Publications by authors named "Gemma Atkinson"

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Characterization of five environmental phages infecting K-12 isolated during a phage biology training course.
Lena Shyrokova, Artyom A Egorov, Astrid Cole, Julian J Duque-Pedraza, Anu Tyagi, Gemma C Atkinson

Microbiol Spectr· November 2025

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Evidence for a functional interaction between yeast Pol ε and PCNA in vivo.
Noopur Singh, Roni Odai, Ulf Persson, Göran O Bylund, Ikenna Obi, Gemma C Atkinson

Nucleic Acids Res· November 2025

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The Viral AlphaFold Database of monomers and homodimers reveals conserved protein folds in viruses of bacteria, archaea, and eukaryotes.
Roni Odai, Michèle Leemann, Tamim Al-Murad, Minhal Abdullah, Lena Shyrokova, Gemma C Atkinson

Sci Adv· October 2025

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LoVis4u: a locus visualization tool for comparative genomics and coverage profiles.
Artyom A Egorov, Gemma C Atkinson

NAR Genom Bioinform· March 2025

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Mechanisms of neutralization of toxSAS from toxin-antitoxin modules.
Lucia Dominguez-Molina, Tatsuaki Kurata, Albinas Cepauskas, Dannele Echemendia-Blanco, Safia Zedek, Gemma C Atkinson

Nat Chem Biol· February 2025

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Activity, structure, and diversity of Type II proline-rich antimicrobial peptides from insects.
Weiping Huang, Chetana Baliga, Elena V Aleksandrova, Gemma Atkinson, Yury S Polikanov

EMBO Rep· November 2024

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Toxic small alarmone synthetase FaRel2 inhibits translation by pyrophosphorylating tRNA and tRNA.
Tatsuaki Kurata, Masaki Takegawa, Takayuki Ohira, Egor A Syroegin, Gemma C Atkinson

Sci Adv· November 2024

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Resolution of ribosomal stalling by EF-P and ABCF ATPases YfmR and YkpA/YbiT.
Hiraku Takada, Keigo Fujiwara, Gemma C Atkinson, Shinobu Chiba, Vasili Hauryliuk

Nucleic Acids Res· September 2024

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A role for the S4-domain containing protein YlmH in ribosome-associated quality control in Bacillus subtilis.
Hiraku Takada, Helge Paternoga, Keigo Fujiwara, Jose A Nakamoto, Esther N Park, Gemma C Atkinson

Nucleic Acids Res· August 2024

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Structural basis of Cfr-mediated antimicrobial resistance and mechanisms to evade it.
Elena V Aleksandrova, Kelvin J Y Wu, Ben I C Tresco, Egor A Syroegin, Erin E Killeavy, Gemma C Atkinson

Nat Chem Biol· July 2024

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Mechanism of phage sensing and restriction by toxin-antitoxin-chaperone systems.
Toomas Mets, Tatsuaki Kurata, Karin Ernits, Marcus J O Johansson, Sophie Z Craig, Gemma C Atkinson

Cell Host Microbe· July 2024

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Toxic Small Alarmone Synthetase FaRel2 inhibits translation by pyrophosphorylating tRNA and tRNA.
Tatsuaki Kurata, Masaki Takegawa, Takayuki Ohira, Egor A Syroegin, Gemma C Atkinson

bioRxiv· July 2024

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Peptidyl-tRNA hydrolase is the nascent chain release factor in bacterial ribosome-associated quality control.
Maxim S Svetlov, Clémence F Dunand, Jose A Nakamoto, Gemma C Atkinson, Haaris A Safdari

Mol Cell· February 2024

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The native ABC-F proteins of Staphylococcus aureus do not contribute to intrinsic resistance against ribosome-targeting antibacterial drugs.
Luiza H Galarion, James Trigwell, Merianne Mohamad, Jose A Nakamoto, Justin E Clarke, Gemma C Atkinson

J Antimicrob Chemother· October 2023

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Structural basis of Cfr-mediated antimicrobial resistance and mechanisms for its evasion.
Elena V Aleksandrova, Kelvin J Y Wu, Ben I C Tresco, Egor A Syroegin, Erin E Killeavy, Gemma C Atkinson

bioRxiv· September 2023

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The structural basis of hyperpromiscuity in a core combinatorial network of type II toxin-antitoxin and related phage defense systems.
Karin Ernits, Chayan Kumar Saha, Tetiana Brodiazhenko, Bhanu Chouhan, Aditi Shenoy, Gemma C Atkinson

Proc Natl Acad Sci U S A· August 2023

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Genome-encoded ABCF factors implicated in intrinsic antibiotic resistance in Gram-positive bacteria: VmlR2, Ard1 and CplR.
Nozomu Obana, Hiraku Takada, Caillan Crowe-McAuliffe, Mizuki Iwamoto, Artyom A Egorov, Gemma C Atkinson

Nucleic Acids Res· May 2023

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uORF4u: a tool for annotation of conserved upstream open reading frames.
Artyom A Egorov, Gemma C Atkinson

Bioinformatics· May 2023

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Structure of SpoT reveals evolutionary tuning of catalysis via conformational constraint.
Hedvig Tamman, Karin Ernits, Mohammad Roghanian, Andres Ainelo, Christina Julius, Gemma C Atkinson

Nat Chem Biol· March 2023

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The structure of DarB in complex with Rel reveals nonribosomal activation of Rel stringent factors.
Andres Ainelo, Julien Caballero-Montes, Ondřej Bulvas, Karin Ernits, Kyo Coppieters 't Wallant, Gemma C Atkinson

Sci Adv· January 2023

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Direct activation of a bacterial innate immune system by a viral capsid protein.
Tong Zhang, Hedvig Tamman, Kyo Coppieters 't Wallant, Tatsuaki Kurata, Michele LeRoux, Gemma C Atkinson

Nature· December 2022

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Context-based sensing of orthosomycin antibiotics by the translating ribosome.
Kyle Mangano, James Marks, Dorota Klepacki, Chayan Kumar Saha, Gemma C Atkinson

Nat Chem Biol· November 2022

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Structural basis for HflXr-mediated antibiotic resistance in Listeria monocytogenes.
Timm O Koller, Kathryn J Turnbull, Karolis Vaitkevicius, Caillan Crowe-McAuliffe, Mohammad Roghanian, Gemma C Atkinson

Nucleic Acids Res· October 2022

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Structural basis for PoxtA-mediated resistance to phenicol and oxazolidinone antibiotics.
Caillan Crowe-McAuliffe, Victoriia Murina, Kathryn Jane Turnbull, Susanne Huch, Marje Kasari, Gemma C Atkinson

Nat Commun· April 2022

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Sal-type ABC-F proteins: intrinsic and common mediators of pleuromutilin resistance by target protection in staphylococci.
Merianne Mohamad, David Nicholson, Chayan Kumar Saha, Vasili Hauryliuk, Thomas A Edwards, Gemma C Atkinson

Nucleic Acids Res· February 2022

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