Genome-encoded ABCF factors implicated in intrinsic antibiotic resistance in Gram-positive bacteria: VmlR2, Ard1 and CplR

  • Nozomu Obana
    Transborder Medical Research Center, Faculty of Medicine, University of Tsukuba , Tsukuba , Japan
  • Hiraku Takada
    Faculty of Life Sciences, Kyoto Sangyo University , Motoyama, Kamigamo, Kita-Ku, Kyoto  603-8555, Japan
  • Caillan Crowe-McAuliffe
    Institute for Biochemistry and Molecular Biology, University of Hamburg , Martin-Luther-King-Platz 6, 20146  Hamburg , Germany
  • Mizuki Iwamoto
    Faculty of Life and Environmental Sciences, University of Tsukuba , Tsukuba , Japan
  • Artyom A Egorov
    Department of Experimental Medical Science, Lund University , Lund , Sweden
  • Kelvin J Y Wu
    Department of Chemistry and Chemical Biology, Harvard University , Cambridge , MA , USA
  • Shinobu Chiba
    Faculty of Life Sciences, Kyoto Sangyo University , Motoyama, Kamigamo, Kita-Ku, Kyoto  603-8555, Japan
  • Victoriia Murina
    Department of Molecular Biology, Umeå University , Umeå , Sweden
  • Helge Paternoga
    Institute for Biochemistry and Molecular Biology, University of Hamburg , Martin-Luther-King-Platz 6, 20146  Hamburg , Germany
  • Ben I C Tresco
    Department of Chemistry and Chemical Biology, Harvard University , Cambridge , MA , USA
  • Nobuhiko Nomura
    Microbiology Research Center for Sustainability (MiCS), University of Tsukuba , Tsukuba , Japan
  • Andrew G Myers
    Department of Chemistry and Chemical Biology, Harvard University , Cambridge , MA , USA
  • Gemma C Atkinson
    Department of Experimental Medical Science, Lund University , Lund , Sweden
  • Daniel N Wilson
    Institute for Biochemistry and Molecular Biology, University of Hamburg , Martin-Luther-King-Platz 6, 20146  Hamburg , Germany
  • Vasili Hauryliuk
    Department of Experimental Medical Science, Lund University , Lund , Sweden

抄録

<jats:title>Abstract</jats:title> <jats:p>Genome-encoded antibiotic resistance (ARE) ATP-binding cassette (ABC) proteins of the F subfamily (ARE-ABCFs) mediate intrinsic resistance in diverse Gram-positive bacteria. The diversity of chromosomally-encoded ARE-ABCFs is far from being fully experimentally explored. Here we characterise phylogenetically diverse genome-encoded ABCFs from Actinomycetia (Ard1 from Streptomyces capreolus, producer of the nucleoside antibiotic A201A), Bacilli (VmlR2 from soil bacterium Neobacillus vireti) and Clostridia (CplR from Clostridium perfringens, Clostridium sporogenes and Clostridioides difficile). We demonstrate that Ard1 is a narrow spectrum ARE-ABCF that specifically mediates self-resistance against nucleoside antibiotics. The single-particle cryo-EM structure of a VmlR2-ribosome complex allows us to rationalise the resistance spectrum of this ARE-ABCF that is equipped with an unusually long antibiotic resistance determinant (ARD) subdomain. We show that CplR contributes to intrinsic pleuromutilin, lincosamide and streptogramin A resistance in Clostridioides, and demonstrate that C. difficile CplR (CDIF630_02847) synergises with the transposon-encoded 23S ribosomal RNA methyltransferase Erm to grant high levels of antibiotic resistance to the C. difficile 630 clinical isolate. Finally, assisted by uORF4u, our novel tool for detection of upstream open reading frames, we dissect the translational attenuation mechanism that controls the induction of cplR expression upon an antibiotic challenge.</jats:p>

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