Bioplastic Research Team



Original Papers

Mori Y, Noda S, Shirai T*, Kondo A. (2021) Direct 1,3-butadiene biosynthesis in Escherichia coli via a tailored ferulic acid decarboxylase mutant. Nat Commun. 13;12(1):2195-2206.

Noda S*, Mori Y, Fujiwara R, Shirai T, Tanaka T, Kondo A. (2021) Reprogramming Escherichia coli pyruvate-forming reaction towards chorismate derivatives production. Metab Eng. 67:1-10.

Yuzawa T, Shirai T, Orishimo R, Kawai K, Kondo A, Hirasawa T. (2021) 13C-metabolic flux analysis in glycerol-assimilating strains of Saccharomyces cerevisiae. J Gen Appl Microbiol. in press

Iijima H, Watanabe A, Sukigara H, Iwazumi K, Shirai T, Kondo A, Osanai T. (2021) Four-carbon dicarboxylic acid production through the reductive branch of the open cyanobacterial tricarboxylic acid cycle in Synechocystis sp. PCC 6803. Metab Eng. 65:88-98.

Nonaka D, Fujiwara R, Hirata Y, Tanaka T, Kondo A. (2021) Metabolic engineering of 1,2-propanediol production from cellobiose using beta-glucosidase-expressing E. coli. Bioresour Technol. 329:124858.


Original Papers

Fujiwara R, Noda S*, Tanaka T*, Kondo A. Metabolic engineering of Escherichia coli for shikimate pathway derivative production from glucose-xylose co-substrate. Nat. Commun. 11: 279-290.

Noda S, Mori Y, Oyama S, Kondo A, Araki M, Shirai T*. (2019) Reconstruction of metabolic pathway for isobutanol production in Escherichia coli. Microb. Cell. Fact. 18(1):124-133.

Satowa D, Fujiwara R, Uchio S, Nakano M, Otomo C, Hirata Y, Matsumoto T, Noda S, Tanaka T, Kondo A.(2020) Metabolic engineering of E. coli for improving mevalonate production to promote NADPH regeneration and enhance acetyl-CoA supply. Biotechnol Bioeng. 117(7):2153-2164.

Murai K, Sasaki D, Kobayashi S, Yamaguchi A, Uchikura H, Shirai T, Sasaki K, Kondo A, Tsuge Y. (2020) Optimal Ratio of Carbon Flux between Glycolysis and the Pentose Phosphate Pathway for Amino Acid Accumulation in Corynebacterium glutamicum. ACS Synth Biol. 9(7):1615-1622.

Kobayashi S, Kawaguchi H, Shirai T, Ninomiya K, Takahashi K, Kondo A, Tsuge Y. (2020) Automatic Redirection of Carbon Flux between Glycolysis and Pentose Phosphate Pathway Using an Oxygen-Responsive Metabolic Switch in Corynebacterium glutamicum. ACS Synth Biol. 9(4):814-826.

Iijima H, Watanabe A, Sukigara H, Shirai T, Kondo A, Osanai T. (2020) Simultaneous increases in the levels of compatible solutes by cost-effective cultivation of Synechocystis sp. PCC 6803. Biotechnol Bioeng. 117(6):1649-1660.


Original Papers

Sasaki K, Inoue J, Sasaki D, Hoshi N, Shirai T, Fukuda I, Azuma T, Kondo A, Osawa R. (2019) Construction of a Model Culture System of Human Colonic Microbiota to Detect Decreased Lachnospiraceae Abundance and Butyrogenesis in the Feces of Ulcerative Colitis Patients. Biotechnol. J. 14(5):e1800555.


Original Papers

Mori Y, Shirai T*. (2018) Designing artificial metabolic pathways, construction of target enzymes, and analysis of their function. Curr. Opin. Biotechnol. 54:41-44.

Fujiwara R, Noda S*, Tanaka T*, Kondo A. (2018) Muconic Acid Production Using Gene-Level Fusion Proteins in Escherichia coli. ACS Synth. Biol. 7(11):2698-2705.

Thomson NM, Shirai T, Chiapello M, Kondo A, Mukherjee KJ, Sivaniah E, Numata K, Summers DK. (2018) Efficient 3-Hydroxybutyrate Production by Quiescent Escherichia coli Microbial Cell Factories is Facilitated by Indole-Induced Proteomic and Metabolomic Changes. Biotechnol. J. 13(5):e1700571.


Original Papers

Noda S, Shirai T, Mori Y, Oyama S, Kondo A. (2017) Engineering a synthetic pathway for maleate in Escherichia coli. Nat. Commun. 8(1):1153-1165.

Noda S, Kondo A. (2017) Recent Advances in Microbial Production of Aromatic Chemicals and Derivatives. Trends. Biotechnol. 35(8):785-796.

Teramura H, Sasaki K, Kawaguchi H, Matsuda F, Kikuchi J, Shirai T, Sazuka T, Yamasaki M, Takumi S, Ogino C, Kondo A. (2017) Differences in glucose yield of residues from among varieties of rice, wheat, and sorghum after dilute acid pretreatment. Biosci. Biotechnol. Biochem. 81(8):1650-1656.

Ueda S, Kawamura Y, Iijima H, Nakajima M, Shirai T, Okamoto M, Kondo A, Hirai MY, Osanai T. (2017) Anionic metabolite biosynthesis enhanced by potassium under dark, anaerobic conditions in cyanobacteria. Sci. Rep. 6:32354-32362.


Original Papers

Noda S, Shirai T, Oyama S, Kondo A. (2016) Metabolic design of a platform Escherichia coli strain producing various chorismate derivatives. Metab. Eng. 33:119-129.

Shirai T, Osanai T, Kondo A. (2016) Designing intracellular metabolism for production of target compounds by introducing a heterologous metabolic reaction based on a Synechosystis sp. 6803 genome-scale model. Microb. Cell. Fact. 15:13-18.

Fujiwara R, Noda S, Tanaka T, Kondo A. (2016) Styrene production from a biomass-derived carbon source using a coculture system of phenylalanine ammonia lyase and phenylacrylic acid decarboxylase-expressing Streptomyces lividans transformants. J. Biosci. Bioeng. 122(6):730-735.

Fujiwara R, Noda S, Kawai Y, Tanaka T, Kondo A. (2016) 4-Vinylphenol production from glucose using recombinant Streptomyces mobaraense expressing a tyrosine ammonia lyase from Rhodobacter sphaeroides. Biotechnol. Lett. 38(9):1543-1549.

Sasaki K, Okamoto M, Shirai T, Tsuge Y, Fujino A, Sasaki D, Morita M, Matsuda F, Kikuchi J, Kondo A. (2016) Toward the complete utilization of rice straw: Methane fermentation and lignin recovery by a combinational process involving mechanical milling, supporting material and nanofiltration. Bioresour. Technol. 216:830-837.

Teramura H, Sasaki K, Oshima T, Matsuda F, Okamoto M, Shirai T, Kawaguchi H, Ogino C, Hirano K, Sazuka T, Kitano H, Kikuchi J, Kondo A. (2016) Organosolv pretreatment of sorghum bagasse using a low concentration of hydrophobic solvents such as 1-butanol or 1-pentanol. Biotechnol. Biofuels. 9:27-37.


Original Papers

Osanai T, Shirai T, Iijima H, Nakaya Y, Okamoto M, Kondo A, Hirai MY. (2015) Genetic manipulation of a metabolic enzyme and a transcriptional regulator increasing succinate excretion from unicellular cyanobacterium. Front Microbiol. 6,1064.

Iijima H, Shirai T, Okamoto M, Kondo A, Hirai MY, Osanai T. (2015) Changes in primary metabolism under light and dark conditions in response to overproduction of a response regulator RpaA in the unicellular cyanobacterium Synechocystis sp. PCC 6803. Front Microbiol. 6,888.

Sasaki K, Okamoto M, Shirai T, Tsuge Y, Teramura H, Sasaki D, Kawaguchi H, Hasunuma T, Ogino C, Matsuda F, Kikuchi J, Kondo A. (2015) Precipitate obtained following membrane separation of hydrothermally pretreated rice straw liquid revealed by 2D NMR to have high lignin content. Biotechnol Biofuels. 8,88.

Teramura H, Sasaki K, Oshima T, Aikawa S, Matsuda F, Okamoto M, Shirai T, Kawaguchi H, Ogino C, Yamasaki M, Kikuchi J, Kondo A. (2015) Changes in Lignin and Polysaccharide Components in 13 Cultivars of Rice Straw following Dilute Acid Pretreatment as Studied by Solution-State 2D 1H-13C NMR. PLoS One. 10, e0128417.

Noda, S., Shirai, T., Mochida, K., Matsuda, F., Oyama, S., Okamoto, M., Kondo, A. (2015) Evaluation of Brachypodium distachyon L-tyrosine decarboxylase using L-tyrosine overproduction Saccharomyces cerevisiae., PLoS ONE, 21, e0125488.

Noda, S., Kawai, Y., Tanaka, T., Kondo, A. (2015) 4-Vinylphenol biosynthesis from cellulose as the sole carbon source using phenolic acid decarboxylase-and tyrosine ammonia lyase-expressing Streptomyces lividans., Bioresource Technology, 180, 59-65.

Noda, S., Matsumoto, T., Tanaka, T., Kondo, A. (2015) Secretory production of tetrameric native full-length streptavidin with thermostability using Streptomyces lividans as a host., Microbial Cell Factories, 14(1), 5.

Osanai., T, Shirai., T, Iijima., H, Kuwahara., A, Suzuki., I, Kondo., A, Hirai., MY. (2015) Alteration of cyanobacterial sugar and amino acid metabolism by overexpression hik8, encoding a KaiC-associated histidine kinase. Environ Microbiol, 17, 2430-2340.


Original Papers

Matsuda, F., Ogura, T., Tomita, A., Hirano, I., and Shimizu, H. (2014) NanoLC-MRM based quantitative platform for analyzing multiple enzymes associated with central metabolic pathways of Saccharomyces cerevisiae using ultra-fast mass spectrometry. J. Biosci. Bioeng.. 119, 117-120.

Joseph, A., Aikawa, S., Sasaki, K., Matsuda, F., Hasunuma, T., and Kondo, A. (2014) Increased biomass production and glycogen accumulation in apcE gene deleted Synechocystis sp. PCC 6803. AMB Express. 4, 17.

Osanai, T., Oikawa, A., Shirai, T., Kuwahara, A., Iijima, H., Tanaka, K., Ikeuchi, M., Kondo, A., Saito, K. and Hirai, M.Y. (2014) Capillary electrophoresis-mass spectrometry reveals the distribution of carbon metabolites during nitrogen starvation in Synechocystis sp. PCC 6803. 16, 512-524.


Original Papers

Miyazaki, T., Noda, S., Tanaka, T., Kondo, A. (2013) Hyper secretion of Thermobifida fusca beta-glucosidase via a Tat-dependent signal peptide using Streptomyces lividans., Microbial Cell Factories, 12(1), 88

Kawai, Y., Noda, S., Ogino, C., Takeshima, Y., Okai, N., Tanaka, T., Kondo, A. (2013) p-Hydroxycinnamic acid production directly from cellulose using endoglucanase- and tyrosine ammonia lyase-expressing Streptomyces lividans. Microb. Cell Fact. 12, 45.

Noda, S., Kawai, Y., Tanaka, T., Kondo, A. (2013) Creation of endoglucanase-secreting Streptomyces lividans for enzyme production using cellulose as the carbon source. Appl. Microbiol. Biotechnol. 97, 5711–5720.

Noda, S., Miyazaki, T., Tanaka, T., Ogino, C. and Kondo, A. (2013) High-level production of mature active-form Streptomyces mobaraensis transglutaminase via pro-transglutaminase processing using Streptomyces lividans as a host. Biochem. Eng. J. 74: 76-80

Matsuda, F., Shirai, T., Ishii, J., Kondo, A. (2013) Regulation of central carbon metabolism in Saccharomyces cerevisiae by metabolic inhibitors, J. Biosci. Bioeng.116, 59-64.

Shirai, T., Matsuda, F., Okamoto, M., and Kondo, A. (2013) Evaluation of control mechanisms for Saccharomyces cerevisiae central metabolic reactions using metabolome data of eight single-gene deletion mutants, Appl. Microbiol. Biotechnol. 97, 3569-3577.


Original Papers

Ishii, J., Yoshimura, K., Hasunuma, T. and Kondo, A.(2012) Reduction of furan derivatives by overexpressing NADH-dependent Adh1 improves ethanol fermentation using xylose as sole carbon source with Saccharomyces cerevisiae harboring XR–XDH pathway, Appl. Microbiol. Biotechnol. 97, 2597-2607.

Matsuda, F., Kondo, T., Ida, K., Tezuka, H., Ishii, J. and Kondo, A.(2012) Construction of an artificial pathway for isobutanol biosynthesis in the cytosol of Saccharomyces cerevisiae, Biosci. Biotechnol. Biochem. 76, 2139-2141.

Suga, H., Matsuda, F., Hasunuma, T., Ishii, J., and Kondo, A.(2012) Implementation of a transhydrogenase-like shunt to counter redox imbalance during xylose fermentation in Saccharomyces cerevisiae, Appl. Microbiol. Biotechnol. 97, 1669-1678.

Review Paper

Kondo, A., Ishii, J., Hara, K., Hasunuma, T., and Matsuda, F.(2012) Development of microbial cell factories for bio-refinery through synthetic bioengineering, J. Biotech. 163, 204-216.