Publications
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Corresponding authors of each publication are marked with asterisks (*).
2024
- Cell-free protein expression by a reconstituted transcription-translation system energized by sugar catabolism
G Sato, S Miyazawa, N Doi, K Fujiwara*
Molecules 29(13), 2956, DOI: 10.3390/molecules29132956
- Metabolic tug-of-war between glycolysis and translation revealed by a biochemical reconstitution
G Sato, S Kinoshita, TG Yamada, S Arai, T Kitaguchi, A Funahashi, N Doi, K Fujiwara*
ACS Synthetic Biology 13(5), 1572-1581, DOI: 10.1021/acssynbio.4c00209
2023
- Multimolecular Competition Effect as a Modulator of Protein Localization and Biochemical Networks in Cell-size Space
S Nishikawa, G Sato, S Takada, S Kohyama, G Honda, M Yanagisawa, Y Hori, N Doi, N Yoshinaga, K Fujiwara*
Advanced Science 11(6), 2308030. DOI:10.1002/advs.202308030
- Phase-Separated Giant Liposomes for Stable Elevation of α-Hemolysin Concentration in Lipid Membranes
M Kobayashi,H Noguchi, G Sato, C Watanabe, K Fujiwara*, M Yanagisawa*
Langmuir 39, 32, pp.11481-11489, DOI:10.1021/acs.langmuir.3c02019
総説
- 生命の折り合い:単純と複雑の調和
藤原 慶、裄V実穂
現代化学, 2024年1月号, pp. 26-28 (2023)
- 酵素をひたすら混ぜる研究
藤原 慶
生物工学会誌, 101(12) pp. 639 (2023)
2022
- Cytoplasmic delivery of siRNA using human-derived membrane penetration-enhancing peptide
M Nakamura, K Fujiwara, N Doi*.
J Nanobiotech 20, 458, DOI;10.1186/s12951-022-01667-4
- Controlling the periodicity of a reaction-diffusion wave in artificial cells by a two-way energy supplier
S Takada, N Yoshinaga, N Doi, K Fujiwara*.
ACS Nano, 16(10), 16853-16861, DOI:10.1021/acsnano.2c06756
- Mode selection mechanism in traveling and standing waves revealed by Min wave reconstituted in artificial cells
S Takada, N Yoshinaga*, N Doi, K Fujiwara*.
Science Advances, 8, eabm8460, DOI:10.1126/sciadv.abm8460
- Characterization of the membrane penetration-enhancing peptide S19 derived from human syncytin-1 for the intracellular delivery of TAT-fused proteins
M Suzuki, K Iwaki, M Kikuchi, K Fujiwara, N Doi*.
Biochem Biophys Res Comm, 586:63-67, DOI:10.1016/j.bbrc.2021.11.065
総説
- Min波の人工細胞内再構成とそこから見えた細胞サイズ空間効果
光山 隼史、義永 那津人、藤原 慶
生物物理, 62(1):19-23
Review
- Cell-Size Space Regulates the Behavior of Confined Polymers: From Nano- and Micromaterials Science to Biology
M Yanagisawa*, C Watanabe, N Yoshinaga, K Fujiwara*.
Langmuir, 38(39), 11811?11827, DOI:10.1021/acs.langmuir.2c01397
2021
- Activation of a diluted E. coli cell-free transcription-translation system within liposomes by hypertonic concentration
Y Matsui, T Akui, N Doi, K Fujiwara*.
STAR protocols, 2(4):101003, doi:10.1016/j.xpro.2021.101003.
- Transcription-translation of Escherichia coli genome within artificial cells
T Deyama, Y Matsui, Y Chadani, Y Sekine, N Doi, K Fujiwara*.
Chemical Communications, 57, pp.10367-10370, DOI: 10.1039/d1cc04401j
- System concentration shift as a regulator of transcription-translation system within liposomes
#T Akui, #K Fujiwara*, G Sato, M Takinoue, SM Nomura, N. Doi.
(#: contributed equally to this work)
iScience, 24(8), 102859, DOI:10.1016/j.isci.2021.102859
- Switching ON of transcription-translation system using GUV fusion by co-supplementation of calcium with long-chain polyethylene glycol
Y Uwaguchi, K Fujiwara*, N Doi.
ChemBioChem, 22, 2319-2324, DOI:10.1002/cbic.202100100
- A relationship between NTP and cell extract concentration for cell-free protein expression
K Takahashi, G Sato, N Doi, K Fujiwara*
Life, 11(3), 237, DOI:10.3390/life11030237
和文
- 大学の枠を越えたオンライン生体分子デザイン コン ペティションの 取り組み
村田智、葛谷明紀、藤原 慶、平 順一、川又生吹、佐藤佑介、瀧ノ上正浩、野村 M. 慎一郎、角五 彰、堀 豊、安部桂太
工学教育, 69 巻 4 号 pp. 4_31-4_39
翻訳
- Synthetic Biology 合成生物学 (ニュートンプレス)
原著:Synthetic Biology: A Very Short Introduction (Jamie A. Davies)
監訳: 藤原 慶、訳:徳永 美恵
著書
- これだけ! 生化学 第2版 (秀和システム)
著:生化学若い研究者の会 (執筆、編集を分担)、監修:稲垣賢二
2020
- Conformational equilibrium of MinE regulates allowable concentration ranges of a protein wave for cell division
S Kohyama, K Fujiwara*, N Yoshinaga, N Doi
Nanoscale, 12, 11960 - 11970, doi: 10.1039/D0NR00242A
- Self-Organization Assay for Min Proteins of Escherichia coli in Micro-droplets Covered with Lipids
S Kohyama, K Fujiwara*, N Yoshinaga, N Doi
bio-protocol, 10(6): e3561, doi: 10.21769/BioProtoc.3561
- Microfluidic screening system based on boron-doped diamond electrodes and dielectrophoretic sorting for directed evolution of NAD(P)-dependent oxidoreductases.
H Goto, Y Kanai, A Yotusui, S Shimokihara, S Shitara, R Oyobiki, K Fujiwara, T Watanabe, Y Einaga, Y Matsumoto, N Miki, N Doi*
Lab on a chip, 20(4):852-861, doi: 10.1039/C9LC01263J
2019
- Regulation of spatiotemporal patterning in artificial cells by a defined protein expression system
#A Yoshida, #S Kohyama, #K Fujiwara*, S Nishikawa, N Doi
(#: contributed equally to this work)
Chemical Science, 10, pp. 11064-11072 (2019), doi: 10.1039/C9SC02441G
- Cell-sized confinement controls generation and stability of a protein wave for spatiotemporal regulation in cells
S Kohyama, N Yoshinaga*, M Yanagisawa, K Fujiwara*, N Doi
eLife, doi: 10.7554/eLife.44591
展望記事
- 酵素を内包した人工細胞が拓く新しい醸造業や医薬品の開発
藤原 慶, MDB 技術予測レポート, 項目36, (2019)
2018
- A dual system using compartmentalized partnered replication for selection of arsenic-responsive transcriptional regulator
SL Aye, K Fujiwara, N Doi*
J. Biochem., 164(5), pp. 341-348, doi.org/10.1093/jb/mvy055
- Engineering of DNA polymerase I from Thermus thermophilus using compartmentalized self-replication
SL Aye, K Fujiwara, A Ueki, N Doi*
Biochem. Biophys. Res. Comm., 499(2), pp. 170-176
- Increasing elasticity through changes in the secondary structure of gelatin by gelation in a microsized lipid space
A Sakai, #Y Murayama, #K Fujiwara,T Fujisawa, S Sasaki, S Kidoaki, M Yanagisawa*
(#: contributed equally to this work)
ACS Central Science, 4(4), pp.477-483
- Artificial cell fermentation as a platform for highly efficient cascade conversion
K Fujiwara*, T Adachi, N Doi
ACS Synthetic Biology, 7(2), pp 363-370 (2018), doi: 10.1021/acssynbio.7b00365
Review
- Single micrometer-sized gels: Unique mechanics and characters for applications
M Yanagisawa*, C Watanabe, K Fujiwara
Gels, 4(2), 29, (2018); doi:10.3390/gels4020029
総説
- 細胞サイズ脂質膜小胞による”発酵”生産の可能性
藤原 慶, バイオサイエンスとインダストリ−, 76(4) pp. 302-303 (2018)
2017
- Liposomal internal viscosity affects the fate of membrane deformation induced by hypertonic treatment
#K Fujiwara*, #M Yanagisawa*
(#: contributed equally to this work)
Soft Matter, 13, pp. 9192-9198 (2017)
- Universal glass-forming behavior of in vitro and living cytoplasm
#K Nishizawa, #K Fujiwara, M Ikenaga, N Nakajo, M Yanagisawa, and D Mizuno*
(#: contributed equally to this work)
Scientific Report, 7, Article number: 15143 (2017). doi:10.1038/s41598-017-14883-y
- In vitro transcription-translation using bacterial genome as a template to reconstitute intracellular profile
#K Fujiwara*, #T Sawamura, T Niwa, T Deyama, SM Nomura, H Taguchi, N Doi
(#: contributed equally to this work)
Nucleic Acids Research, 45(19), pp. 11449-11458 (2017) DOI: 10.1093/nar/gkx776
- DNA cytoskeleton for stabilizing artificial cells.
C Kurokawa, K Fujiwara, M Morita, I Kawamata, Y Kawagishi, A Sakai, Y Murayama, S M. Nomura, S Murata, M Takinoue*, M Yanagisawa*
Proc. Natl. Acad. Sci. USA, 114(28), pp. 7228-7233 (2017), doi: 10.1073/pnas.1702208114
- Human-derived fusogenic peptides for the intracellular delivery of proteins.
K Sudo, K Niikura, K Iwaki, S Kohyama, K Fujiwara, N Doi*
J. Control. Release, 255(10), pp. 1-11 (2017), doi:10.1016/j.jconrel.2017.03.398
著書
- ペプチド医薬品のスクリーニング・安定化・製剤化技術
技術情報協会, 「1-4. mRNAディスプレイ法によるペプチドのスクリーニング」
須藤慧, 藤原 慶, 土居信英
- 人工細胞の創製とその応用
CMC出版, 植田充美編,「3-4. 無細胞システムによる生命システムの理解」, 藤原 慶
2016
- In vitro selection of bispecific diabody fragments using covalent bicistronic DNA display.
M Nakayama, S Komiya, K Fujiwara, K Horisawa, N Doi*
Biochem. Biophys. Res. Comm., 478(16), pp. 606-611 (2016)
- Biochemical preparation of cell extract for cell-free protein synthesis without physical disruption.
K Fujiwara*, N Doi
PLOS ONE, 11(4): e0154614. (2016) doi:10.1371/journal.pone.0154614
- Identification of novel in vivo obligate GroEL/ES substrates based on data from a cell-free proteomics approach.
T Niwa, K Fujiwara, H Taguchi*
FEBS Lett., 590 (2), pp. 251-257 (2016)
翻訳
- 自然世界の高分子 (吉岡書店, 原題:Giant Molecules)
原著:Alexander Y. Grosberg and Alexei R. Khokhlov、監訳: 田中 基彦、鴇田 正之
訳: 田中 基彦、鴇田 正之、柳沢 実穂、坂上 貴洋、藤原 慶
著書
- DNA分子デザインのすべて〜BIOMOD虎の巻
CBT学会eBOOK、分子ロボティクス研究会編(1章3,4,5,11の執筆担当:藤原 慶)
2015
- PURE mRNA display for in vitro selection of single-chain antibodies.
Y Nagumo, K Fujiwara, K Horisawa, H Yanagawa, N Doi*
J. Biochem., 159(5), pp. 519-526 (2015)
- Droplet-Shooting and Size-Filtration (DSSF) Method for Synthesis of Cell-Sized Liposomes with Controlled Lipid Compositions.
M Morita, H Onoe, M Yanagisawa, H Ito, M Ichikawa, K Fujiwara, H Saito, M Takinoue*
ChemBioChem, 16 (14), pp. 2029-2035 (2015), DOI: 10.1002/cbic.201500354
- Generation of monodisperse cell-sized microdroplets using a centrifuge-based axisymmetric co-flowing microfluidic device.
H Yamashita, M Morita, H Sugiura, K Fujiwara, H Onoe, M Takinoue*
J. Biosci. Bioeng., 119 (4), pp. 492-495 (2015), DOI: 10.1016/j.jbiosc.2014.09.018
- Peptide sequences converting polyglutamine into a prion in yeast.
W Odani, K Urata, M Okuda, S Okuma, H Koyama, CG Pack, K Fujiwara, T Nojima, M Kinjo, S Kawai-Noma, H Taguchi*
FEBS Lett., 282 (3), pp. 477-490 (2015)
総説
- 高分子混雑効果を細胞モデル系から読み解く
柳澤 実穂, 藤原 慶
生物物理, 55(5) pp. 246-249 (2015)
2014
- Multiple patterns of polymer gels in microspheres due to the interplay among phase separation, wetting, and gelation.
M Yanagisawa*, S Nigorikawa, T Sakaue, K Fujiwara, M Tokita.
Proc. Natl. Acad. Sci. USA, 111 (45), 15894-15899 (2014)
- Conversion of a Chaperonin GroEL-Independent Protein into an Obligate Substrate.
T Ishimoto, K Fujiwara, T Niwa, H Taguchi*.
J. Biol. Chem., 289: 32073-32080 (2014)
- Introducing Micrometer-Sized Artificial Objects into Live Cells: A Method for Cell-Giant Unilamellar Vesicle Electrofusion.
AC Saito, T Ogura, K Fujiwara, S Murata, SM Nomura*.
PLoS ONE, (9), e106853 (2014)
- Generation of Giant Unilamellar Liposomes Containing Biomacromolecules at Physiological Intracellular Concentrations using Hypertonic Conditions.
K Fujiwara*, M Yanagisawa*.
ACS Synthetic Biology, 3 (12), pp 870-874 (2014): 10.1021/sb4001917
Review
- Reconstitution of intracellular environments in vitro and in artificial cells.
K Fujiwara*, M Yanagisawa, SM Nomura.
BIOPHYSICS, 10 (0), pp. 43-48 (2014)
和文
- DNAナノテクノロジーのためのアウトリーチツールの開発と評価.
吉澤 慧, 藤原 慶, 野村 M.慎一郎, 村田 智*
形の科学会誌, 2014, 29(2): 表紙を飾りました
紀要
- The rapid synthesis of cell-sized liposomes by centrifuge-based microfluidic device.
M Morita, H Onoe, M Yanagisawa, K Fujiwara, H Saito, M Takinoue.
18th International Conference on Miniaturized Systems for Chemistry and Life Sciences, MicroTAS 2014, pp. 336-338 (2014)
著書
- これだけ! 生化学 (秀和システム)
著:生化学若い研究者の会 (執筆、編集を分担)、監修:稲垣賢二
2013
- A bacterial salt sensor created by multiplying phenotypes of GroE-depleted Escherichia coli.
K Fujiwara*, KB Aoi, SM Nomura*.
Analytical methods, 5 (21), 5918-5922 (2013)
- Cooperative working of bacterial chromosome replication proteins generated by a reconstituted protein expression system.
K Fujiwara*, T Katayama, SM Nomura.
Nucleic Acids Research, 41 (14): 7176-7183 (2013) doi:10.1093/nar/gkt489
- Condensation of an additive-free cell extract to mimic the conditions of live cells.
K Fujiwara*, SM Nomura*.
PLoS ONE 8(1): e54155 (2013) doi:10.1371/journal.pone.0054155
- Physicochemical analysis from real-time imaging of liposome tubulation reveals the characteristic of individual F-BAR domain proteins.
Y Takiguchi, T Itoh, K Tsujita, S Yamada, M Yanagisawa, K Fujiwara, M Ichikawa, A Yamamoto, K Takiguchi*.
Langmuir, Jan 8;29(1):328-36 (2013)
紀要
- Molecular robotics approach for constructing artificial cell model
SM Nomura*, Y Sato, K Fujiwara.
12th European Conference on Artificial Life, ECAL, 488-491 (2013)
- Construction of remote-control supramolecular micro-crawler
D Komatsu, K Fujiwara, SM Nomura*.
12th European Conference on Artificial Life, ECAL, 208-209 (2013)
総説
- 細胞内濃厚環境に近づいた無細胞発現系
藤原 慶, 野村 M. 慎一郎, 生物物理, 53(5), pp.262-263 (2013)
- 細胞抽出液の濃縮技術〜細胞再構築に向けた挑戦〜
野村 M. 慎一郎, 藤原 慶, 月刊バイオインダストリ, Vol. 30、No.8, p.59-65 (2013)
2012
- Cell-Sized Confinement in Microspheres Accelerate the Reaction of Gene Expression.
A Kato, M Yanagisawa, YT Sato, K Fujiwara, K Yoshikawa*.
Scientific Report, 2, Article number: 283 (2012)
- Mechanism of overexpression of methionine synthase in chaperonin-depleted Escherichia coli.
K Fujiwara*, H Taguchi.
Microbiology, 158, 917-924 (2012)
2003-2011
- A systematic survey of in vivo obligate chaperonin-dependent substrates.
K Fujiwara, Y Ishihama, K Nakahigashi, T Soga, H Taguchi*.
The EMBO Journal, Vol. 29, No.9, 1552-1564 (2010)
- Filamentous morphology in GroE-depleted Escherichia coli induced by impaired folding of FtsE.
K Fujiwara, H Taguchi*.
J. Bacteriol., Vol. 189, No. 16, 5860-5966 (2007)
- Involvement of the arginine repressor in lysine biosynthesis of Thermus thermophilus.
K Fujiwara, T Tsubouchi, T Kuzuyama, Nishiyama M*.
Microbiology, vol. 152, 3585-3594 (2006)