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TOMINAGA MasahiroGraduate School of Science, Technology and Innovation / Department of Science, Technology and InnovationAssociate Professor
Research activity information
■ Award■ Paper
- Microbial production of bicyclic monoterpenes is of great interest because their production primarily utilizes non-sustainable resources. Here, we report an engineered Saccharomyces cerevisiae yeast that produces bicyclic monoterpenes, including borneol, camphor, and bornyl acetate. The engineered yeast expresses a bornyl pyrophosphatase synthase from Salvia officinalis fused with mutated farnesyl pyrophosphate synthase from S. cerevisiae and two mevalonate pathway enzymes (an acetoacetyl-CoA thiolase/hydroxymethylglutaryl-CoA [HMG-CoA] reductase and an HMG-CoA synthase) from Enterococcus faecalis. The yeast produced up to 23.0 mg/L of borneol in shake-flask fermentation. By additionally expressing borneol dehydrogenase from Pseudomonas sp. TCU-HL1 or bornyl acetyltransferase from Wurfbainia villosa, the engineered yeast produced 23.5 mg/L of camphor and 21.1 mg/L of bornyl acetate, respectively. This is the first report of heterologous production of camphor and bornyl acetate.Jun. 2025, Metabolic engineering communications, 20, e00259, English, International magazineScientific journal
- Lead, Dec. 2024, Nature Communications[Refereed]Scientific journal
- Nov. 2024, Journal of Bioscience and Bioengineering[Refereed]Scientific journal
- May 2024
Abstract Increasing demand for biologics necessitates the rapid production of antibodies and their mimetics. Herein, we established a rapid workflow to develop a fermentation process for high-titer production of small antibodies using the yeast
Komagataella phaffii . We screened yeast strains with the optimal gene copy number of target proteins and applied them to a feedback-controlled, high-cell density fed-batch fermentation, and achieved high-titer production of small antibodies with titers 3–7 g/L. - BACKGROUND: Single-cell droplet microfluidics is an important platform for high-throughput analyses and screening because it provides an independent and compartmentalized microenvironment for reaction or cultivation by coencapsulating individual cells with various molecules in monodisperse microdroplets. In combination with microbial biosensors, this technology becomes a potent tool for the screening of mutant strains. In this study, we demonstrated that a genetically engineered yeast strain that can fluorescently sense agonist ligands via the heterologous expression of a human G-protein-coupled receptor (GPCR) and concurrently secrete candidate peptides is highly compatible with single-cell droplet microfluidic technology for the high-throughput screening of new agonistically active peptides. RESULTS: The water-in-oil microdroplets were generated using a flow-focusing microfluidic chip to encapsulate engineered yeast cells coexpressing a human GPCR [i.e., angiotensin II receptor type 1 (AGTR1)] and a secretory agonistic peptide [i.e., angiotensin II (Ang II)]. The single yeast cells cultured in the droplets were then observed under a microscope and analyzed using image processing incorporating machine learning techniques. The AGTR1-mediated signal transduction elicited by the self-secreted Ang II peptide was successfully detected via the expression of a fluorescent reporter in single-cell yeast droplet cultures. The system could also distinguish Ang II analog peptides with different agonistic activities. Notably, we further demonstrated that the microenvironment of the single-cell droplet culture enabled the detection of rarely existing positive (Ang II-secreting) yeast cells in the model mixed cell library, whereas the conventional batch-culture environment using a shake flask failed to do so. Thus, our approach provided compartmentalized microculture environments, which can prevent the diffusion, dilution, and cross-contamination of peptides secreted from individual single yeast cells for the easy identification of GPCR agonists. CONCLUSIONS: We established a droplet-based microfluidic platform that integrated an engineered yeast biosensor strain that concurrently expressed GPCR and self-secreted the agonistic peptides. This offers individually isolated microenvironments that allow the culture of single yeast cells secreting these peptides and gaging their signaling activities, for the high-throughput screening of agonistic peptides. Our platform base on yeast GPCR biosensors and droplet microfluidics will be widely applicable to metabolic engineering, environmental engineering, and drug discovery.Apr. 2024, Microbial cell factories, 23(1) (1), 104 - 104, English, International magazine[Refereed]Scientific journal
- Flavonoids, a major group of secondary metabolites in plants, are promising for use as pharmaceuticals and food supplements due to their health-promoting biological activities. Industrial flavonoid production primarily depends on isolation from plants or organic synthesis, but neither is a cost-effective or sustainable process. In contrast, recombinant microorganisms have significant potential for the cost-effective, sustainable, environmentally friendly, and selective industrial production of flavonoids, making this an attractive alternative to plant-based production or chemical synthesis. Structurally and functionally diverse flavonoids are derived from flavanones such as naringenin, pinocembrin and eriodictyol, the major basic skeletons for flavonoids, by various modifications. The establishment of flavanone-producing microorganisms can therefore be used as a platform for producing various flavonoids. This review summarizes metabolic engineering and synthetic biology strategies for the microbial production of flavanones. In addition, we describe directed evolution strategies based on recently-developed high-throughput screening technologies for the further improvement of flavanone production. We also describe recent progress in the microbial production of structurally and functionally complicated flavonoids via the flavanone modifications. Strategies based on synthetic biology will aid more sophisticated and controlled microbial production of various flavonoids.Frontiers Media SA, Jul. 2022, Frontiers in Chemical Engineering, 4[Refereed]Scientific journal
- Fermentative production of squalene in yeast as an alternative approach to extracting squalene from sharks or plants has attracted significant interest. However, squalene accumulation is limited due to its inevitable high-flux allocation toward ergosterol synthesis. In this study, we described expression control of squalene monooxygenase (Erg1p), the first-step enzyme of ergosterol synthesis from squalene, to significantly reduce squalene loss. We replaced the ERG1 promoter (PERG1) with three natural yeast promoters with different activities (PPCL2, PHCM1, and PTHI2). ERG1 controlled by PTHI2 showed 20 times higher squalene production compared with the wild-type strain, whereas the other two strains exhibited no significant difference. By combining the overexpression of rate-limiting enzyme and the deletion of non-essential competing pathway gene, the yeast Saccharomyces cerevisiae produced up to 379 mg/L of squalene.Lead, Jul. 2022, Journal of bioscience and bioengineering, 134(1) (1), 1 - 6, English, Domestic magazine[Refereed]Scientific journal
- Lead, Apr. 2022, LIFE-BASEL, 12(4) (4), English[Refereed]
- We describe a novel expression cassette that enables efficient and constitutive expression of the ZZ domain derived from Staphylococcus aureus protein A on the yeast cell surface to easily prepare yeast-based immunosorbents. Using this expression cassette containing the PGK1 promoter, a secretion signal derived from α-factor, and a Flo1-derived anchor protein, we successfully created a yeast-based immunosorbent for human serum albumin.Dec. 2021, The Journal of general and applied microbiology, 67(6) (6), 265 - 268, English, Domestic magazine[Refereed]Scientific journal
- Lead, Mar. 2021, NATURE COMMUNICATIONS, 12(1) (1), English[Refereed]Scientific journal
- Jun. 2017, ACS SYNTHETIC BIOLOGY, 6(6) (6), 928 - 935, English[Refereed]Scientific journal
- Nov. 2016, ACS SYNTHETIC BIOLOGY, 5(11) (11), 1201 - 1210, English[Refereed]Scientific journal
- Sep. 2016, BIOTECHNOLOGY FOR BIOFUELS, 9(1) (1), 188, English[Refereed]Scientific journal
- Lead, Mar. 2015, PLOS ONE, 10(3) (3), e0120243, English[Refereed]Scientific journal
- Lead, Mar. 2015, PLOS ONE, 10(3) (3), e0119818, English[Refereed]Scientific journal
- [京都] : 日本生物物理学会, Jun. 2024, 生物物理 / 日本生物物理学会 編, 64(3) (3), 144 - 146, Japanese酵母における遺伝子スイッチ進化工学ワークフローの「ロバスト化」—Robust Evolutionary Engineering Platform for Yeast Genetic Switches
- 2023, 日本生物工学会大会講演要旨集, 75thDevelopment of yeast transcriptional switches using bacteriophage RNA polymerase
- 2023, 日本生物工学会大会講演要旨集, 75thDevelopment of functional micro hydrogel with cell selective ability
- 2023, 日本農芸化学会関西支部講演会講演要旨集, 528thバクテリオファージ由来の転写系を利用した酵母遺伝子スイッチの構築
- 公益社団法人 日本生物工学会, 25 Apr. 2022, 生物工学会誌, 100(4) (4), 190 - 190, Japanese
- 2022, 日本農芸化学会関西支部講演会講演要旨集, 523rdバクテリア転写因子CamRを用いたボルネオール生産酵母のスクリーニング系の構築
- 2020, 日本農芸化学会関西支部講演会講演要旨集, 513th酵母におけるスクアレン生合成経路の改変および下流モノオキシゲナーゼの発現調節
- 2019, 日本農芸化学会関西支部講演会講演要旨集, 511th新規な3機能性融合マーカーを用いた酵母遺伝子スイッチの組織的開発
- 2019, 日本生物工学会大会講演要旨集, 71st陽性/陰性選択マーカーと蛍光タンパク質から成る3機能性新規融合タンパク質を用いた酵母遺伝子スイッチの開発
- 2019, 日本農芸化学会大会講演要旨集(Web), 20197セグメントデコーダとして振る舞う単層遺伝子回路の進化デザイン
- 2019, 日本農芸化学会関西支部講演会講演要旨集, 511th進化デザインによる新規テルペノイドセンサの開発
- 2015, 日本農芸化学会大会講演要旨集(Web), 2015ゲノム連続組み換え手法を用いたイソプレノイド生産量の高い大腸菌株の作出
- 2014, 日本ゲノム微生物学会年会要旨集, 8th選択カセットの再デザインと微生物ゲノムの連続編集への応用
- 2014, 日本農芸化学会大会講演要旨集(Web), 2014Bet I変異体とT7RNAポリメラーゼを用いたコリン誘導系の開発
- 2014, 日本農芸化学会大会講演要旨集(Web), 2014安定運転と弱毒化を指向したAutogeneの進化工学
- 2013, 日本ゲノム微生物学会年会要旨集, 7th液体ハンドリングのみによって行う微生物ゲノムの連続編集
- 日本生物工学会, 2013, 生物工学会誌 / 日本生物工学会 編, 91(6) (6), 333 - 336, Japanese代謝経路と制御ネットワークの組織的な進化工学技術
- 2012, 日本農芸化学会大会講演要旨集(Web), 2012ヌクレオシドキナーゼを用いた微生物ゲノムの連続改変
- 日本生物工学会, 25 Aug. 2011, 日本生物工学会大会講演要旨集, 63, 176, Japanese2Ia14 Directed evolution of LuxR for sensitivity
- 日本生物工学会, 2010, 日本生物工学会大会講演要旨集, 22, 166 - 166, Japanese3P-2141 Localization of the molecular functionalities on flagella filaments
- Joint work, Journal of Bioscience and Bioengineering, 2013, Japanese代謝経路と制御ネットワークの組織的な進化工学技術Scholarly book
- 神戸大学 研究基盤センター 若手フロンティア研究会2023, Dec. 2023T7ファージ由来の転写系を利用した酵母遺伝子スイッチの開発
- The 34th International Symposium on Chemical Engineering (ISChE2023), Dec. 2023Development of antibody binding protein-immobilized functional microhydrogels with cell sorting capability
- 日本農芸化学会関西支部第528回講演会, Dec. 2023バクテリオファージ由来の転写系を利用した酵母遺伝子スイッチの構築
- 第3回神戸大学先端バイオ工学研究センター成果発表会, Sep. 2023高発現性の酵母人工誘導プロモータの開発
- 第3回神戸大学先端バイオ工学研究センター成果発表会, Sep. 2023バクテリオファージ由来転写系を利用した酵母遺伝子スイッチの開発
- 第75回日本生物工学会大会, Sep. 2023細胞選別能を有する機能性微小ハイドロゲルの創製
- 第75回日本生物工学会大会, Sep. 2023酵母の高発現性人工誘導プロモータの開発
- 第75回日本生物工学会大会, Sep. 2023バクテリオファージ由来RNAポリメラーゼを利用した酵母遺伝子スイッチの開発Oral presentation
- 第25回化学工学会学生発表会, Mar. 2023メチロトローフ酵母を用いた異なる炭素源からの乳酸生産
- 日本農芸化学会関西支部 第523回講演会, Dec. 2022バクテリア転写因子CamRを用いたボルネオール生産酵母のスクリーニング系の構築
- 第2回神戸大学先端バイオ工学研究センター成果発表会, Oct. 2022植物由来テルペン合成酵素を用いたボルネオール生産酵母の開発
- 第2回神戸大学先端バイオ工学研究センター成果発表会, Oct. 2022酵母におけるスクアレン生産の呈色評価系の構築
- 第1回神戸大学先端バイオ工学センター成果発表会, Oct. 2021進化工学による酵母遺伝子スイッチの開発とテルペノイドセンサへの応用
- 日本農芸化学会関西支部第513回講演会, Nov. 2020酵母におけるスクアレン生合成経路の改変および下流モノオキシゲナーゼの発現調節
- 日本農芸化学会関西支部 支部例会(第511回講演会), Dec. 2019新規な3機能性融合マーカーを用いた酵母遺伝子スイッチの組織的開発
- 日本農芸化学会関西支部 支部例会(第511回講演会), Dec. 2019進化デザインによる新規テルペノイドセンサの開発
- 第71回日本生物工学会大会, Sep. 2019, Japanese, 岡山大学 津島キャンパス, Domestic conference陽性/陰性選択マーカーと蛍光タンパク質から成る3機能性新規融合タンパク質を用いた酵母遺伝子スイッチの開発Oral presentation
- 生物工学若手研究者の集い 夏のセミナー2019, Jul. 2019, Japanese, 琵琶湖国定公園 近江白浜 政府登録旅館 白浜荘, Domestic conference酵母を用いた癌標的膜タンパク質に対する相互作用阻害分子のスクリーニング系構築Poster presentation
- 日本農芸化学会2019年度大会, Mar. 2019Directed evolution of single-layered genetic circuits that behave as 7-segment decoders
- The 9th International Symposium of Innovative BioProduction Kobe (iBioK), Feb. 2018Development of combinatorial gene assemble system and application to improvement of organic solvent tolerance in Escherichia coli
- 生物工学若手研究者の集い 夏のセミナー2017, Jul. 2017酵母遺伝子スイッチの進化工学のためのON/OFF選抜法の開発
- 生物工学若手研究者の集い 夏のセミナー2017, Jul. 2017酵母代謝改変のための遺伝子のノックダウン/ノックアウト法の開発
- Metabolic Engineering 11, Jun. 2016, English, International conferenceDevelopment of Selection Method for Directed Evolution of Genetic Switches in Saccharomyces CerevisiaePoster presentation
- 日本生物工学会大会講演要旨集, Aug. 2011, Japanese, 日本生物工学会2Ia14 Directed evolution of LuxR for sensitivity
- 日本生物工学会大会講演要旨集, 2010, Japanese, 日本生物工学会3P-2141 Localization of the molecular functionalities on flagella filaments
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