の免疫誘導剤(奥田徹哉、清水弘樹)2014年5月2日 出願
  16. 特願2015-514757:シアリル化糖鎖を認識するモノクローナル抗体(奥田徹哉)2014年5月2日 出願
  17. 特許5548999号:カテコール分解酵素および排水中のカテコールの分解方法(末永光、宮崎健太郎、中村和憲、伊藤公夫)2014年5月登録
  18. 特許5549000号:カテコール分解酵素および排水中のカテコールの分解方法(末永光、宮崎健太郎、中村和憲、伊藤公夫)2014年5月登録
  19. 特許5392681号:高濃度のグルコース耐性を有するβ-グルコシダーゼ(宮崎健太郎、矢追克郎、内山拓)2013年10月25日登録
  20. 特許5219017号:カテコール分解酵素(末永光、宮崎健太郎、中村和憲、伊藤公夫)2013年3月登録
  21. 特許5196448号:アミノオキシ基を含有する反応性化合物(小松康雄、小島直、野中謙)2013年2月15日登録
  22. 特許5131828号:新規ブレオマイシン耐性遺伝子(宮崎健太郎、末永光、小山芳典、森智夫)2012年11月登録
  23. 特許5110580号:リンパ管可視化トランスジェニックメダカ及び該メダカを用いたリンパ管新生阻害薬のスクリーニング法(出口 友則、藤森 一浩、川﨑 隆史、弓場 俊輔) H24/10/19登録
  24. 特願2012-210044:二次代謝系遺伝子を含む遺伝子クラスタの予測方法、予測プログラム及び予測装置,(町田雅之、梅村舞子、小池英明、竹田至) 2012年9月24日出願
  25. 特願2013-211811:獣毛繊維の識別用プライマーと識別方法,(小池英明、山根倫子、町田雅之、吉岡陽一郎、佐野元昭)2012年9月24日出願
  26. 特許5083788号:オリゴヌクレオチドプローブ(小松康雄、小島直、野中謙、藤縄由美、橋田順也、武藤勇)2012年9月14日登録
  27. 特許5008067号:新規なイソプリメベロース生成加水分解酵素をコードする遺伝子、ならびに該酵素の製造方法(矢追克郎、三石安) 2012年6月8日登録
  28. 特願2011-284851:組換え微生物(劉 生浩、五十嵐 一暁、矢追克郎、宮崎健太郎)2011年12月27日出願
  29. 特許第4788942号:特定生物種検出のためのデオキシリボザイム(末永光、金川貴博)2011.07成立
  30. 特開2011-007644:血管内皮炎症を検出するための方法及びキット(奥田徹哉)2011年1月13日 公開
  31. 特願2011-053301:遺伝子クラスタ及び遺伝子の探索装置 (町田雅之、小池英明、梅村舞子、浅井潔、堀本勝久、光山統泰)
  32. 特願2011-053729(特願2010-212116 2010/09/22):遺伝子クラスタ及び遺伝子の探索、同定法,(町田雅之、小池英明、梅村舞子、浅井潔、堀本勝久、光山統泰)
  33. 特願2010-078134:グルコース存在下で活性を増加するβ-グルコシダーゼ(宮崎健太郎、矢追克郎、内山拓)2010年3月30日出願
  34. 特願2010-212116:遺伝子クラスタ及び遺伝子の探索、同定法,(町田雅之、小池英明、梅村舞子、浅井潔、堀本勝久、光山統泰
  35. 特許4336820号:オリゴヌクレオチドプローブ(小松康雄、小島 直、佐藤浩輔、野中 謙、藤縄由美)2009年7月10日成立
  36. 特許第4332630号:酵母由来プロモーターならびにこれを用いたベクターおよび発現系(佐原健彦、扇谷悟、合田孝子、川崎公誠)2009年7月3日成立
  37. 特願2010-064965(特願2009-070335 2009/03/23):コウジ酸の産生に必須の遺伝子を利用してコウジ酸の産生量を向上する方法,(町田雅之、小池英明、寺林靖宣、山根倫子、丸井淳一朗、大箸信一、佐野元昭、相良純一、織田健、北川治恵、比嘉良喬、立花國治、大島栄治)
  38. 特願2009-269544(特願2008-302411 2008/11/27):ミトコンドリアDNA可変領域塩基配列による水産魚介類の標識および識別のための方法,(平野隆、町田雅之、小池英明、添田 栄一)
  39. 特許4122428号:新規なキシログルカン分解酵素、それをコードする遺伝子、ならびに該酵素の製造方法(矢追克郎、三石安)2008年5月16日登録
  40. 特許4096089号:骨格筋不死化細胞に由来する知覚神経軸索伸長因子(藤森 一浩、波佐間 久美子、田口 隆久)2008/03/21
  41. 特許3837497号:新規なキシログルカンオリゴ糖分解酵素、それをコードする遺伝子、ならびに該酵素の製造方法(矢追克郎、三石安) 2006年8月11日登録

国外

  1. PCT/JP2016/061760(WIPO):マンノース移転酵素遺伝子、組換えベクター、形質転換体、1-O-β-マンノシルエリスリトールリピッドの製造方法 (森田友岳、羽部浩、北本大、小池英明、福岡徳馬、山本周平、岸本高英) 2016年4月12日PCT出願
  2. キシロースの発酵能が強化された酵母とその利用(扇谷 悟、鎌形 洋一、藤森 一浩、佐原 健彦、赤松 隆、田口久貴) PCT/JP2014/071109 (WIPO) H26/08/08出願
  3. IMMUNITY INDUCER FOR SACCHARIDE ANTIGENS(奥田徹哉、清水弘樹)14/888353 (US), 14791926.0 (EP) 2014年5月2日 出願
  4. MONOCLONAL ANTIBODY RECOGNIZING SIALYLATED SUGAR CHAINS(奥田 徹哉)14/888147 (US), 14792262.9 (EP) 2014年5月2日 出願
  5. アミノ化オリゴヌクレオチド用固相担体(小松康雄、小島直) PCT/JP2012/069381 (WIPO)、2013/02/21
  6. 遺伝子クラスタ及び遺伝子の探索、同定法およびそのための装置(町田雅之、小池英明、梅村舞子、浅井潔、堀本勝久、光山統泰)PCT/JP2011/071731(WIPO)、2011/09/22
  7. 抗菌剤の標的遺伝子の選定とその機能推定方法(町田雅之、玉野孝一、小池英明、石井智子、安藤朋広、阿部 敬悦、丸井 淳一朗、佐野 元昭、織田 健)PCT/JP2009/006455(WIPO)、2009/11/28
  8. 特許7491857号(米国):オリゴヌクレオチドプローブ(小松康雄、小島 直、佐藤浩輔、野中 謙、藤縄由美)2009年2月17日成立
  9. 特許7371847号(米国):酵母由来プロモーターならびにこれを用いたベクターおよび発現系(佐原健彦、扇谷悟、合田孝子、川崎公誠)2008年5月13日成立

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