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For: Mirkin EV, Castro Roa D, Nudler E, Mirkin SM. Transcription regulatory elements are punctuation marks for DNA replication. Proc Natl Acad Sci U S A 2006;103:7276-81. [PMID: 16670199 PMCID: PMC1464333 DOI: 10.1073/pnas.0601127103] [Citation(s) in RCA: 52] [Impact Index Per Article: 2.7] [Reference Citation Analysis] [What about the content of this article? (0)] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/18/2022]  Open
Number Cited by Other Article(s)
1
Liu J, Perren JO, Rogers CM, Nimer S, Wen AX, Halliday JA, Fitzgerald DM, Mei Q, Nehring RB, Crum M, Kozmin SG, Xia J, Cooke MB, Zhai Y, Bates D, Li L, Hastings PJ, Artsimovitch I, Herman C, Sung PM, Miller KM, Rosenberg SM. Endogenous DNA damage at sites of terminated transcripts. Nature 2025;640:240-248. [PMID: 39972147 DOI: 10.1038/s41586-024-08578-4] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [MESH Headings] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 03/30/2023] [Accepted: 12/26/2024] [Indexed: 02/21/2025]
2
Hasenauer F, Barreto H, Lotton C, Matic I. Genome-wide mapping of spontaneous DNA replication error-hotspots using mismatch repair proteins in rapidly proliferating Escherichia coli. Nucleic Acids Res 2025;53:gkae1196. [PMID: 39660654 PMCID: PMC11754648 DOI: 10.1093/nar/gkae1196] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [MESH Headings] [Grants] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 06/29/2024] [Revised: 11/12/2024] [Accepted: 11/19/2024] [Indexed: 12/12/2024]  Open
3
Yang KB, Cameranesi M, Gowder M, Martinez C, Shamovsky Y, Epshtein V, Hao Z, Nguyen T, Nirenstein E, Shamovsky I, Rasouly A, Nudler E. High-resolution landscape of an antibiotic binding site. Nature 2023;622:180-187. [PMID: 37648864 PMCID: PMC10550828 DOI: 10.1038/s41586-023-06495-6] [Citation(s) in RCA: 2] [Impact Index Per Article: 1.0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Grants] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 08/03/2022] [Accepted: 07/28/2023] [Indexed: 09/01/2023]
4
de Siqueira GMV, Guazzaroni ME. Host-Dependent Improvement of GFP Expression in Pseudomonas putida KT2440 Using Terminators of Metagenomic Origin. ACS Synth Biol 2023;12:1562-1566. [PMID: 37126733 DOI: 10.1021/acssynbio.3c00098] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 05/03/2023]
5
Huang D, Johnson AE, Sim BS, Lo TW, Merrikh H, Wiggins PA. The in vivo measurement of replication fork velocity and pausing by lag-time analysis. Nat Commun 2023;14:1762. [PMID: 36997519 PMCID: PMC10063678 DOI: 10.1038/s41467-023-37456-2] [Citation(s) in RCA: 12] [Impact Index Per Article: 6.0] [Reference Citation Analysis] [Abstract] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 10/06/2022] [Accepted: 03/17/2023] [Indexed: 03/31/2023]  Open
6
Mitogenome-wise codon usage pattern from comparative analysis of the first mitogenome of Blepharipa sp. (Muga uzifly) with other Oestroid flies. Sci Rep 2022;12:7028. [PMID: 35487927 PMCID: PMC9054809 DOI: 10.1038/s41598-022-10547-8] [Citation(s) in RCA: 3] [Impact Index Per Article: 1.0] [Reference Citation Analysis] [Abstract] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 12/19/2018] [Accepted: 03/21/2022] [Indexed: 11/08/2022]  Open
7
Tsirkas I, Dovrat D, Thangaraj M, Brouwer I, Cohen A, Paleiov Z, Meijler MM, Lenstra T, Aharoni A. Transcription-replication coordination revealed in single live cells. Nucleic Acids Res 2022;50:2143-2156. [PMID: 35137218 PMCID: PMC8887460 DOI: 10.1093/nar/gkac069] [Citation(s) in RCA: 15] [Impact Index Per Article: 5.0] [Reference Citation Analysis] [Abstract] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 08/16/2021] [Revised: 01/04/2022] [Accepted: 01/25/2022] [Indexed: 11/23/2022]  Open
8
The Role of Replication Clamp-Loader Protein HolC of Escherichia coli in Overcoming Replication/Transcription Conflicts. mBio 2021;12:mBio.00184-21. [PMID: 33688004 PMCID: PMC8092217 DOI: 10.1128/mbio.00184-21] [Citation(s) in RCA: 4] [Impact Index Per Article: 1.0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/20/2022]  Open
9
Nagy-Staron A, Tomasek K, Caruso Carter C, Sonnleitner E, Kavčič B, Paixão T, Guet CC. Local genetic context shapes the function of a gene regulatory network. eLife 2021;10:e65993. [PMID: 33683203 PMCID: PMC7968929 DOI: 10.7554/elife.65993] [Citation(s) in RCA: 11] [Impact Index Per Article: 2.8] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Grants] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 12/21/2020] [Accepted: 02/19/2021] [Indexed: 11/13/2022]  Open
10
Dutertre M, Sfaxi R, Vagner S. Reciprocal Links between Pre-messenger RNA 3'-End Processing and Genome Stability. Trends Biochem Sci 2021;46:579-594. [PMID: 33653631 DOI: 10.1016/j.tibs.2021.01.009] [Citation(s) in RCA: 7] [Impact Index Per Article: 1.8] [Reference Citation Analysis] [Abstract] [Key Words] [Journal Information] [Subscribe] [Scholar Register] [Received: 09/01/2020] [Revised: 01/11/2021] [Accepted: 01/22/2021] [Indexed: 02/07/2023]
11
Schroeder JW, Sankar TS, Wang JD, Simmons LA. The roles of replication-transcription conflict in mutagenesis and evolution of genome organization. PLoS Genet 2020;16:e1008987. [PMID: 32853297 PMCID: PMC7451550 DOI: 10.1371/journal.pgen.1008987] [Citation(s) in RCA: 17] [Impact Index Per Article: 3.4] [Reference Citation Analysis] [Abstract] [MESH Headings] [Grants] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/18/2022]  Open
12
Üstüntanır Dede AF, Arslanyolu M. Construction and dynamic characterization of a Tetrahymena thermophila macronuclear artificial chromosome. Gene 2020;748:144697. [PMID: 32325092 DOI: 10.1016/j.gene.2020.144697] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 12/16/2019] [Revised: 04/15/2020] [Accepted: 04/17/2020] [Indexed: 11/18/2022]
13
Subramanian H, Gatenby RA. Evolutionary advantage of anti-parallel strand orientation of duplex DNA. Sci Rep 2020;10:9883. [PMID: 32555277 PMCID: PMC7303137 DOI: 10.1038/s41598-020-66705-3] [Citation(s) in RCA: 3] [Impact Index Per Article: 0.6] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Grants] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 01/01/2020] [Accepted: 05/22/2020] [Indexed: 11/09/2022]  Open
14
Transcription shapes DNA replication initiation and termination in human cells. Nat Struct Mol Biol 2018;26:67-77. [PMID: 30598550 PMCID: PMC6320713 DOI: 10.1038/s41594-018-0171-0] [Citation(s) in RCA: 104] [Impact Index Per Article: 14.9] [Reference Citation Analysis] [Abstract] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 05/22/2018] [Accepted: 11/19/2018] [Indexed: 12/21/2022]
15
Albero R, Enjuanes A, Demajo S, Castellano G, Pinyol M, García N, Capdevila C, Clot G, Suárez-Cisneros H, Shimada M, Karube K, López-Guerra M, Colomer D, Beà S, Martin-Subero JI, Campo E, Jares P. Cyclin D1 overexpression induces global transcriptional downregulation in lymphoid neoplasms. J Clin Invest 2018;128:4132-4147. [PMID: 29990311 DOI: 10.1172/jci96520] [Citation(s) in RCA: 30] [Impact Index Per Article: 4.3] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 07/26/2017] [Accepted: 06/28/2018] [Indexed: 01/05/2023]  Open
16
Lang KS, Merrikh H. The Clash of Macromolecular Titans: Replication-Transcription Conflicts in Bacteria. Annu Rev Microbiol 2018;72:71-88. [PMID: 29856930 DOI: 10.1146/annurev-micro-090817-062514] [Citation(s) in RCA: 53] [Impact Index Per Article: 7.6] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/14/2022]
17
McGinty RJ, Puleo F, Aksenova AY, Hisey JA, Shishkin AA, Pearson EL, Wang ET, Housman DE, Moore C, Mirkin SM. A Defective mRNA Cleavage and Polyadenylation Complex Facilitates Expansions of Transcribed (GAA)n Repeats Associated with Friedreich's Ataxia. Cell Rep 2018;20:2490-2500. [PMID: 28877480 DOI: 10.1016/j.celrep.2017.08.051] [Citation(s) in RCA: 14] [Impact Index Per Article: 2.0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 04/10/2017] [Revised: 07/19/2017] [Accepted: 08/15/2017] [Indexed: 02/03/2023]  Open
18
Schroeder JW, Yeesin P, Simmons LA, Wang JD. Sources of spontaneous mutagenesis in bacteria. Crit Rev Biochem Mol Biol 2017;53:29-48. [PMID: 29108429 DOI: 10.1080/10409238.2017.1394262] [Citation(s) in RCA: 42] [Impact Index Per Article: 5.3] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/17/2022]
19
Conflict Resolution in the Genome: How Transcription and Replication Make It Work. Cell 2017;167:1455-1467. [PMID: 27912056 DOI: 10.1016/j.cell.2016.09.053] [Citation(s) in RCA: 194] [Impact Index Per Article: 24.3] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 06/14/2016] [Revised: 09/20/2016] [Accepted: 09/27/2016] [Indexed: 01/12/2023]
20
Pif1-family helicases cooperatively suppress widespread replication-fork arrest at tRNA genes. Nat Struct Mol Biol 2016;24:162-170. [PMID: 27991904 PMCID: PMC5296403 DOI: 10.1038/nsmb.3342] [Citation(s) in RCA: 62] [Impact Index Per Article: 6.9] [Reference Citation Analysis] [Abstract] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 07/29/2016] [Accepted: 11/14/2016] [Indexed: 12/03/2022]
21
The nature of mutations induced by replication–transcription collisions. Nature 2016;535:178-81. [PMID: 27362223 PMCID: PMC4945378 DOI: 10.1038/nature18316] [Citation(s) in RCA: 102] [Impact Index Per Article: 11.3] [Reference Citation Analysis] [Abstract] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 03/12/2015] [Accepted: 05/11/2016] [Indexed: 12/18/2022]
22
New Insights into the Functions of Transcription Factors that Bind the RNA Polymerase Secondary Channel. Biomolecules 2015;5:1195-209. [PMID: 26120903 PMCID: PMC4598747 DOI: 10.3390/biom5031195] [Citation(s) in RCA: 29] [Impact Index Per Article: 2.9] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 03/17/2015] [Revised: 05/06/2015] [Accepted: 06/09/2015] [Indexed: 11/25/2022]  Open
23
Hoffman EA, McCulley A, Haarer B, Arnak R, Feng W. Break-seq reveals hydroxyurea-induced chromosome fragility as a result of unscheduled conflict between DNA replication and transcription. Genome Res 2015;25:402-12. [PMID: 25609572 PMCID: PMC4352882 DOI: 10.1101/gr.180497.114] [Citation(s) in RCA: 64] [Impact Index Per Article: 6.4] [Reference Citation Analysis] [Abstract] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/17/2022]
24
Duch A, de Nadal E, Posas F. Dealing with transcriptional outbursts during S phase to protect genomic integrity. J Mol Biol 2013;425:4745-55. [PMID: 24021813 DOI: 10.1016/j.jmb.2013.08.019] [Citation(s) in RCA: 12] [Impact Index Per Article: 1.0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 07/09/2013] [Revised: 08/16/2013] [Accepted: 08/23/2013] [Indexed: 10/26/2022]
25
Xu W, Mao N, Zhang J. Graphene: a platform for surface-enhanced Raman spectroscopy. SMALL (WEINHEIM AN DER BERGSTRASSE, GERMANY) 2013;9:1206-24. [PMID: 23529788 DOI: 10.1002/smll.201203097] [Citation(s) in RCA: 260] [Impact Index Per Article: 21.7] [Reference Citation Analysis] [Abstract] [Track Full Text] [Subscribe] [Scholar Register] [Received: 12/11/2012] [Revised: 01/22/2013] [Indexed: 05/20/2023]
26
Gaillard H, Herrera-Moyano E, Aguilera A. Transcription-associated genome instability. Chem Rev 2013;113:8638-61. [PMID: 23597121 DOI: 10.1021/cr400017y] [Citation(s) in RCA: 45] [Impact Index Per Article: 3.8] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/26/2022]
27
Shao YJ, Hu XQ, Peng GD, Wang RX, Gao RN, Lin C, Shen WD, Li R, Li B. Structure and evolution of the mitochondrial genome of Exorista sorbillans: the Tachinidae (Diptera: Calyptratae) perspective. Mol Biol Rep 2012;39:11023-30. [PMID: 23053992 DOI: 10.1007/s11033-012-2005-1] [Citation(s) in RCA: 10] [Impact Index Per Article: 0.8] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 01/11/2012] [Accepted: 10/01/2012] [Indexed: 11/28/2022]
28
Zhang Y, Shishkin AA, Nishida Y, Marcinkowski-Desmond D, Saini N, Volkov KV, Mirkin SM, Lobachev KS. Genome-wide screen identifies pathways that govern GAA/TTC repeat fragility and expansions in dividing and nondividing yeast cells. Mol Cell 2012;48:254-65. [PMID: 22959270 DOI: 10.1016/j.molcel.2012.08.002] [Citation(s) in RCA: 46] [Impact Index Per Article: 3.5] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 02/29/2012] [Revised: 07/06/2012] [Accepted: 08/02/2012] [Indexed: 12/20/2022]
29
Replication-transcription conflicts in bacteria. Nat Rev Microbiol 2012;10:449-58. [PMID: 22669220 DOI: 10.1038/nrmicro2800] [Citation(s) in RCA: 160] [Impact Index Per Article: 12.3] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/16/2022]
30
McGlynn P, Savery NJ, Dillingham MS. The conflict between DNA replication and transcription. Mol Microbiol 2012;85:12-20. [PMID: 22607628 DOI: 10.1111/j.1365-2958.2012.08102.x] [Citation(s) in RCA: 71] [Impact Index Per Article: 5.5] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 01/13/2023]
31
Castro-Roa D, Zenkin N. In vitro experimental system for analysis of transcription-translation coupling. Nucleic Acids Res 2011;40:e45. [PMID: 22210860 PMCID: PMC3315309 DOI: 10.1093/nar/gkr1262] [Citation(s) in RCA: 28] [Impact Index Per Article: 2.0] [Reference Citation Analysis] [Abstract] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/17/2022]  Open
32
Merrikh H, Machón C, Grainger WH, Grossman AD, Soultanas P. Co-directional replication-transcription conflicts lead to replication restart. Nature 2011;470:554-7. [PMID: 21350489 PMCID: PMC3059490 DOI: 10.1038/nature09758] [Citation(s) in RCA: 145] [Impact Index Per Article: 10.4] [Reference Citation Analysis] [Abstract] [MESH Headings] [Grants] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 02/08/2010] [Accepted: 12/09/2010] [Indexed: 11/23/2022]
33
Lubelsky Y, Sasaki T, Kuipers MA, Lucas I, Le Beau MM, Carignon S, Debatisse M, Prinz JA, Dennis JH, Gilbert DM. Pre-replication complex proteins assemble at regions of low nucleosome occupancy within the Chinese hamster dihydrofolate reductase initiation zone. Nucleic Acids Res 2010;39:3141-55. [PMID: 21148149 PMCID: PMC3082903 DOI: 10.1093/nar/gkq1276] [Citation(s) in RCA: 54] [Impact Index Per Article: 3.6] [Reference Citation Analysis] [Abstract] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/18/2022]  Open
34
Pomerantz RT, O'Donnell M. Polymerase trafficking: A role for transcription factors in preventing replication fork arrest. Transcription 2010;1:136-139. [PMID: 21326887 DOI: 10.4161/trns.1.3.13488] [Citation(s) in RCA: 3] [Impact Index Per Article: 0.2] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 06/23/2010] [Revised: 07/26/2010] [Accepted: 08/30/2010] [Indexed: 11/19/2022]  Open
35
Hoang BT, Pasternak C, Siguier P, Guynet C, Hickman AB, Dyda F, Sommer S, Chandler M. Single-stranded DNA transposition is coupled to host replication. Cell 2010;142:398-408. [PMID: 20691900 PMCID: PMC2919506 DOI: 10.1016/j.cell.2010.06.034] [Citation(s) in RCA: 54] [Impact Index Per Article: 3.6] [Reference Citation Analysis] [Abstract] [MESH Headings] [Grants] [Track Full Text] [Download PDF] [Journal Information] [Subscribe] [Scholar Register] [Received: 12/23/2009] [Revised: 04/03/2010] [Accepted: 05/17/2010] [Indexed: 10/19/2022]
36
Pomerantz RT, O’Donnell M. What happens when replication and transcription complexes collide? Cell Cycle 2010;9:2537-43. [PMID: 20581460 PMCID: PMC3918965 DOI: 10.4161/cc.9.13.12122] [Citation(s) in RCA: 67] [Impact Index Per Article: 4.5] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Grants] [Track Full Text] [Download PDF] [Journal Information] [Subscribe] [Scholar Register] [Received: 04/16/2010] [Accepted: 04/19/2010] [Indexed: 11/19/2022]  Open
37
Stepanova E, Wang M, Severinov K, Borukhov S. Early transcriptional arrest at Escherichia coli rplN and ompX promoters. J Biol Chem 2010;284:35702-13. [PMID: 19854830 DOI: 10.1074/jbc.m109.053983] [Citation(s) in RCA: 18] [Impact Index Per Article: 1.2] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/06/2022]  Open
38
Boubakri H, de Septenville AL, Viguera E, Michel B. The helicases DinG, Rep and UvrD cooperate to promote replication across transcription units in vivo. EMBO J 2009;29:145-57. [PMID: 19851282 PMCID: PMC2770101 DOI: 10.1038/emboj.2009.308] [Citation(s) in RCA: 196] [Impact Index Per Article: 12.3] [Reference Citation Analysis] [Abstract] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 07/03/2009] [Accepted: 09/23/2009] [Indexed: 11/22/2022]  Open
39
Azvolinsky A, Giresi PG, Lieb JD, Zakian VA. Highly transcribed RNA polymerase II genes are impediments to replication fork progression in Saccharomyces cerevisiae. Mol Cell 2009;34:722-34. [PMID: 19560424 PMCID: PMC2728070 DOI: 10.1016/j.molcel.2009.05.022] [Citation(s) in RCA: 235] [Impact Index Per Article: 14.7] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Grants] [Track Full Text] [Download PDF] [Journal Information] [Subscribe] [Scholar Register] [Received: 02/11/2009] [Revised: 04/21/2009] [Accepted: 05/29/2009] [Indexed: 10/20/2022]
40
Balleza E, López-Bojorquez LN, Martínez-Antonio A, Resendis-Antonio O, Lozada-Chávez I, Balderas-Martínez YI, Encarnación S, Collado-Vides J. Regulation by transcription factors in bacteria: beyond description. FEMS Microbiol Rev 2009;33:133-51. [PMID: 19076632 PMCID: PMC2704942 DOI: 10.1111/j.1574-6976.2008.00145.x] [Citation(s) in RCA: 138] [Impact Index Per Article: 8.6] [Reference Citation Analysis] [Abstract] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 01/07/2023]  Open
41
Rocha EPC. The organization of the bacterial genome. Annu Rev Genet 2009;42:211-33. [PMID: 18605898 DOI: 10.1146/annurev.genet.42.110807.091653] [Citation(s) in RCA: 220] [Impact Index Per Article: 13.8] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/09/2022]
42
Tychinsky VP, Kretushev AV, Klemyashov IV, Vyshenskaya TV, Filippova NA, Raikhlin NT, Shtil AA. Quantitative real-time analysis of nucleolar stress by coherent phase microscopy. JOURNAL OF BIOMEDICAL OPTICS 2008;13:064032. [PMID: 19123678 DOI: 10.1117/1.3042241] [Citation(s) in RCA: 7] [Impact Index Per Article: 0.4] [Reference Citation Analysis] [Abstract] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 05/07/2023]
43
Mayán-Santos MD, Martínez-Robles ML, Hernández P, Schvartzman JB, Krimer DB. A redundancy of processes that cause replication fork stalling enhances recombination at two distinct sites in yeast rDNA. Mol Microbiol 2008;69:361-75. [PMID: 18485068 DOI: 10.1111/j.1365-2958.2008.06278.x] [Citation(s) in RCA: 7] [Impact Index Per Article: 0.4] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/26/2022]
44
Esnault E, Valens M, Espéli O, Boccard F. Chromosome structuring limits genome plasticity in Escherichia coli. PLoS Genet 2008;3:e226. [PMID: 18085828 PMCID: PMC2134941 DOI: 10.1371/journal.pgen.0030226] [Citation(s) in RCA: 96] [Impact Index Per Article: 5.6] [Reference Citation Analysis] [Abstract] [MESH Headings] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 05/22/2007] [Accepted: 11/06/2007] [Indexed: 11/22/2022]  Open
45
Mirkin EV, Mirkin SM. Replication fork stalling at natural impediments. Microbiol Mol Biol Rev 2007;71:13-35. [PMID: 17347517 PMCID: PMC1847372 DOI: 10.1128/mmbr.00030-06] [Citation(s) in RCA: 400] [Impact Index Per Article: 22.2] [Reference Citation Analysis] [Abstract] [MESH Headings] [Grants] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/28/2022]  Open
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Fierro-Fernández M, Hernández P, Krimer DB, Schvartzman JB. Replication fork reversal occurs spontaneously after digestion but is constrained in supercoiled domains. J Biol Chem 2007;282:18190-18196. [PMID: 17456472 DOI: 10.1074/jbc.m701559200] [Citation(s) in RCA: 24] [Impact Index Per Article: 1.3] [Reference Citation Analysis] [Abstract] [MESH Headings] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/06/2022]  Open
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Wang JD, Berkmen MB, Grossman AD. Genome-wide coorientation of replication and transcription reduces adverse effects on replication in Bacillus subtilis. Proc Natl Acad Sci U S A 2007;104:5608-13. [PMID: 17372224 PMCID: PMC1838449 DOI: 10.1073/pnas.0608999104] [Citation(s) in RCA: 90] [Impact Index Per Article: 5.0] [Reference Citation Analysis] [Abstract] [MESH Headings] [Grants] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/18/2022]  Open
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Pomerantz RT, Temiakov D, Anikin M, Vassylyev DG, McAllister WT. A mechanism of nucleotide misincorporation during transcription due to template-strand misalignment. Mol Cell 2006;24:245-55. [PMID: 17052458 PMCID: PMC2810628 DOI: 10.1016/j.molcel.2006.08.014] [Citation(s) in RCA: 23] [Impact Index Per Article: 1.2] [Reference Citation Analysis] [Abstract] [MESH Headings] [Grants] [Track Full Text] [Download PDF] [Journal Information] [Subscribe] [Scholar Register] [Received: 06/13/2006] [Revised: 07/15/2006] [Accepted: 08/17/2006] [Indexed: 12/22/2022]
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Katsnelson A. Genome punctuation. J Biophys Biochem Cytol 2006. [PMCID: PMC2063901 DOI: 10.1083/jcb.1735rr3] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/22/2022]  Open
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