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Synthetic chromosome arms function in yeast and generate phenotypic diversity by design

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  • Jessica S. Dymond

    (High Throughput Biology Center, Johns Hopkins University School of Medicine, 733 North Broadway, Baltimore, Maryland 21205, USA
    Johns Hopkins University School of Medicine, 725 North Wolfe Street, Baltimore, Maryland 21205, USA
    Present addresses: Animal Biosciences and Biotechnology Laboratory, Agricultural Research Service, USDA, 10300 Baltimore Avenue, Beltsville, Maryland 20705, USA (J.S.D.) . GreenLight Biosciences, Inc., 196 Boston Avenue, Suite 2400, Medford, Massachusetts 02155, USA (W.J.B.) ; Battelle Memorial Institute, 2987 Clairmont Road NE, Atlanta, Georgia 30329, USA (J.W.S.) ; School of Life Sciences, Tsinghua University, Beijing 100084, China (J.D.) ; Agilent Laboratories, 5301 Stevens Creek Boulevard, Mailstop 53L-IB, Santa Clara, California 95051, USA (D.L.L.); Bowdoin College, 5000 College Station, Brunswick, Maine 04011, USA (A.C.B.).)

  • Sarah M. Richardson

    (High Throughput Biology Center, Johns Hopkins University School of Medicine, 733 North Broadway, Baltimore, Maryland 21205, USA
    McKusick-Nathans Institute of Genetic Medicine, Johns Hopkins University School of Medicine, 733 North Broadway, Baltimore, Maryland 21205, USA)

  • Candice E. Coombes

    (High Throughput Biology Center, Johns Hopkins University School of Medicine, 733 North Broadway, Baltimore, Maryland 21205, USA
    Johns Hopkins University School of Medicine, 725 North Wolfe Street, Baltimore, Maryland 21205, USA)

  • Timothy Babatz

    (High Throughput Biology Center, Johns Hopkins University School of Medicine, 733 North Broadway, Baltimore, Maryland 21205, USA
    McKusick-Nathans Institute of Genetic Medicine, Johns Hopkins University School of Medicine, 733 North Broadway, Baltimore, Maryland 21205, USA)

  • Héloïse Muller

    (Bloomberg School of Public Health, Johns Hopkins University, 615 North Wolfe Street, Baltimore, Maryland 21205, USA)

  • Narayana Annaluru

    (Bloomberg School of Public Health, Johns Hopkins University, 615 North Wolfe Street, Baltimore, Maryland 21205, USA)

  • William J. Blake

    (Codon Devices, 99 Erie Street, Cambridge, Massachusetts 02139, USA
    Present addresses: Animal Biosciences and Biotechnology Laboratory, Agricultural Research Service, USDA, 10300 Baltimore Avenue, Beltsville, Maryland 20705, USA (J.S.D.) . GreenLight Biosciences, Inc., 196 Boston Avenue, Suite 2400, Medford, Massachusetts 02155, USA (W.J.B.) ; Battelle Memorial Institute, 2987 Clairmont Road NE, Atlanta, Georgia 30329, USA (J.W.S.) ; School of Life Sciences, Tsinghua University, Beijing 100084, China (J.D.) ; Agilent Laboratories, 5301 Stevens Creek Boulevard, Mailstop 53L-IB, Santa Clara, California 95051, USA (D.L.L.); Bowdoin College, 5000 College Station, Brunswick, Maine 04011, USA (A.C.B.).)

  • Joy W. Schwerzmann

    (Bloomberg School of Public Health, Johns Hopkins University, 615 North Wolfe Street, Baltimore, Maryland 21205, USA
    Present addresses: Animal Biosciences and Biotechnology Laboratory, Agricultural Research Service, USDA, 10300 Baltimore Avenue, Beltsville, Maryland 20705, USA (J.S.D.) . GreenLight Biosciences, Inc., 196 Boston Avenue, Suite 2400, Medford, Massachusetts 02155, USA (W.J.B.) ; Battelle Memorial Institute, 2987 Clairmont Road NE, Atlanta, Georgia 30329, USA (J.W.S.) ; School of Life Sciences, Tsinghua University, Beijing 100084, China (J.D.) ; Agilent Laboratories, 5301 Stevens Creek Boulevard, Mailstop 53L-IB, Santa Clara, California 95051, USA (D.L.L.); Bowdoin College, 5000 College Station, Brunswick, Maine 04011, USA (A.C.B.).)

  • Junbiao Dai

    (High Throughput Biology Center, Johns Hopkins University School of Medicine, 733 North Broadway, Baltimore, Maryland 21205, USA
    Johns Hopkins University School of Medicine, 725 North Wolfe Street, Baltimore, Maryland 21205, USA
    Present addresses: Animal Biosciences and Biotechnology Laboratory, Agricultural Research Service, USDA, 10300 Baltimore Avenue, Beltsville, Maryland 20705, USA (J.S.D.) . GreenLight Biosciences, Inc., 196 Boston Avenue, Suite 2400, Medford, Massachusetts 02155, USA (W.J.B.) ; Battelle Memorial Institute, 2987 Clairmont Road NE, Atlanta, Georgia 30329, USA (J.W.S.) ; School of Life Sciences, Tsinghua University, Beijing 100084, China (J.D.) ; Agilent Laboratories, 5301 Stevens Creek Boulevard, Mailstop 53L-IB, Santa Clara, California 95051, USA (D.L.L.); Bowdoin College, 5000 College Station, Brunswick, Maine 04011, USA (A.C.B.).)

  • Derek L. Lindstrom

    (Fred Hutchinson Cancer Research Center, Mailstop A3-025, PO Box 19024, Seattle, Washington 98109, USA
    Present addresses: Animal Biosciences and Biotechnology Laboratory, Agricultural Research Service, USDA, 10300 Baltimore Avenue, Beltsville, Maryland 20705, USA (J.S.D.) . GreenLight Biosciences, Inc., 196 Boston Avenue, Suite 2400, Medford, Massachusetts 02155, USA (W.J.B.) ; Battelle Memorial Institute, 2987 Clairmont Road NE, Atlanta, Georgia 30329, USA (J.W.S.) ; School of Life Sciences, Tsinghua University, Beijing 100084, China (J.D.) ; Agilent Laboratories, 5301 Stevens Creek Boulevard, Mailstop 53L-IB, Santa Clara, California 95051, USA (D.L.L.); Bowdoin College, 5000 College Station, Brunswick, Maine 04011, USA (A.C.B.).)

  • Annabel C. Boeke

    (High Throughput Biology Center, Johns Hopkins University School of Medicine, 733 North Broadway, Baltimore, Maryland 21205, USA
    Present addresses: Animal Biosciences and Biotechnology Laboratory, Agricultural Research Service, USDA, 10300 Baltimore Avenue, Beltsville, Maryland 20705, USA (J.S.D.) . GreenLight Biosciences, Inc., 196 Boston Avenue, Suite 2400, Medford, Massachusetts 02155, USA (W.J.B.) ; Battelle Memorial Institute, 2987 Clairmont Road NE, Atlanta, Georgia 30329, USA (J.W.S.) ; School of Life Sciences, Tsinghua University, Beijing 100084, China (J.D.) ; Agilent Laboratories, 5301 Stevens Creek Boulevard, Mailstop 53L-IB, Santa Clara, California 95051, USA (D.L.L.); Bowdoin College, 5000 College Station, Brunswick, Maine 04011, USA (A.C.B.).)

  • Daniel E. Gottschling

    (Fred Hutchinson Cancer Research Center, Mailstop A3-025, PO Box 19024, Seattle, Washington 98109, USA)

  • Srinivasan Chandrasegaran

    (Bloomberg School of Public Health, Johns Hopkins University, 615 North Wolfe Street, Baltimore, Maryland 21205, USA)

  • Joel S. Bader

    (High Throughput Biology Center, Johns Hopkins University School of Medicine, 733 North Broadway, Baltimore, Maryland 21205, USA
    Whiting School of Engineering, Johns Hopkins University, 3400 North Charles Street, Baltimore, Maryland 21218, USA)

  • Jef D. Boeke

    (High Throughput Biology Center, Johns Hopkins University School of Medicine, 733 North Broadway, Baltimore, Maryland 21205, USA
    Johns Hopkins University School of Medicine, 725 North Wolfe Street, Baltimore, Maryland 21205, USA)

Abstract

A part-synthetic yeast genome A milestone in biology was reached in 2010, with the production of a viable bacterium with a genome that had been reassembled artificially from synthetic DNA segments. Now Jef Boeke and colleagues report the production of the world's first synthetic eukaryotic chromosome arms, a first step in a project called Sc2.0, which aims to design and construct an entirely synthetic version of the Saccharomyces cerevisiae genome. In this initial phase, two custom-designed synthetic chromosome arms were incorporated into the yeast genome, replacing the endogenous sequence.

Suggested Citation

  • Jessica S. Dymond & Sarah M. Richardson & Candice E. Coombes & Timothy Babatz & Héloïse Muller & Narayana Annaluru & William J. Blake & Joy W. Schwerzmann & Junbiao Dai & Derek L. Lindstrom & Annabel , 2011. "Synthetic chromosome arms function in yeast and generate phenotypic diversity by design," Nature, Nature, vol. 477(7365), pages 471-476, September.
    • Handle: RePEc:nat:nature:v:477:y:2011:i:7365:d:10.1038_nature10403
    DOI: 10.1038/nature10403
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    Citations

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    Cited by:

    1. Yuting Chen & Eriona Hysolli & Anlu Chen & Stephen Casper & Songlei Liu & Kevin Yang & Chenli Liu & George Church, 2022. "Multiplex base editing to convert TAG into TAA codons in the human genome," Nature Communications, Nature, vol. 13(1), pages 1-13, December.
    2. Alessandro L. V. Coradini & Christopher Ne Ville & Zachary A. Krieger & Joshua Roemer & Cara Hull & Shawn Yang & Daniel T. Lusk & Ian M. Ehrenreich, 2023. "Building synthetic chromosomes from natural DNA," Nature Communications, Nature, vol. 14(1), pages 1-12, December.
    3. Tiantian Chang & Weichao Ding & Shirui Yan & Yun Wang & Haoling Zhang & Yu Zhang & Zhi Ping & Huiming Zhang & Yijian Huang & Jiahui Zhang & Dan Wang & Wenwei Zhang & Xun Xu & Yue Shen & Xian Fu, 2023. "A robust yeast biocontainment system with two-layered regulation switch dependent on unnatural amino acid," Nature Communications, Nature, vol. 14(1), pages 1-13, December.
    4. Dariusz R. Kutyna & Cristobal A. Onetto & Thomas C. Williams & Hugh D. Goold & Ian T. Paulsen & Isak S. Pretorius & Daniel L. Johnson & Anthony R. Borneman, 2022. "Construction of a synthetic Saccharomyces cerevisiae pan-genome neo-chromosome," Nature Communications, Nature, vol. 13(1), pages 1-9, December.
    5. Charlotte Cautereels & Jolien Smets & Peter Bircham & Dries De Ruysscher & Anna Zimmermann & Peter De Rijk & Jan Steensels & Anton Gorkovskiy & Joleen Masschelein & Kevin J. Verstrepen, 2024. "Combinatorial optimization of gene expression through recombinase-mediated promoter and terminator shuffling in yeast," Nature Communications, Nature, vol. 15(1), pages 1-17, December.
    6. Hideto Mori & Nozomu Yachie, 2022. "A framework to efficiently describe and share reproducible DNA materials and construction protocols," Nature Communications, Nature, vol. 13(1), pages 1-9, December.
    7. Huiming Zhang & Xian Fu & Xuemei Gong & Yun Wang & Haolin Zhang & Yu Zhao & Yue Shen, 2022. "Systematic dissection of key factors governing recombination outcomes by GCE-SCRaMbLE," Nature Communications, Nature, vol. 13(1), pages 1-11, December.
    8. Shuangying Jiang & Zhouqing Luo & Jie Wu & Kang Yu & Shijun Zhao & Zelin Cai & Wenfei Yu & Hui Wang & Li Cheng & Zhenzhen Liang & Hui Gao & Marco Monti & Daniel Schindler & Linsen Huang & Cheng Zeng &, 2023. "Building a eukaryotic chromosome arm by de novo design and synthesis," Nature Communications, Nature, vol. 14(1), pages 1-17, December.
    9. Li Cheng & Shijun Zhao & Tianyi Li & Sha Hou & Zhouqing Luo & Jinsheng Xu & Wenfei Yu & Shuangying Jiang & Marco Monti & Daniel Schindler & Weimin Zhang & Chunhui Hou & Yingxin Ma & Yizhi Cai & Jef D., 2024. "Large-scale genomic rearrangements boost SCRaMbLE in Saccharomyces cerevisiae," Nature Communications, Nature, vol. 15(1), pages 1-15, December.

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