Tomita T, Kuzuyama T, Nishiyama M. 2011. Structural basis for leucine-induced allosteric activation of glutamate dehydrogenase. J Biol Chem. 286:37406-37413.

Sugiyama A, Linley PJ, Sasaki K, Kumano T, Yamamoto H, Shitan N, Ohara K, Takanashi K, Harada E, Hasegawa H, Terakawa T, Kuzuyama T, Yazaki K. Metab Eng. 13:629-637.

Dairi T, Kuzuyama T, Nishiyama M, Fujii I. 2011. Convergent strategies in biosynthesis. Nat Prod Rep. 28:1054-1086.

Shindo K, Tachibana A, Tanaka A, Toba S, Yuki E, Ozaki T, Kumano T, Nishiyama M, Misawa N, Kuzuyama T. 2011. Production of novel antioxidative prenyl naphthalen-ols by combinational bioconversion with dioxygenase PhnA1A2A3A4 and prenyltransferase NphB or SCO7190. Biosci Biotechnol Biochem.75: 505-510.

Koeduka, T., N. Shitan, T. Kumano, K. Sasaki, A. Sugiyama, P. Linley, T. Kawasaki, H. Ezura, T. Kuzuyama, and K. Yazaki. 2011. Production of prenylated flavonoids in tomato fruits expressing a prenyltransferase gene from Streptomyces coelicolor A3(2). Plant Biol. 13:411-415.

Ichikawa, N., A. Oguchi, H. Ikeda, J. Ishikawa, S. Kitani, Y. Watanabe, S. Nakamura, Y. Katano, E. Kishi, M. Sasagawa, A. Ankai, S. Fukui, Y. Hashimoto, S. Kamata, M. Otoguro, S. Tanikawa, T. Nihira, S. Horinouchi, Y. Ohnishi, M. Hayakawa, T. Kuzuyama, A. Arisawa, F. Nomoto, H. Miura, Y. Takahashi, and N. Fujita. 2010. Genome sequence of Kitasatospora setae NBRC 14216T: an evolutionary snapshot of the family Streptomycetaceae. DNA Res. 17:393-406.

Kumano, T., T. Tomita, M. Nishiyama, and T. Kuzuyama. 2010. Functional characterization of the promiscuous prenyltransferase responsible for furaquinocin biosynthesis: identification of a physiological polyketide substrate and its prenylated reaction products. J. Biol. Chem. 285: 39663-39671.

Matsue, Y., H. Mizuno, T. Tomita, T. Asami, M. Nishiyama, and T. Kuzuyama. 2010. The herbicide ketoclomazone inhibits 1-deoxy-D-xylulose 5-phosphate synthase in the 2-C-methyl-D-erythritol 4-phosphate pathway and shows antibacterial activity against Haemophilus influenzae. J. Antibiot. 63: 583-588.

Miyakoshi, S., S. Azami, and T. Kuzuyama. 2010. Microbial glucosylation of flavonols by Cunninghamella echinulata. J. Biosci. Bioeng. 110: 320-321.

Okada, T., T. Tomita, A. P. Wulandari, T. Kuzuyama, and M. Nishiyama. 2010. Mechanism of substrate recognition and insight into feedback inhibition of homocitrate synthase from Thermus thermophilus. J. Biol. Chem. 285: 4195-4205.

Suzuki, Y., K. Asada, J. Miyazaki, T. Tomita, T. Kuzuyama, and M. Nishiyama. 2010. Enhancement of the latent 3-isopropylmalate dehydrogenase activity of promiscuous homoisocitrate dehydrogenase by directed evolution. Biochem. J. 431:401-410.

Tomita, T., T. Miyazaki, J. Miyazaki, T. Kuzuyama, and M. Nishiyama. 2010. Hetero-oligomeric glutamate dehydrogenase from Thermus thermophilus. Microbiology 156:3801-13.

Yoshida, A., T. Tomita, T. Kuzuyama, and M. Nishiyama. 2010. Mechanism of concerted inhibition of alpha2beta2-type hetero-oligomeric aspartate kinase from Corynebacterium glutamicum. J. Biol. Chem. 285:27477-27486.

Okamura E, Tomita T, Sawa R, Nishiyama M, and Kuzuyama T. 2010. Unprecedented acetoacetyl-coenzyme A synthesizing enzyme of the thiolase superfamily involved in the mevalonate pathway. Proc. Natl. Acad. Sci. USA 107: 11265-11270.

Xiao Y, Machacek M, Lee K, Kuzuyama T, Liu P. 2009. Prenyltransferase substrate binding pocket flexibility and its application in isoprenoid profiling. Mol Biosyst. 5: 913-917.

Kim SY, Zhao P, Igarashi M, Sawa R, Tomita T, Nishiyama M, Kuzuyama T. 2009. Cloning and heterologous expression of the cyclooctatin biosynthetic gene cluster afford a diterpene cyclase and two P450 hydroxylases. Chem Biol. 16: 736-743.

Ouchi T, Tomita T, Miyagawa T, Kuzuyama T, Nishiyama M. 2009. Dual roles of a conserved pair, Arg23 and Ser20, in recognition of multiple substrates in alpha-aminoadipate aminotransferase from Thermus thermophilus. Biochem Biophys Res Commun. 388: 21-27.

Horie A, Tomita T, Saiki A, Kono H, Taka H, Mineki R, Fujimura T, Nishiyama C, Kuzuyama T, Nishiyama M. 2009. Discovery of proteinaceous N-modification in lysine biosynthesis of Thermus thermophilus. Nat Chem Biol. 5: 673-679.

Ozaki T, Mishima S, Nishiyama M, Kuzuyama T. 2009. NovQ is a prenyltransferase capable of catalyzing the addition of a dimethylallyl group to both phenylpropanoids and flavonoids. J Antibiot. 62: 385-392.

Yoshida A, Tomita T, Kono H, Fushinobu S, Kuzuyama T, Nishiyama M. 2009. Crystal structures of the regulatory subunit of Thr-sensitive aspartate kinase from Thermus thermophilus. FEBS J. 276: 3124-3136.

Zhao P, Ueda JY, Kozone I, Chijiwa S, Takagi M, Kudo F, Nishiyama M, Shin-ya K, Kuzuyama T. 2009. New glycosylated derivatives of versipelostatin, the GRP78/Bip molecular chaperone down-regulator, from Streptomyces versipellis 4083-SVS6. Org Biomol Chem. 7: 1454-1460.

Kim YB, Kim SM, Kang MK, Kuzuyama T, Lee JK, Park SC, Shin SC, Kim SU. 2009. Regulation of resin acid synthesis in Pinus densiflora by differential transcription of genes encoding multiple 1-deoxy-D-xylulose 5-phosphate synthase and 1-hydroxy-2-methyl-2-(E)-butenyl 4-diphosphate reductase genes. Tree Physiol. 29: 737-749.

Harada H, Yu F, Okamoto S, Kuzuyama T, Utsumi R, Misawa N. 2009. Efficient synthesis of functional isoprenoids from acetoacetate through metabolic pathway-engineered Escherichia coli. Appl Microbiol Biotechnol. 81: 915-925.

Tomita T, Miyagawa T, Miyazaki T, Fushinobu S, Kuzuyama T, Nishiyama M. 2009. Mechanism for multiple-substrates recognition of alpha-aminoadipate aminotransferase from Thermus thermophilus. Proteins. 75: 348-359.

Sando T, Takeno S, Watanabe N, Okumoto H, Kuzuyama T, Yamashita A, Hattori M, Ogasawara N, Fukusaki E, Kobayashi A. 2008. Cloning and characterization of the 2-C-methyl-D-erythritol 4-phosphate (MEP) pathway genes of a natural-rubber producing plant, Hevea brasiliensis. Biosci Biotechnol Biochem. 72: 2903-2917.

Pakhomova S, Bartlett SG, Augustus A, Kuzuyama T, Newcomer ME. 2008. Crystal structure of fosfomycin resistance kinase FomA from Streptomyces wedmorensis. J Biol Chem. 283: 28518-28526.

Kumano T, Richard SB, Noel JP, Nishiyama M, Kuzuyama T. 2008. Chemoenzymatic syntheses of prenylated aromatic small molecules using Streptomyces prenyltransferases with relaxed substrate specificities. Bioorg Med Chem. 16: 8117-8126.

Kim SM, Kim YB, Kuzuyama T, Kim SU. 2008. Two copies of 4-(cytidine 5'-diphospho)-2-C-methyl-D-erythritol kinase (CMK) gene in Ginkgo biloba: molecular cloning and functional characterization. Planta. 228: 941-950.

Tello M, Kuzuyama T, Heide L, Noel JP, Richard SB. 2008. The ABBA family of aromatic prenyltransferases: broadening natural product diversity. Cell Mol Life Sci. 65: 1459-1463.

Kim SM, Kuzuyama T, Kobayashi A, Sando T, Chang YJ, Kim SU. 2008. 1-Hydroxy-2-methyl-2-(E)-butenyl 4-diphosphate reductase (IDS) is encoded by multicopy genes in gymnosperms Ginkgo biloba and Pinus taeda. Planta. 227: 287-298.

Okada A, Shimizu T, Okada K, Kuzuyama T, Koga J, Shibuya N, Nojiri H, Yamane H. 2007. Elicitor induced activation of the methylerythritol phosphate pathway toward phytoalexins biosynthesis in rice. Plant Mol Biol. 65: 177-187.

Yajima S, Hara K, Iino D, Sasaki Y, Kuzuyama T, Ohsawa K, Seto H. 2007. Structure of 1-deoxy-D-xylulose 5-phosphate reductoisomerase in a quaternary complex with a magnesium ion, NADPH and the antimalarial drug fosmidomycin IActa Crystallogr Sect F Struct Biol Cryst Commun. 63: 466-470.

Puan, K. J., C. Jin, H. Wang, G. Sarikonda, A. M. Raker, H. K. Lee, M. I. Samuelson, E. Marker-Hermann, L. Pasa-Tolic, E. Nieves, J. L. Giner, T. Kuzuyama, and C. T. Morita. 2007. Preferential recognition of a microbial metabolite by human V{gamma}2V{delta}2 T cells. Int Immunol. 19: 657-673.

Yoshida, A., T. Tomita, T. Kurihara, S. Fushinobu, T. Kuzuyama, and M. Nishiyama. 2007. Structural Insight into Concerted Inhibition of alpha(2)beta(2)-Type Aspartate Kinase from Corynebacterium glutamicum. J Mol Biol. 368: 521-536.

Yoshida, A., T. Tomita, T. Kuzuyama, and M. Nishiyama. 2007. Purification, crystallization and preliminary X-ray analysis of regulatory subunit of aspartate kinase from Thermus thermophilus. Acta Crystallogr Sect F Struct Biol Cryst Commun. 63: 96-98.

Tomita, T., S. Fushinobu, T. Kuzuyama, and M. Nishiyama. 2006. Structural basis for the alteration of coenzyme specificity in a malate dehydrogenase from Thermus flavus. Biochem. Biophys. Res. Commun. 347: 502-508.

Fujiwara, K., T. Tsubouchi, T. Kuzuyama, and M. Nishiyama. 2006. Involvement of arginine repressor in lysine biosynthesis of Thermus thermophilus. Microbiology. 152: 3585-3594.

Tomita, T., T. Kuzuyama, and M. Nishiyama. 2006. Alteration of coenzyme specificity of lactate dehydrogenase from Thermus thermophilus by introducing the loop region of NADP(H)-dependent malate dehydrogenase. Biosci. Biotechnol. Biochem. 70: 2230-2235.

Maeda, K., C. Nishiyama, T. Tokura, H. Nakano, S. Kanada, M. Nishiyama, K. Okumura, and H. Ogawa. 2006. FOG-1 represses GATA-1-dependent FceRI beta-chain transcription: transcriptional mechanism of mast cell-specific gene expression in mice. Blood. 108: 262-269.

Jia, Y., T. Tomita, K. Yamauchi, M. Nishiyama, and D. R. J. Palmer. 2006. Kinetics and product analysis of the reaction catalyzed by recombinant homoaconitase from Thermus thermophilus. Biochem. J. 396: 479-485.

Kawasaki, T., Y. Hayashi, T. Kuzuyama, K. Furihata, N. Itoh, H. Seto, and T. Dairi. 2006. Biosynthesis of a natural polyketide-isoprenoid hybrid compound furaquinocin A: Identification and heterologous expression of the gene cluster. J. Bacteriol. 188: 1236-1244.

Kim SM, T. Kuzuyama, YJ Chang, HJ Kwon, and SU Kim. 2006. Cloning and functional characterization of 2-C-methyl-D-erythritol 4-phosphate cytidyltransferase (GbMECT) gene from Ginkgo biloba. Phytochemistry. 67: 1435-1441.

Kim SM, T. Kuzuyama, YJ Chang, KS Song, and SU Kim. 2006. Identification of class 2 1-deoxy-D-xylulose 5-phosphate synthase and 1-deoxy-D-xylulose 5-phosphate reductoisomerase genes from Ginkgo biloba and their transcription in embryo culture with respect to ginkgolide biosynthesis. Planta Med. 72: 234-240.

Kim SM, T. Kuzuyama, YJ Chang, and SU Kim. Cloning and characterization of 2-C-methyl-D-erythritol 2,4-cyclodiphosphate synthase (MECS) gene from Ginkgo biloba. Plant Cell Rep. 25: 829-35.

Miyazaki, J., K. Asada, S. Fushinobu, T. Kuzuyama, and M. Nishiyama. 2005. Crystal structure of tetrameric homoisocitrate dehydrogenase from an extreme thermophile, Thermus thermophilus: involvement of hydrophobic dimer-dimer interaction in extremely high thermotolerance. J. Baceriol. 187: 6779-6788.

Tomita, T., S. Fushinobu, T. Kuzuyama, and M. Nishiyama. 2005. Crystal structure of NAD-dependent malate dehydrogenase complexed with NADP(H). Biochem. Biophys. Res. Commun. 334: 613-618.

Kuzuyama, T., J. P. Noel, and S. B. Richard. 2005. Structural basis for the promiscuous biosynthetic prenylation of aromatic natural products. Nature 435: 983-987.

Puan, K. J., H. Wang, T. Dairi, T. Kuzuyama, and C. T. Morita. 2005. fldA is an essential gene required in the 2-C-methyl-D-erythritol 4-phosphate pathway for isoprenoid biosynthesis. FEBS Lett. 579: 3802-3806.

Tsubouchi T., R. Mineki, H. Taka, N. Kaga, K. Murayama, C. Nishiyama, H. Yamane, T. Kuzuyama, and M. Nishiyama. 2005. Leader peptide-mediated transcriptional attenuation of lysine biosynthetic gene cluster in Thermus thermophilus. J. Biol. Chem. 280: 18511-18516.

Ito, T., C. Nishiyama, M. Nishiyama, H. Matsuda, K. Maeda, Y. Akizawa, Tsuboi, R, Okumura, and H. Ogawa. 2005. Mast cells acquire monocyte-specific gene expression and monocyte-like morphology by overproduction of PU.1. J. Immunol. 174: 376-383.

Nakano, N., C. Nishiyama, N. Masuoka, M. Nishiyama, H. Yamane, H. Okumura, and K. Ogawa. 2005. Analysis of PU.1/ICSBP (IRF-8) complex formation with various PU.1 mutants: Molecular cloning of rat Icsbp (Irf-8) cDNA. Immunogenetics. 56: 871-877.

Nishiyama, C., T. Ito, M. Nishiyama, S. Masaki, K. Maeda, N. Nakano, W. Ng, K. Fukuyama, M. Yamamoto, H. Okumura, and K. Ogawa. 2005. GATA-1 is required for expression of FceRI on mast cells: Analysis of mast cells derived from GATA-1 knockdown mouse bone marrow. Int. Immunol. 17: 847-856.

Eguchi, T., Y. Dekishima, H. Aizawa, H. Tamegai, K. Kakinuma, N. Misawa, T. Kuzuyama, and H. Seto. 2005. Preparation of highly deuterated zeaxanthin, lycopene, and b-carotene from fully deuterated mevalonate using engineered Escherichia coli. Tetrahedron 61: 2027-2035.

Cho E.-M., A. Okada, H. Kenmoku, K. Otomo, T. Toyomasu, W. Mitsuhashi, T. Sassa, A. Yajima, G. Yabuta, K. Mori, H. Oikawa, H. Toshima, N. Shibuya, H. Nojiri, T. Omori, M. Nishiyama, and H. Yamane. 2004. Molecular cloning and characterization of a cDNA encoding ent-cassa-12,15-diene synthase, a putative diterpenoid phytoalexin biosynthetic enzyme, from suspension-cultured rice cells treated with a chitin elicitor. Plant J. 37: 1-8.

Nishiyama, C., M. Nishiyama, T. Ito, S. Masaki, K. Maeda, N. Masuoka, H. Yamane, T. 2004. Kitamura, H. Ogawa, and K. Okumura. Overproduction of PU.1 in mast cell progenitors: its effect on monocyte- and mast cell-specific gene expression. Biochem. Biophys. Res. Commun. 313: 516-521.

Nishiyama, C., M. Nishiyama, T. Ito, S. Masaki, N. Masuoka, H. Yamane, T. Kitamura, H. Ogawa, and K. Okumura. 2004. Functional analysis of PU.1 domains in monocyte-specific gene regulation. FEBS Lett. 561: 63-68.

Kato, C. T. Kurihara, N. Kobashi, H. Yamane, and M. Nishiyama. 2004. Conversion of feedback regulation in aspartate kinase by domain exchange. Biochem. Biophys. Res. Commun. 316: 802-808.

Lombo, T., N. Takaya, J. Miyazaki, K. Gotoh, M. Nishiyama, T. Kosuge, A. Nakamura, and T. Hoshino. 2004. Functional analysis of the small subunit of the putative homoaconitase from Pyrococcus horikoshii in the Thermus lysine pathway. FEMS Microbiol. Lett. 233: 315-324.

Jikumaru, Y., T. Asami, H. Seto, S. Yoshida, T. Yokoyama, N. Obara, M. Hasegawa, O. Kodama, M. Nishiyama, K. Okada, H. Nojiri, and H. Yamane. 2004. Preparation and biological activity of molecular probes to identify and analyze jasmonic acid-binding proteins. Biosci. Biotechnol. Biochem. 68: 1461-1466.

Miyazaki, T., J. Miyazaki, H. Yamane, and M. Nishiyama. 2004. a-Aminoadipate aminotransferase from an extremely thermophilic bacterium, Thermus thermophilus. Microbiology 150: 2327-2334.

Nemoto, T., E.-M. Cho, A. Okada, K. Okada, K. Otomo, Y. Kanno, T. Toyomasu, W. Mitsuhashi, T. Sassa, E. Minami, N. Shibuya, M. Nishiyama, H. Nojiri, and H. Yamane. 2004. Stemar-13-ene synthase, a diterpene cyclase involved in the biosynthesis of the phytoalexin oryzalexin S in rice. FEBS Lett. 571: 182-186.

Nishiyama, C., N. Masuoka, M. Nishiyama, T. Ito, H. Yamane, K. Okumura, and H. Ogawa. 2004. Evidence against requirement of Ser41 and Ser45 for function of PU.1 - Molecular cloning of rat PU.1. FEBS Lett. 572: 57-64.

Nishiyama, C., Y. Akizawa, M. Nishiyama, M. Hasegawa, T. Tokura, H. Kawada, K. Mitsuishi, T. Ito, N. Nakano, A. Okamoto, A. Takagi, H. Yagita, K. Okumura, and H. Ogawa. 2004. Polymorphisms in FceRIb promoter region affecting transcription activity: a possible promoter-dependent mechanism for association between FceRIb and atopy. J. Immunol. 173: 6458-6464.

Kiribuchi, K., M. Sugimori, M. Takeda, T. Otani, K. Okada, H. Onodera, M. Ugaki, Y. Tanaka, C. Tomiyama-Akimoto, T. Yamaguchi, E. Minami, N. Shibuya, T. Omori, M. Nishiyama, H. Nojiri, and H. Yamane. 2004. RERJ1, a jasmonic acid-responsive gene from rice, encodes a basic helix-loop-helix protein. Biochem. Biophys. Res. Commun. 325: 857-863.

Takagi, M., K. Kaneda, T. Shimizu, Y. Hayakawa, H. Seto, and T. Kuzuyama. 2004. Bacillus subtilis ypgA gene is fni, a nonessential gene encoding type 2 isopentenyl diphosphate isomerase. Biosci. Biotechnol. Biochem. 68: 132-137.

Kuzuyama, T., T. Dairi, H. Yamashita, Y. Shoji, and H. Seto. 2004. Hetereologous mevalonate production in Streptomyces lividans TK23. Biosci. Biotechnol. Biochem. 68: 931-934.

Kawasaki, T, T. Kuzuyama, Y. Kuwamori, N. Matsuura, N. Itoh, K. Furihata, H. Seto, and T. Dairi. 2004. Presence of copalyl diphosphate synthase gene in an actinomycete possessing the mevalonate pathway. J. Antibiot. 57: 739-747.

Miyazaki, J., N. Kobashi, M. Nishiyama, and H. Yamane. 2003. Characterization of homoisocitrate dehydrogenase involved in lysine biosynthesis of an extremely thermophilic bacterium, Thermus thermophilus HB27, and evolutionary implication of beta-decarboxylating dehydrogenase. J. Biol. Chem. 278: 1864-1871.

Hasegawa, M., C. Nishiyama, Y. Akizawa, M. Nishiyama, K. Mitsuishi, T. Ito, S. Furukawa, C. Ra, K. Okumura, and H. Ogawa. 2003. A novel -66T/C polymorphism in FceRI a-chain promoter affecting the transcription activity: possible relationship to allergic diseases. J. Immunol. 171: 1927-1933.

Hasegawa, M., C. Nishiyama, M. Nishiyama, Y. Akizawa, K. Takahashi, T. Ito, S. Furukawa, C. Ra, K. Okumura, and H. Ogawa. 2003. Regulation of the human FceRI alpha-chain distal promoter. J. Immunol. 170: 3732-3738.

Maeda, K., C. Nishiyama, T. Tokura, Y. Akizawa, M. Nishiyama, H. Ogawa, K. Okumura, and C. Ra. 2003. Regulation of cell-type specific mouse FceRI beta-chain gene expression by GATA-I via four GATA motifs in the promoter. J. Immunol. 170: 334-340.

Nishiyama, C., T. Yokota, M. Nishiyama, C. Ra, K. Okumura, and H. Ogawa. 2003. Molecular cloning of rat YY1 transcription factor. Biosci. Biotechnol. Biochem. 67: 654-658.

Sakai, H., M. N. Vassylyeva, T. Matsuura, S.-i. Sekine, K. Gotoh, M. Nishiyama, T. Terada, M. Shirouzu, S. Kuramitsu, D. G. Vassylyev, and S. Yokoyama. 2003. Crystal structure of a lysine biosynthesis enzyme, LysX, from Thermus thermophilus HB8. J. Mol. Biol. 332: 729-740.

Vassylyeva, M. N., H. Sakai, T. Matsuura, S.-i. Sekine, M. Nishiyama, T. Terada, M. Shirouzu, S. Kuramitsu, D. G. Vassylyev, and S. Yokoyama. 2003. Cloning, expression, purification, crystallization and initial crystallographic analysis of lysine biosynthesis LysX protein from Thermus thermophilus HB8. Acta Crystallogr. D 59: 1651-1652.

Sobajima, H., M. Takeda, M. Sugimori, N. Kobashi, K. Kiribuchi, E. M. Cho, C. Akimoto, T. Yamaguchi, E. Minami, N. Shibuya, F. Schaller, E. W. Weiler, T. Yoshihara, H. Nishida, H. Nojiri, T. Omori, M. Nishiyama, and H. Yamane. 2003. Cloning and characterization of a jasmonic acid-responsive gene encoding 12-oxophytodienoic acid reductase in suspension-cultured rice cells. Planta 216: 692-698.