People

Assist. Prof.
Ryoji Miyazaki

  • Hometown:Osaka, Japan
  • Research Field : in vivo photo-crosslinking analysis for dynamic behaviors of cellular proteins
  • One of my favorites : Hamburgers
  • Special Skill: Crosslinking experiments
  • Comment: I would like to spread the in vivo photo-crosslinking approach.
  • researchmap

    Google Scholar

Education

  • 2007. Apr. – 2011. Mar. Kyoto University
  • 2011. Apr. – 2013. Mar. Graduate School of Science, Kyoto University, Master course
  • 2013. Apr. – 2018. Mar. Graduate School of Science, Kyoto University, Doctor course
  • 2018. Mar. Ph.D. in science

Research career

  • 2015. Apr. - 2017. Mar. JSPS Research Fellow (DC2)
  • 2019. Apr. - 2021. Feb. Postdoctoral Fellow, Institute for Frontier Life and Medical Sciences, Kyoto University University
  • 2021. Mar. - Present Assistant professor, Structural Life Science Lab, Department of Systems Biology, Graduate School of Biological Sciences, Nara Institute of Science and Technology

Publications

  1. ºIkei M, ºMiyazaki R, Monden K, Naito Y, Takeuchi A, Takahashi YS, Tanaka Y, Mori T, *Ichikawa M, *Tsukazaki T.  YeeD is an essential partner for YeeE-mediated thiosulfate uptake in bacteria and regulates thiosulfate ion decomposition. PLoS Biol.   22, e3002601 (2024) (ººcontributed equally)

  2. *Kohga H, Lertpreedakorn N, Miyazaki R and *Tsukazaki T.  Critical residues of the antibiotic peptide LysM that inhibits lipid II flipping.  bioRxiv  2023.05.22.541694 (2023)

  3. *Miyazaki R and *Akiyama Y. Analyzing protein intermediate interactions in living E. coli cells using site-specific photo-crosslinking combined with chemical crosslinking. STAR Protocols 4, 102178 (2023)

  4. Miyazaki R, Ai M, Tanaka N, Suzuki T, Dhomae N, Tsukazaki T, Akiyama Y and *Mori H.  Inner membrane YfgM-PpiD heterodimer acts as a functional unit that associates with the SecY/E/G translocon and promotes protein translocation.  J. Biol. Chem. 298, 102572 (2022)

  5. Miyazaki R, Watanabe T, Yoshitani K, *Akiyama Y.  Edge-strand of BepA interacts with immature LptD on the β-barrel assembly machine to direct it to on- and off-pathways.  eLife 10, e70541 (2021)

  6. Miyazaki R, Akiyama Y and *Mori H. Fine interaction profiling of VemP and mechanisms responsible for its translocation-coupled arrest-cancelation. eLife, 9, e62623 (2020).

  7. Daimon Y, Narita S, Miyazaki R, Hizukuri Y, Mori H, Tanaka Y, Tsukazaki T and *Akiyama Y. Reversible auto-inhibitory regulation of Escherichia coli metallopeptidase BepA for selective β-barrel protein degradation. Proc. Natl. Acad. Sci. USA 117, 27989-27996 (2020).

  8. *Yura T, Miyazaki R, Fujiwara K, Ito K, Chiba S, Mori H and *Akiyama Y. Heat shock transcription factor σ32 defective in membrane transport can be suppressed by transposon insertion into the genes for a restriction enzyme subunit or a putative autotransporter in E. coli. Genes Genet. Syst. 93, 229–235 (2018).

  9. Miyazaki R, Myougo N, Mori H and *Akiyama Y. A photo-cross-linking approach to monitor folding and assembly of newly synthesized proteins in a living cell. J. Biol. Chem. 293, 677-686 (2018).

  10. Daimon Y, Iwama-Masui C, Tanaka Y, Shiota T, Suzuki T, Miyazaki R, Sakurada H, Lithgow T, Dohmae N, Mori H, *Tsukazaki T, *Narita S and *Akiyama Y. The tetratricopeptide repeat (TPR) domain of BepA is required for productive interaction with substrate proteins and the β-barrel assembly machinery (BAM) complex. Mol. Microbiol. 106, 760-776 (2017). 

  11. Miyazaki R, Yura T, Suzuki T, Dohmae N, Mori M and *Akiyama Y. A novel SRP recognition sequence in the homeostatic control region of heat shock transcription factor σ32. Sci. Rep. 6, 24147 (2016).

  12. Lim B, Miyazaki R, Neher S, Siegele DA, Ito K, Walter P, Akiyama Y, *Yura T and *Gross CA. Heat shock transcription factor σ32 co-opts the signal recognition particle to regulate protein homeostasis in E. coli. PLoS Biology, 11, e1001735 (2013).

  13. *Endo M, Miyazaki R, Emura T, Hidaka K and *Sugiyama H. Transcription regulation system mediated by mechanical operation of a DNA nanostructure. J. Am. Chem. Soc. 134, 2852-2855 (2012).

Reviews and Books

  1. 宮﨑亮次, 森博幸, 秋山芳展. PiXie法による細胞内タンパク質の迅速な相互作用・フォールディング解析. 生物物理, 61, 036–039 (2021).
  2. Miyazaki R, Akiyama Y and *Mori H. A photo-cross-linking approach to monitor protein dynamics in living cells. Biochim. Biopys. Acta Gen. Subj. 1864, 129317 (2020).

Awards and honors

  1. 2013-Sep. 第86回 日本生化学会大会 鈴木紘一メモリアル賞
  2. 2014-Jun. 第11回 21世紀大腸菌研究会 口頭発表大賞
  3. 2016-May. 「新生鎖の生物学」 第3回若手ワークショップ 最優秀学生賞
  4. 2017-Aug. 「新生鎖の生物学」 第4回若手ワークショップ 優秀学生賞
  5. 2017-Nov. 「新生鎖の生物学」 平成29年度 第1回班会議 若手ポスター最優秀賞