Papers -
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ポリエチレングリコールによるアトピー性皮膚炎予防の可能性
厳原美穂、甲元一也
Fragrance Journal 50 ( 11 ) 54 - 57 2022.11
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Controlling liquid–liquid phase separation of G-quadruplex-forming RNAs in a sequence-specific manner Reviewed International journal
Mitsuki Tsuruta, Takeru Torii, Kazuki Kohata, Keiko Kawauchi, Hisae Tateishi-Karimata, Naoki Sugimoto and Daisuke Miyoshi
Chem. Commun. 58 ( 93 ) 12931 - 12934 2022.11
We constructed a minimum liquid-liquid phase separation model system to form liquid droplets using only G-quadruplex-forming oligonucleotides and R- and G-rich oligopeptides. We found that the G-quadruplex structure is an essential component for RNA to form droplets with the peptide. Based on this model system and our findings, droplet redissolution via structure transition from a G-quadruplex to a duplex was achieved in a sequence-specific manner.
DOI： 10.1039/D2CC04366A
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rDNAおよびrRNAが形成する四重らせん構造による核小体機能の制御 Invited
川内敬子、取井猛流、月生雅也、木下菜月、三好大輔
月刊細胞 54 ( 12 ) 36 - 39 2022.11
Authorship：Corresponding author
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Two-Dimensional Metal–Organic Framework-Based Cellular Scaffolds with High Protein Adsorption, Retention, and Replenishment Capabilities Reviewed
Tokitaka Katayama, Shintaro Tanaka, Takaaki Tsuruoka, and Koji Nagahama
ACS Applied Materials & Interfaces 14 ( 30 ) 34443 - 34454 2022.8
Authorship：Last author, Corresponding author
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Two-Dimensional Metal–Organic Framework-Based Cellular Scaffolds with High Protein Adsorption, Retention, and Replenishment Capabilities Reviewed
Tokitaka Katayama, Shintaro Tanaka, Takaaki Tsuruoka, Koji Nagahama
ACS Applied Materials & Interfaces 2022.8
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Evaluation of weak interactions of proteins and organic cations with DNA duplex structures Reviewed International journal
R. Morimoto, M. Horita, D. Yamaguchi, H. Nakai, and S. Nakano
Biophys. J. 121 ( 15 ) 2873 - 2881 2022.8
Joint Work
Authorship：Last author, Corresponding author Publisher：Cell Press
Molecular interactions and reactions in living cells occur with high background concentrations of organic compounds including proteins. Uncharged water-soluble polymers are commonly used cosolutes in studies on molecular crowding, and most studies argue about the effects of intracellular crowding based on results obtained using polymer cosolutes. Further investigations using protein crowders and organic cations are important in understanding the effects of cellular environments on nucleic acids with negatively charged surfaces. We assessed the effects of using model globular proteins, serum proteins, histone proteins, structurally flexible polypeptides, di- and polyamines, and uncharged polymers. Thermal stability analysis of DNA oligonucleotide structures revealed that unlike conventional polymer cosolutes, basic globular proteins (lysozyme and cytochrome c) at high concentrations stabilized long internal and bulge loop structures but not fully matched duplexes. The selective stabilization of long loop structures suggests preferential binding to unpaired nucleotides in loops through weak electrostatic interactions. Furthermore, the ability of the proteins to stabilize the loop structures was enhanced under macromolecular crowding conditions. Remarkably, the effects of basic proteins on the stability of fully matched duplexes were dissimilar to those of basic amino-acid-rich polypeptides and polyamines. This study provides new insights into the interaction of nucleic acid structures with organic cations.
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細胞内環境で安定化される核酸非構造を狙った分子標的薬の開発 Invited
川内敬子・橋本佳樹・杉本 渉・三好大輔
バイオマテリアル = Journal of Japanese Society for Biomaterials : 生体材料 40 ( 3 ) 206 - 211 2022.7
Authorship：Corresponding author
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核酸の化学修飾と構造や相分離能の相関 Invited
鶴田 充生・取井 猛流・杉本 渉・川内 敬子・三好 大輔
月刊「細胞」（ニューサイエンス社） 53 ( 14 ) 910 - 913 2022.6
Authorship：Last author, Corresponding author
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Exportin-inspired artificial cell nuclear-exporting nanosystems Reviewed
Mitsuo Inui , Yuta Hamada , Nana Sejima , Natsumi Ueda , Tokitaka Katayama , Kimika Ono, Koji Nagahama
Nanoscale Advances 4 2637 - 2641 2022.5
Authorship：Last author, Corresponding author
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Significant structural change in human c-Myc promoter G-quadruplex upon peptide binding in potassium Reviewed International coauthorship
Nikita Kundu, Taniya Sharma, Sarvpreet Kaur, Mamta Singh, Vinit Kumar, Uttam Sharma, Aklank Jain, Jadala Shankaraswamy, Daisuke Miyoshi, Sarika Saxena
RSC Adv. 12 7594 - 7604 2022.4
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核酸の四重らせん構造を狙った治療薬の展望 Invited
37 ( 4 ) 52 - 55 2022.3
Authorship：Corresponding author
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Kimika Ono, Manami Sumiya, Naohiro Yoshinobu, Tatsuya Dode, Tokitaka Katayama, Natsumi Ueda, Koji Nagahama
ACS Applied Bio Materials 5 ( 2 ) 471 - 482 2022.2
Authorship：Last author, Corresponding author
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Toshiyuki Goto, Shuhei Torii, Aoi Kondo, Kazumasa Kanda, Junji Kawakami, Yosky Kataoka, Takahito Nishikata
Journal of Developmental Biology 10 ( 1 ) 10 - 10 2022.2
Publisher：MDPI AG
In many animal species, the body axis is determined by the relocalization of maternal determinants, organelles, or unique cell populations in a cytoskeleton-dependent manner. In the ascidian first cell cycle, the myoplasm, including mitochondria, endoplasmic reticulum (ER), and maternal mRNAs, move to the future posterior side concomitantly (called ooplasmic segregation or cytoplasmic and cortical reorganization). This translocation consists of first and second phases depending on the actin and microtubule, respectively. However, the transition from first to second phase, that is, translocation of myoplasmic components from microfilaments to microtubules, has been poorly investigated. In this study, we analyzed the relationship between these cytoskeletons and myoplasmic components during the first cell cycle and their role in morphogenesis by inhibitor experiments. Owing to our improved visualization techniques, there was unexpected F-actin accumulation at the vegetal pole during this transition period. When this F-actin was depolymerized, the microtubule structure was strongly affected, the myoplasmic components, including maternal mRNA, were mislocalized, and the anteroposterior axis formation was disordered. These results suggested the importance of F-actin during the first cell cycle and the existence of interactions between microfilaments and microtubules, implying the enigmatic mechanism of ooplasmic segregation. Solving this mystery leads us to an improved understanding of ascidian early development.
DOI： 10.3390/jdb10010010
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Dynamic Changes in the Aassociation between Maternal mRNAs and Endoplasmic Reticulum during Ascidian Early Embryogenesis. Reviewed
Goto T, Torii S, Kondo A, Yagi H, Suekane M, Kataoka Y, Nishikata T
Development Genes and Evolution 232 ( 1 ) 1 - 14 2022.2
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Actin Filament in the First Cell Cycle Contributes to the Determination of the Anteroposterior Axis in Ascidian Development. Reviewed
Goto T, Torii S, Kondo A, Kanda K, Kataoka Y, Nishikata T
Journal of Developmental Biology 10 ( 1 ) 10 - 23 2022.2
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Intramolecular G-quadruplex-hairpin loop structure competition of a GC-rich exon region in the TMPRSS2 gene Reviewed
Chem. Commun. 58 48 - 51 2022.1
Authorship：Corresponding author
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De novo design of a nanopore for single-molecule detection that incorporates a β-hairpin peptide. Reviewed International coauthorship International journal
Keisuke Shimizu, Batsaikhan Mijiddorj, Masataka Usami, Ikuro Mizoguchi, Shuhei Yoshida, Shiori Akayama, Yoshio Hamada, Akifumi Ohyama, Kenji Usui, Izuru Kawamura, Ryuji Kawano
Nature nanotechnology 17 67 - 75 2022.1
The amino-acid sequence of a protein encodes information on its three-dimensional structure and specific functionality. De novo design has emerged as a method to manipulate the primary structure for the development of artificial proteins and peptides with desired functionality. This paper describes the de novo design of a pore-forming peptide, named SV28, that has a β-hairpin structure and assembles to form a stable nanopore in a bilayer lipid membrane. This large synthetic nanopore is an entirely artificial device for practical applications. The peptide forms multidispersely sized nanopore structures ranging from 1.7 to 6.3 nm in diameter and can detect DNAs. To form a monodispersely sized nanopore, we redesigned the SV28 by introducing a glycine-kink mutation. The resulting redesigned peptide forms a monodisperse pore with a diameter of 1.7 nm leading to detection of a single polypeptide chain. Such de novo design of a β-hairpin peptide has the potential to create artificial nanopores, which can be size adjusted to a target molecule.
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Chemical synthesis of single nanometer-sized Bi2−xSbxTe3.0 nanocrystals via direct precipitation process Reviewed
Ryosuke Fujiwara, Yohei Takashima, Takaaki Tsuruoka, Muneyuki Naito, Junya Murai, Kensuke Akamatsu
Results in Chemistry 4 100485 - 100485 2022.1
Publisher：Elsevier BV
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Rational and site-selective formation of coordination polymer consisiting of d10 coinage metal ions with thiolate ligands using metal ion-doped polymer substrate Reviewed
T. Tsuruoka, Y. Miyashita, R. Yoshino, M. Fukuoka, S. Hirao, Y. Takashima, A. Demessence, K. Akamatsu
RSC Adv 12 3716 - 3720 2022
Authorship：Last author
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Chemical synthesis of single nanometer-sized Bi2-xSbxTe3.0 nanocrystals via direct precipitation process Reviewed
R. Fujiwara, Y.Takashima, T. Tsuruoka, M. Naito, J. Murai, K. Akamatsu
Chemistry 4 100485 2022
Authorship：Corresponding author