Original Papers

• 1.

  Tsugawa, H., Tsujimoto, Y., Sugitate, K., Sakui, N., Nishiumi, S., Bamba, T. and Fukusaki, E.
  (2014) Highly sensitive and selective analysis of widely targeted metabolomics using gas chromatography/triple-quadrupole mass spectrometry.
  J. Biosci. Bioeng. 117, 122-128.

• 2.

  Zaitsu, K., Miyawaki, I., Bando, K., Horie, H., Shima, N., Katagi, M., Tatsuno, M., Bamba, T., Sato, T., Ishii, A., Tsuchihashi, H., Suzuki, K. and Fukusaki E.
  (2014) Metabolic profiling of urine and blood plasma in rat models of drug addiction on the basis of morphine, methamphetamine, and cocaine-induced conditioned place preference.
  Anal. Bioanal. Chem. 406, 1339-1354.

• 3.

  Kawase, N., Tsugawa, H., Bamba, T. and Fukusaki, E.
  (2014) Different-batch metabolome analysis of Saccharomyces cerevisiae based on gas chromatography/mass spectrometry.
  J. Biosci. Bioeng. 117, 248-255.

• 4.

  Fukui, T., Chou, K., Harada, K., Orita, I., Nakayama, Y., Bamba, T., Nakamura, S. and Fukusaki, E.
  (2014) Metabolite profiles of polyhydroxyalkanoate-producing Ralstonia eutropha H16.
  Metabolomics 10, 190-201.

• 5.

  Sangwallek, J., Kaneko, Y., Tsukamoto, T., Marui, M., Sugiyama, M., Ono, H., Bamba, T., Fukusaki, E. and Harashima, S.
  (2014) Cloning and functional analysis of HpFAD2 and HpFAD3 genes encoding Δ12- and Δ15-fatty acid desaturases in Hansenula polymorpha.
  Gene 533, 110-118.

• 6.

  Kajiwara, K., Yamada, T., Bamba, T., Fukusaki, E., Imamoto, F., Okada, M. and Oneyama, C.
  (2014) c-Src-induced activation of ceramide metabolism impairs membrane microdomains and promotes malignant progression by facilitating the translocation of c-Src to focal adhesions.
  Biochem. J. 458, 81-93.

• 7.

  Yamamoto, S., Shiga, K., Kodama, Y., Imamura, M., Uchida, R., Obata, A., Bamba, T. and Fukusaki, E.
  (2014) Analysis of the correlation between dipeptides and taste differences among soy sauces by using metabolomics-based component profiling.
  J. Biosci. Bioeng. 118, 56-63.

• 8.

  Izumi, Y., Aritake, K., Urade, Y. and Fukusaki, E.
  (2014) Practical evaluation of liquid chromatography/tandem mass spectrometry and enzyme immunoassay method for the accurate quantitative analysis of prostaglandins.
  J. Biosci. Bioeng. 118, 116-118.

• 9.

  Lee, J.W, Nagai, T., Gotoh, N., Fukusaki, E. and Bamba, T.
  (2014) Profiling of regioisomeric triacylglycerols in edible oils by supercritical fluid chromatography/tandem mass spectrometry.
  J. Chromatogr. B Analyt, Technol, Biomed, Life Sci. 966, 193-199.

• 10.

  Nakayama, Y., Putri, S.P., Bamba, T. and Fukusaki, E.
  (2014) Metabolic distance estimation based on principle component analysis of metabolic turnover.
  J. Biosci. Bioeng. 118, 350-355.

• 11.

  Miyauchi, S., Yuki, T., Fuji, H., Kojima, K., Yonetani, T., Tomio, A., Bamba, T. and Fukusaki, E.
  (2014) High-quality green tea leaf production by artificial cultivation under growth chamber conditions considering amino acids profile.
  J. Biosci. Bioeng. 118, 710-715.

• 12.

  Shiga, K., Yamamoto, S., Nakajima, A., Kodama, Y., Imamura, M., Sato, T., Uchida, R., Obata, A., Bamba, T. and Fukusaki, E.
  (2014) Metabolic profiling approach to explore the compounds related to the umami of soy sauce.
  J. Agric. Food Chem. 62, 7317-7322.

• 13.

  Dempo, Y., Ohta, E., Nakayama, Y., Bamba, T. and Fukusaki, E.
  (2014) Molar-based targeted metabolic profiling of cyanobacterial strains with potential for biological production.
  Metabolites 4, 499-516.

• 14.

  Hashim, Z, Teoh, S.T., Bamba, T. and Fukusaki, E.
  (2014) Construction of a metabolome library for transcription factor-related single gene mutants of Saccharomyces cerevisiae.
  J. Chromatogr. B. Analyt. Technol. Biomed. Life Sci. 966, 83-92.

• 15.

  Hashim, Z., Mukai, Y., Bamba, T. and Fukusaki, E.
  (2014) Metabolic profiling of retrograde pathway transcription factors Rtg1 and Rtg3 knockout yeast.
  Metabolites 8, 580-598.

• 16.

  Rahman, M., Nirala, N.K., Singh, A., Zhu, L.J., Taguchi, K., Bamba, T., Fukusaki, E., Shaw, L.M., Lambright, D.G., Acharya, J.K. and Acharya, U.R.
  (2014) Drosophila Sirt2/mammalian SIRT3 deacetylates ATP synthase β and regulates complex V activity.
  J. Cell Biol. 206, 289-305.

• 17.

  Mimura, N., Isogai, A., Iwashita, K,, Bamba, T. and Fukusaki, E.
  (2014) Gas chromatography/mass spectrometry based component profiling and quality prediction for Japanese sake.
  J. Biosci. Bioeng. 118, 406-414.

• 18.

  An, P.N., Yamaguchi, M., Bamba, T. and Fukusaki, E.
  (2014) Metabolome analysis of Drosophila melanogaster during embryogenesis.
  PLoS One 9, e99519.

• 19.

  Matsubara, A., Izumi, Y., Nishiumi, S., Suzuki, M., Azuma, T., Fukusaki, E., Bamba, T. and Yoshida, M.
  (2014) Supercritical fluid extraction as a preparation method for mass spectrometry of dried blood spots
  J. Chromatogr. B. Analyt. Technol. Biomed. Life Sci. 969, 199-204.

• 20.

  Taguchi, K., Fukusaki, E. and Bamba, T.
  (2014) Simultaneous analysis for water- and fat-soluble vitamins by a novel single chromatography technique unifying supercritical fluid chromatography and liquid chromatography.
  J. Chromatogr. A. 1362, 270-277.

• 21.

  Nakayama, Y., Tamada, Y., Tsugawa, H., Bamba, T. and Fukusaki, E.
  (2014) Novel strategy for non-targeted isotope-assisted metabolomics by means of metabolic turnover and multivariate analysis.
  Metabolites 25, 722-739.

• 22.

  Kamei, Y., Tamada, Y., Nakayama, Y., Fukusaki, E. and Mukai, Y.
  (2014) Changes in transcription and metabolism during the early stage of replicative cellular senescence in budding yeast.
  J. Biol. Chem. 289, 32081-32093.

• 23.

  Gheni, G., Ogura, M., Iwasaki, M., Yokoi, N., Minami, K., Nakayama, Y., Harada, K., Hastoy, B., Wu, X., Takahashi, H., Kimura, K., Matsubara, T., Hoshikawa, R., Hatano, N., Sugawara, K., Shibasaki, T., Inagaki, N., Bamba, T., Mizoguchi, A., Fukusaki, E., Rorsman, P. and Seino, S.
  (2014) Glutamate acts as a key signal linking glucose metabolism to incretin/cAMP action to amplify insulin secretion.
  Cell Rep. 9, 661-673.

• 24.

  Taguchi, K., Fukusaki, E. and Bamba, T.
  (2014) Determination of niacin and its metabolites using supercritical fluid chromatography coupled to tandem mass spectrometry.
  Mass Spectrom. 3, A0029.

Reviews

• 1.

  Taguchi, K., Fukusaki, E. and Bamba, T.
  (2014) Supercritical fluid chromatography/mass spectrometry in metabolite analysis.
  Bioanalysis 6, 1679-1689.

• 2.

  Putri, S.P. and Fukusaki, E. (Eds.)
  (2014) “Mass spectrometry-based metabolomics: A practical guide”
  Contents: 294 pages, CRC Press, London (Publ.), ISBN:9781482223767.

Original Papers

• 1.

  Kim, M-H., Ogawa, Y., Yamada, K., Taya, M. and Kino-oka, M.
  (2014) Directed differentiation of human mesenchymal stem cells toward a
  cardiomyogenic fate commitment through formation of cell aggregates.
  Biochem. Eng. J. 84, 53-58.

• 2.

  Nagamori, E., Oda, M., Nakamura, T., Shimizu, T., Okano, T. and Kino-oka, M.
  (2014) Spatial habitation of heterogeneous cell population in a multi-layered myoblast sheet due to the differences in their behaviors of migration and cell-cell connection.
  Curr. Nanosci. 10, 173-178.

• 3.

  Kim, M-H., Masuda, E. and Kino-oka, M.
  (2014) Kinetic analysis of deviation from the undifferentiated state in colonies of human induced pluripotent stem cells on feeder layers.
  Biotechnol. Bioeng. 111, 1128-1138.

• 4.

  Kim, M-H. and Kino-oka, M.
  (2014) Switching between self-renewal and lineage commitment of human induced pluripotent stem cells via cell-substrate and cell-cell interactions on a dendrimer-immobilized surface.
  Biomaterials. 35,5670-5678.

• 5.

  Kim, M-H. and Kino-oka, M.
  (2014) Maintenance of undifferentiated state of human induced pluripotent stem cells through cytoskeleton-driven force acting to secreted fibronectin on a dendrimer-immobilized surface.
  J. Biosci. Bioeng. 118, 716-722.

• 6.

  Kim, M-H., Sawada, Y., Taya, M. and Kino-oka, M.
  (2014) Influence of surface topography on the human epithelial cell response to micropatterned substrates with convex and concave architectures.
  J. Biol. Eng. 8, 13.

Reviews

• 1.

  Ngo, T-X., Nagamori, E., Shimizu,T., Okano,T., Taya,M. and Kino-oka,M.
  (2014) In vitro models for angiogenesis research: a review.
  International Journal of Tissue Regeneration 5, 37-45

Original Papers

• 1.

  Nose, K., Kishi, T., Ozeki, Y., Kanematsu, Y., Takata, H., Fukui, K., Takai, Y. and Itoh, K.
  (2014) Stimulated Raman spectral microscope using synchronized Er- and Yb-fiber lasers.
  Jpn. J. Appl. Phys. 53, 052401.

• 2.

  Fujiwara, M., Suzuki, G., Kudo, D., Oba, H., Wada, Y., Wada, H., Wada, N., Rahman, S., Fukui, K. and Mukai, Y.
  (2014) Localization of transgene-derived friabilins in rice endosperm cells.
  Plant Biotechnology 31, 67-70.

• 3.

  Alipour, A., Cartagena, J. A., Tsuchimoto, S., Sakai, H., Ohmido, N. and Fukui, K.
  (2014) Identification and characterization of novel gypsy-type retrotransposons in a biodiesel crop, Jatropha curcas L.
  Plant Molecular Biology Reporter 32, 923-930.

• 4.

  Dwiranti, A., Hamano, T., Takata, H., Nagano, S., Guo, H., Onishi, K., Wako, T., Uchiyama, S. and Fukui, K.
  (2014) The effect of magnesium ions on chromosome structure as observed by helium ion microscopy.
  Microsc. Microanal. 20, 184-188.

• 5.

  Amano, M., Kobayashi, N., Yabuta, M., Uchiyama, S. and Fukui, K.
  (2014) Detection of histidine oxidation in a monoclonal immunoglobulin gamma (IgG) 1 antibody.
  Anal. Chem. 86, 7536-7543.

• 6.

  Hamano, T., Dwiranti, A., Kaneyoshi, K., Fukuda, S., Kometani, R., Nakao, M., Takata, H., Uchiyama, S., Ohmido, N. and Fukui, K.
  (2014) Chromosome interior observation by focused ion beam/scanning electron microscopy (FIB/SEM) using ionic liquid technique.
  Microsc. Microanal. 20, 1340-1347.

• 7.

  Harada, S., Hiromori, Y., Nakamura, S., Kawahara, K., Fukakusa, S., Maruno, T., Noda, M., Uchiyama, S., Fukui, K., Nishikawa, J., Nagase, H., Kobayashi, Y., Yoshida, T., Ohkubo, T. and Nakanishi, T.
  (2014) Structural basis for PPARγ transactivation by endocrine-disrupting organotin compounds.
  Sci. Rep. 5, 8520.

Reviews

• 1.

  Uchiyama, S.
  (2014) Liquid formulation for antibody drugs
  Biochim. Biophys. Acta. 1844, 2041-2052.

Original Papers

• 1.

  Asada, M., Kato, Y., Matsuura, T. and Watanabe, H.
  (2014) Visualization of ecdysteroid activity using a reporter gene in the crustacean, Daphnia.
  Mar. Environ. Res. 93,118-122.

• 2.

  Asada, M., Kato, Y., Matsuura, T. and Watanabe, H.
  (2014) Early Embryonic Expression of a Putative Ecdysteroid-Phosphate Phosphatase in the Water Flea, Daphnia magna (Cladocera: Daphniidae).
  J. Insect Sci. 14.

• 3.

  Fujii, S., Matsuura, T., Sunami, T., Nishikawa, T., Kazuta, Y. and Yomo, T.
  (2014) Liposome display for in vitro selection and evolution of membrane proteins.
  Nat. Protoc. 9, 1578-1591.

• 4.

  Kazuta, Y., Matsuura, T., Ichihashi, N. and Yomo, T.
  (2014) Synthesis of milligram quantities of proteins using a reconstituted in vitro protein synthesis system.
  J. Biosci. Bioeng.118, 554-557.

• 5.

  Nakanishi, T., Kato, Y., Matsuura, T. and Watanabe, H.
  (2014) CRISPR/Cas-Mediated Targeted Mutagenesis in Daphnia magna.
  Plos One 9, e98363.

• 6.

  Nishimura, K., Matsuura, T., Sunami, T., Fujii, S., Nishimura, K., Suzuki, H. and Yomo, T. (2014) Identification of giant unilamellar vesicles with permeability to small charged molecules.
  Rsc. Adv. 4, 35224-35232.

• 7.

  Okano, T., Matsuura, T., Suzuki, H. and Yomo, T.
  (2014) Cell-free Protein Synthesis in a Microchamber Revealed the Presence of an Optimum Compartment Volume for High-order Reactions.
  ACS Synth. Biol. 3, 347-352.

• 8.

  Soga, H., Fujii, S., Yomo, T., Kato, Y., Watanabe, H. and Matsuura, T.
  (2014) In vitro membrane protein synthesis inside cell-sized vesicles reveals the dependence of membrane protein integration on vesicle volume.
  ACS Synth. Biol. 3, 372-379.

• 9.

  Torner, K., Nakanishi, T., Matsuura, T., Kato, Y. and Watanabe, H.
  (2014) Optimization of mRNA design for protein expression in the crustacean Daphnia magna.
  Mol. Genet. Genomics 289, 707-715.

• 10.

  Toyota, K., Kato, Y., Miyakawa, H., Yatsu, R., Mizutani, T., Ogino, Y., Miyagawa, S., Watanabe, H., Nishide, H., Uchiyama, I., Tatarazako, N. and Iguchi, T.
  (2014) Molecular impact of juvenile hormone agonists on neonatal Daphnia magna.
  J. Appl. Toxicol. 34, 537-544.

• 11.

  Uno, K., Sunami, T., Ichihashi, N., Kazuta, Y., Matsuura, T. and Yomo, T.
  (2014) The evolutionary enhancement of genotype-phenotype linkages in the presence of multiple copies of genetic material.
  Chembiochem 15, 2281-2288.

• 12.

  Usui, K., Ichihashi, N., Kazuta, Y., Matsuura, T. and Yomo, T.
  (2014) Effects of ribosomes on the kinetics of Qbeta replication.
  FEBS Lett. 588, 117-123.

Original Papers

• 1.

  Fukushima, E.O., Seki, H. and Muranaka, T.
  (2014) Heterologous expression of triterpene biosynthetic genes in yeast and subsequent metabolite identification through GC-MS.
  Methods in Mol. Biol. 1153, 235-243.

• 2.

  Choi, H., Ohyama, K., Kim, Y.Y., Jin, J.Y., Lee, S.B., Yamaoka, Y., Muranaka, T., Suh, M.C., Fujioka, S. and Lee, Y.
  (2014) The role of Arabidopsis ABCG9 and ABCG31 ATP binding cassette transporters in pollen fitness and the deposition of steryl glycosides on the pollen coat.
  Plant Cell 26, 310-324.

• 3.

  Sawai, S., Ohyama, K., Yasumoto, S., Seki, H., Sakuma, T., Yamamoto, T., Takebayashi, Y., Kojima, M., Sakakibara, H., Aoki, T., Muranaka, T., Saito, K. and Umemoto, N.
  (2014) Sterol side chain reductase 2, a key enzyme for biosynthesis of cholesterol as the common precursor of toxic steroidal glycoalkaloids in potato.
  Plant Cell 26, 3763-3774.

• 4.

  Muangphrom, P., Suzuki, M., Seki, H., Fukushima, E.O. and Muranaka, T.
  (2014) Functional analysis of orthologous artemisinic aldehyde Δ11(13)-reductase reveals potential artemisinin-producing activity in non-artemisinin-producing Artemisia absinthium.
  Plant Biotechnol. 31, 483-491.

• 5.

  Okazawa, A., Kusunose, T., Ono, E., Kim, H.J., Satake, H., Shimizu, B., Mizutani, M., Seki, H. and Muranaka, T.
  (2014) Glucosyltransferase activity of Arabidopsis UGT71C1 towards pinoresinol and lariciresinol.
  Plant Biotechnol. 31, 561-566.

• 6.

  Tamura, M., Tsuji, Y., Kusunose, T., Okazawa, A., Kamimura, N., Mori, T., Nakabayashi, R., Hishiyama, S., Fukuhara, Y., Hara, H., Sato-Izawa, K., Muranaka, T., Saito, K., Katayama, Y., Fukuda, M., Masai, E. and Kajita, S.
  (2014) Successful expression of a novel bacterial gene for pinoresinol reductase and its effect on lignan biosynthesis in transgenic Arabidopsis thaliana.
  Appl Microbiol Biotechnol. 98, 8165-8177.

Reviews

• 1.

  Fukushima, E.O., Seki, H. and Muranaka, T.
  (2014) Plant cytochrome P450s in triterpenoid biosynthesis: Diversity and application to combinatorial biosynthesis. In: Fifty years of cytochrome P450 research. Hiroshi Yamazaki (Ed.). Springer Japan, pp.125-133 (2014).

Original Papers

• 1.

  Morimoto, Y., Honda, K., Ye, X., Okano, K. and Ohtake, H.
  (2014) Directed evolution of thermotolerant malic enzyme for improved malate production.
  J. Biosci. Bioeng. 117, 147-152.

• 2.

  Onitsuka, M., Kawaguchi, A., Asano, R., Kumagai, I., Honda, K., Ohtake, H. and Omasa, T.
  (2014) Glycosylation analysis of an aggregated antibody produced by Chinese hamster ovary cells in bioreactor culture.
  J. Biosci. Bioeng. 117, 632-638.

• 3.

  Tsuji, N., Honda, K., Wada, M., Okano, K. and Ohtake, H.
  (2014) Isolation and characterization of a thermotolerant ene reductase from Geobacillus sp. 30 and its heterologous expression in Rhodococcus opacus.
  Appl. Microbiol. Biotechnol. 98: 5925-5935.

• 4.

  Jaturapaktrarak, C., Napathorn, S.C., Cheng, M., Okano, K., Ohtake, H. and Honda, K.
  (2014) In vitro conversion of glycerol to lactate with thermophilic enzymes.
  Bioresour. Bioprocessing 1: 18

• 5.

  Diederichs, S., Korona, A., Staaden, A., Kroutil, W., Honda, K., Ohtake, H. and Buchs, J.
  (2014) Phenotyping the quality of complex medium components by simple online-monitored shake flask experiments.
  Microb. Cell Fact. 13: 149

Reviews

• 1.

  Okano, K., Tanaka, T., Kondo, A.
  (2014) Chapter 13: Lactic acid.
  Bioprocessing of renewable resources to commodity bioproducts, Bisaria, V., Kondo, A. eds.
  Willey, 353-380.

Original Papers

• 1.

  Sangwallek, J., Kaneko, Y., Tsukamoto, T., Marui, M., Sugiyama, M., Ono, H., Bamba, T., Fukusaki, E., and Harashima, S.
  (2014) Cloning and functional analysis of HpFAD2 and HpFAD3 genes encoding Δ12- and Δ15-fatty acid desaturases in Hansenula polymorpha.
  Gene 533, 110-118.

• 2.

  Lavina, W., Shahsavarani, H., Saidi, A., Sugiyama, M., Kaneko, Y., and Harashima, S.
  (2014) Suppression mechanism of the calcium sensitivity in Saccharomyces cerevisiae ptp2Δmsg5Δ double disruptant involves a novel HOG-independent function of Ssk2, transcription factor Msn2 and the protein kinase A component Bcy1.
  J. Biosci. Bioeng. 117, 135-141.

• 3.

  Sugiyama, M., Akase, SP., Nakanishi, R., Horie, H., Kaneko, Y., and Harashima, S.
  (2014) Nuclear localization of Haa1, which is linked to its phosphorylation status, mediates lactic acid tolerance in Saccharomyces cerevisiae.
  Appl. Environ. Microbiol. 80, 3488-3495.

• 4.

  Kaboli, S., Yamakawa, T., Sunada, K., Takagaki, T., Sasano, Y., Sugiyama, M., Kaneko, Y., and Harashima, S.
  (2014) Genome-wide mapping of unexplored essential regions in the Saccharomyces cerevisiae genome: evidence for hidden synthetic lethal combinations in a genetic interaction network.
  Nucleic. Acids. Res. 42, 9838-53.

• 5.

  Sharmin, D., Sasano, Y., Sugiyama, M., and Harashima, S.
  (2014) Effects of deletion of different PP2C protein phosphatase genes on stress responses in Saccharomyces cerevisiae.
  Yeast 31, 393-409.

• 6.

  Nasuno, R., Aitoku, M., Manago, Y., Nishimura, A., Sasano, Y. and Takagi, H.
  (2014) Nitric oxide-mediated antioxidative mechanism in yeast through the activation of the transcription factor Mac1.
  PLoS One 9, e113788.

Reviews

• 1.

  Sasano Y, Sugiyama M. Harashima S.
  (2014) Chapter 5: Development and application of novel genome engineering technology in Saccharomyces cerevisiae.
  Microbial Production, Anazawa H and Simizu S eds.
  Springer, 53-62.

Original Papers

• 1.

  Okada, K., Angkawidjaja, C., Koga, Y., and Kanaya, S.
  (2014) Structural and mechanistic insights into the kynurenine aminotransferase-mediated excretion of kynurenic acid.
  J. Struct. Biol. 185, 257-266.

• 2.

  Koga, Y., Sakudo, A., Aranishi, M., Tanaka, S., Hirata, A., Takano, K., Ikuta, K., and Kanaya, S.
  (2014) Proteolysis of abnormal prion protein with a thermostable protease from Thermococcus kodakarensis KOD1.
  Appl. Microbiol. Biotechnol. 98, 2113-2120.

• 3.

  Sulaiman, S., You, D.-J., Kanaya, E., Koga, Y., and Kanaya, S.
  (2014) Crystal structure and thermodynamic and kinetic stability of metagenome-derived LC-cutinase.
  Biochemistry 53, 1858-1869.

• 4.

  Cheng, M., Angkawidjaja, C., Koga, Y., and Kanaya, S.
  (2014) Calcium-independent opening of lid1 of a family I.3 lipase by a single Asp to Arg mutation at the calcium-binding site.
  Protein Eng. Des. Sel. 27, 169-176.

• 5.

  Seino, S., Watanabe, K., Shikakura, T., Abe, M., Nakagawa, T., Koga, Y., and Yamamoto, A, T.
  (2014) Enzyme immobilization on gold/Fe-oxide composite nanoparticles using a methionine tag.
  Colloids and Surfaces A: Physicochem. Eng. Aspects 459, 298-301

• 6.

  You, D.-J., Jongruja, N., Tannous, E., Angkawidjaja, C., Koga, Y., and Kanaya, S.
  (2014) Structural basis for salt-dependent folding of ribonuclease H1 from halophilic archaeon Halobacterium sp. NRC-1.
  J. Struct. Biol. 187, 119-128.

• 7.

  Tannous, E., and Kanaya, S.
  (2014) Divalent metal ion-induced folding mechanism of RNase H1 from extreme halophilic archaeon Halobacterium sp. NRC-1.
  PLoS ONE, 9, e109016.

• 8.

  Okano, H., Ozaki, M., Kanaya, E., Kim, J.-J., Angkawidjaja, C., Koga, Y., and Kanaya, S.
  (2014) Structure and stability of metagenome-derived glycoside hydrolase family 12 cellulase, LC-CelA, a homolog of Cel12A from Rhodothermus marinus.
  FEBS Open Bio, 4, 936-946.

• 9.

  Henze, M., You, D.-J., Kamerke, C., Hoffmann, N., Angkawidjaja, C., Ernst, S., Pietruszka, J., Kanaya, S., and Elling, L.
  (2014) Rational design of a glycosynthase by the crystal structure of β-galactosidase from Bacillus circulans (BgaC) and its use for the synthesis of N-acetyllactosamine type 1 glycan structures.
  J. Biotechnol. 191, 78-85.

Original Papers

• 1.

  Pitaksajjakul, P., Benjathummarak, S., Pipattanaboon, C., Wongwit, W., Okabayashi, T., Kuhara, M., Misaki, R., Fujiyama, K. and Ramasoota, P.
  (2014) Antibody germline characterization of cross-neutralizing human IgGs against 4 serotypes of dengue virus.
  Biochem. Biophys. Res. Commun. 446, 475-80.

• 2.

  Srichaisupakit, A., Ohashi, T. and Fujiyama, K.
  (2014) Identification of a protein glycosylation operon from Campylobacter jejuni JCM 2013 and its heterologous expression in Escherichia coli.
  J. Biosci. Bioeng. 118, 256-262.

• 3.

  Polburee, P., Yongmanitchai, W., Ohashi, T., Fujiyama, K. and Limtong, S.
  (2014) Barnettozyma siamensis f.a., sp. nov., a novel lipid accumulating ascomycete yeast species isolated in Thailand.
  Int. J. Syst. Evol. Microbiol. 64, 3053-3057.

• 4.

  Yumioka-Ito, H., Misaki, R., Yokoro, M., Suzuki, M., Yamashita, H., Hiemori-Kondo, M., Kimoto, M., Kato, K., Fujiyama, K. and Tsuji, H.
  (2014) Cloning of a cDNA encoding the Gly m Bd 28K precursor and its vacuole transport in tobacco BY2 suspension-cultured cells.
  J. Nutr. Sci. Vitaminol. 60, 129-139.

Reviews

• 1.

  Fujiyama, K.
  (2014) Heterologous glycoprotein production (Plant)
  In: Glycoscience: Biology and Medicine. Taniguchi, N., Endo, T., Hart, G. W., Seeberger, P. H. and Wong, C. H. (Ed.) Springer Pages 1545-1549.

Original Papers

• 1.

  Kurniawan, Y. N., Kitani, S., Maeda, A. and Nihira, T.
  (2014) Differential contributions of two SARP family regulatory genes to indigoidine biosynthesis in Streptomyces lavendulae FRI-5.
  Appl. Microbiol. Biotechnol. 98, 9713-9721.

• 2.

  Ishidoh, K., Kinoshita, H. and Nihira, T.
  (2014) Identification of a gene cluster responsible for the biosynthesis of cyclic lipopeptide verlamelin.
  Appl. Microbiol. Biotechnol. 98, 7501-7510.

• 3.

  Ishidoh, K., Kinoshita, H., Igarashi, Y., Ihara, F. and Nihira, T.
  (2014) Cyclic lipodepsipeptides verlamelin A and B, isolated from entomopathogenic fungus Lecanicillium sp.
  J. Antibiot. (Tokyo). 67, 459-463.

• 4.

  Yu, L., Oikawa, T., Kitani, S., Nihira, T., Bayanmunkh, B., Panbangred, W. and Igarashi, Y.
  (2014) Jomthonic acids B and C, two new modified amino acids from Streptomyces sp.
  J. Antibiot. (Tokyo). 67, 345-347.

• 5.

  Putri, S. P., Ishidoh, K. I., Kinoshita, H., Kitani, S., Ihara, F., Sakihama, Y., Igarashi, Y. and Nihira, T.
  (2014) Production of antioomycete compounds active against the phytopathogens Phytophthora sojae and Aphanomyces cochlioides by clavicipitoid entomopathogenic fungi.
  J. Biosci. Bioeng. 117, 557-562.

• 6.

  Ishidoh, K. I., Kinoshita, H., Ihara, F. and Nihira, T.
  (2014) Efficient and versatile transformation systems in entomopathogenic fungus Lecanicillium species.
  Curr. Genet. 60, 99-108.

• 7.

  Siriwach, R., Kinoshita, H., Kitani, S., Igarashi, Y., Pansuksan, K., Panbangred, W. and Nihira, T.
  (2014) Bipolamides A and B, triene amides isolated from the endophytic fungus Bipolaris sp. MU34.
  J. Antibiot. (Tokyo). 67, 167-170.

Original Papers

• 1.

  Fukuda, N., Matsuda, T. and Nagai, T.
  (2014) Optical control of the Ca2+ concentration in a live specimen with a genetically encoded Ca2+-releasing molecular tool.
  ACS Chem. biol. 9, 1197-1203.

• 2.

  Uehara, S., Hanasaki, I., Arai, Y., Nagai, T. and Kawano, S.
  (2014) Statistical characterisation of single-stranded DNA motion near glass surface beyond diffusion coefficient.
  Micro and Nano Letters. 9, 257–260.

• 3.

  Kanemaru, K., Sekiya, H., Xu, M., Satoh, K., Kitajima, N., Yoshida, K., Okubo, Y., Sasaki, T., Moritoh, S., Hasuwa, H., Mimura, M., Horikawa, K., Matsui, K., Nagai, T., Iino, M. and Tanaka KF.
  (2014) In vivo visualization of subtle, transient and local activity of astrocytes using an ultrasensitive Ca2+ indicator.
  Cell Reports. 8, 311–318.

• 4.

  Jin, M., Yamada, M., Arai, Y., Nagai, T. and Hirotsune, S.
  (2014) Arl3 and LC8 regulate dissociation of dynactin from dynein.
  Nat. Commun. 24, 5295.

• 5.

  Yoshiyama, S., Chen, Z., Okagaki, T., Kohama, K., Nasu-Kawaharada, R., Izumi, T., Ohshima, N., Nagai, T. and Nakamura, A.
  (2014) Nicotine exposure alters human vascular smooth muscle cell phenotype from a contractile to a synthetic type.
  Atherosclerosis. 237, 464-470.

• 6.

  Oshima, Y., Imamura, T., Shintani, A., Kajiura-Kobayashi, H., Hibi, T., Nagai, T., Nonaka, S. and Nemoto, T.
  (2014) Ultrasensitive imaging of Ca2+ dynamics in pancreatic acinar cells of Yellow Cameleon-Nano transgenic mice.
  Int J Mol Sci. 15, 19971-19986.

Reviews

• 1.

  Matsuda, T. and Nagai, T.
  (2014) Quantitative measurement of intracellular protein dynamics using photobleaching or photoactivation of fluorescent proteins.
  Microscopy (Oxf). 63, 403-408.

• 2.

  Arai, Y. and Nagai, T.
  (2014) Real-Time chemiluminescence imaging using Nano-Lantern probes.
  Curr Protoc Chem Biol. 6, 221-236.

• 3.

  Nagai, T., Horikawa, K., Saito, K. and Matsuda, T.
  (2014) Genetically encoded Ca2+ indicators; expanded affinity range, color hue and compatibility with optogenetics.
  Front Mol Neurosci. 7, 25.

Original Papers

• 1.

  Toya, Y., Hirasawa, T., Morimoto, T., Masuda, K., Kageyama, Y., Ozaki, K., Ogasawara, N. and Shimizu, H.
  (2014)13C-Metabolic flux analysis in heterologous cellulase production by Bacillus subtilis genome-reduced strain.
  J. Biotechnol. 10(179), 42-49.

• 2.

  Ito, Y., Hirasawa, T. and Shimizu, H.
  (2014) Metabolic engineering of Saccharomyces cerevisiae for improving succinic acid production based on metabolic profiling.
  Biosci., Biotechnol. Biochem. 78(1), 151-159.

• 3.

  Ohno, S., Shimizu, H. and Furusawa, C.
  (2014) FastPros: Screening of reaction knockout strategies for metabolic engineering.
  Bioinf. 30(7), 981-987.

• 4.

  Tokuyama, K., Ohno, S., Yoshikawa, K., Hirasawa, T., Tanaka, S., Furusawa, C. and Shimizu, H.
  (2014) Increased 3-hydroxypropionic acid production from glycerol, by modification of central metabolism in Escherichia coli Microbial Cell Factories.
  Microb. Cell Fact. 7(13), 64.

• 5.

  Okahashi, N., Kajihata, S., Furusawa, C. and Shimizu, H.
  (2014) Reliable metabolic flux estimation in Escherichia coli central carbon metabolism using intracellular free amino acids.
  Metabolites 30:4(2), 408-420.

• 6.

  Kajihata, S., Furusawa, C., Matsuda, F. and Shimizu, H.
  (2014) OpenMebius: An open source software for isotopically nonstationary 13C-based metabolic flux analysis.
  Biomed Res. Int. 627014.

• 7.

  Yamauchi, Y., Hiraswa, T., Nishii, M., Furuasawa, C. and Shimizu, H.
  (2014) Enhanced acetic acid and succinic acid production under microaerobic conditions by Corynabacterium glutamicum harboring Escherichia coli transhydrogenase gene pntAB.
  J. Gen. Appl. Microbiol. 60(3), 112-118.

• 8.

  Nakajima, T., Kajihata, S., Yoshikawa, K., Matsuda, F., Furusawa, C. and Shimizu, H.
  (2014) Integrated Metabolic Flux and Omics Analysis of Synechocystis sp. PCC 6803 under Mixotrophic and Photoheterotrophic Conditions.
  Plant and Cell Physio. 55(9), 1605-1612.

• 9.

  Horinouchi, T., Minamoto, T., Suzuki, S., Shimizu, H. and Furusawa, C.
  (2014) Development of an automated culture system for laboratory evolution.
  J. Lab. Autom. 19(5), 478-482.

Reviews

• 1.

  Hirasawa, T., Ida, Y., Furusawa, C. and Shimizu, H.
  (2014) Addendum, Potential of a Saccharomyces cerevisiae recombinant strain lacking ethanol and glycerol biosynthesis pathways in efficient anaerobic bioproduction.
  Bioeng. 5(2), 123-128.

Original Papers

• 1.

  Usui,K., Ichihashi,N., Kazuta,Y., Matsuura,T. and Yomo,T.
  (2014) Effects of ribosomes on the kinetics of Qb replication.
  FEBS Letters 588, 117-123.

• 2.

  Ying,B., Tsuru,S., Seno,S., Matsuda,H. and Yomo,T.
  (2014) Gene expression scaled by distance to the genome replication site.
  Molecular BioSystems 10, 375-379.

• 3.

  Akeno,Y., Ying,B., Tsuru,S. and Yomo,T.
  (2014) A reduced genome decreases the host carrying capacity for foreign DNA.
  Microbial Cell Factories 2014 13, 1-9.

• 4.

  Hosoda,K., Habuchi,M., Suzuki,S., Miyazaki,M., Takikawa,G., Sakurai,T., Kashiwagi,A., Sueyoshi,M., Matsumoto,Y., Kiuchi,A., Mori,K. and Yomo,T.
  (2014) Adaptation of a cyanobacterium to a biochemically rich environment in experimental evolution as an initial.
  Journal of Evolutionary Biology 9, 1-6.

• 5.

  Fujii,S., Matsuura,T., Sunami,T., Nishikawa,T., Kazuta,Y. and Yomo,T.
  (2014) Liposome display for in vitro selection and evolution of membrane proteins.
  Nature protocols 9, 1578-1591.

• 6.

  Mizuuchi,R., Ichihashi,N., Usui,K., Kazuta,Y. and Yomo,T.
  (2014) Adaptive Evolution of an Artificial RNA Genome to a Reduced Ribosome Environment.
  ACS Synthetic Biology, A-G.

• 7.

  Shiomi,H., Tsuda,S., Suzuki,H., and Yomo,T.
  (2014) Liposome-based liquid handling platform featuring addition, mixing, and aliquoting of femtoliter volumes.
  PLoS One 9, 1-6.

• 8.

  Kashiwagi,A., Sugawara,R., Tsushima-Sano,F., Kumagai,T. and Yomo,T.
  (2014) Contribution of silent mutations to thermal adaptation of RNA bacteriophageQB.
  Journal of Virology 88, 11459-11468.

• 9.

  Ichihashi,N. and Yomo,T.
  (2014) Positive roles of compartmentalization in internal reactions.
  Chemical Biology 22, 12-17.

• 10.

  Shibai,A., Tsuru,S., Ying,B., Motooka,D., Gotoh,K., Nakamura,S. and Yomo,T.
  (2014) Mutation accumulation in bacteria exposed to UV radiation.
  Artificial Life 14, 757-758.

• 11.

  Uno,K., Sunami,T., Ichihashi,N., Kazuta,Y., Matsuura,T., and Yomo,T.
  (2014) The Evolutionary Enhancement of Genotype-Phenotype Linkages in the Presence of Multiple Copies of Genetic Material.
  Chembiochem 15, 1-9.

• 12.

  Ishizawa,Y., Ying,B., Tsuru,S., and Yomo,T.
  (2014) Nutrient-dependent growth defects and mutability of mutators in Escherichia coli.
  Genes to Cells 20, 68-76.

• 13.

  Yoshida, M., Tsuru,S., Hirata,N., Seno,S., Matsuda,H., Ying,B. and Yomo,T.
  (2014) Directed evolution of cell size in Escherichia coli.
  BMC Evolutionary Biology 14, 1-12.