Experts and Doctors on dna replication in United States

Summary

Locale: United States
Topic: dna replication

Top Publications

  1. Crouch E, Passarelli A. Genetic requirements for homologous recombination in Autographa californica nucleopolyhedrovirus. J Virol. 2002;76:9323-34 pubmed
    ..Interestingly, even though HR was stimulated by the presence of a viral origin of DNA replication, virally stimulated HR could proceed in the presence of the DNA synthesis inhibitor aphidicolin. ..
  2. Maines J, Stevens L, Tong X, Stein D. Drosophila dMyc is required for ovary cell growth and endoreplication. Development. 2004;131:775-86 pubmed
    ..In summary, dMyc plays an essential role in promoting the rapid growth that must occur in both the germline and the surrounding follicle cells for oogenesis to proceed. ..
  3. Guo Y, Breeden L, Zarbl H, Preston B, Eaton D. Expression of a human cytochrome p450 in yeast permits analysis of pathways for response to and repair of aflatoxin-induced DNA damage. Mol Cell Biol. 2005;25:5823-33 pubmed
    ..Rev3 appears to mediate AFB1-induced mutagenesis when error-free pathways are compromised. The results further suggest unique roles for Rad5 and abasic endonuclease-dependent DNA intermediates in regulating AFB1-induced mutagenicity. ..
  4. Zhang X, Lee I, Berdis A. The use of nonnatural nucleotides to probe the contributions of shape complementarity and pi-electron surface area during DNA polymerization. Biochemistry. 2005;44:13101-10 pubmed
  5. Pinto M, Howell R. Concomitant quantification of targeted drug delivery and biological response in individual cells. Biotechniques. 2007;43:64, 66-71 pubmed
    ..The overall approach presented herein may be useful in the context of evaluating responses to targeted drug delivery. ..
  6. Hu J, Liu E, Renne R. Involvement of SSRP1 in latent replication of Kaposi's sarcoma-associated herpesvirus. J Virol. 2009;83:11051-63 pubmed publisher
    ..These results indicate that SSRP1 is a novel cellular protein involved in LANA-dependent DNA replication. ..
  7. Kobiler O, Lipman Y, Therkelsen K, DAUBECHIES I, Enquist L. Herpesviruses carrying a Brainbow cassette reveal replication and expression of limited numbers of incoming genomes. Nat Commun. 2010;1:146 pubmed publisher
    ..This finite limit on the number of viral genomes that can be expressed is an intrinsic property of the infected cell and may be influenced by viral and cellular factors. ..
  8. Duggan L, Hill T, Wu S, Garrison K, Zhang X, Gottlieb P. Using modified nucleotides to map the DNA determinants of the Tus-TerB complex, the protein-DNA interaction associated with termination of replication in Escherichia coli. J Biol Chem. 1995;270:28049-54 pubmed
    ..Overall, major and minor groove determinants are required for binding. An unusual result was that the conserved nucleotide at position 6 did not significantly affect in vitro binding of the complex. ..
  9. Lam L, Bresnick E. Identity of the beta-globin locus control region binding protein HS2NF5 as the mammalian homolog of the notch-regulated transcription factor suppressor of hairless. J Biol Chem. 1998;273:24223-31 pubmed
    ..An additional conserved, high affinity CBF1 site was localized within HS4 of the LCR. As CBF1 is a downstream target of the Notch signaling pathway, we propose that Notch may modulate LCR activity during hematopoiesis. ..

More Information

Publications269 found, 100 shown here

  1. Chang V, Fitch M, Donato J, Christensen T, Merchant A, Tye B. Mcm1 binds replication origins. J Biol Chem. 2003;278:6093-100 pubmed
    ..These results suggest that, in addition to its role as a transcription factor for the expression of replication genes, Mcm1 may influence the local structure of replication origins by direct binding. ..
  2. Krings G, Bastia D. Molecular architecture of a eukaryotic DNA replication terminus-terminator protein complex. Mol Cell Biol. 2006;26:8061-74 pubmed
    ..The results reveal that Sap1-DNA affinity alone is insufficient to account for fork arrest and suggest that Sap1 binding-induced structural changes may result in formation of a competent fork-blocking complex. ..
  3. Han Z, Marendy E, Wang Y, Yuan J, Sample J, Swaminathan S. Multiple roles of Epstein-Barr virus SM protein in lytic replication. J Virol. 2007;81:4058-69 pubmed
    ..Thus, SM plays a role in multiple steps of lytic cycle EBV gene expression and that it is transcript-specific in both activation and repression functions. ..
  4. Lopper M, Boonsombat R, Sandler S, Keck J. A hand-off mechanism for primosome assembly in replication restart. Mol Cell. 2007;26:781-93 pubmed
    ..This model helps explain how origin-independent initiation of DNA replication is restricted to repaired replication forks, preventing overreplication of the genome. ..
  5. Fasullo M, Sun M, Egner P. Stimulation of sister chromatid exchanges and mutation by aflatoxin B1-DNA adducts in Saccharomyces cerevisiae requires MEC1 (ATR), RAD53, and DUN1. Mol Carcinog. 2008;47:608-15 pubmed publisher
    ..We speculate that AFB(1)-associated DNA adducts stall DNA replication, a consequence of which can either be mutation or recombination. ..
  6. Lee Y, Kennedy W, Yin Y. Structural insight into processive human mitochondrial DNA synthesis and disease-related polymerase mutations. Cell. 2009;139:312-24 pubmed publisher
  7. Curtis P, Brun Y. Getting in the loop: regulation of development in Caulobacter crescentus. Microbiol Mol Biol Rev. 2010;74:13-41 pubmed publisher
    ..While much has been discovered about Caulobacter crescentus development, areas of potential future research are also highlighted. ..
  8. Liang B, Tikhanovich I, Nasheuer H, Folk W. Stimulation of BK virus DNA replication by NFI family transcription factors. J Virol. 2012;86:3264-75 pubmed publisher
    ..These results suggest that NFI proteins (and the signaling pathways that target them) activate BKV replication and contribute to the consequent pathologies caused by acute infection. ..
  9. Prakash A, Jayaram S, Bridge E. Differential activation of cellular DNA damage responses by replication-defective and replication-competent adenovirus mutants. J Virol. 2012;86:13324-33 pubmed publisher
    ..We found that viral DNA replication is important for Nbs1 phosphorylation, suggesting that this step in the viral life cycle may provide an important trigger for activating at least some DNA repair proteins. ..
  10. Huang D, Piening B, Paulovich A. The preference for error-free or error-prone postreplication repair in Saccharomyces cerevisiae exposed to low-dose methyl methanesulfonate is cell cycle dependent. Mol Cell Biol. 2013;33:1515-27 pubmed publisher
    ..However, when PRR is restricted to the G2 phase, cells utilize REV3-dependent translesion synthesis, which requires a MEC1-dependent delay and results in significant hypermutability. ..
  11. Zhang Y, Hunter T. Roles of Chk1 in cell biology and cancer therapy. Int J Cancer. 2014;134:1013-23 pubmed publisher
    ..These findings suggest unique regulation of Chk1 in cell biology and cancer etiology, pointing to novel strategies for targeting Chk1 in cancer therapy. ..
  12. Weeks L, Fu P, Gerson S. Uracil-DNA glycosylase expression determines human lung cancer cell sensitivity to pemetrexed. Mol Cancer Ther. 2013;12:2248-60 pubmed publisher
    ..Thus, in experimental models, UNG is a critical mediator of pemetrexed sensitivity that warrants evaluation to determine clinical value. ..
  13. Maser R, Mirzoeva O, Wells J, Olivares H, Williams B, Zinkel R, et al. Mre11 complex and DNA replication: linkage to E2F and sites of DNA synthesis. Mol Cell Biol. 2001;21:6006-16 pubmed
    ..These data suggest that the Mre11 complex suppresses genomic instability through its influence on both the regulation and progression of DNA replication. ..
  14. Yamane K, Wu X, Chen J. A DNA damage-regulated BRCT-containing protein, TopBP1, is required for cell survival. Mol Cell Biol. 2002;22:555-66 pubmed
    ..Taken together, the data presented here suggest that, like its putative counterparts in yeast species, TopBP1 may be involved in DNA damage and replication checkpoint controls. ..
  15. Liu N, Tian R, Loeb D. Base pairing among three cis-acting sequences contributes to template switching during hepadnavirus reverse transcription. Proc Natl Acad Sci U S A. 2003;100:1984-9 pubmed
    ..These results are consistent with the model that, within duck hepatitis B virus capsids, the ends of the minus-strand template are juxtaposed via base pairing to facilitate the two template switches during plus-strand DNA synthesis...
  16. Bessler J, Zakian V. The amino terminus of the Saccharomyces cerevisiae DNA helicase Rrm3p modulates protein function altering replication and checkpoint activity. Genetics. 2004;168:1205-18 pubmed
    ..These data demonstrate that the amino terminus of Rrm3p is essential for Rrm3p function. However, the helicase domain of Rrm3p also contributes to its functional specificity. ..
  17. Erdeniz N, Dudley S, Gealy R, Jinks Robertson S, Liskay R. Novel PMS1 alleles preferentially affect the repair of primer strand loops during DNA replication. Mol Cell Biol. 2005;25:9221-31 pubmed
    ..In addition, the findings reinforce the current view that during mutation avoidance, MMR is associated with the replication apparatus. ..
  18. Wu X, Shell S, Liu Y, Zou Y. ATR-dependent checkpoint modulates XPA nuclear import in response to UV irradiation. Oncogene. 2007;26:757-64 pubmed
    ..Taken together, our results suggested that the ATR checkpoint pathway may modulate NER activity through the regulation of XPA redistribution in human cells upon UV irradiation. ..
  19. Zhao J. Sumoylation regulates diverse biological processes. Cell Mol Life Sci. 2007;64:3017-33 pubmed
    ..This paper reviews recent progress in the study of SUMO pathways, substrates, and cellular functions and highlights important findings that have accelerated advances in this study field and link sumoylation to human diseases. ..
  20. Voineagu I, Narayanan V, Lobachev K, Mirkin S. Replication stalling at unstable inverted repeats: interplay between DNA hairpins and fork stabilizing proteins. Proc Natl Acad Sci U S A. 2008;105:9936-41 pubmed publisher
    ..We show that the function of the Tof1 protein at DNA structure-mediated stall sites is different from its previously described effect on protein-mediated replication fork barriers. ..
  21. Rossi M, Pike J, Wang W, Burgers P, Campbell J, Bambara R. Pif1 helicase directs eukaryotic Okazaki fragments toward the two-nuclease cleavage pathway for primer removal. J Biol Chem. 2008;283:27483-93 pubmed publisher
    ..Therefore, Pif1 directs long flaps toward the two-nuclease pathway, requiring Dna2 cleavage for primer removal. ..
  22. Hu H, Zhang J, Lee H, Kim S, Lu J. Penta-O-galloyl-beta-D-glucose induces S- and G(1)-cell cycle arrests in prostate cancer cells targeting DNA replication and cyclin D1. Carcinogenesis. 2009;30:818-23 pubmed publisher
    ..Our data raise the hypothesis that PGG may be a novel inhibitor of DNA polymerases...
  23. Scouten Ponticelli S, Duzen J, Sutton M. Contributions of the individual hydrophobic clefts of the Escherichia coli beta sliding clamp to clamp loading, DNA replication and clamp recycling. Nucleic Acids Res. 2009;37:2796-809 pubmed publisher
  24. Unnikrishnan A, Gafken P, Tsukiyama T. Dynamic changes in histone acetylation regulate origins of DNA replication. Nat Struct Mol Biol. 2010;17:430-7 pubmed publisher
    ..Furthermore, we find that this acetylation is required for efficient origin activation during S phase. ..
  25. Brown J, Fowler J, Suo Z. Kinetic basis of nucleotide selection employed by a protein template-dependent DNA polymerase. Biochemistry. 2010;49:5504-10 pubmed publisher
  26. McGee J, Phillips J, Chan A, Sabourin M, Paeschke K, Zakian V. Reduced Rif2 and lack of Mec1 target short telomeres for elongation rather than double-strand break repair. Nat Struct Mol Biol. 2010;17:1438-45 pubmed publisher
    ..Binding of replication protein A was also much lower at short telomeres. The absence of Mec1 at short telomeres could explain why they do not trigger a checkpoint-mediated cell-cycle arrest. ..
  27. Choi Y, Nash K, Byrne B, Muzyczka N, Song S. The effect of DNA-dependent protein kinase on adeno-associated virus replication. PLoS ONE. 2010;5:e15073 pubmed publisher
    ..Finally, we showed that AAV-ITRs directly interacted with Ku proteins. Collectively, our results showed that that DNA-PK enhances rAAV replication through the interaction of Ku proteins and AAV-ITRs. ..
  28. Pliss A, Malyavantham K, Bhattacharya S, Berezney R. Chromatin dynamics in living cells: identification of oscillatory motion. J Cell Physiol. 2013;228:609-16 pubmed publisher
  29. Yang Y, Geldmacher D, Herrup K. DNA replication precedes neuronal cell death in Alzheimer's disease. J Neurosci. 2001;21:2661-8 pubmed
    ..Quantitative analysis indicates that the genetic imbalance persists for many months before the cells die, and we propose that this imbalance is the direct cause of the neuronal loss in Alzheimer's disease. ..
  30. Chen S, Coman M, Sakato M, O DONNELL M, Hingorani M. Conserved residues in the delta subunit help the E. coli clamp loader, gamma complex, target primer-template DNA for clamp assembly. Nucleic Acids Res. 2008;36:3274-86 pubmed publisher
    ..These data reveal a novel location in the C-terminal domain of the E. coli clamp loader that contributes to DNA binding and helps define p/tDNA as the preferred substrate for the reaction. ..
  31. Hromas R, Williamson E, Fnu S, Lee Y, Park S, Beck B, et al. Chk1 phosphorylation of Metnase enhances DNA repair but inhibits replication fork restart. Oncogene. 2012;31:4245-54 pubmed publisher
    ..In summary, these data lend insight into the mechanism by which Chk1 enhances repair of DNA damage while at the same time repressing stalled replication fork restart. ..
  32. Luo Y, Kleiboeker S, Deng X, Qiu J. Human parvovirus B19 infection causes cell cycle arrest of human erythroid progenitors at late S phase that favors viral DNA replication. J Virol. 2013;87:12766-75 pubmed publisher
    ..Taken together, our results confirmed that B19V infection triggers late S phase arrest, which presumably provides cellular S phase factors for viral DNA replication. ..
  33. Zhang L, Brown J, Newmister S, Suo Z. Polymerization fidelity of a replicative DNA polymerase from the hyperthermophilic archaeon Sulfolobus solfataricus P2. Biochemistry. 2009;48:7492-501 pubmed publisher
    ..5 to 6.0. A kinetic basis for these temperature and pH changes altering the fidelity of PolB1 was established. The faithful replication of genomic DNA catalyzed by PolB1 is discussed. ..
  34. Carpenter P, Mueller P, Dunphy W. Role for a Xenopus Orc2-related protein in controlling DNA replication. Nature. 1996;379:357-60 pubmed
    ..These findings suggest that Orc2 plays an important role at an early step of chromosomal replication in animal cells. ..
  35. Loeb D, Gulya K, Tian R. Sequence identity of the terminal redundancies on the minus-strand DNA template is necessary but not sufficient for the template switch during hepadnavirus plus-strand DNA synthesis. J Virol. 1997;71:152-60 pubmed
    ..Our results indicate that the terminal redundancy on the minus-strand DNA template is necessary but not sufficient for template switching. ..
  36. Wei Y, Lee J, Smulski D, LaRossa R. Global impact of sdiA amplification revealed by comprehensive gene expression profiling of Escherichia coli. J Bacteriol. 2001;183:2265-72 pubmed
    ..g., nei, recN, mioC, and mcrC) were moderately elevated in expression. Such global analysis provides a link between septation and the response to DNA-damaging agents. ..
  37. Dimitrova D, Prokhorova T, Blow J, Todorov I, Gilbert D. Mammalian nuclei become licensed for DNA replication during late telophase. J Cell Sci. 2002;115:51-9 pubmed
    ..We conclude that the functional association of Mcm proteins with chromatin (i.e. replication licensing) in CHO cells takes place during telophase, several hours prior to the specification of replication origins at the DHFR locus. ..
  38. Gao R, Brigstock D. Connective tissue growth factor (CCN2) in rat pancreatic stellate cell function: integrin alpha5beta1 as a novel CCN2 receptor. Gastroenterology. 2005;129:1019-30 pubmed
    ..These data support a role for CCN2 in PSC-mediated fibrogenesis and highlight CCN2 and its receptors as potential novel therapeutic targets. ..
  39. Dodson G, Tibbetts R. DNA replication stress-induced phosphorylation of cyclic AMP response element-binding protein mediated by ATM. J Biol Chem. 2006;281:1692-7 pubmed
    ..These findings suggest that ATM is the major genotoxin-induced CREB kinase in mammalian cells and that ATR lies upstream of ATM in a UV light-induced signaling pathway. ..
  40. Zhao X, Malik M, Chan N, Drlica Wagner A, Wang J, Li X, et al. Lethal action of quinolones against a temperature-sensitive dnaB replication mutant of Escherichia coli. Antimicrob Agents Chemother. 2006;50:362-4 pubmed
    ..Thus, major features of quinolone-mediated lethality do not depend on ongoing replication. ..
  41. Al Mamun A, Gautam S, Humayun M. Hypermutagenesis in mutA cells is mediated by mistranslational corruption of polymerase, and is accompanied by replication fork collapse. Mol Microbiol. 2006;62:1752-63 pubmed
  42. Wang Y, Tsai Y, Urena Rivera E, Chen J. Expression, purification and characterization of recombinant mitochondrial topoisomerase II of kinetoplastid Crithidia fasciculata in High-five insect cells. Protein Expr Purif. 2008;58:122-31 pubmed
  43. McCune H, Danielson L, Alvino G, Collingwood D, Delrow J, Fangman W, et al. The temporal program of chromosome replication: genomewide replication in clb5{Delta} Saccharomyces cerevisiae. Genetics. 2008;180:1833-47 pubmed publisher
  44. Arumugam S, Lee T, Benkovic S. Investigation of stoichiometry of T4 bacteriophage helicase loader protein (gp59). J Biol Chem. 2009;284:29283-9 pubmed publisher
    ..In addition, the presence of gp32 and gp41 proteins increases the stability of the gp59 complex, emphasizing their functional role in T4 DNA replication machinery. ..
  45. Saikia P, Fensterl V, Sen G. The inhibitory action of P56 on select functions of E1 mediates interferon's effect on human papillomavirus DNA replication. J Virol. 2010;84:13036-9 pubmed publisher
    ..This E1 mutant retained its ability to support Ori DNA replication, but this activity was not inhibited by IFN, demonstrating that P56 is the principal executor of the anti-HPV action of IFN. ..
  46. Sundararajan R, Freudenreich C. Expanded CAG/CTG repeat DNA induces a checkpoint response that impacts cell proliferation in Saccharomyces cerevisiae. PLoS Genet. 2011;7:e1001339 pubmed publisher
    ..Activation of DNA damage checkpoints in repeat-containing cells could contribute to the tissue degeneration observed in trinucleotide repeat expansion diseases. ..
  47. Tripathi K, Matmati N, Zzaman S, Westwater C, Mohanty B. Nicotinamide induces Fob1-dependent plasmid integration into chromosome XII in Saccharomyces cerevisiae. FEMS Yeast Res. 2012;12:949-57 pubmed publisher
    ..This study suggests that NAD metabolism and intracellular NAM concentrations are important in Fob1-mediated rDNA recombination. ..
  48. Guo X, Jinks Robertson S. Roles of exonucleases and translesion synthesis DNA polymerases during mitotic gap repair in yeast. DNA Repair (Amst). 2013;12:1024-30 pubmed publisher
    ..These polymerases may be involved either in the initiation of DNA synthesis from the an invading end, or in a gap-filling process that is required to complete recombination. ..
  49. Ji R, Tian S, Lu H, Lu Q, Zheng Y, Wang X, et al. TAM receptors affect adult brain neurogenesis by negative regulation of microglial cell activation. J Immunol. 2013;191:6165-77 pubmed publisher
    ..Additionally, autonomous trophic function of the TAM receptors on the proliferating neuronal progenitors may also promote progenitor differentiation into immature neurons. ..
  50. Brun C, Dubey D, Huberman J. pDblet, a stable autonomously replicating shuttle vector for Schizosaccharomyces pombe. Gene. 1995;164:173-7 pubmed
    ..In addition, pDblet transforms Sp with high efficiency and has high mitotic stability and low copy number. ..
  51. Budd M, Campbell J. A yeast replicative helicase, Dna2 helicase, interacts with yeast FEN-1 nuclease in carrying out its essential function. Mol Cell Biol. 1997;17:2136-42 pubmed
    ..The simplest interpretation of these data is that one of the roles of Dna2 helicase is associated with processing of Okazaki fragments. ..
  52. Flores C, Engels W. Microsatellite instability in Drosophila spellchecker1 (MutS homolog) mutants. Proc Natl Acad Sci U S A. 1999;96:2964-9 pubmed
    ..Contrary to the case in mammalian cells, spel1 deficiency does not affect tolerance of flies to a methylating agent nor does it affect resistance to gamma-irradiation. ..
  53. Zhang Y, Yuan F, Wu X, Wang Z. Preferential incorporation of G opposite template T by the low-fidelity human DNA polymerase iota. Mol Cell Biol. 2000;20:7099-108 pubmed
    ..The unique features of preferential G incorporation opposite template T and T stop suggest that DNA Pol(iota) may additionally play a specialized function in human biology. ..
  54. Arthanari H, Bolton P. Functional and dysfunctional roles of quadruplex DNA in cells. Chem Biol. 2001;8:221-30 pubmed
    ..It is now possible to make testable proposals for the possible biological implications of quadruplex DNA in replication, transcription, and recombination as well as possible routes to therapeutic intervention. ..
  55. O Reilly M, Staversky R, Watkins R, Reed C, de Mesy Jensen K, Finkelstein J, et al. The cyclin-dependent kinase inhibitor p21 protects the lung from oxidative stress. Am J Respir Cell Mol Biol. 2001;24:703-10 pubmed
    ..Our findings have implications for patients suffering from the toxic effects of supplemental oxygen therapies. ..
  56. Dai M, Chevallier N, Stone S, Heinrich M, McConnell M, Reuter T, et al. The effects of the Fanconi anemia zinc finger (FAZF) on cell cycle, apoptosis, and proliferation are differentiation stage-specific. J Biol Chem. 2002;277:26327-34 pubmed
    ..These results suggest an essential role for FAZF during the proliferative stages of primitive hematopoietic progenitors, possibly acting in concert with (a subset of) the Fanconi anemia proteins. ..
  57. Fiala K, Suo Z. Mechanism of DNA polymerization catalyzed by Sulfolobus solfataricus P2 DNA polymerase IV. Biochemistry. 2004;43:2116-25 pubmed
    ..The structural basis for both the protein conformational change and the low processivity of Dpo4 was discussed. ..
  58. Bloom L. Dynamics of loading the Escherichia coli DNA polymerase processivity clamp. Crit Rev Biochem Mol Biol. 2006;41:179-208 pubmed
    ..This review focuses on the measurement of dynamic and transient interactions required to assemble the Escherichia coli sliding clamp on DNA. ..
  59. Heltzel J, Scouten Ponticelli S, Sanders L, Duzen J, Cody V, Pace J, et al. Sliding clamp-DNA interactions are required for viability and contribute to DNA polymerase management in Escherichia coli. J Mol Biol. 2009;387:74-91 pubmed publisher
    ..Taken together, these results support a model in which a sophisticated combination of competitive clamp-DNA, clamp-partner, and partner-DNA interactions serve to manage the actions of the different E. coli Pols in vivo. ..
  60. Pereira E, Chen Y, Sanchez Y. Conserved ATRMec1 phosphorylation-independent activation of Chk1 by single amino acid substitution in the GD domain. Cell Cycle. 2009;8:1788-93 pubmed
    ..Therefore, we have uncovered a conserved mechanism for Chk1 regulation separate from the role of known ATR phosphorylation sites. ..
  61. Guan W, Wong S, Zhi N, Qiu J. The genome of human parvovirus b19 can replicate in nonpermissive cells with the help of adenovirus genes and produces infectious virus. J Virol. 2009;83:9541-53 pubmed publisher
    ..Our results have important implications for our understanding of native B19V infection...
  62. Finkelstein I, Greene E. Molecular traffic jams on DNA. Annu Rev Biophys. 2013;42:241-63 pubmed publisher
    ..We highlight recent single-molecule biophysical experiments aimed at addressing this question, with an emphasis placed on analyzing the single-molecule, ensemble biochemical, and in vivo data from a mechanistic perspective. ..
  63. Hedglin M, Aitha M, Benkovic S. Monitoring the Retention of Human Proliferating Cell Nuclear Antigen at Primer/Template Junctions by Proteins That Bind Single-Stranded DNA. Biochemistry. 2017;56:3415-3421 pubmed publisher
    ..This powerful tool is broadly applicable to any single-stranded DNA-binding protein and may be utilized and/or expanded upon to dissect DNA metabolic pathways that are dependent upon PCNA. ..
  64. Wang P, Amato N, Wang Y. Cytotoxic and Mutagenic Properties of C3'-Epimeric Lesions of 2'-Deoxyribonucleosides in Escherichia coli Cells. Biochemistry. 2017;56:3725-3732 pubmed publisher
    ..Among the four dxNs, only dxA directed a moderate frequency of dCMP misincorporation. These results provided important insights into the impact of the C3'-epimeric lesions on DNA replication in E. coli cells...
  65. Bonafede M, Carias L, Rice L. Enterococcal transposon Tn5384: evolution of a composite transposon through cointegration of enterococcal and staphylococcal plasmids. Antimicrob Agents Chemother. 1997;41:1854-8 pubmed
    ..These results implicate broad-host-range plasmids in the transfer of resistance determinants from staphylococci to enterococci. ..
  66. Bollag B, Hofstetter C, Reviriego Mendoza M, Frisque R. JC virus small T antigen binds phosphatase PP2A and Rb family proteins and is required for efficient viral DNA replication activity. PLoS ONE. 2010;5:e10606 pubmed publisher
    ..It remains unclear how these proteins coordinate their unique and overlapping functions. ..
  67. Lynch M. Evolution of the mutation rate. Trends Genet. 2010;26:345-52 pubmed publisher
  68. Zentner G, Henikoff S. Regulation of nucleosome dynamics by histone modifications. Nat Struct Mol Biol. 2013;20:259-66 pubmed publisher
    ..Here we consider properties of the major types of histone modification in the context of their associated biological processes to view them in light of the cellular mechanisms that regulate nucleosome dynamics. ..
  69. Cambridge J, Blinkova A, Magnan D, Bates D, Walker J. A replication-inhibited unsegregated nucleoid at mid-cell blocks Z-ring formation and cell division independently of SOS and the SlmA nucleoid occlusion protein in Escherichia coli. J Bacteriol. 2014;196:36-49 pubmed publisher
  70. Yuan Q, Dohrmann P, Sutton M, McHenry C. DNA Polymerase III, but Not Polymerase IV, Must Be Bound to a ?-Containing DnaX Complex to Enable Exchange into Replication Forks. J Biol Chem. 2016;291:11727-35 pubmed publisher
    ..Previously, it was thought that at least two ?s in the trimeric DnaX complex were required to couple the leading and lagging strand polymerases at the replication fork. Possible mechanisms of exchange are discussed. ..
  71. Banavali N, MacKerell A. Characterizing structural transitions using localized free energy landscape analysis. PLoS ONE. 2009;4:e5525 pubmed publisher
    ..In addition to nucleic acids, this methodology is anticipated to be useful for studying conformational changes in all macromolecules, including carbohydrates, lipids, and proteins. ..
  72. Shishkin A, Voineagu I, Matera R, Cherng N, Chernet B, Krasilnikova M, et al. Large-scale expansions of Friedreich's ataxia GAA repeats in yeast. Mol Cell. 2009;35:82-92 pubmed publisher
    ..We propose a model for large-scale repeat expansions based on template switching during replication fork progression through repetitive DNA. ..
  73. Chavarria D, Ramos Serrano A, Hirao I, Berdis A. Exploring the roles of nucleobase desolvation and shape complementarity during the misreplication of O(6)-methylguanine. J Mol Biol. 2011;412:325-39 pubmed publisher
    ..The unusual selectivity of this analog for replicating damaged DNA provides a novel biochemical tool to study translesion DNA synthesis. ..
  74. Coleman T, Carpenter P, Dunphy W. The Xenopus Cdc6 protein is essential for the initiation of a single round of DNA replication in cell-free extracts. Cell. 1996;87:53-63 pubmed
    ..These studies indicate that Xcdc6, is essential for initiation of replication in vertebrates and that interaction with the nuclear envelope may regulate its function. ..
  75. Kelman L, Kelman Z. Multiple origins of replication in archaea. Trends Microbiol. 2004;12:399-401 pubmed
    ..solfataricus and Sulfolobus acidocaldarius have three functional origins. These are the first reports of archaea having multiple origins. This finding has implications for research on the mechanisms of DNA replication and evolution...
  76. Schumacher A, Mohni K, Kan Y, Hendrickson E, Stark J, Weller S. The HSV-1 exonuclease, UL12, stimulates recombination by a single strand annealing mechanism. PLoS Pathog. 2012;8:e1002862 pubmed publisher
    ..These results demonstrate that UL12 can specifically stimulate SSA and that either ICP8 or Rad52 can function as an SSAP. We suggest that SSA is the homology-mediated repair pathway utilized during HSV infection. ..
  77. Cordon Cardo C, Tapley P, Jing S, Nanduri V, O ROURKE E, Lamballe F, et al. The trk tyrosine protein kinase mediates the mitogenic properties of nerve growth factor and neurotrophin-3. Cell. 1991;66:173-83 pubmed
    ..These results indicate that the product of the trk proto-oncogene is sufficient to mediate signal transduction processes induced by NGF and NT-3, at least in proliferating cells. ..
  78. Bastia D, Zzaman S, Krings G, Saxena M, Peng X, Greenberg M. Replication termination mechanism as revealed by Tus-mediated polar arrest of a sliding helicase. Proc Natl Acad Sci U S A. 2008;105:12831-6 pubmed publisher
  79. Wang G, Gaddis S, Vasquez K. Methods to detect replication-dependent and replication-independent DNA structure-induced genetic instability. Methods. 2013;64:67-72 pubmed publisher
    ..We also describe a new web-based search engine to identify potential intramolecular triplex (H-DNA) and left-handed Z-DNA-forming motifs in entire genomes or at selected sequences of interest. ..
  80. Hoggard T, Shor E, Müller C, Nieduszynski C, Fox C. A Link between ORC-origin binding mechanisms and origin activation time revealed in budding yeast. PLoS Genet. 2013;9:e1003798 pubmed publisher
    ..These data reveal a novel association between ORC-origin binding mechanisms and the regulation of origin activation time. ..
  81. Lee J, Kumagai A, Dunphy W. Positive regulation of Wee1 by Chk1 and 14-3-3 proteins. Mol Biol Cell. 2001;12:551-63 pubmed
    ..Taken together, these results suggest that Xchk1 and 14-3-3 proteins act together as positive regulators of Xwee1. ..
  82. Lusetti S, Cox M. The bacterial RecA protein and the recombinational DNA repair of stalled replication forks. Annu Rev Biochem. 2002;71:71-100 pubmed
    ..New biochemical and structural information highlights both the similarities and distinctions between RecA and its homologs. Increasingly, those differences can be rationalized in terms of biological function. ..
  83. Cox M. The bacterial RecA protein as a motor protein. Annu Rev Microbiol. 2003;57:551-77 pubmed
    ..This motor may be needed only in a subset of the DNA metabolism contexts in which RecA protein functions. Models for the coupling of DNA strand exchange to ATP hydrolysis are examined. ..
  84. Beadling C, Johnson K, Smith K. Isolation of interleukin 2-induced immediate-early genes. Proc Natl Acad Sci U S A. 1993;90:2719-23 pubmed
    ..The methods described in this report should also be of general utility in the dissection of the signaling pathways activated by diverse cytokine receptors. ..
  85. Hedglin M, Benkovic S. Replication Protein A Prohibits Diffusion of the PCNA Sliding Clamp along Single-Stranded DNA. Biochemistry. 2017;56:1824-1835 pubmed publisher
  86. Donaldson A, Fangman W, Brewer B. Cdc7 is required throughout the yeast S phase to activate replication origins. Genes Dev. 1998;12:491-501 pubmed
    ..Our results show that Cdc7 activates early and late origins separately, with late origins requiring the activity later in S phase to permit replication initiation. ..
  87. Hixon M, Flores A, Wagner M, Gualberto A. Ectopic expression of cdc2/cdc28 kinase subunit Homo sapiens 1 uncouples cyclin B metabolism from the mitotic spindle cell cycle checkpoint. Mol Cell Biol. 1998;18:6224-37 pubmed
    ..These data may contribute to the understanding of the origin of heteroploidy in mutant p53 cells. ..
  88. Sobeck A, Stone S, Landais I, de Graaf B, Hoatlin M. The Fanconi anemia protein FANCM is controlled by FANCD2 and the ATR/ATM pathways. J Biol Chem. 2009;284:25560-8 pubmed publisher
    ..Our results indicate that functions of FANCM are controlled by FA- and non-FA pathways in the DNA damage response. ..
  89. Hodin T, Najrana T, Yates J. Efficient replication of Epstein-Barr virus-derived plasmids requires tethering by EBNA1 to host chromosomes. J Virol. 2013;87:13020-8 pubmed publisher
    ..A loss of plasmids lacking FR from nuclei cannot account for this requirement, suggesting that the stronger tethering to chromosomes by FR is needed for plasmid replication within the nuclei of such cells. ..
  90. Wang W, Margolin W, Molineux I. Increased synthesis of an Escherichia coli membrane protein suppresses F exclusion of bacteriophage T7. J Mol Biol. 1999;292:501-12 pubmed
    ..The FxsA protein is shown to be a cytoplasmic membrane protein. How T7 avoids exclusion by F in cells that exhibit increased levels of FxsA is discussed in terms of its membrane localization. ..
  91. Narayan S, Young J. Reconstitution of retroviral fusion and uncoating in a cell-free system. Proc Natl Acad Sci U S A. 2004;101:7721-6 pubmed
    ..The cell-free system should now allow for the definition of retroviral uncoating mechanisms and facilitate the identification and characterization of the cellular factors involved...
  92. Mosley R, Edwards T, Murakami E, Lam A, Grice R, Du J, et al. Structure of hepatitis C virus polymerase in complex with primer-template RNA. J Virol. 2012;86:6503-11 pubmed publisher