Molecular characteristics of reiterative DNA unwinding by the Caenorhabditis elegans RecQ helicase

The RecQ family of helicases is highly conserved both structurally and functionally from bacteria to humans. Defects in human RecQ helicases are associated with genetic diseases that are characterized by cancer predisposition and/or premature aging. RecQ proteins exhibit 3'-5' helicase activity and play critical roles in genome maintenance. Recent advances in single-molecule techniques have revealed the reiterative unwinding behavior of RecQ helicases. However, the molecular mechanisms involved in this process remain unclear, with contradicting reports. Here, we characterized the unwinding dynamics of the Caenorhabditis elegans RecQ helicase HIM-6 using single-molecule fluorescence resonance energy transfer measurements. We found that HIM-6 exhibits reiterative DNA unwinding and the length of DNA unwound by the helicase is sharply defined at 25-31 bp. Experiments using various DNA substrates revealed that HIM-6 utilizes the mode of 'sliding back' on the translocated strand, without strand-switching for rewinding. Furthermore, we found that Caenorhabditis elegans replication protein A, a single-stranded DNA binding protein, suppresses the reiterative behavior of HIM-6 and induces unidirectional, processive unwinding, possibly through a direct interaction between the proteins. Our findings shed new light on the mechanism of DNA unwinding by RecQ family helicases and their co-operation with RPA in processing DNA

Bifunctionally active and durable hierarchically porous transition metal-based hybrid electrocatalyst for rechargeable metal-air batteries

The final publication is available at Elsevier via https://dx.doi.org/10.1016/j.apcatb.2018.06.006 © 2018. This manuscript version is made available under the CC-BY-NC-ND 4.0 license https://creativecommons.org/licenses/by-nc-nd/4.0/In this work, we show an effective strategy combining experimental and computational methods to explore and clarify rational design approaches utilizing transition metals for enhanced electrocatalysis of oxygen reactions. We report a bifunctional electrocatalyst synthesized by a chemical deposition of palladium (Pd) nanoparticles on three-dimensionally ordered mesoporous cobalt oxide (Pd@3DOM-Co3O4) demonstrating extreme stability and activity towards electrocatalytic oxygen reduction and evolution reactions (ORR and OER). Pd@3DOM-Co3O4 exhibits a significantly positive-shifted ORR half-wave potential of 0.88 V (vs. RHE) and a higher OER current density of 41.3 mA cm−2 measured at 2.0 V (vs. RHE) relative to non-deposited 3DOM-Co3O4. Moreover, in terms of durability, Pd@3DOM-Co3O4 demonstrates a negligible half-wave potential loss with 99.5% retention during ORR and a high current density retention of 96.4% during OER after 1000 cycles of accelerated degradation testing (ADT). Ab-initio computational simulation of the oxygen reactions reveals that the modification of the electronic structure by combining Pd and Co3O4 lowers the Pd d-band center and enhances the electron abundance at the Fermi level, resulting in improved kinetics and conductivity. Furthermore, it is elucidated that the enhanced electrochemical stability is attributed to an elevated carbon corrosion potential (Ucorr,C) for the Pd@3DOM-Co3O4 surface and an increased dissolution potential (Udiss) of Pd nanoparticles. Meanwhile, synergistic improvements in the bifunctional activity resulting from the combination of Pd and 3DOM-Co3O4 were confirmed by both electrochemical and physical characterization methods, which highlights the practical viability of Pd@3DOM-Co3O4 as an efficient bifunctional catalyst for rechargeable metal-air batteries.Natural Sciences and Engineering Research Council of CanadaUniversity of Waterloo and the Waterloo Institute for NanotechnologyBasic Science Research ProgramNRF and the New & Renewable Energy Core Technology Program of the KETEP ["KETEP- 20173010032080","NRF-2017R1D1A1B04031539"]development program of KIER ["B8-2423"

Mechanism of Werner DNA Helicase: POT1 and RPA Stimulates WRN to Unwind beyond Gaps in the Translocating Strand

WRN belongs to the RecQ family of DNA helicases and it plays a role in recombination, replication, telomere maintenance and long-patch base excision repair. Here, we demonstrate that WRN efficiently unwinds DNA substrates containing a 1-nucleotide gap in the translocating DNA strand, but when the gap size is increased to 3-nucleotides unwinding activity significantly declines. In contrast, E. coli UvrD (3′→5′ helicase), which recognizes nicks in DNA to initiate unwinding, does not unwind past a 1-nucleotide gap. This unique ability of WRN to bypass gaps supports its involvement in DNA replication and LP-BER where such gaps can be produced by glycosylases and the apurinic/apyrimidinic endonuclease 1 (APE1). Furthermore, we tested telomere repeat binding factor 2 (TRF2), both variants 1 and 2 of protector of telomeres 1 (POT1v1 and POT1v2) and RPA on telomeric DNA substrates containing much bigger gaps than 3-nucleotides in order to determine whether unwinding could be facilitated through WRN-protein interaction. Interestingly, POT1v1 and RPA are capable of stimulating WRN helicase on gapped DNA and 5′-overhang substrates, respectively

Factors Affecting Intention to Adopt Cloud-Based ERP from a Comprehensive Approach

To enhance the sustainability of business operations, enterprises have interests in enterprise resource planning (ERP) transitions from an existing on-premise method to a cloud-based system. This study conducts a comprehensive analysis using the technology-organization-environment, diffusion of innovation, and the model of innovation resistance frameworks. The empirical analysis shows that the factors of organizational culture, regulatory environment, relative advantage, trialability, and vendor lock-in all had a significant influence on the intention to adopt cloud-based ERP, while information and communications technology skill, complexity, observability, data security, and customization had no significant influence on the intention to adopt cloud-based ERP. This study’s findings provide meaningful guidance for companies that want to adopt cloud-based ERP, governments that support enterprise digitalization, and vendors who sell cloud-based ERP systems

Biochemical Characterization of the WRN-1 RecQ Helicase of <i>Caenorhabditis elegans</i>

The highly conserved RecQ helicases are essential for the maintenance of genomic stability. Werner syndrome protein, WRN, is one of five human RecQ helicase homologues, and a deficiency of the protein causes a hereditary premature aging disorder that is characterized by genomic instability. A WRN orthologue, <i>wrn-1</i> lacking the exonuclease domain, has been identified in the nematode <i>Caenorhabditis elegans</i>. <i>wrn-1</i>(RNAi) in <i>C. elegans</i> has a shortened life span, increased sensitivity to DNA damage, and accelerated aging phenotypes. However, little is known about its enzymatic activity. We purified the recombinant <i>C. elegans</i> WRN-1 protein (CeWRN-1) and then investigated its substrate specificity in vitro to improve our understanding of its function in vivo. We found that CeWRN-1 is an ATP-dependent 3′−5′ helicase capable of unwinding a variety of DNA structures such as forked duplexes, Holliday junctions, bubble substrates, D-loops, and flap duplexes, and 3′-tailed duplex substrates. Distinctly, CeWRN-1 is able to unwind a long forked duplex compared to human WRN. Furthermore, CeWRN-1 helicase activity on a long DNA duplex is stimulated by <i>C. elegans</i> replication protein A (CeRPA) that is shown to interact with CeWRN-1 by a dot blot. The ability of CeWRN-1 to unwind these DNA structures may improve the access for DNA repair and replication proteins that are important for preventing the accumulation of abnormal structures, contributing to genomic stability

ssDNA reeling is an intermediate step in the reiterative DNA unwinding activity of the WRN-1 helicase

RecQ helicases are highly conserved between bacteria and humans. These helicases unwind various DNA structures in the 3??? to 5???. Defective helicase activity elevates genomic instability and is associated with predisposition to cancer and/or premature aging. Recent single-molecule analyses have revealed the repetitive unwinding behavior of RecQ helicases from Escherichia coli to humans. However, the detailed mechanisms underlying this behavior are unclear. Here, we performed single-molecule studies of WRN-1 Caenorhabditis elegans RecQ helicase on various DNA constructs and characterized WRN-1 unwinding dynamics. We showed that WRN-1 persistently repeated cycles of DNA unwinding and rewinding with an unwinding limit of 25-31 bp per cycle. Furthermore, by monitoring the ends of the displaced strand during DNA unwinding we demonstrated that WRN-1 reels in the ssDNA overhang in an ATP-dependent manner. While WRN-1 reeling activity was inhibited by a C. elegans homolog of human replication protein A (CeRPA), we found that CeRPA actually WRN-1 switched the reiterative unwinding activity of WRN-1 to unidirectional unwinding. These results reveal that reeling-in single-stranded DNA is an intermediate step in the reiterative unwinding process for WRN-1 (i.e., the process proceeds via unwinding-reeling-rewinding). We propose that the reiterative unwinding activity of WRN-1 may prevent extensive unwinding, allow time for partner proteins to assemble on the active region, and permit additional modulation in vivo

Characterization of the <i>Caenorhabditis elegans</i> HIM-6/BLM Helicase: Unwinding Recombination Intermediates

<div><p>Mutations in three human RecQ genes are implicated in heritable human syndromes. Mutations in <i>BLM</i>, a RecQ gene, cause Bloom syndrome (BS), which is characterized by short stature, cancer predisposition, and sensitivity to sunlight. BLM is a RecQ DNA helicase that, with interacting proteins, is able to dissolve various DNA structures including double Holliday junctions. A BLM ortholog, <i>him-6</i>, has been identified in <i>Caenorhabditis elegans</i>, but little is known about its enzymatic activities or its <i>in vivo</i> roles. By purifying recombinant HIM-6 and performing biochemical assays, we determined that the HIM-6 has DNA-dependent ATPase activity HIM-6 and helicase activity that proceeds in the 3'-5' direction and needs at least five 3' overhanging nucleotides. HIM-6 is also able to unwind DNA structures including D-loops and Holliday junctions. Worms with <i>him-6</i> mutations were defective in recovering the cell cycle arrest after HU treatment. These activities strongly support <i>in vivo</i> roles for HIM-6 in processing recombination intermediates.</p></div