Visiting Associate Professor

Nozomu YACHIE

RESEARCH DIRECTIONS

Create technologies for interrogating human biology

LABORATORY

PROFILE

2005.03 – B.A. from SFC, Keio University

2007.03 – M.M.G. (Bioinformatics) from SFC, Keio University

2009.04 – Ph.D. (Systems Biology) from SFC, Keio University

2010.04 – Postdoctoral Fellow, Harvard Medical School (-2010.11)

2010.12 – Postdoctoral Fellow, University of Toronto (-2014.06)

2014.06 – Adjunct Assistant Professor, Institute for Advanced Biosciences, Keio University (-2015.03)

2014.07 – Associate Professor, RCAST, The University of Tokyo (UTokyo) (-2020.08)

2015.04 – Adjunct Associate Professor, Institute for Advanced Biosciences, Keio University (-Today)

2020.09 – Visiting Associate Professor, RCAST, UTokyo (-Today)

2020.09 – Associate Professor, School of Biomedical Engineering, The University of British Columbia (-Today)

2020.09 – Canada Research Chair in Synthetic Biology (-Today)

FIELD OF INTEREST

While early mammalian embryogenesis can be observed at the single-cell resolution under a microscope, a cell division lineage of whole-body development is yet to be resolved. The continuous turnover and response of cells during homeostasis, as well as in many disorders, also remain unclear. At present, no technology enables efficient analysis of dynamic changes in molecular profiles and cellular behaviors in complex biological systems. The Yachie laboratory is developing “DNA event recording” technologies, by which high-resolution molecular and cellular information of individual cells in a multicellular organism can be progressively stored in cell-embedded synthetic “DNA tapes.” Thus, at the time of observation, such a system allows the readout of historical molecular and cellular information of many cells using high-throughput DNA sequencing. Harnessing genome editing, cell engineering, mouse genetics, and high-performance computing, the team aims to establish “Sense,” “Write,” “Store,” and “Read” technologies for the massive tracing of molecular and cellular dynamics in high-resolution.

PUBLICATION

Base editors for simultaneous introduction of C-to-T and A-to-G mutations Sakata RC, Ishiguro S, Mori H, Tanaka M, Tatsuno K, Ueda H, Yamamoto S, Seki M, Masuyama N, Nishida K, Nishimasu H, Arakawa K, Kondo A, Nureki O, Tomita M, Aburatani H, Yachie N.Nat Biotechnol. 2020 Jun 2. doi: 10.1038/s41587-020-0509-0. Perturbing proteomes at single residue resolution using base editing. Després PC, Dubé AK, Seki M, Yachie N, Landry CR.Nat Commun. 2020 Apr 20;11(1):1871. doi: 10.1038/s41467-020-15796-7 DNA barcodes evolve for high-resolution cell lineage tracing. Masuyama N, Mori H, Yachie N.Curr Opin Chem Biol. 2019 10;52:63-71. doi: 10.1016/j.cbpa.2019.05.014 DNA event recorders send past information of cells to the time of observation. Ishiguro S, Mori H, Yachie N.Curr Opin Chem Biol. 2019 10;52:54-62. doi: 10.1016/j.cbpa.2019.05.009 Fast and global detection of periodic sequence repeats in large genomic resources. Mori H, Evans-Yamamoto D, Ishiguro S, Tomita M, Yachie N.Nucleic Acids Res. 2019 01 25;47(2):e8. doi: 10.1093/nar/gky890 Engineered CRISPR-Cas9 nuclease with expanded targeting space Nishimasu H, Shi X, Ishiguro S, Gao L, Hirano S, Okazaki S, Noda T, Abudayyeh OO, Gootenberg JS, Mori H, Oura S, Holmes B, Tanaka M, Seki M, Hirano H, Aburatani H, Ishitani R, Ikawa M, Yachie N, Zhang F, Nureki O.Science. 2018 09 21;361(6408):1259-1262. doi: 10.1126/science.aas9129 Robotic crowd biology with Maholo LabDroids. Yachie N, , Natsume T.Nat. Biotechnol. 2017 04 11;35(4):310-312. doi: 10.1038/nbt.3758 Targeted nucleotide editing using hybrid prokaryotic and vertebrate adaptive immune systems. Nishida K, Arazoe T, Yachie N, Banno S, Kakimoto M, Tabata M, Mochizuki M, Miyabe A, Araki M, Hara KY, Shimatani Z, Kondo A.Science. 2016 09 16;353(6305). doi: 10.1126/science.aaf8729 Pooled-matrix protein interaction screens using Barcode Fusion Genetics. Yachie N, Petsalaki E, Mellor JC, Weile J, Jacob Y, Verby M, Ozturk SB, Li S, Cote AG, Mosca R, Knapp JJ, Ko M, Yu A, Gebbia M, Sahni N, Yi S, Tyagi T, Sheykhkarimli D, Roth JF, Wong C, Musa L, Snider J, Liu YC, Yu H, Braun P, Stagljar I, Hao T, Calderwood MA, Pelletier L, Aloy P, Hill DE, Vidal M, Roth FP.Mol. Syst. Biol. 2016 Apr 22;12(4):863. doi: 10.15252/msb.20156660 Widespread macromolecular interaction perturbations in human genetic disorders. Sahni N, Yi S, Taipale M, Fuxman Bass JI, Coulombe-Huntington J, Yang F, Peng J, Weile J, Karras GI, Wang Y, Kovács IA, Kamburov A, Krykbaeva I, Lam MH, Tucker G, Khurana V, Sharma A, Liu YY, Yachie N, Zhong Q, Shen Y, Palagi A, San-Miguel A, Fan C, Balcha D, Dricot A, Jordan DM, Walsh JM, Shah AA, Yang X, Stoyanova AK, Leighton A, Calderwood MA, Jacob Y, Cusick ME, Salehi-Ashtiani K, Whitesell LJ, Sunyaev S, Berger B, Barabási AL, Charloteaux B, Hill DE, Hao T, Roth FP, Xia Y, Walhout AJM, Lindquist S, Vidal M.Cell. 2015 Apr 23;161(3):647-660. doi: 10.1016/j.cell.2015.04.013