Cited by 482DNA Repair MechanismsBacterial Genetics and BiotechnologyDNA and Nucleic Acid Chemistry

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Replication Fork Stalling at Natural Impediments

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Mirkin, Ekaterina V., Mirkin, Sergei M.·2007·Microbiology and Molecular Biology Reviews

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Abstract

SUMMARY: Accurate and complete replication of the genome in every cell division is a prerequisite of genomic stability. Thus, both prokaryotic and eukaryotic replication forks are extremely precise and robust molecular machines that have evolved to be up to the task. However, it has recently become clear that the replication fork is more of a hurdler than a runner: it must overcome various obstacles present on its way. Such obstacles can be called natural impediments to DNA replication, as opposed to external and genetic factors. Natural impediments to DNA replication are particular DNA binding proteins, unusual secondary structures in DNA, and transcription complexes that occasionally (in eukaryotes) or constantly (in prokaryotes) operate on replicating templates. This review describes the mechanisms and consequences of replication stalling at various natural impediments, with an emphasis on the role of replication stalling in genomic instability.

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Items 201–316 of 316

Stability of the Human Fragile X (CGG) n Triplet Repeat Array in Saccharomyces cerevisiae Deficient in Aspects of DNA Metabolism
White, P. J., Borts, R. H., & Hirst, M. C. (1999) · Molecular and Cellular Biology · doi:10.1128/mcb.19.8.5675 · Cited by 94
ARREST OF BACTERIAL DNA REPLICATION
Hill, T. (1992) · Annual Review of Microbiology · doi:10.1146/annurev.mi.46.100192.003131 · Cited by 93
Inhibition of replication forks exiting the terminus region of the Escherichia coli chromosome occurs at two loci separated by 5 min.
de Massy, B., Béjar, S., Louarn, J., Louarn, J., & Bouché, J. (1987) · Proceedings of the National Academy of Sciences · doi:10.1073/pnas.84.7.1759 · Cited by 93
DNA Repeat Rearrangements Mediated by DnaK-Dependent Replication Fork Repair
Goldfless, S. J., Morag, A. S., Belisle, K. A., Sutera, V. A., & Lovett, S. T. (2006) · Molecular Cell · doi:10.1016/j.molcel.2006.01.025 · Cited by 92
Microsatellite Instability in Human Cancer: A Prognostic Marker for Chemotherapy?
Claij, N., & Riele, H. T. (1999) · Experimental Cell Research · doi:10.1006/excr.1998.4299 · Cited by 91
Transcription-induced barriers to supercoil diffusion in the Salmonella typhimurium chromosome.
Deng, S., Stein, R., & Higgins, N. (2004) · Proceedings of the National Academy of Sciences of the United States of America · doi:10.1073/pnas.0307550101 · Cited by 89
Genetically Unstable CXG Repeats are Structurally Dynamic and Have a High Propensity for Folding. An NMR and UV Spectroscopic Study
Zheng, M., Huang, X., Smith, G., Yang, X., & Gao, X. (1996) · Journal of Molecular Biology · doi:10.1006/jmbi.1996.0643 · Cited by 89
NGG-triplet repeats form similar intrastrand structures: implications for the triplet expansion diseases
Usdin, K. (1998) · Nucleic Acids Research · doi:10.1093/nar/26.17.4078 · Cited by 88
Suicidal nucleotide sequences for DNA polymerization.
Samadashwily, G. M., Dayn, A., & Mirkin, S. M. (1993) · The EMBO Journal · doi:10.1002/j.1460-2075.1993.tb06191.x · Cited by 86
Self-citation
CGG/CCG repeats exhibit orientation-dependent instability and orientation-independent fragility in Saccharomyces cerevisiae
Balakumaran, B. S. (2000) · Human Molecular Genetics · doi:10.1093/hmg/9.1.93 · Cited by 86
The effect of template secondary structure on vaccinia DNA polymerase.
Challberg, M. D., & Englund, P. T. (1979) · Journal of Biological Chemistry · doi:10.1016/s0021-9258(18)36020-4 · Cited by 84
Termination of DNA replication of bacterial and plasmid chromosomes
Bussiere, D. E., & Bastia, D. (1999) · Molecular Microbiology · doi:10.1046/j.1365-2958.1999.01287.x · Cited by 84
DNA Knotting Caused by Head-on Collision of Transcription and Replication
Olavarrieta, L., Hernández, P., Krimer, D. B., & Schvartzman, J. B. (2002) · Journal of Molecular Biology · doi:10.1016/s0022-2836(02)00740-4 · Cited by 84
Crystal structure of the replication terminator protein from B. subtiiis at 2.6 Å
Bussiere, D. E., Bastia, D., & White, W. S. (1995) · Cell · doi:10.1016/0092-8674(95)90519-7 · Cited by 83
Transcription through a simple DNA repeat blocks replication elongation
Krasilnikova, M. M., Samadashwily, G. M., Krasilnikov, A. S., & Mirkin, S. M. (1998) · The EMBO Journal · doi:10.1093/emboj/17.17.5095 · Cited by 83
Self-citation
The DNA replication fork blocked at the Ter site may be an entrance for the RecBCD enzyme into duplex DNA
Horiuchi, T., Fujimura, Y., Nishitani, H., Kobayashi, T., & Hidaka, M. (1994) · Journal of Bacteriology · doi:10.1128/jb.176.15.4656-4663.1994 · Cited by 82
Studies on the mechanism of enzymatic DNA elongation by Escherichia coli DNA polymerase II
Sherman, L. A., & Gefter, M. L. (1976) · Journal of Molecular Biology · doi:10.1016/0022-2836(76)90052-8 · Cited by 80
Cloning, Characterization and Properties of Plasmids Containing CGG Triplet Repeats from the FMR-1 Gene
Shimizu, M., Gellibolian, R., Oostra, B. A., & Wells, R. D. (1996) · Journal of Molecular Biology · doi:10.1006/jmbi.1996.0273 · Cited by 80
A gene with specific and global effects on recombination of sequences from tandemly repeated genes in Saccharomyces cerevisiae.
Keil, R., & McWilliams, A. D. (1993) · Genetics · doi:10.1093/genetics/135.3.711 · Cited by 80
Replication origins are associated with transcription initiation sequences in the mitochondrial genome of yeast.
Baldacci, G., & Bernardi, G. (1982) · The EMBO Journal · doi:10.1002/j.1460-2075.1982.tb01282.x · Cited by 79
Saccharomyces cerevisiae Srs2 DNA Helicase Selectively Blocks Expansions of Trinucleotide Repeats
Bhattacharyya, S., & Lahue, R. S. (2004) · Molecular and Cellular Biology · doi:10.1128/mcb.24.17.7324-7330.2004 · Cited by 78
Deletions at stalled replication forks occur by two different pathways
Bierne, H., Ehrlich, S. D., & Michel, B. (1997) · The EMBO Journal · doi:10.1093/emboj/16.11.3332 · Cited by 77
Tus prevents overreplication of oriC plasmid DNA.
Hiasa, H., & Marians, K. J. (1994) · Journal of Biological Chemistry · doi:10.1016/s0021-9258(18)47112-8 · Cited by 77
RNase H Overproduction Corrects a Defect at the Level of Transcription Elongation during rRNA Synthesis in the Absence of DNA Topoisomerase I in Escherichia coli
Hraiky, C., Raymond, M.-A., & Drolet, M. (2000) · Journal of Biological Chemistry · doi:10.1074/jbc.275.15.11257 · Cited by 76
At Physiological pH, d(CCG)15 Forms a Hairpin Containing Protonated Cytosines and a Distorted Helix
Yu, A., Barron, M. D., Romero, R. M., Christy, M., Gold, B. I., Dai, J., Gray, D. M., Haworth, I. S., & Mitas, M. (1997) · Biochemistry · doi:10.1021/bi9625410 · Cited by 75
Sticky DNA, a Long GAA·GAA·TTC Triplex That Is Formed Intramolecularly, in the Sequence of Intron 1 of the Frataxin Gene
Vetcher, A. A., Напиерала, М., Iyer, R. R., Chastain, P. D., Griffith, J. D., & Wells, R. D. (2002) · Journal of Biological Chemistry · doi:10.1074/jbc.m205209200 · Cited by 74
DNA Secondary Structures and the Evolution of Hypervariable Tandem Arrays
Woodford, K. J., Usdin, K., & Weitzmann, M. N. (1997) · Journal of Biological Chemistry · doi:10.1074/jbc.272.14.9517 · Cited by 74
Major groove DNA recognition by β-sheets: the ribbon-helix-helix family of gene regulatory proteins
Raumann, B. E., Brown, B. M., & Sauer, R. T. (1994) · Current Opinion in Structural Biology · doi:10.1016/s0959-440x(94)90057-4 · Cited by 74
Template-directed pausing in in vitro DNA synthesis by DNA polymerase a from Drosophila melanogaster embryos.
Kaguni, L. S., & Clayton, D. A. (1982) · Proceedings of the National Academy of Sciences of the United States of America · doi:10.1073/pnas.79.4.983 · Cited by 73
Initiation and Termination of DNA Replication in Human rRNA Genes
Little, R. D., Platt, T. H. K., & Schildkraut, C. L. (1993) · Molecular and Cellular Biology · doi:10.1128/mcb.13.10.6600-6613.1993 · Cited by 73
Large domains of apparent delayed replication timing associated with triplet repeat expansion at FRAXA and FRAXE.
Subramanian, P. S., Nelson, D. L., & Chinault, A. C. (1996) · PubMed Central · Cited by 70
Transcription Termination Factor reb1p Causes Two Replication Fork Barriers at Its Cognate Sites in Fission Yeast Ribosomal DNA In Vivo
Sánchez-Gorostiaga, A., López-Estraño, C., Krimer, D. B., Schvartzman, J. B., & Hernández, P. (2003) · Molecular and Cellular Biology · doi:10.1128/mcb.24.1.398-406.2004 · Cited by 70
Defects in Replication Fidelity of Simple Repeated Sequences Reveal a New Mutator Mechanism for OncogenesisPreprint
Perucho, M., Peinado, M. A., Ionov, Y., Casares, S. A., Malkhosyan, S. R., & Stanbridge, E. J. (1994) · Cold Spring Harbor Symposia on Quantitative Biology · doi:10.1101/sqb.1994.059.01.038 · Cited by 69
Mechanism of termination of DNA replication of Escherichia coli involves helicase–contrahelicase interaction
Mulugu, S., Potnis, A., Shamsuzzaman, Taylor, J., Alexander, K., & Bastia, D. (2001) · Proceedings of the National Academy of Sciences · doi:10.1073/pnas.171065898 · Cited by 69
Mechanisms of triplex-caused polymerization arrest
Krasilnikov, A. (1997) · Nucleic Acids Research · doi:10.1093/nar/25.7.1339 · Cited by 69
Hairpin Formation in Friedreich's Ataxia Triplet Repeat Expansion
Heidenfelder, B. L., Makhov, A. M., & Topal, M. D. (2003) · Journal of Biological Chemistry · doi:10.1074/jbc.m210643200 · Cited by 68
Replication fork barriers in the Xenopus rDNA
Wiesendanger, B., Lucchini, R., Koller, T., & Sogo, J. M. (1994) · Nucleic Acids Research · doi:10.1093/nar/22.23.5038 · Cited by 67
Mechanisms of replication fork restart in Escherichia coli
Marians, K. J. (2004) · Philosophical Transactions of the Royal Society B Biological Sciences · doi:10.1098/rstb.2003.1366 · Cited by 66
The Effect of DNA Replication Mutations on CAG Tract Stability in Yeast
Schweitzer, J. K., & Livingston, D. M. (1999) · Genetics · doi:10.1093/genetics/152.3.953 · Cited by 66
Co-localization of polar replication fork barriers and rRNA transcription terminators in mouse rDNA
López-Estraño, C., Schvartzman, J. B., Krimer, D. B., & Hernández, P. (1998) · Journal of Molecular Biology · doi:10.1006/jmbi.1997.1607 · Cited by 64
Transcription regulatory elements are punctuation marks for DNA replication
Mirkin, E. V., Castro-Roa, D., Nudler, E., & Mirkin, S. M. (2006) · Proceedings of the National Academy of Sciences · doi:10.1073/pnas.0601127103 · Cited by 62
Self-citation
Localization of checkpoint and repair proteins in eukaryotes
Lisby, M., & Rothstein, R. J. (2004) · Biochimie · doi:10.1016/j.biochi.2004.10.023 · Cited by 61
Protein–nucleic acid interactions: from A(rgonaute) to X(PF)
Yang, W., & VanDuyne, G. D. (2006) · Current Opinion in Structural Biology · doi:10.1016/j.sbi.2006.01.012 · Cited by 61
DNA Polymerase III Proofreading Mutants Enhance the Expansion and Deletion of Triplet Repeat Sequences in Escherichia coli *
Iyer, R. R., Pluciennik, A., Rosche, W. A., Sinden, R., & Wells, R. (2000) · Journal of Biological Chemistry · doi:10.1074/jbc.275.3.2174 · Cited by 61
Transcription‐induced deletions in Escherichia coli plasmids
Vilette, D., Ehrlich, S. D., & Michel, B. (1995) · Molecular Microbiology · doi:10.1111/j.1365-2958.1995.mmi_17030493.x · Cited by 61
Triple Helix Forming Oligonucleotides
Malvy, C., Harel‐Bellan, A., & Pritchard, L. L. (1999) · Perspectives in antisense science · doi:10.1007/978-1-4615-5177-5 · Cited by 60
The Impact of Lagging Strand Replication Mutations on the Stability of CAG Repeat Tracts in Yeast
Ireland, M. J., Reinke, S. S., & Livingston, D. M. (2000) · Genetics · doi:10.1093/genetics/155.4.1657 · Cited by 60
The ColE1 Unidirectional Origin Acts as a Polar Replication Fork Pausing Site
Viguera, E., Hernández, P., Krimer, D. B., Boistov, A. S., Lurz, R., Alonso, J. C., & Schvartzman, J. B. (1996) · Journal of Biological Chemistry · doi:10.1074/jbc.271.37.22414 · Cited by 60
Replication arrests during a single round of replication of the Escherichia coli chromosome in the absence of DnaC activity
Maisnier‐Patin, S., Nordström, K., & Dasgupta, S. (2001) · Molecular Microbiology · doi:10.1046/j.1365-2958.2001.02718.x · Cited by 60
(dT-dC)n and (dG-dA)n tracts arrest single stranded DNA replicationin vitro
Lapidot, A., Baran, N., & Manor, H. (1989) · Nucleic Acids Research · doi:10.1093/nar/17.3.883 · Cited by 59
Sap1p Binds to Ter1 at the Ribosomal DNA of Schizosaccharomyces pombe and Causes Polar Replication Fork Arrest
Krings, G., & Bastia, D. (2005) · Journal of Biological Chemistry · doi:10.1074/jbc.m508996200 · Cited by 59
In Vitro (CTG)·(CAG) Expansions and Deletions by Human Cell Extracts
Panigrahi, G. B., Cleary, J. D., & Pearson, C. E. (2002) · Journal of Biological Chemistry · doi:10.1074/jbc.m109761200 · Cited by 59
Does S. pombe exploit the intrinsic asymmetry of DNA synthesis to imprint daughter cells for mating-type switching?
Dalgaard, J. Z., & Klar, A. J. S. (2001) · Trends in Genetics · doi:10.1016/s0168-9525(00)02203-4 · Cited by 59
Role of EBNA-1 in arresting replication forks at the Epstein-Barr virus oriP family of tandem repeats.
Dhar, V. N., & Schildkraut, C. L. (1991) · Molecular and Cellular Biology · doi:10.1128/mcb.11.12.6268 · Cited by 58
Expansion and Deletion of Triplet Repeat Sequences inEscherichia coli Occur on the Leading Strand of DNA Replication
Iyer, R. R., & Wells, R. D. (1999) · Journal of Biological Chemistry · doi:10.1074/jbc.274.6.3865 · Cited by 57
R-loop-dependent hypernegative supercoiling in Escherichia coli topA mutants preferentially occurs at low temperatures and correlates with growth inhibition
Massé, É., & Drolet, M. (1999) · Journal of Molecular Biology · doi:10.1006/jmbi.1999.3264 · Cited by 57
Binding of the Replication Terminator Protein Fob1p to the Ter Sites of Yeast Causes Polar Fork Arrest
Mohanty, B. K., & Bastia, D. (2004) · Journal of Biological Chemistry · doi:10.1074/jbc.m309078200 · Cited by 57
The replication termination signal terB of the Escherichia coli chromosome is a deletion hot spot.
Bierne, H., Ehrlich, S. D., & Michel, B. (1991) · The EMBO Journal · doi:10.1002/j.1460-2075.1991.tb07814.x · Cited by 56
Differential inhibition of the DNA translocation and DNA unwinding activities of DNA helicases by the Escherichia coli Tus protein.
Hiasa, H., & Marians, K. J. (1992) · Journal of Biological Chemistry · doi:10.1016/s0021-9258(19)49921-3 · Cited by 56
Ribosomal DNA Replication Fork Barrier and HOT1 Recombination Hot Spot: Shared Sequences but Independent Activities
Ward, T. R., Hoang, M. L., Prusty, R., Lau, C. K., Keil, R., Fangman, W. L., & Brewer, B. J. (2000) · Molecular and Cellular Biology · doi:10.1128/mcb.20.13.4948-4957.2000 · Cited by 56
Definition and polarity of action of DNA replication terminators in Bacillus subtilis
Smith, M. T., & Wake, R. G. (1992) · Journal of Molecular Biology · doi:10.1016/0022-2836(92)90214-5 · Cited by 55
A host-encoded DNA-binding protein promotes termination of plasmid replication at a sequence-specific replication terminus.
Sista, P. R., Mukherjee, S. K., Patel, P., Khatri, G. S., & Bastia, D. (1989) · Proceedings of the National Academy of Sciences · doi:10.1073/pnas.86.9.3026 · Cited by 55
Evidence of a ter specific binding protein essential for the termination reaction of DNA replication in Escherichia coli.
Kobayashi, T., Hidaka, M., & Horiuchi, T. (1989) · The EMBO Journal · doi:10.1002/j.1460-2075.1989.tb08374.x · Cited by 55
The Mating Type Switch-Activating Protein Sap1 Is Required for Replication Fork Arrest at the rRNA Genes of Fission Yeast
Mejía-Ramírez, E., Sánchez-Gorostiaga, A., Krimer, D. B., Schvartzman, J. B., & Hernández, P. (2005) · Molecular and Cellular Biology · doi:10.1128/mcb.25.19.8755-8761.2005 · Cited by 53
Sequence-specific pausing during in vitro DNA replication on double-stranded DNA templates
Bedinger, P. A., Munn, M. M., & Alberts, B. (1989) · Journal of Biological Chemistry · doi:10.1016/s0021-9258(19)84789-0 · Cited by 52
Termination of DNA replication in Escherichia coli requires a trans-acting factor
Hill, T., Kopp, B. J., & Kuempel, P. L. (1988) · Journal of Bacteriology · doi:10.1128/jb.170.2.662-668.1988 · Cited by 52
PKD1 intron 21: triplex DNA formation and effect on replication
Patel, H. P. (2004) · Nucleic Acids Research · doi:10.1093/nar/gkh312 · Cited by 50
Mutational and physical analysis of F plasmid traY protein binding to oriT
Luo, Y., Gao, Q., & Deonier, R. C. (1994) · Molecular Microbiology · doi:10.1111/j.1365-2958.1994.tb00327.x · Cited by 49
Pauses at positions of secondary structure during in vitro replication of single-stranded fd Bacteriophage DNA by T4 DNA polymerase
Huang, C.-C., & Hearst, J. E. (1980) · Analytical Biochemistry · doi:10.1016/0003-2697(80)90246-8 · Cited by 49
Pausing in simian virus 40 DNA replication by a sequence containing (dG-dA)27·(dT-dC)27
Rao, B. S., Manor, H., & Martin, R. G. (1988) · Nucleic Acids Research · doi:10.1093/nar/16.16.8077 · Cited by 49
Position and orientation-dependent effects of a eukaryotic Z-triplex DNA motif on episomal DNA replication in COS-7 cells.
Brinton, B. T., Caddle, M. S., & Heintz, N. H. (1991) · Journal of Biological Chemistry · doi:10.1016/s0021-9258(19)67768-9 · Cited by 48
Complex mechanism of site‐specific DNA replication termination in fission yeast
Codlin, S., & Dalgaard, J. Z. (2003) · The EMBO Journal · doi:10.1093/emboj/cdg330 · Cited by 48
The trinucleotide repeat sequence d(GTC)15adopts ahairpin conformation
Yu, A., Dill, J., Wirth, S. S., Huang, G. H., Lee, V. H. L., Haworth, I. S., & Mitas, M. (1995) · Nucleic Acids Research · doi:10.1093/nar/23.14.2706 · Cited by 46
Positioned to expand
Mirkin, S. M., & Smirnova, E. (2002) · Nature Genetics · doi:10.1038/ng0502-5 · Cited by 45
Self-citation
A checkpoint involving RTP, the replication terminator protein, arrests replication downstream of the origin during the Stringent Response in Bacillus subtilis
Lévine, A., Autret, S., & Séeror, S. J. (1995) · Molecular Microbiology · doi:10.1111/j.1365-2958.1995.tb02243.x · Cited by 45
Molecular Visualization of Immunoglobulin Switch Region RNA/DNA Complex by Atomic Force Microscope
Mizuta, R., Iwai, K., Shigeno, M., Mizuta, M., Uemura, T., Ushiki, T., & Kitamura, D. (2003) · Journal of Biological Chemistry · doi:10.1074/jbc.m209262200 · Cited by 44
The replication terminator protein of the gram-positive bacterium Bacillus subtilis functions as a polar contrahelicase in gram-negative Escherichia coli.
Kaul, S., Mohanty, B. K., Sahoo, T., Patel, I., Khan, S. A., & Bastia, D. (1994) · Proceedings of the National Academy of Sciences · doi:10.1073/pnas.91.23.11143 · Cited by 42
Protein–nucleoside contacts in the interaction between the replication terminator protein of Bacillus subtilis and the DNA terminator
Langley, D. B., Smith, M. T., Lewis, P. J., & Wake, R. G. (1993) · Molecular Microbiology · doi:10.1111/j.1365-2958.1993.tb00947.x · Cited by 41
Developmental Regulation of DNA Replication: Replication Fork Barriers and Programmed Gene Amplification in Tetrahymena thermophila
Zhang, Z., MacAlpine, D. M., & Kapler, D. M. (1997) · Molecular and Cellular Biology · doi:10.1128/mcb.17.10.6147 · Cited by 41
Bacteriophage φ29 DNA replication arrest caused by codirectional collisions with the transcription machinery
Arnanz, M. E., & Salas, M. (1997) · The EMBO Journal · doi:10.1093/emboj/16.18.5775 · Cited by 40
A protein involved in termination of chromosome replication in Bacillus subtilis binds specifically to the terC site
Lewis, P. J., Smith, M. T., & Wake, R. G. (1989) · Journal of Bacteriology · doi:10.1128/jb.171.6.3564-3567.1989 · Cited by 39
DNA Replication Forks Pause at Silent Origins near the HML Locus in Budding Yeast
Wang, Y., Vujcic, M., & Kowalski, D. (2001) · Molecular and Cellular Biology · doi:10.1128/mcb.21.15.4938-4948.2001 · Cited by 39
Compact structures of d(CNG)noligonucleotides in solution and their possible relevance to Fragile X and related human genetic diseases
Mitchell, J. E., Newbury, S. F., & McClellan, J. A. (1995) · Nucleic Acids Research · doi:10.1093/nar/23.11.1876 · Cited by 38
Inactivation of the replication‐termination system affects the replication mode and causes unstable maintenance of plasmid R1
Krabbe, M., Zabielski, J., Bernander, R., & Nordström, K. (1997) · Molecular Microbiology · doi:10.1046/j.1365-2958.1997.3791747.x · Cited by 38
Origins of bidirectional replication of Epstein-Barr virus: Models for understanding mammalian origins of DNA synthesis
Wang, J.-D., & Sugden, B. (2004) · Journal of Cellular Biochemistry · doi:10.1002/jcb.20324 · Cited by 37
Pausing of simian virus 40 DNA replication fork movement in vivo by (dG-dA)n·(dT-dC)n tracts
Rao, B. S. (1994) · Gene · doi:10.1016/0378-1119(94)90549-5 · Cited by 36
A Tail of Histone Acetylation and DNA Recombination
Schlissel, M. S. (2000) · Science · doi:10.1126/science.287.5452.438 · Cited by 35
The replication checkpoint control in Bacillus subtilis: identification of a novel RTP‐binding sequence essential for the replication fork arrest after induction of the stringent response
Autret, S., Lévine, A., Vannier, F., Fujita, Y., & Séror, S. J. (1999) · Molecular Microbiology · doi:10.1046/j.1365-2958.1999.01299.x · Cited by 35
DnaB Helicase Is Unable to Dissociate RNA-DNA Hybrids
Santamarı́a, D., de la Cueva, G., Martı́nez-Robles, M. L., Krimer, D. B., Hernández, P., & Schvartzman, J. B. (1998) · Journal of Biological Chemistry · doi:10.1074/jbc.273.50.33386 · Cited by 35
Resolution of head‐on collisions between the transcription machinery and bacteriophage Φ29 DNA polymerase is dependent on RNA polymerase translocation
Arnanz, M. E., & Salas, M. A. (1999) · The EMBO Journal · doi:10.1093/emboj/18.20.5675 · Cited by 35
Characterization of the pea rDNA replication fork barrier: putative cis-acting and trans-acting factors
López-Estraño, C., Schvartzman, J. B., Krimer, D. B., & Hernández, P. (1999) · Plant Molecular Biology · doi:10.1023/a:1026405311132 · Cited by 33
Type I Elements Mediate Replication Fork Pausing at Conserved Upstream Sites in the Tetrahymena thermophila Ribosomal DNA Minichromosome
MacAlpine, D. M., Zhang, Z., & Kapler, G. M. (1997) · Molecular and Cellular Biology · doi:10.1128/mcb.17.8.4517 · Cited by 32
Replication arrest
Baker, T. A. (1995) · Cell · doi:10.1016/0092-8674(95)90504-9 · Cited by 31
Role of the EBNA-1 Protein in Pausing of Replication Forks in the Epstein-Barr Virus Genome
Ermakova, O. V., Frappier, L., & Schildkraut, C. L. (1996) · Journal of Biological Chemistry · doi:10.1074/jbc.271.51.33009 · Cited by 30
Structural isomerization in DNA: the formation of cruciform structures in supercoiled DNA molecules
Lilley, D. M. J. (1989) · Chemical Society Reviews · doi:10.1039/cs9891800053 · Cited by 30
Solution Structures of the Huntington's Disease DNA Triplets, (CAG) n
Mariappan, S. V. S., Silks, L. A., Chen, X., Springer, P. A., Wu, R., Moyzis, R. K., Bradbury, E. M., Garcı́a, A. E., & Gupta, G. (1998) · Journal of Biomolecular Structure and Dynamics · doi:10.1080/07391102.1998.10508988 · Cited by 30
Termination of DNA replication in vitro: requirement for stereospecific interaction between two dimers of the replication terminator protein of Bacillus subtilis and with the terminator site to elicit polar contrahelicase and fork impedance.
Sahoo, T., Mohanty, B. K., Patel, I. R., & Bastia, D. (1995) · The EMBO Journal · doi:10.1002/j.1460-2075.1995.tb07038.x · Cited by 29
Mitotic recombination and localized DNA double-strand breaks are induced after 8-methoxypsoralen and UVA irradiation in Saccharomyces cerevisiae
Dardalhon, M., de Massy, B., Nicolas, A. G., & Averbeck, D. (1998) · Current Genetics · doi:10.1007/s002940050363 · Cited by 25
Termination within Oligo(dT) Tracts in Template DNA by DNA Polymerase γ Occurs with Formation of a DNA Triplex Structure and Is Relieved by Mitochondrial Single-stranded DNA-binding Protein
Mikhailov, V. S., & Bogenhagen, D. F. (1996) · Journal of Biological Chemistry · doi:10.1074/jbc.271.48.30774 · Cited by 24
Developmental regulation of replication fork pausing in Xenopus laevis ribosomal RNA genes
Maric, C. A., Levacher, B., & Hyrien, O. (1999) · Journal of Molecular Biology · doi:10.1006/jmbi.1999.3017 · Cited by 24
Transcription termination factor TTF‐I exhibits contrahelicase activity during DNA replication
Pütter, V., & Grummt, F. (2002) · EMBO Reports · doi:10.1093/embo-reports/kvf027 · Cited by 24
The dimer-dimer interaction surface of the replication terminator protein of Bacillus subtilis and termination of DNA replication.
Manna, A. C., Pai, K. S., Bussiere, D. E., White, S. W., & Bastia, D. (1996) · Proceedings of the National Academy of Sciences · doi:10.1073/pnas.93.8.3253 · Cited by 23
A single trinucleotide, 5'AGC3'/5'GCT3', of the tripletrepeat disease genes confers metal ion-induced non-B DNA structure
Kphwi, Y., Wang, H., & Kohwi-Shigenatsu, T. (1993) · Nucleic Acids Research · doi:10.1093/nar/21.24.5651 · Cited by 22
Premature termination of DNA replication in plasmids carrying two inversely oriented ColE1 origins
Santamarı́a, D., Hernández, P., Martínez-Robles, M.-L., Krimer, D. B., & Schvartzman, J. B. (2000) · Journal of Molecular Biology · doi:10.1006/jmbi.2000.3843 · Cited by 21
Termination sites T1 and T2 from the Escherichia coli chromosome inhibit DNA replication in ColE1-derived plasmids
Pelletier, A. J., Hill, T., & Kuempel, P. L. (1989) · Journal of Bacteriology · doi:10.1128/jb.171.3.1739-1741.1989 · Cited by 20
Replication restart: A pathway for (CTG)·(CAG) repeat deletion in Escherichia coli
Kim, S., Pytlos, M. J., & Sinden, R. R. (2006) · Mutation research. Fundamental and molecular mechanisms of mutagenesis · doi:10.1016/j.mrfmmm.2005.07.010 · Cited by 20
Recombination Mechanisms
Heyer, W., & Kanaar, R. (2004) · Molecular Cell · doi:10.1016/j.molcel.2004.09.025 · Cited by 17
Identification and characterization of a novel type of replication terminator with bidirectional activity on the Bacillus subtilis theta plasmid pLS20
Meijer, W. J. J., Smith, M. T., Wake, R. G., de Boer, A. L., Venema, G., & Bron, S. (1996) · Molecular Microbiology · doi:10.1111/j.1365-2958.1996.tb02474.x · Cited by 16
Role of EBNA-1 in Arresting Replication Forks at the Epstein-Barr Virus oriP Family of Tandem Repeats
Dhar, V. N., & Schildkraut, C. L. (1991) · Molecular and Cellular Biology · doi:10.1128/mcb.11.12.6268-6278.1991 · Cited by 14
Damage Signaling: RecQ Sends an SOS to You
Heyer, W. (2004) · Current Biology · doi:10.1016/j.cub.2004.09.073 · Cited by 13
A Replication Terminus Located at or Near a Replication Checkpoint of Bacillus subtilis Functions Independently of Stringent Control
Gautam, A., & Bastia, D. (2001) · Journal of Biological Chemistry · doi:10.1074/jbc.m009538200 · Cited by 13
Duplications between direct repeats stabilized by DNA secondary structure occur preferentially in the leading strand during DNA replication
Hashem, V. I., & Sinden, R. R. (2005) · Mutation research. Fundamental and molecular mechanisms of mutagenesis · doi:10.1016/j.mrfmmm.2004.11.009 · Cited by 10
A new trick for an old dog: TraY binding to a homopurine-homopyrimidine run attenuates DNA replication
Krasilnikova, M. M., Smirnova, E., Krasilnikov, A. S., & Mirkin, S. M. (2001) · Journal of Molecular Biology · doi:10.1006/jmbi.2001.5059 · Cited by 10
Self-citation
Structure and Biology of H DNA
Mirkin, S. M. (1999) · Perspectives in antisense science · doi:10.1007/978-1-4615-5177-5_15 · Cited by 9
Self-citation
Excision Repair and Bypass
Strauss, B. S. (2014) · ASM Press eBooks · doi:10.1128/9781555817640.ch24 · Cited by 3
Síndrome compartimental abdominal en el postoperatorio de un paciente con aneurisma de aorta abdominal infrarrenal fisurado. Caso clínico y revisión de la bibliografía
Rodríguez-Lorenzo, L., Romera, A., González, Z. M., Cotillas-Trulla, J., Gracia-Guerrero, T., & Cairols-Castellote, M. A. (2007) · Angiología · doi:10.1016/s0003-3170(07)75074-5 · Cited by 2

Research works printed but not linked: 6

DePamphilis, M. L. 2002. Eukaryotic DNA replication fork. Chemtracts Biochem. Mol. Biol.15:313-325.
Freudenreich, C. H. 2005. Molecular mechanisms of chromosomal fragility. Chemtracts Biochem. Mol. Biol.18:141-152.
Mirkin, S. M. 2004. Molecular models for repeat expansions. Chemtracts Biochem. Mol. Biol.17:639-662.
Mirkin, S. M. 2006. Replication of expandable repeats, p. 637-644. In R. D. Wells and T. Ashizawa (ed.), Genetic instabilities and neurological diseases, 2nd ed. Academic Press, New York, NY.
10.1128/mcb.9.8.3464-3472.1989 · DOI
Wells R. D. and S. T. Warren (ed.). 1998. Genetic instabilities and hereditary neurological disorders. Academic Press San Diego CA.

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Branzei, D., & Foiani, M. (2010) · Nature Reviews Molecular Cell Biology · doi:10.1038/nrm2852 · Cited by 786
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Mehta, A., & Haber, J. E. (2014) · Cold Spring Harbor Perspectives in Biology · doi:10.1101/cshperspect.a016428 · Cited by 792
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See all 482

Authors: Mirkin, E. V., & Mirkin, S. M.
Affiliations: University of Illinois Chicago (US)
ORCID: Mirkin, Sergei M.
Venue: Microbiology and Molecular Biology Reviews
Publisher: American Society for Microbiology
Published: 2007-03
Volume: 71
Issue: 1
Pages: 13-35
ISSN: 1092-2172 (ISSN-L)
1098-5557
DOI: 10.1128/mmbr.00030-06
PMC: PMC1847372
OpenAlex: W2160336344
Cited by: 482
References: 316
Citations by year: 2026: 9 · 2025: 12 · 2024: 14 · 2023: 23 · 2022: 15 · 2021: 28 · 2020: 42 · 2019: 30 · 2018: 32 · 2017: 27 · 2016: 38 · 2015: 22 · 2014: 34 · 2013: 29 · 2012: 32
FWCI: 1.62
Type: journal article
Language: en
Open access: green
www.ncbi.nlm.nih.gov
Licence: journals.asm.org/non-commercial-tdm-license (tdm)
Locations: Microbiology and Molecular Biology Reviews (publishedVersion)
PubMed Central (publishedVersion)
PubMed (publishedVersion)
Funders: National Institute of General Medical Sciences (R01GM060987, GM60987)
Topics: Life Sciences › Biochemistry, Genetics and Molecular Biology › Molecular Biology › DNA Repair Mechanisms
Life Sciences › Biochemistry, Genetics and Molecular Biology › Genetics › Bacterial Genetics and Biotechnology
Life Sciences › Biochemistry, Genetics and Molecular Biology › Molecular Biology › DNA and Nucleic Acid Chemistry
Keywords: replication fork stalling, DNA replication, genomic instability, DNA-binding proteins, DNA secondary structure, replication fork reversal
MeSH terms: Animals, DNA Replication, DNA-Binding Proteins, Humans, Models, Genetic, Transcription, Genetic, Replication Origin, Saccharomyces cerevisiae Proteins, Escherichia coli Proteins, Genomic Instability

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Replication Fork Stalling at Natural Impediments

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