Uracil excision repair in Mycobacterium tuberculosis cell-free extracts

Tuberculosis

Volumn 91, Issue 3, 2011, Pages 212-218

  Kumar, Pradeep ^a   Bharti, Sanjay Kumar ^a   Varshney, Umesh ^a,b  

^a INDIAN INSTITUTE OF SCIENCE   (India)

^b JAWAHARLAL NEHRU CENTRE FOR ADVANCED SCIENTIFIC RESEARCH   (India)

Author keywords

Long patch repair; Short patch repair; UdgB; Ung

Indexed keywords

BACTERIAL ENZYME; OLIGOMER; PLASMID DNA; UNCLASSIFIED DRUG; URACIL; URACIL DNA GLYCOSIDASE; URACIL DNA GLYCOSIDASE B;

ARTICLE; BACTERIAL STRAIN; CELL FREE SYSTEM; DNA REPAIR; EXCISION REPAIR; HUMAN; IN VITRO STUDY; MACROPHAGE; MYCOBACTERIUM SMEGMATIS; MYCOBACTERIUM TUBERCULOSIS; NONHUMAN; PRIORITY JOURNAL; PROTEIN FAMILY; URACIL EXCISION REPAIR;

BACTERIAL PROTEINS; DNA DAMAGE; DNA REPAIR; HUMANS; MYCOBACTERIUM SMEGMATIS; MYCOBACTERIUM TUBERCULOSIS; URACIL; URACIL-DNA GLYCOSIDASE;

EID: 79955676357     PISSN: 14729792     EISSN: None     Source Type: Journal    
DOI: 10.1016/j.tube.2011.02.001     Document Type: Article

References (37)

1. T. Lindahl DNA repair enzymes Annu Rev Biochem 51 1982 61 87
2. T. Lindahl Instability and decay of the primary structure of DNA Nature 362 1993 709 715 (Pubitemid 23125973)
3. E. Seeberg, L. Eide, and M. Bjoras The base excision repair pathway Trends Biochem Sci 20 1995 391 397
4. E.C. Friedberg, G.C. Walker, and W. Siege DNA repair and mutagenesis 1995 ASM Press Washington, D.C.
5. T. Lindahl, and B. Nyberg Rate of depurination of native deoxyribonucleic acid Biochemistry 11 1972 3610 3618
6. D.A. Wink, K.S. Kasprzak, C.M. Maragos, R.K. Elespuru, M. Misra, and T.M. Dunams DNA deaminating ability and genotoxicity of nitric oxide and its progenitors Science 254 1991 1001 1003 (Pubitemid 21917428)
7. B. Dunlap, and P. Cerutti Apyrimidinic sites in gamma-irradiated DNA FEBS Lett 51 1975 188 190
8. T. Lindahl Repair of intrinsic DNA lesions Mutat Res 238 1990 305 311
9. P.W. Doetsch, and R.P. Cunningham The enzymology of apurinic/apyrimidinic endonucleases Mutat Res 236 1990 173 201 (Pubitemid 20309359)
10. G. Dianov, A. Price, and T. Lindahl Generation of single-nucleotide repair patches following excision of uracil residues from DNA Mol Cell Biol 12 1992 1605 1612
11. G. Dianov, and T. Lindahl Reconstitution of the DNA base excision-repair pathway Curr Biol 4 1994 1069 1076 (Pubitemid 124001593)
12. Y. Matsumoto, and K. Kim Excision of deoxyribose phosphate residues by DNA polymerase beta during DNA repair Science 269 1995 699 702
13. P. Liu, L. Qian, J.S. Sung, N.C. de Souza-Pinto, L. Zheng, and D.F. Bogenhagen Removal of oxidative DNA damage via FEN1-dependent long-patch base excision repair in human cell mitochondria Mol Cell Biol 28 2008 4975 4987
14. B.M. Haltiwanger, Y. Matsumoto, E. Nicolas, G.L. Dianov, V.A. Bohr, and T.F. Taraschi DNA base excision repair in human malaria parasites is predominantly by a long-patch pathway Biochemistry 39 2000 763 772 (Pubitemid 30065046)
15. Z. Wang, X. Wu, and E.C. Friedberg Molecular mechanism of base excision repair of uracil-containing DNA in yeast cell-free extracts J Biol Chem 272 1997 24064 24071 (Pubitemid 27410992)
16. Y. Matsumoto, and D.F. Bogenhagen Repair of a synthetic abasic site in DNA in a Xenopus laevis oocyte extract Mol Cell Biol 9 1989 3750 3757 (Pubitemid 19216269)
17. Y. Matsumoto, K. Kim, and D.F. Bogenhagen Proliferating cell nuclear antigen-dependent abasic site repair in Xenopus laevis oocytes: an alternative pathway of base excision DNA repair Mol Cell Biol 14 1994 6187 6197 (Pubitemid 24264449)
18. R.H. Stierum, G.L. Dianov, and V.A. Bohr Single-nucleotide patch base excision repair of uracil in DNA by mitochondrial protein extracts Nucleic Acids Res 27 1999 3712 3719 (Pubitemid 29435752)
19. M. Akbari, T. Visnes, H.E. Krokan, and M. Otterlei Mitochondrial base excision repair of uracil and AP sites takes place by single-nucleotide insertion and long-patch DNA synthesis DNA Repair (Amst) 7 2008 605 616
20. A.J. Podlutsky, I.I. Dianova, S.H. Wilson, V.A. Bohr, and G.L. Dianov DNA synthesis and dRPase activities of polymerase beta are both essential for single-nucleotide patch base excision repair in mammalian cell extracts Biochemistry 40 2001 809 813 (Pubitemid 32096866)
21. G. Frosina, P. Fortini, O. Rossi, F. Carrozzino, G. Raspaglio, and L.S. Cox Two pathways for base excision repair in mammalian cells J Biol Chem 271 1996 9573 9578 (Pubitemid 26137362)
22. A.J. Podlutsky, Dianova II, V.N. Podust, V.A. Bohr, and G.L. Dianov Human DNA polymerase beta initiates DNA synthesis during long-patch repair of reduced AP sites in DNA EMBO J 20 2001 1477 1482 (Pubitemid 32233987)
23. L. Zheng, M. Zhou, Z. Guo, H. Lu, L. Qian, and H. Dai Human DNA2 is a mitochondrial nuclease/helicase for efficient processing of DNA replication and repair intermediates Mol Cell 32 2008 325 336
24. J. Venkatesh, P. Kumar, P.S. Krishna, R. Manjunath, and U. Varshney Importance of uracil DNA glycosylase in Pseudomonas aeruginosa and Mycobacterium smegmatis, G + C-rich bacteria, in mutation prevention, tolerance to acidified nitrite, and endurance in mouse macrophages J Biol Chem 278 2003 24350 24358 (Pubitemid 37548586)
25. C.M. Sassetti, and E.J. Rubin Genetic requirements for mycobacterial survival during infection Proc Natl Acad Sci U S A 100 2003 12989 12994 (Pubitemid 37340013)
26. T. Srinath, S.K. Bharti, and U. Varshney Substrate specificities and functional characterization of a thermo-tolerant uracil DNA glycosylase (UdgB) from Mycobacterium tuberculosis DNA Repair (Amst) 6 2007 1517 1528 (Pubitemid 47385403)
27. V. Mizrahi, and S.J. Andersen DNA repair in Mycobacterium tuberculosis. What have we learnt from the genome sequence? Mol Microbiol 29 1998 1331 1339 (Pubitemid 28435287)
28. S.B. Snapper, R.E. Melton, S. Mustafa, T. Kieser, and W.R. Jacobs Jr. Isolation and characterization of efficient plasmid transformation mutants of Mycobacterium smegmatis Mol Microbiol 4 1990 1911 1919
29. J.J. Sedmak, and S.E. Grossberg A rapid, sensitive, and versatile assay for protein using coomassie brilliant blue G250 Anal Biochem 79 1977 544 552 (Pubitemid 8105123)
30. N. Acharya, P. Kumar, and U. Varshney Complexes of the uracil-DNA glycosylase inhibitor protein, Ugi, with Mycobacterium smegmatis and Mycobacterium tuberculosis uracil-DNA glycosylases Microbiology 149 2003 1647 1658 (Pubitemid 36874312)
31. N.V. Kumar, and U. Varshney Inefficient excision of uracil from loop regions of DNA oligomers by E. coli uracil DNA glycosylase Nucleic Acids Res 22 1994 3737 3741 (Pubitemid 24299854)
32. J. Sambrook, E.F. Fritsch, and T. Maniatis Molecular cloning: a laboratory manual 1989 Cold Spring Harbor Laboratory Cold Spring Harbor, NY
33. M. Sandigursky, G.A. Freyer, and W.A. Franklin The post-incision steps of the DNA base excision repair pathway in Escherichia coli: studies with a closed circular DNA substrate containing a single U:G base pair Nucleic Acids Res 26 1998 1282 1287 (Pubitemid 28291702)
34. R.M. Wanner, D. Castor, C. Guthlein, E.C. Bottger, B. Springer, and J. Jiricny The uracil DNA glycosylase UdgB of Mycobacterium smegmatis protects the organism from the mutagenic effects of cytosine and adenine deamination J Bacteriol 191 2009 6312 6319
35. V.S. Malshetty, R. Jain, T. Srinath, K. Kurthkoti, and U. Varshney Synergistic effects of UdgB and Ung in mutation prevention and protection against commonly encountered DNA damaging agents in Mycobacterium smegmatis Microbiology 156 2010 940 949
36. E. Petermann, M. Ziegler, and S.L. Oei ATP-dependent selection between single nucleotide and long patch base excision repair DNA Repair (Amst) 2 2003 1101 1114 (Pubitemid 39662825)
37. B. Szczesny, A.W. Tann, M.J. Longley, W.C. Copeland, and S. Mitra Long patch base excision repair in mammalian mitochondrial genomes J Biol Chem 283 2008 26349 26356