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Defined chromosome structure in the genome-reduced bacterium Mycoplasma pneumoniae

Author

Listed:
  • Marie Trussart

    (EMBL/CRG Systems Biology Research Unit, Centre for Genomic Regulation (CRG), The Barcelona Institute of Science and Technology
    Universitat Pompeu Fabra (UPF))

  • Eva Yus

    (EMBL/CRG Systems Biology Research Unit, Centre for Genomic Regulation (CRG), The Barcelona Institute of Science and Technology
    Universitat Pompeu Fabra (UPF))

  • Sira Martinez

    (EMBL/CRG Systems Biology Research Unit, Centre for Genomic Regulation (CRG), The Barcelona Institute of Science and Technology)

  • Davide Baù

    (Gene Regulation, Stem Cells and Cancer Program. Centre for Genomic Regulation (CRG), The Barcelona Institute of Science and Technology
    CNAG-CRG, Centre for Genomic Regulation (CRG), The Barcelona Institute of Science and Technology)

  • Yuhei O. Tahara

    (Graduate School of Science, Osaka City University
    OCU Advanced Research Institute for Natural Science and Technology (OCARNA), Osaka City University)

  • Thomas Pengo

    (EMBL/CRG Systems Biology Research Unit, Centre for Genomic Regulation (CRG), The Barcelona Institute of Science and Technology
    Advanced Light Microscopy Unit, Centre for Genomic Regulation (CRG))

  • Michael Widjaja

    (The ithree Institute, The University of Technology Sydney, Sydney, New South Wales 2007, Australia)

  • Simon Kretschmer

    (Max Planck Institute of Biochemistry)

  • Jim Swoger

    (EMBL/CRG Systems Biology Research Unit, Centre for Genomic Regulation (CRG), The Barcelona Institute of Science and Technology
    Universitat Pompeu Fabra (UPF))

  • Steven Djordjevic

    (The ithree Institute, The University of Technology Sydney, Sydney, New South Wales 2007, Australia)

  • Lynne Turnbull

    (The ithree Institute, The University of Technology Sydney, Sydney, New South Wales 2007, Australia)

  • Cynthia Whitchurch

    (The ithree Institute, The University of Technology Sydney, Sydney, New South Wales 2007, Australia)

  • Makoto Miyata

    (Graduate School of Science, Osaka City University
    OCU Advanced Research Institute for Natural Science and Technology (OCARNA), Osaka City University)

  • Marc A. Marti-Renom

    (Universitat Pompeu Fabra (UPF)
    Gene Regulation, Stem Cells and Cancer Program. Centre for Genomic Regulation (CRG), The Barcelona Institute of Science and Technology
    CNAG-CRG, Centre for Genomic Regulation (CRG), The Barcelona Institute of Science and Technology
    Institució Catalana de Recerca i Estudis Avançats (ICREA))

  • Maria Lluch-Senar

    (EMBL/CRG Systems Biology Research Unit, Centre for Genomic Regulation (CRG), The Barcelona Institute of Science and Technology
    Universitat Pompeu Fabra (UPF))

  • Luís Serrano

    (EMBL/CRG Systems Biology Research Unit, Centre for Genomic Regulation (CRG), The Barcelona Institute of Science and Technology
    Universitat Pompeu Fabra (UPF)
    Institució Catalana de Recerca i Estudis Avançats (ICREA))

Abstract

DNA-binding proteins are central regulators of chromosome organization; however, in genome-reduced bacteria their diversity is largely diminished. Whether the chromosomes of such bacteria adopt defined three-dimensional structures remains unexplored. Here we combine Hi-C and super-resolution microscopy to determine the structure of the Mycoplasma pneumoniae chromosome at a 10 kb resolution. We find a defined structure, with a global symmetry between two arms that connect opposite poles, one bearing the chromosomal Ori and the other the midpoint. Analysis of local structures at a 3 kb resolution indicates that the chromosome is organized into domains ranging from 15 to 33 kb. We provide evidence that genes within the same domain tend to be co-regulated, suggesting that chromosome organization influences transcriptional regulation, and that supercoiling regulates local organization. This study extends the current understanding of bacterial genome organization and demonstrates that a defined chromosomal structure is a universal feature of living systems.

Suggested Citation

  • Marie Trussart & Eva Yus & Sira Martinez & Davide Baù & Yuhei O. Tahara & Thomas Pengo & Michael Widjaja & Simon Kretschmer & Jim Swoger & Steven Djordjevic & Lynne Turnbull & Cynthia Whitchurch & Mak, 2017. "Defined chromosome structure in the genome-reduced bacterium Mycoplasma pneumoniae," Nature Communications, Nature, vol. 8(1), pages 1-13, April.
  • Handle: RePEc:nat:natcom:v:8:y:2017:i:1:d:10.1038_ncomms14665
    DOI: 10.1038/ncomms14665
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    Cited by:

    1. Alicia Broto & Erika Gaspari & Samuel Miravet-Verde & Vitor A. P. Martins Santos & Mark Isalan, 2022. "A genetic toolkit and gene switches to limit Mycoplasma growth for biosafety applications," Nature Communications, Nature, vol. 13(1), pages 1-13, December.
    2. Miloš Tišma & Florian Patrick Bock & Jacob Kerssemakers & Hammam Antar & Aleksandre Japaridze & Stephan Gruber & Cees Dekker, 2024. "Direct observation of a crescent-shape chromosome in expanded Bacillus subtilis cells," Nature Communications, Nature, vol. 15(1), pages 1-13, December.

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