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Showing 1–12 of 12 results
Advanced filters: Author: Joseph J. Loparo Clear advanced filters

  • The Structural Maintenance of Chromosomes (SMC) proteins are essential for chromosome condensation, cohesion and DNA repair. Here the authors use single molecule imaging to visualise how Bacillus subtilisSMC interacts with and condenses DNA.

    • HyeongJun Kim
    • Joseph J. Loparo
    ResearchOpen Access
    Nature Communications
    Volume: 7, P: 1-12

  • Class A PBPs accomplish cell wall synthesis to enable bacterial growth and are subject to inhibition by penicillin-type antibiotics. Here, authors leverage single-molecule and bioengineering approaches to show how these essential enzymes are regulated by cognate lipoprotein cofactors.

    • Irina Shlosman
    • Andrea Vettiger
    • Joseph J. Loparo
    ResearchOpen Access
    Nature Communications
    Volume: 16, P: 1-15

  • Nonhomologous end joining (NHEJ), the primary pathway of vertebrate DNA double strand-break (DSB) repair, directly re-ligates broken DNA ends with minimal errors. In this study, the authors identify structural interactions of the NHEJ-specific DNA Ligase IV (Lig4) that prioritize ligation and promote NHEJ fidelity.

    • Benjamin M. Stinson
    • Sean M. Carney
    • Joseph J. Loparo
    ResearchOpen Access
    Nature Communications
    Volume: 15, P: 1-13

  • The multi-subunit SWR1C remodeler deposits histone variant H2A.Z at nucleosomes flanking protein-coding genes. Here the authors use single-molecule and ensemble methodologies to identify three ATP-dependent phases in the H2A.Z deposition reaction.

    • Jiayi Fan
    • Andrew T. Moreno
    • Craig L. Peterson
    ResearchOpen Access
    Nature Communications
    Volume: 13, P: 1-15

  • Escherichia coli SSB enriches Pol IV polymerase at lesion-stalled replication forks, promoting translesion synthesis. Loss of this enrichment increases repriming of DNA synthesis, revealing a pivotal role of SSB in the pathway choice of stalled replication forks.

    • Seungwoo Chang
    • Elizabeth S. Thrall
    • Joseph J. Loparo
    Research
    Nature Structural & Molecular Biology
    Volume: 29, P: 932-941

  • Coordination of cell wall assembly is critical for bacterial morphology and survival. Here, the authors show that activation of cell wall synthesis by the Rod complex is regulated by the structural dynamics of RodA-PBP2.

    • Irina Shlosman
    • Elayne M. Fivenson
    • Joseph J. Loparo
    ResearchOpen Access
    Nature Communications
    Volume: 14, P: 1-14

  • Single-molecule imaging of protein-DNA association requires fluorescently labelled protein, which limits the protein concentration that can be used. Here the authors exploit protein induced fluorescent enhancement of DNA sparsely labelled with Cy3 to visualize protein binding and correlate it with changes in DNA conformation.

    • Dan Song
    • Thomas G. W. Graham
    • Joseph J. Loparo
    ResearchOpen Access
    Nature Communications
    Volume: 7, P: 1-7

  • Single-molecule imaging of nonhomologous end joining in Xenopus egg extract reveals that a single XLF dimer aligns broken DNA ends for ligation.

    • Thomas G. W. Graham
    • Sean M. Carney
    • Joseph J. Loparo
    Research
    Nature Structural & Molecular Biology
    Volume: 25, P: 877-884

  • Translesion synthesis (TLS) enables cells to tolerate damaged DNA encountered during replication. Here the authors use super-resolution photoactivation localization microscopy to reveal a lesion type dependent mechanism of recruitment of the TLS polymerase Pol IV following DNA damage.

    • Elizabeth S. Thrall
    • James E. Kath
    • Joseph J. Loparo
    ResearchOpen Access
    Nature Communications
    Volume: 8, P: 1-14

  • Both strands of DNA are replicated simultaneously, but they have opposite polarities. A trombone model has been proposed to explain how replication machinery that moves in one direction can accomplish this feat. In this model, the lagging strand forms a loop that allows it to enter the replication machinery in the same direction as the leading strand. This study uses single molecule techniques to examine this process in real time, and it finds that this loop is reinitiated with the priming of every Okazaki fragment, and released when the previous fragment is encountered by the replisome.

    • Samir M. Hamdan
    • Joseph J. Loparo
    • Antoine M. van Oijen
    Research
    Nature
    Volume: 457, P: 336-339

  • Community building should be integrated into the graduate classroom to foster the development of a professional identity and build connections between students and faculty.

    • Madhvi J. Venkatesh
    • Alexandra R. Elchert
    • Joseph J. Loparo
    Comments & Opinion
    Nature Biotechnology
    Volume: 39, P: 1161-1165