Expansion of a chromosomal repeat in Escherichia coli: Roles of replication, repair, and recombination functions

BMC Molecular Biology

Volumn 10, Issue , 2009, Pages

  Poteete, Anthony R ^a  

^a UNIVERSITY OF MASSACHUSETTS MEDICAL SCHOOL   (United States)

Author keywords

[No Author keywords available]

Indexed keywords

ESCHERICHIA COLI PROTEIN; PROTEIN DAM; PROTEIN POLA; PROTEIN RECBCD; PROTEIN RNHA; PROTEIN RUVC; PROTEIN UVRD; RECA PROTEIN; RECG HELICASE; UNCLASSIFIED DRUG; BACTERIAL DNA; REPETITIVE DNA;

ARTICLE; BACTERIAL MUTATION; BACTERIAL STRAIN; BACTERIUM MUTANT; CHROMOSOME DUPLICATION; CHROMOSOME REPLICATION; DNA REPAIR; ESCHERICHIA COLI; GENE AMPLIFICATION; GENETIC RECOMBINATION; HOMOLOGOUS RECOMBINATION; LACTOSE OPERON; NONHUMAN; PROTEIN FUNCTION; STRESS; BACTERIAL CHROMOSOME; DNA REPLICATION; GENETICS;

ENTEROBACTERIA PHAGE LAMBDA; ESCHERICHIA COLI;

CHROMOSOMES, BACTERIAL; DNA REPAIR; DNA REPEAT EXPANSION; DNA REPLICATION; DNA, BACTERIAL; ESCHERICHIA COLI; LAC OPERON; RECOMBINATION, GENETIC;

EID: 62849117731     PISSN: None     EISSN: 14712199     Source Type: Journal    
DOI: 10.1186/1471-2199-10-14     Document Type: Article

References (46)

1. Edlund T Normark S Recombination between short DNA homologies causes tandem duplication Nature 1981, 292:269-271 10.1038/292269a0 7019717
2. Edlund T Grundstrom T Bjork GR Normark S Tandem duplication induced by an unusual ampA1-, ampC-transducing lambda phage: A probe to initiate gene amplification Mol Gen Genetics 1980, 180:249-257 10.1007/BF00425836
3. Andersson RP Roth JR Tandem genetic duplication in phage and bacteria Annu Rev Microbiol 1977, 31:473-505 10.1146/annurev.mi.31.100177.002353 334045
4. Tlsty TD Albertini AM Miller JH Gene amplification in the lac region of E. coli Cell 1984, 37:217-224 10.1016/0092-8674(84)90317-9 6327052
5. Rosenberg SM Longerich S Gee P Harris RS Adaptive mutation by deletions in small mononucleotide repeats Science 1994, 265:405-407 10.1126/ science.8023163 8023163
6. Foster PL Trimarchi JM Adaptive reversion of a frameshift mutation in Escherichia coli by simple base deletions in homopolymeric runs Science 1994, 265:407-409 10.1126/science.8023164 8023164
7. Foster PL Population dynamics of a Lac- strain of Escherichia coli during selection for lactose utilization Genetics 1994, 138:253-261 1206144 7828809
8. Hastings PJ Bull HJ Klump JR Rosenberg SM Adaptive amplification: An inducible chromosomal instability mechanism Cell 2000, 103:723-731 10.1016/S0092-8674(00)00176-8 11114329
9. Slechta ES Bunny KL Kugelberg E Kofoid E Andersson DI Roth JR Adaptive mutation: General mutagenesis is not a programmed response to stress but results from rare coamplification of dinB with lac Proc Natl Acad Sci USA 2003, 100:12847-12852 240707 14559967 10.1073/pnas.1735464100
10. Slack A Thornton PC Magner DB Rosenberg SM Hastings PJ On the mechanism of gene amplification induced under stress in Escherichia coli PLOS Genetics 2006, 2:e48 1428787 16604155 10.1371/journal.pgen.0020048
11. Morag AS Saveson CJ Lovett ST Expansion of DNA repeats in Escherichia coli: Effects of recombination and replication functions J Mol Biol 1999, 289:21-27 10.1006/jmbi.1999.2763 10339402
12. Foster PL Adaptive mutation in Escherichia coli J Bacteriol 2004, 186:4846-4852 451643 15262917 10.1128/JB.186.15.4846-4852.2004
13. Cairns J Foster PL Adaptive reversion of a frameshift mutation in Escherichia coli Genetics 1991, 128:695-701 1204544 1916241
14. Lloyd RG Low KB Homologous recombination Escherichia coli and Salmonella: Cellular and Molecular Biology ASM Press Neidhardt FC 2 1996:2236-2255
15. Dutra BE Sutera VA Lovett ST RecA-independent recombination is efficient but limited by exonucleases Proc Natl Acad Sci USA 2007, 104:216-221 1765439 17182742 10.1073/pnas.0608293104
16. Lloyd RG Conjugational recombination in resolvase-deficient ruvC mutants of Escherichia coli K-12 depends on recG J Bacteriol 1991, 173:5414-5418 208253 1653210
17. Khairnar NP Kamble VA Mangoli SH Apte SK Misra HS Involvement of a periplasmic protein kinase in DNA strand break repair and homologous recombination in Escherichia coli Mol Microbiol 2007, 65:294-304 10.1111/ j.1365-2958.2007.05779.x 17630970
18. Vuong P Bennion D Mantei J Frost D Misra R Analysis of YfgL and YaeT interactions through bioinformatics, mutagenesis, and biochemistry J Bacteriol 2008, 190:1507-1517 2258660 18165306 10.1128/JB.01477-07
19. Steiner P Sauer U Overexpression of the ATP-dependent helicase RecG improves resistance to weak organic acids in Escherichia coli Appl Microbiol Biotechnol 2003, 63:293-299 10.1007/s00253-003-1405-5 12898065
20. Zieg J Maples VR Kushner SR Recombination levels of Escherichia coli K-12 mutants deficient in various replication, recombination, or repair genes J Bacteriol 1978, 134:958-966 222344 350859
21. Wang TV Smith KC Inviability of dam recB cells of Escherichia coli is correlated with their inability to repair DNA double-strand breaks produced by mismatch repair J Bacteriol 1986, 165:1023-1025 214532 3512517
22. Nowosielska A Marinus MG Cisplatin induces DNA double-strand break formation in Escherichia coli dam mutants DNA Repair 2005, 7:773-781 10.1016/j.dnarep.2005.03.006
23. Lombardo M Aponyi I Rosenberg SM General stress response regulator RpoS in adaptive mutation and amplification in Escherichia coli Genetics 2004, 166:669-680 1470735 15020458 10.1534/genetics.166.2.669
24. Poteete AR Fenton AC Genetic requirements of phage λ Red-mediated gene replacement in Escherichia coli K-12 J Bacteriol 2000, 182:2336-2340 111289 10735883 10.1128/JB.182.8.2336-2340.2000
25. Konrad EB Method for the isolation of Escherichia coli mutants with enhanced recombination between chromosomal duplications J Bacteriol 1977, 130:167-172 235189 323226
26. Blakely GW Murray NE Control of the endonuclease activity of type I restriction-modification systems is required to maintain chromosome integrity following homologous recombination Mol Microbiol 2006, 60:883-893 10.1111/j.1365-2958.2006.05144.x 16677300
27. Stahl FW McMilin KD Stahl MM Craseman JM Lam S The distribution of crossovers along unreplicated lambda bacteriophage chromosomes Genetics 1974, 77:395-408 1213136 4416166
28. Stahl FW McMilin KD Stahl MM Nozu Y An enhancing role for DNA synthesis in formation of bacteriophage λ recombinants Proc Natl Acad Sci USA 1972, 69:3598-3601 389829 4509320 10.1073/pnas.69.12.3598
29. Stahl MM Thomason L Poteete AR Tarkowski T Kuzminov A Stahl FW Annealing vs. invasion in phage λ recombination Genetics 1997, 147:961-977 1208271 9383045
30. Poteete AR Involvement of DNA replication in phage lambda Red-mediated homologous recombination Mol Microbiol 2008, 68:66-74 10.1111/ j.1365-2958.2008.06133.x 18333884
31. Court DL Sawitzke JA Thomason LC Genetic engineering using homologous recombination Annu Rev Genet 2002, 36:361-388 10.1146/ annurev.genet.36.061102.093104 12429697
32. deMassy B Fayet O Kogoma T Multiple origin usage for DNA replication in sdrA (rnhA) mutants of Escherichia coli K-12: Initiation in the absence of oriC J Mol Biol 1984, 178:227-236 10.1016/0022-2836(84)90141-4 6387151
33. Boye E Løbner-Olesen A The role of dam methyltransferase in the control of DNA replication in E. coli Cell 1990, 62:981-989 10.1016/ 0092-8674(90)90272-G 2203541
34. Kogoma T Hong X Caldwell GW Barnard KG Asai T Requirement of homologous recombination functions for viability of the Escherichis coli cell that lacks RNase HI and exonuclease V activities Biochimie 1993, 75:89-99 10.1016/0300-9084(93)90029-R 8389213
35. Marinus MG Morris NR Biological function for 6-methyladenine residues in the DNA of Escherichia coli K12 J Mol Biol 1974, 85:309-322 10.1016/ 0022-2836(74)90366-0 4600143
36. Poteete AR Fenton AC Nadkarni A Chromosomal duplications and cointegrates generated by the bacteriophage lambda Red system in Escherichia coli K-12 BMC Molecular Biology 2004, 5:22 545071 15596011 10.1186/1471-2199-5-22
37. Stumpf JD Poteete AR Foster PL Amplification of lac cannot account for adaptive mutation to Lac+ in Escherichia coli J Bacteriol 2007, 189(6):2291-2299 1899370 17209030 10.1128/JB.01706-06
38. Rosche WA Foster PL The role of transient hypermutators in adaptive mutation in Escherichia coli Proc Natl Acad Sci USA 1999, 96:6862-6867 22007 10359804 10.1073/pnas.96.12.6862
39. Baba T Ara T Hasegawa M Takai Y Okumura Y Baba M Datsenko KA Tomita M Wanner BL Mori H Construction of Escherichia coli K-12 in-frame, single-gene knockout mutants: The Keio collection Mol Syst Biol 2006, 2:2006.0008 16738554 1681482 10.1038/msb4100050
40. Murphy KC Campellone KG Poteete AR PCR-mediated gene replacement in Escherichia coli Gene 2000, 246:321-330 10.1016/S0378-1119(00)00071-8 10767554
41. Poteete AR Fenton AC Murphy KC Roles of RuvC and RecG in phage λ Red-mediated recombination J Bacteriol 1999, 181:5402-5408 94048 10464213
42. Poteete AR Fenton AC Wang HR Recombination-promoting activity of the bacteriophage λ Rap Protein in Escherichia coli K-12 J Bacteriol 2002, 184:4626-4629 135263 12142434 10.1128/JB.184.16.4626-4629.2002
43. Poteete AR Modulation of DNA repair and recombination by the bacteriophage λ Orf function in Escherichia coli K-12 J Bacteriol 2004, 186:2699-2707 387792 15090511 10.1128/JB.186.9.2699-2707.2004
44. Poteete AR Rosadini C Pierre CS Gentamicin and other cassettes for chromosomal gene replacement in Escherichia coli Biotechniques 2006, 41(3):261-263 10.2144/000112242 16989085
45. Murphy KC Campellone KG Lambda Red-mediated recombinogenic engineering of enterohemorrhagic and enteropathogenic E. coli BMC Molecular Biology 2003, 4:11 317293 14672541 10.1186/1471-2199-4-11
46. Uhlin BE Volkert MR Clark AJ Sancar A Rupp WD Nucleotide sequence of a recA operator mutation Mol Gen Genet 1982, 185:251-254 10.1007/ BF00330794 6953307