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Chapter 30 : Nucleotide Metabolism and DNA Replication

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Abstract:

The first edition of ( ) was published very shortly after the release of the complete genome sequence of H37Rv ( ). Armed with that resource, we searched for genes that might be involved in mycobacterial nucleotide metabolism and DNA replication ( ). Our analysis at the time relied entirely on the homology-based identification of genes that had been discovered and characterized in other organisms; however, by confirming the presence, or suggesting the absence, in of homologs of genes of known function, it provided a useful framework for subsequent studies of the reactions and pathways underlying nucleotide metabolism and DNA replication in this major human pathogen. At that stage, the field of mycobacterial genetics was in its infancy, and little was known about the function of individual mycobacterial genes and their encoded proteins in these or other metabolic pathways. However, over the past 13 years, spectacular technical advances have been made that have had a massive impact on the broader field of general bacteriology and, more importantly in the context of this book, have driven the postgenomic revolution in our understanding of fundamental mycobacterial physiology and metabolism. The development, in particular, of a powerful toolkit for random, targeted, and conditional mutagenesis of mycobacterial genomes has allowed gene function to be probed under a variety of conditions. In turn, this has enabled the compilation of catalogs of genes (conditionally) essential for mycobacterial growth and/or survival, while providing new insights into the biology of mycobacteria.

Citation: Warner D, Evans J, Mizrahi V. 2014. Nucleotide Metabolism and DNA Replication, p 635-656. In Hatfull G, Jacobs W (ed), Molecular Genetics of Mycobacteria, Second Edition. ASM Press, Washington, DC. doi: 10.1128/microbiolspec.MGM2-0001-2013
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Figure 1

Pathways for the formation of dTTP in . The steps for which homologs are absent are shown in gray, and enzymes that are essential for growth are shown in shaded boxes. Adapted from references and .

Citation: Warner D, Evans J, Mizrahi V. 2014. Nucleotide Metabolism and DNA Replication, p 635-656. In Hatfull G, Jacobs W (ed), Molecular Genetics of Mycobacteria, Second Edition. ASM Press, Washington, DC. doi: 10.1128/microbiolspec.MGM2-0001-2013
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References

/content/book/10.1128/9781555818845.chap30
1. Hatfull GF,, Jacobs WR Jr (ed) . 2000. Molecular Genetics of Mycobacteria. ASM Press, Washington, DC.
2. Cole ST,, Brosch R,, Parkhill J,, Garnier T,, Churcher C,, Harris D,, Gordon SV,, Eiglmeier K,, Gas S,, Barry CE 3rd,, Tekaia F,, Badcock K,, Basham D,, Brown D,, Chillingworth T,, Connor R,, Davies R,, Devlin K,, Feltwell T,, Gentles S,, Hamlin N,, Holroyd S,, Hornsby T,, Jagels K,, Krogh A,, McLean J,, Moule S,, Murphy L,, Oliver K,, Osborne J,, Quail MA,, Rajandream MA,, Rogers J,, Rutter S,, Seeger K,, Skelton J,, Squares R,, Squares S,, Sulston JE,, Taylor K,, Whitehead S,, Barrell BG . 1998. Deciphering the biology of Mycobacterium tuberculosis from the complete genome sequence. Nature 393 : 537 544.[PubMed][CrossRef]
3. Mizrahi V,, Dawes SS,, Rubin H, . 2000. DNA replication, p 159 172. In Hatfull G,, Jacobs WR Jr (ed), Molecular Genetics of Mycobacteria. ASM Press, Washington, DC.
4. Le Nours J,, Bulloch EM,, Zhang Z,, Greenwood DR,, Middleditch MJ,, Dickson JM,, Baker EN . 2011. Structural analyses of a purine biosynthetic enzyme from Mycobacterium tuberculosis reveal a novel bound nucleotide. J Biol Chem 286 : 40706 40716.[PubMed][CrossRef]
5. Breda A,, Martinelli LK,, Bizarro CV,, Rosado LA,, Borges CB,, Santos DS,, Basso LA . 2012. Wild-type phosphoribosylpyrophosphate synthase (PRS) from Mycobacterium tuberculosis: a bacterial class II PRS? PLoS One 7 : e39245. [PubMed][CrossRef]
6. Alderwick LJ,, Lloyd GS,, Lloyd AJ,, Lovering AL,, Eggeling L,, Besra GS . 2011. Biochemical characterization of the Mycobacterium tuberculosis phosphoribosyl-1-pyrophosphate synthetase. Glycobiology 21 : 410 425.[PubMed][CrossRef]
7. Hove-Jensen B . 1988. Mutation in the phosphoribosylpyrophosphate synthetase gene (prs) that results in simultaneous requirements for purine and pyrimidine nucleosides, nicotinamide nucleotide, histidine, and tryptophan in Escherichia coli. J Bacteriol 170 : 1148 1152.[PubMed]
8. Hove-Jensen B,, Rosenkrantz TJ,, Haldimann A,, Wanner BL . 2003. Escherichia coli phnN, encoding ribose 1,5-bisphosphokinase activity (phosphoribosyl diphosphate forming): dual role in phosphonate degradation and NAD biosynthesis pathways. J Bacteriol 185 : 2793 2801.[PubMed][CrossRef]
9. Wolucka BA . 2008. Biosynthesis of D-arabinose in mycobacteria: a novel bacterial pathway with implications for antimycobacterial therapy. FEBS J 275 : 2691 2711.[PubMed][CrossRef]
10. Lucarelli AP,, Buroni S,, Pasca MR,, Rizzi M,, Cavagnino A,, Valentini G,, Riccardi G,, Chiarelli LR . 2010. Mycobacterium tuberculosis phosphoribosylpyrophosphate synthetase: biochemical features of a crucial enzyme for mycobacterial cell wall biosynthesis. PLoS One 5 : e15494. [PubMed][CrossRef]
11. Keer J,, Smeulders MJ,, Williams HD . 2001. A purF mutant of Mycobacterium smegmatis has impaired survival during oxygen-starved stationary phase. Microbiology 147 : 473 481.[PubMed]
12. Zhang Z,, Caradoc-Davies TT,, Dickson JM,, Baker EN, Squire CJ . 2009. Structures of glycinamide ribonucleotide transformylase (PurN) from Mycobacterium tuberculosis reveal a novel dimer with relevance to drug discovery. J Mol Biol 389 : 722 733.[PubMed][CrossRef]
13. Dawes SS,, Mizrahi V . 2001. DNA replication in Mycobacterium leprae. Lepr Rev 72 : 408. [PubMed]
14. Hoskins AA,, Anand R,, Ealick SE,, Stubbe J . 2004. The formylglycinamide ribonucleotide amidotransferase complex from Bacillus subtilis: metabolite-mediated complex formation. Biochemistry 43 : 10314 10327.[PubMed][CrossRef]
15. Anand R,, Hoskins AA,, Bennett EM,, Sintchak MD,, Stubbe J,, Ealick SE . 2004. A model for the Bacillus subtilis formylglycinamide ribonucleotide amidotransferase multiprotein complex. Biochemistry 43 : 10343 10352.[PubMed][CrossRef]
16. Anand R,, Hoskins AA,, Stubbe J,, Ealick SE . 2004. Domain organization of Salmonella typhimurium formylglycinamide ribonucleotide amidotransferase revealed by X-ray crystallography. Biochemistry 43 : 10328 10342.[PubMed][CrossRef]
17. Toth EA,, Yeates TO . 2000. The structure of adenylosuccinate lyase, an enzyme with dual activity in the de novo purine biosynthetic pathway. Structure 8 : 163 174.[PubMed][CrossRef]
18. Meena LS,, Chopra P,, Bedwal RS,, Singh Y . 2003. Nucleoside diphosphate kinase-like activity in adenylate kinase of Mycobacterium tuberculosis. Biotechnol Appl Biochem 38 : 169 174.[PubMed][CrossRef]
19. Chopra P,, Singh A,, Koul A,, Ramachandran S,, Drlica K,, Tyagi AK,, Singh Y . 2003. Cytotoxic activity of nucleoside diphosphate kinase secreted from Mycobacterium tuberculosis. Eur J Biochem 270 : 625 634.[PubMed][CrossRef]
20. Usha V,, Gurcha S,, Lovering AL,, Lloyd AJ,, Papaemmanouil A,, Reynolds RC,, Besra GS . 2011. Identification of novel diphenyl urea inhibitors of Mt-GuaB2 active against Mycobacterium tuberculosis. Microbiology 157 : 290 299.[PubMed][CrossRef]
21. Hible G,, Christova P,, Renault L,, Seclaman E,, Thompson A,, Girard E,, Munier-Lehmann H,, Cherfils J . 2006. Unique GMP-binding site in Mycobacterium tuberculosis guanosine monophosphate kinase. Proteins 62 : 489 500.[PubMed][CrossRef]
22. Kumar P,, Verma A,, Saini AK,, Chopra P,, Chakraborti PK,, Singh Y,, Chowdhury S . 2005. Nucleoside diphosphate kinase from Mycobacterium tuberculosis cleaves single strand DNA within the human c-myc promoter in an enzyme-catalyzed reaction. Nucleic Acids Res 33 : 2707 2714.[PubMed][CrossRef]
23. Saini AK,, Maithal K,, Chand P,, Chowdhury S,, Vohra R,, Goyal A,, Dubey GP,, Chopra P,, Chandra R,, Tyagi AK,, Singh Y,, Tandon V . 2004. Nuclear localization and in situ DNA damage by Mycobacterium tuberculosis nucleoside-diphosphate kinase. J Biol Chem 279 : 50142 50149.[PubMed][CrossRef]
24. Sun J,, Wang X,, Lau A,, Liao TY,, Bucci C,, Hmama Z . 2010. Mycobacterial nucleoside diphosphate kinase blocks phagosome maturation in murine RAW 264.7 macrophages. PLoS One 5 : e8769. [PubMed][CrossRef]
25. Dar HH,, Prasad D,, Varshney GC,, Chakraborti PK . 2011. Secretory nucleoside diphosphate kinases from both intra- and extracellular pathogenic bacteria are functionally indistinguishable. Microbiology 157 : 3024 3035.[PubMed][CrossRef]
26. Potrykus K,, Cashel M . 2008. (p)ppGpp: still magical? Annu Rev Microbiol 62 : 35 51.[PubMed][CrossRef]
27. Rifat D,, Bishai WR,, Karakousis PC . 2009. Phosphate depletion: a novel trigger for Mycobacterium tuberculosis persistence. J Infect Dis 200 : 1126 1135.[PubMed][CrossRef]
28. Dahl JL,, Kraus CN,, Boshoff HI,, Doan B,, Foley K,, Avarbock D,, Kaplan G,, Mizrahi V,, Rubin H,, Barry CE 3rd . 2003. The role of RelMtb-mediated adaptation to stationary phase in long-term persistence of Mycobacterium tuberculosis in mice. Proc Natl Acad Sci USA 100 : 10026 10031.[PubMed][CrossRef]
29. Dahl JL,, Arora K,, Boshoff HI,, Whiteford DC,, Pacheco SA,, Walsh OJ,, Lau-Bonilla D,, Davis WB,, Garza AG . 2005. The relA homolog of Mycobacterium smegmatis affects cell appearance, viability, and gene expression. J Bacteriol 187 : 2439 2447.[PubMed][CrossRef]
30. Primm TP,, Andersen SJ,, Mizrahi V,, Avarbock D,, Rubin H,, Barry CE 3rd . 2000. The stringent response of Mycobacterium tuberculosis is required for long-term survival. J Bacteriol 182 : 4889 4898.[PubMed][CrossRef]
31. Avarbock D,, Avarbock A,, Rubin H . 2000. Differential regulation of opposing RelMtb activities by the aminoacylation state of a tRNA.ribosome.mRNA.RelMtb complex. Biochemistry 39 : 11640 11648.[PubMed][CrossRef]
32. Avarbock A,, Avarbock D,, Teh JS,, Buckstein M,, Wang ZM,, Rubin H . 2005. Functional regulation of the opposing (p)ppGpp synthetase/hydrolase activities of RelMtb from Mycobacterium tuberculosis. Biochemistry 44 : 9913 9923.[PubMed][CrossRef]
33. Klinkenberg LG,, Lee JH,, Bishai WR,, Karakousis PC . 2010. The stringent response is required for full virulence of Mycobacterium tuberculosis in guinea pigs. J Infect Dis 202 : 1397 1404.[PubMed][CrossRef]
34. Sureka K,, Dey S,, Datta P,, Singh AK,, Dasgupta A,, Rodrigue S,, Basu J,, Kundu M . 2007. Polyphosphate kinase is involved in stress-induced mprAB-sigE-rel signalling in mycobacteria. Mol Microbiol 65 : 261 276.[PubMed][CrossRef]
35. Sureka K,, Ghosh B,, Dasgupta A,, Basu J,, Kundu M,, Bose I . 2008. Positive feedback and noise activate the stringent response regulator rel in mycobacteria. PLoS One 3 : e1771. [PubMed][CrossRef]
36. Perederina A,, Svetlov V,, Vassylyeva MN,, Tahirov TH,, Yokoyama S,, Artsimovitch I,, Vassylyev DG . 2004. Regulation through the secondary channel—structural framework for ppGpp-DksA synergism during transcription. Cell 118 : 297 309.[PubMed][CrossRef]
37. Stallings CL,, Stephanou NC,, Chu L,, Hochschild A,, Nickels BE,, Glickman MS . 2009. CarD is an essential regulator of rRNA transcription required for Mycobacterium tuberculosis persistence. Cell 138 : 146 159.[PubMed][CrossRef]
38. Murdeshwar MS,, Chatterji D . 2012. MS_RHII-RSD, a dual-function RNase HII-(p)ppGpp synthetase from Mycobacterium smegmatis. J Bacteriol 194 : 4003 4014.[PubMed][CrossRef]
39. Sassetti CM,, Boyd DH,, Rubin EJ . 2003. Genes required for mycobacterial growth defined by high density mutagenesis. Mol Microbiol 48 : 77 84.[PubMed][CrossRef]
40. Breda A,, Machado P,, Rosado LA,, Souto AA,, Santos DS,, Basso LA . 2012. Pyrimidin-2(1H)-ones based inhibitors of Mycobacterium tuberculosis orotate phosphoribosyltransferase. Eur J Med Chem 54 : 113 122.[PubMed][CrossRef]
41. Labesse G,, Benkali K,, Salard-Arnaud I,, Gilles AM,, Munier-Lehmann H . 2011. Structural and functional characterization of the Mycobacterium tuberculosis uridine monophosphate kinase: insights into the allosteric regulation. Nucleic Acids Res 39 : 3458 3472.[PubMed][CrossRef]
42. Rostirolla DC,, Breda A,, Rosado LA,, Palma MS,, Basso LA,, Santos DS . 2011. UMP kinase from Mycobacterium tuberculosis: mode of action and allosteric interactions, and their likely role in pyrimidine metabolism regulation. Arch Biochem Biophys 505 : 202 212.[PubMed][CrossRef]
43. Fields CJ,, Switzer RL . 2007. Regulation of pyr gene expression in Mycobacterium smegmatis by PyrR-dependent translational repression. J Bacteriol 189 : 6236 6245.[PubMed][CrossRef]
44. Kantardjieff KA,, Vasquez C,, Castro P,, Warfel NM,, Rho BS,, Lekin T,, Kim CY,, Segelke BW,, Terwilliger TC,, Rupp B . 2005. Structure of pyrR (Rv1379) from Mycobacterium tuberculosis: a persistence gene and protein drug target. Acta Crystallogr D Biol Crystallogr 61 : 355 364.[PubMed][CrossRef]
45. Turnbough CL Jr,, Switzer RL . 2008. Regulation of pyrimidine biosynthetic gene expression in bacteria: repression without repressors. Microbiol Mol Biol Rev 72 : 266 300.[PubMed][CrossRef]
46. Via LE,, Lin PL,, Ray SM,, Carrillo J,, Allen SS,, Eum SY,, Taylor K,, Klein E,, Manjunatha U,, Gonzales J,, Lee EG,, Park SK,, Raleigh JA,, Cho SN,, McMurray DN,, Flynn JL,, Barry CE 3rd . 2008. Tuberculous granulomas are hypoxic in guinea pigs, rabbits, and nonhuman primates. Infect Immun 76 : 2333 2340.[PubMed][CrossRef]
47. Long MC,, Escuyer V,, Parker WB . 2003. Identification and characterization of a unique adenosine kinase from Mycobacterium tuberculosis. J Bacteriol 185 : 6548 6555.[PubMed][CrossRef]
48. Wheeler PR . 1987. Enzymes for purine synthesis and scavenging in pathogenic mycobacteria and their distribution in Mycobacterium leprae. J Gen Microbiol 133 : 3013 3018.[PubMed]
49. Griffin JE,, Gawronski JD,, Dejesus MA,, Ioerger TR,, Akerley BJ,, Sassetti CM . 2011. High-resolution phenotypic profiling defines genes essential for mycobacterial growth and cholesterol catabolism. PLoS Pathog 7 : e1002251. [PubMed][CrossRef]
50. Rengarajan J,, Bloom BR,, Rubin EJ . 2005. Genome-wide requirements for Mycobacterium tuberculosis adaptation and survival in macrophages. Proc Natl Acad Sci USA 102 : 8327 8332.[PubMed][CrossRef]
51. Sassetti CM,, Rubin EJ . 2003. Genetic requirements for mycobacterial survival during infection. Proc Natl Acad Sci USA 100 : 12989 12994.[PubMed][CrossRef]
52. Biazus G,, Schneider CZ,, Palma MS,, Basso LA,, Santos DS . 2009. Hypoxanthine-guanine phosphoribosyltransferase from Mycobacterium tuberculosis H37Rv: cloning, expression, and biochemical characterization. Protein Expr Purif 66 : 185 190.[PubMed][CrossRef]
53. Ducati RG,, Santos DS,, Basso LA . 2009. Substrate specificity and kinetic mechanism of purine nucleoside phosphorylase from Mycobacterium tuberculosis. Arch Biochem Biophys 486 : 155 164.[PubMed][CrossRef]
54. Shi W,, Basso LA,, Santos DS,, Tyler PC,, Furneaux RH,, Blanchard JS,, Almo SC,, Schramm VL . 2001. Structures of purine nucleoside phosphorylase from Mycobacterium tuberculosis in complexes with immucillin-H and its pieces. Biochemistry 40 : 8204 8215.[PubMed][CrossRef]
55. Reddy MC,, Palaninathan SK,, Shetty ND,, Owen JL,, Watson MD,, Sacchettini JC . 2007. High resolution crystal structures of Mycobacterium tuberculosis adenosine kinase: insights into the mechanism and specificity of this novel prokaryotic enzyme. J Biol Chem 282 : 27334 27342.[PubMed][CrossRef]
56. Wang Y,, Long MC,, Ranganathan S,, Escuyer V,, Parker WB,, Li R . 2005. Overexpression, purification and crystallographic analysis of a unique adenosine kinase from Mycobacterium tuberculosis. Acta Crystallogr Sect F Struct Biol Cryst Commun 61 : 553 557.[PubMed][CrossRef]
57. Krenke R,, Korczynski P . 2010. Use of pleural fluid levels of adenosine deaminase and interferon gamma in the diagnosis of tuberculous pleuritis. Curr Opin Pulm Med 16 : 367 375.[PubMed][CrossRef]
58. Long MC,, Shaddix SC,, Moukha-Chafiq O,, Maddry JA,, Nagy L,, Parker WB . 2008. Structure-activity relationship for adenosine kinase from Mycobacterium tuberculosis II. Modifications to the ribofuranosyl moiety. Biochem Pharmacol 75 : 1588 1600.[PubMed][CrossRef]
59. Bashor C,, Denu JM,, Brennan RG,, Ullman B . 2002. Kinetic mechanism of adenine phosphoribosyltransferase from Leishmania donovani. Biochemistry 41 : 4020 4031.[PubMed][CrossRef]
60. Degano M,, Gopaul DN,, Scapin G,, Schramm VL,, Sacchettini JC . 1996. Three-dimensional structure of the inosine-uridine nucleoside N-ribohydrolase from Crithidia fasciculata. Biochemistry 35 : 5971 5981.[PubMed][CrossRef]
61. Villela AD,, Sanchez-Quitian ZA,, Ducati RG,, Santos DS,, Basso LA . 2011. Pyrimidine salvage pathway in Mycobacterium tuberculosis. Curr Med Chem 18 : 1286 1298.[PubMed][CrossRef]
62. Pecsi I,, Hirmondo R,, Brown AC,, Lopata A,, Parish T,, Vertessy BG,, Toth J . 2012. The dUTPase enzyme is essential in Mycobacterium smegmatis. PLoS One 7 : e37461. [PubMed][CrossRef]
63. Chan S,, Segelke B,, Lekin T,, Krupka H,, Cho US,, Kim MY,, So M,, Kim CY,, Naranjo CN,, Rogers YC,, Park MS,, Waldo GS,, Pashkov I,, Cascio D,, Perry JL,, Sawaya MR . 2004. Crystal structure of the Mycobacterium tuberculosis dUTPase: insights into the catalytic mechanism. J Mol Biol 341 : 503 517.[PubMed][CrossRef]
64. Vertessy BG,, Toth J . 2009. Keeping uracil out of DNA: physiological role, structure and catalytic mechanism of dUTPases. Acc Chem Res 42 : 97 106.[PubMed][CrossRef]
65. Helt SS,, Thymark M,, Harris P,, Aagaard C,, Dietrich J,, Larsen S,, Willemoes M . 2008. Mechanism of dTTP inhibition of the bifunctional dCTP deaminase:dUTPase encoded by Mycobacterium tuberculosis. J Mol Biol 376 : 554 569.[PubMed][CrossRef]
66. Myllykallio H,, Lipowski G,, Leduc D,, Filee J,, Forterre P,, Liebl U . 2002. An alternative flavin-dependent mechanism for thymidylate synthesis. Science 297 : 105 107.[PubMed][CrossRef]
67. Sampathkumar P,, Turley S,, Ulmer JE,, Rhie HG,, Sibley CH,, Hol WG . 2005. Structure of the Mycobacterium tuberculosis flavin dependent thymidylate synthase (MtbThyX) at 2.0A resolution. J Mol Biol 352 : 1091 1104.[PubMed][CrossRef]
68. Fivian-Hughes AS,, Houghton J,, Davis EO . 2012. Mycobacterium tuberculosis thymidylate synthase gene thyX is essential and potentially bifunctional, while thyA deletion confers resistance to p-aminosalicylic acid. Microbiology 158 : 308 318.[PubMed][CrossRef]
69. Escartin F,, Skouloubris S,, Liebl U,, Myllykallio H . 2008. Flavin-dependent thymidylate synthase X limits chromosomal DNA replication. Proc Natl Acad Sci USA 105 : 9948 9952.[PubMed][CrossRef]
70. Hunter JH,, Gujjar R,, Pang CK,, Rathod PK . 2008. Kinetics and ligand-binding preferences of Mycobacterium tuberculosis thymidylate synthases, ThyA and ThyX. PLoS One 3 : e2237. [PubMed][CrossRef]
71. Basta T,, Boum Y,, Briffotaux J,, Becker HF,, Lamarre-Jouenne I,, Lambry JC,, Skouloubris S,, Liebl U,, Graille M,, van Tilbeurgh H,, Myllykallio H . 2012. Mechanistic and structural basis for inhibition of thymidylate synthase ThyX. Open Biol 2 : 120120. [PubMed][CrossRef]
72. Kogler M,, Vanderhoydonck B,, De Jonghe S,, Rozenski J,, Van Belle K,, Herman J,, Louat T,, Parchina A,, Sibley C,, Lescrinier E,, Herdewijn P . 2011. Synthesis and evaluation of 5-substituted 2′-deoxyuridine monophosphate analogues as inhibitors of flavin-dependent thymidylate synthase in Mycobacterium tuberculosis. J Med Chem 54 : 4847 4862.[PubMed][CrossRef]
73. Sanchez-Quitian ZA,, Schneider CZ,, Ducati RG,, de Azevedo WF Jr,, Bloch C Jr,, Basso LA,, Santos DS . 2010. Structural and functional analyses of Mycobacterium tuberculosis Rv3315c-encoded metal-dependent homotetrameric cytidine deaminase. J Struct Biol 169 : 413 423.[PubMed][CrossRef]
74. Sanchez-Quitian ZA,, Timmers LF,, Caceres RA,, Rehm JG,, Thompson CE,, Basso LA,, de Azevedo WF Jr,, Santos DS . 2011. Crystal structure determination and dynamic studies of Mycobacterium tuberculosis cytidine deaminase in complex with products. Arch Biochem Biophys 509 : 108 115.[PubMed][CrossRef]
75. Thum C,, Schneider CZ,, Palma MS,, Santos DS,, Basso LA . 2009. The Rv1712 locus from Mycobacterium tuberculosis H37Rv codes for a functional CMP kinase that preferentially phosphorylates dCMP. J Bacteriol 191 : 2884 2887.[PubMed][CrossRef]
76. Caceres RA,, Macedo Timmers LF,, Vivan AL,, Schneider CZ,, Basso LA,, De Azevedo WF Jr,, Santos DS . 2008. Molecular modeling and dynamics studies of cytidylate kinase from Mycobacterium tuberculosis H37Rv. J Mol Model 14 : 427 434.[PubMed][CrossRef]
77. Dawes SS,, Warner DF,, Tsenova L,, Timm J,, McKinney JD,, Kaplan G,, Rubin H,, Mizrahi V . 2003. Ribonucleotide reduction in Mycobacterium tuberculosis: function and expression of genes encoding class Ib and class II ribonucleotide reductases. Infect Immun 71 : 6124 6131.[PubMed][CrossRef]
78. Mowa MB,, Warner DF,, Kaplan G,, Kana BD,, Mizrahi V . 2009. Function and regulation of class I ribonucleotide reductase-encoding genes in mycobacteria. J Bacteriol 191 : 985 995.[PubMed][CrossRef]
79. Georgieva ER,, Narvaez AJ,, Hedin N,, Graslund A . 2008. Secondary structure conversions of Mycobacterium tuberculosis ribonucleotide reductase protein R2 under varying pH and temperature conditions. Biophys Chem 137 : 43 48.[PubMed][CrossRef]
80. Ericsson DJ,, Nurbo J,, Muthas D,, Hertzberg K,, Lindeberg G,, Karlen A,, Unge T . 2010. Identification of small peptides mimicking the R2 C-terminus of Mycobacterium tuberculosis ribonucleotide reductase. J Pept Sci 16 : 159 164.[PubMed]
81. Nurbo J,, Ericsson DJ,, Rosenstrom U,, Muthas D,, Jansson AM,, Lindeberg G,, Unge T,, Karlen A . 2013. Novel pseudopeptides incorporating a benzodiazepine-based turn mimetic-targeting Mycobacterium tuberculosis ribonucleotide reductase. Bioorg Med Chem 21 : 1992 2000.[PubMed][CrossRef]
82. Nurbo J,, Roos AK,, Muthas D,, Wahlstrom E,, Ericsson DJ,, Lundstedt T,, Unge T,, Karlen A . 2007. Design, synthesis and evaluation of peptide inhibitors of Mycobacterium tuberculosis ribonucleotide reductase. J Pept Sci 13 : 822 832.[PubMed][CrossRef]
83. Schnappinger D,, Ehrt S,, Voskuil MI,, Liu Y,, Mangan JA,, Monahan IM,, Dolganov G,, Efron B,, Butcher PD,, Nathan C,, Schoolnik GK . 2003. Transcriptional adaptation of Mycobacterium tuberculosis within macrophages: insights into the phagosomal environment. J Exp Med 198 : 693 704.[PubMed][CrossRef]
84. Voskuil MI,, Schnappinger D,, Visconti KC,, Harrell MI,, Dolganov GM,, Sherman DR,, Schoolnik GK . 2003. Inhibition of respiration by nitric oxide induces a Mycobacterium tuberculosis dormancy program. J Exp Med 198 : 705 713.[PubMed][CrossRef]
85. Leiting WU,, Jianping XI . 2010. Comparative genomics analysis of mycobacterium NrdH-redoxins. Microb Pathog 48 : 97 102.[PubMed][CrossRef]
86. Jordan A,, Aslund F,, Pontis E,, Reichard P,, Holmgren A . 1997. Characterization of Escherichia coli NrdH. A glutaredoxin-like protein with a thioredoxin-like activity profile. J Biol Chem 272 : 18044 18050.[PubMed][CrossRef]
87. Johansson R,, Torrents E,, Lundin D,, Sprenger J,, Sahlin M,, Sjoberg BM,, Logan DT . 2010. High-resolution crystal structures of the flavoprotein NrdI in oxidized and reduced states: an unusual flavodoxin. Structural biology. FEBS J 277 : 4265 4277.[PubMed][CrossRef]
88. Roca I,, Torrents E,, Sahlin M,, Gibert I,, Sjoberg BM . 2008. NrdI essentiality for class Ib ribonucleotide reduction in Streptococcus pyogenes. J Bacteriol 190 : 4849 4858.[PubMed][CrossRef]
89. Chien AC,, Hill NS,, Levin PA . 2012. Cell size control in bacteria. Curr Biol 22 : R340 R349.[PubMed][CrossRef]
90. Johnson A,, O'Donnell M . 2005. Cellular DNA replicases: components and dynamics at the replication fork. Annu Rev Biochem 74 : 283 315.[PubMed][CrossRef]
91. Reyes-Lamothe R,, Sherratt DJ,, Leake MC . 2010. Stoichiometry and architecture of active DNA replication machinery in Escherichia coli. Science 328 : 498 501.[PubMed][CrossRef]
92. Sanders GM,, Dallmann HG,, McHenry CS . 2010. Reconstitution of the B. subtilis replisome with 13 proteins including two distinct replicases. Mol Cell 37 : 273 281.[PubMed][CrossRef]
93. McHenry CS . 2011. DNA replicases from a bacterial perspective. Annu Rev Biochem 80 : 403 436.[PubMed][CrossRef]
94. McInerney P,, Johnson A,, Katz F,, O'Donnell M . 2007. Characterization of a triple DNA polymerase replisome. Mol Cell 27 : 527 538.[PubMed][CrossRef]
95. Georgescu RE,, Kurth I,, O'Donnell ME . 2012. Single-molecule studies reveal the function of a third polymerase in the replisome. Nat Struct Mol Biol 19 : 113 116.[PubMed][CrossRef]
96. Robinson A,, Causer RJ,, Dixon NE . 2012. Architecture and conservation of the bacterial DNA replication machinery, an underexploited drug target. Curr Drug Targets 13 : 352 372.[PubMed][CrossRef]
97. Boshoff HI,, Reed MB,, Barry CE 3rd,, Mizrahi V . 2003. DnaE2 polymerase contributes to in vivo survival and the emergence of drug resistance in Mycobacterium tuberculosis. Cell 113 : 183 193.[CrossRef]
98. Warner DF,, Ndwandwe DE,, Abrahams GL,, Kana BD,, Machowski EE,, Venclovas Č,, Mizrahi V . 2010. Essential roles for imuA′- and imuB-encoded accessory factors in DnaE2-dependent mutagenesis in Mycobacterium tuberculosis. Proc Natl Acad Sci USA 107 : 13093 13098.[PubMed][CrossRef]
99. Warner DF . 2010. The role of DNA repair in M. tuberculosis pathogenesis. Drug Discov Today Dis Mech 7 : e5 e11.[CrossRef]
100. McHenry CS . 2011. Breaking the rules: bacteria that use several DNA polymerase IIIs. EMBO Rep 12 : 408 414.[PubMed][CrossRef]
101. Deb DK,, Dahiya P,, Srivastava KK,, Srivastava R,, Srivastava BS . 2002. Selective identification of new therapeutic targets of Mycobacterium tuberculosis by IVIAT approach. Tuberculosis (Edinb) 82 : 175 182.[PubMed][CrossRef]
102. Fijalkowska IJ,, Schaaper RM,, Jonczyk P . 2012. DNA replication fidelity in Escherichia coli: a multi-DNA polymerase affair. FEMS Microbiol Rev 36 : 1105 1121.[PubMed][CrossRef]
103. Sharma A,, Nair DT . 2012. MsDpo4-a DinB homolog from Mycobacterium smegmatis is an error-prone DNA polymerase that can promote G:T and T:G mismatches. J Nucleic Acids 2012 : 285481. [PubMed][CrossRef]
104. Kana BD,, Abrahams GL,, Sung N,, Warner DF,, Gordhan BG,, Machowski EE,, Tsenova L,, Sacchettini JC,, Stoker NG,, Kaplan G,, Mizrahi V . 2010. Role of the DinB homologs Rv1537 and Rv3056 in Mycobacterium tuberculosis. J Bacteriol 192 : 2220 2227.[PubMed][CrossRef]
105. Reyes-Lamothe R,, Nicolas E,, Sherratt DJ . 2012. Chromosome replication and segregation in bacteria. Annu Rev Genet 46 : 121 143.[PubMed][CrossRef]
106. Leonard AC,, Grimwade JE . 2011. Regulation of DnaA assembly and activity: taking directions from the genome. Annu Rev Microbiol 65 : 19 35.[PubMed][CrossRef]
107. Nair N,, Dziedzic R,, Greendyke R,, Muniruzzaman S,, Rajagopalan M,, Madiraju MV . 2009. Synchronous replication initiation in novel Mycobacterium tuberculosis dnaA cold-sensitive mutants. Mol Microbiol 71 : 291 304.[PubMed][CrossRef]
108. Turcios L,, Casart Y,, Florez I,, de Waard J,, Salazar L . 2009. Characterization of IS 6110 insertions in the dnaA- dnaN intergenic region of Mycobacterium tuberculosis clinical isolates. Clin Microbiol Infect 15 : 200 203.[PubMed][CrossRef]
109. Zawilak A,, Kois A,, Konopa G,, Smulczyk-Krawczyszyn A,, Zakrzewska-Czerwinska J . 2004. Mycobacterium tuberculosis DnaA initiator protein: purification and DNA-binding requirements. Biochem J 382 : 247 252.[PubMed][CrossRef]
110. Tsodikov OV,, Biswas T . 2011. Structural and thermodynamic signatures of DNA recognition by Mycobacterium tuberculosis DnaA. J Mol Biol 410 : 461 476.[PubMed][CrossRef]
111. Mott ML,, Berger JM . 2007. DNA replication initiation: mechanisms and regulation in bacteria. Nat Rev Microbiol 5 : 343 354.[PubMed][CrossRef]
112. Madiraju MV,, Moomey M,, Neuenschwander PF,, Muniruzzaman S,, Yamamoto K,, Grimwade JE,, Rajagopalan M . 2006. The intrinsic ATPase activity of Mycobacterium tuberculosis DnaA promotes rapid oligomerization of DnaA on oriC. Mol Microbiol 59 : 1876 1890.[PubMed][CrossRef]
113. Camara JE,, Breier AM,, Brendler T,, Austin S,, Cozzarelli NR,, Crooke E . 2005. Hda inactivation of DnaA is the predominant mechanism preventing hyperinitiation of Escherichia coli DNA replication. EMBO Rep 6 : 736 741.[PubMed][CrossRef]
114. Kumar S,, Farhana A,, Hasnain SE . 2009. In-vitro helix opening of M. tuberculosis oriC by DnaA occurs at precise location and is inhibited by IciA like protein. PLoS One 4 : e4139. [PubMed][CrossRef]
115. Li Y,, Zeng J,, Zhang H,, He ZG . 2010. The characterization of conserved binding motifs and potential target genes for M. tuberculosis MtrAB reveals a link between the two-component system and the drug resistance of M. smegmatis. BMC Microbiol 10 : 242. [PubMed][CrossRef]
116. Plocinska R,, Purushotham G,, Sarva K,, Vadrevu IS,, Pandeeti EV,, Arora N,, Plocinski P,, Madiraju MV,, Rajagopalan M . 2012. Septal localization of the Mycobacterium tuberculosis MtrB sensor kinase promotes MtrA regulon expression. J Biol Chem 287 : 23887 23899.[PubMed][CrossRef]
117. Nguyen HT,, Wolff KA,, Cartabuke RH,, Ogwang S,, Nguyen L . 2010. A lipoprotein modulates activity of the MtrAB two-component system to provide intrinsic multidrug resistance, cytokinetic control and cell wall homeostasis in Mycobacterium. Mol Microbiol 76 : 348 364.[PubMed][CrossRef]
118. Maloney E,, Madiraju SC,, Rajagopalan M,, Madiraju M . 2011. Localization of acidic phospholipid cardiolipin and DnaA in mycobacteria. Tuberculosis (Edinb) 91( Suppl 1) : S150 S155.[PubMed][CrossRef]
119. Zeng J,, Li Y,, Zhang S,, He ZG . 2012. A novel high-throughput B1H-ChIP method for efficiently validating and screening specific regulator-target promoter interactions. Appl Microbiol Biotechnol 93 : 1257 1269.[PubMed][CrossRef]
120. Zeng J,, Cui T,, He ZG . 2012. A genome-wide regulator-DNA interaction network in the human pathogen Mycobacterium tuberculosis H37Rv. J Proteome Res 11 : 4682 4692.[PubMed][CrossRef]
121. Xie Y,, He ZG . 2009. Characterization of physical interaction between replication initiator protein DnaA and replicative helicase from Mycobacterium tuberculosis H37Rv. Biochemistry (Mosc) 74 : 1320 1327.[PubMed][CrossRef]
122. Stelter M,, Gutsche I,, Kapp U,, Bazin A,, Bajic G,, Goret G,, Jamin M,, Timmins J,, Terradot L . 2012. Architecture of a dodecameric bacterial replicative helicase. Structure 20 : 554 564.[PubMed][CrossRef]
123. Biswas T,, Resto-Roldan E,, Sawyer SK,, Artsimovitch I,, Tsodikov OV . 2013. A novel non-radioactive primase-pyrophosphatase activity assay and its application to the discovery of inhibitors of Mycobacterium tuberculosis primase DnaG. Nucleic Acids Res 41 : e56. [PubMed][CrossRef]
124. Watkins HA,, Baker EN . 2010. Structural and functional characterization of an RNase HI domain from the bifunctional protein Rv2228c from Mycobacterium tuberculosis. J Bacteriol 192 : 2878 2886.[PubMed][CrossRef]
125. Drlica K,, Zhao X . 1997. DNA gyrase, topoisomerase IV, and the 4-quinolones. Microbiol Mol Biol Rev 61 : 377 392.[PubMed]
126. Biswas T,, Tsodikov OV . 2008. Hexameric ring structure of the N-terminal domain of Mycobacterium tuberculosis DnaB helicase. FEBS J 275 : 3064 3071.[PubMed][CrossRef]
127. Yao NY,, Georgescu RE,, Finkelstein J,, O'Donnell ME . 2009. Single-molecule analysis reveals that the lagging strand increases replisome processivity but slows replication fork progression. Proc Natl Acad Sci USA 106 : 13236 13241.[PubMed][CrossRef]
128. Godbole AA,, Leelaram MN,, Bhat AG,, Jain P,, Nagaraja V . 2012. Characterization of DNA topoisomerase I from Mycobacterium tuberculosis: DNA cleavage and religation properties and inhibition of its activity. Arch Biochem Biophys 528 : 197 203.[PubMed][CrossRef]
129. Yang Q,, Liu Y,, Huang F,, He ZG . 2011. Physical and functional interaction between D-ribokinase and topoisomerase I has opposite effects on their respective activity in Mycobacterium smegmatis and Mycobacterium tuberculosis. Arch Biochem Biophys 512 : 135 142.[PubMed][CrossRef]
130. Huang F,, He ZG . 2010. Characterization of an interplay between a Mycobacterium tuberculosis MazF homolog, Rv1495 and its sole DNA topoisomerase I. Nucleic Acids Res 38 : 8219 8230.[PubMed][CrossRef]
131. Zhu L,, Zhang Y,, Teh JS,, Zhang J,, Connell N,, Rubin H,, Inouye M . 2006. Characterization of mRNA interferases from Mycobacterium tuberculosis. J Biol Chem 281 : 18638 18643.[PubMed][CrossRef]
132. Mizrahi V,, Andersen SJ . 1998. DNA repair in Mycobacterium tuberculosis. What have we learnt from the genome sequence? Mol Microbiol 29 : 1331 1339.[PubMed][CrossRef]
133. Ford CB,, Lin PL,, Chase MR,, Shah RR,, Iartchouk O,, Galagan J,, Mohaideen N,, Ioerger TR,, Sacchettini JC,, Lipsitch M,, Flynn JL,, Fortune SM . 2011. Use of whole genome sequencing to estimate the mutation rate of Mycobacterium tuberculosis during latent infection. Nat Genet 43 : 482 486.[PubMed][CrossRef]
134. Springer B,, Sander P,, Sedlacek L,, Hardt WD,, Mizrahi V,, Schar P,, Bottger EC . 2004. Lack of mismatch correction facilitates genome evolution in mycobacteria. Mol Microbiol 53 : 1601 1609.[PubMed][CrossRef]
135. Wanner RM,, Guthlein C,, Springer B,, Bottger D,, Ackermann M . 2008. Stabilization of the genome of the mismatch repair deficient Mycobacterium tuberculosis by context-dependent codon choice. BMC Genomics 9 : 249. [PubMed][CrossRef]
136. Machowski EE,, Barichievy S,, Springer B,, Durbach SI,, Mizrahi V . 2007. In vitro analysis of rates and spectra of mutations in a polymorphic region of the Rv0746 PE_PGRS gene of Mycobacterium tuberculosis. J Bacteriol 189 : 2190 2195.[PubMed][CrossRef]
137. Guthlein C,, Wanner RM,, Sander P,, Davis EO,, Bosshard M,, Jiricny J,, Bottger EC,, Springer B . 2009. Characterization of the mycobacterial NER system reveals novel functions of the uvrD1 helicase. J Bacteriol 191 : 555 562.[PubMed][CrossRef]
138. Laureti L,, Selva M,, Dairou J,, Matic I . 2013. Reduction of dNTP levels enhances DNA replication fidelity in vivo. DNA Repair (Amst) 12 : 300 305.[PubMed][CrossRef]
139. Hiriyanna KT,, Ramakrishnan T . 1986. Deoxyribonucleic acid replication time in Mycobacterium tuberculosis H37 Rv. Arch Microbiol 144 : 105 109.[PubMed][CrossRef]
140. Gui WJ,, Lin SQ,, Chen YY,, Zhang XE,, Bi LJ,, Jiang T . 2011. Crystal structure of DNA polymerase III β sliding clamp from Mycobacterium tuberculosis. Biochem Biophys Res Commun 405 : 272 277.[PubMed][CrossRef]
141. Keren I,, Minami S,, Rubin E,, Lewis K . 2011. Characterization and transcriptome analysis of Mycobacterium tuberculosis persisters. MBio 2 : e00100 e00111.[PubMed][CrossRef]
142. Zhang M,, Sala C,, Hartkoorn RC,, Dhar N,, Mendoza-Losana A,, Cole ST . 2012. Streptomycin-starved Mycobacterium tuberculosis 18b, a drug discovery tool for latent tuberculosis. Antimicrob Agents Chemother 56 : 5782 5789.[PubMed][CrossRef]
143. Wayne LG,, Hayes LG . 1996. An in vitro model for sequential study of shiftdown of Mycobacterium tuberculosis through two stages of nonreplicating persistence. Infect Immun 64 : 2062 2069.[PubMed]
144. Rao SP,, Alonso S,, Rand L,, Dick T,, Pethe K . 2008. The protonmotive force is required for maintaining ATP homeostasis and viability of hypoxic, nonreplicating Mycobacterium tuberculosis. Proc Natl Acad Sci USA 105 : 11945 11950.[PubMed][CrossRef]
145. Eoh H,, Rhee KY . 2013. Multifunctional essentiality of succinate metabolism in adaptation to hypoxia in Mycobacterium tuberculosis. Proc Natl Acad Sci USA 110 : 6554 6559.[PubMed][CrossRef]
146. Wayne LG . 1977. Synchronized replication of Mycobacterium tuberculosis. Infect Immun 17 : 528 530.[PubMed]
147. Munoz-Elias EJ,, Timm J,, Botha T,, Chan WT,, Gomez JE,, McKinney JD . 2005. Replication dynamics of Mycobacterium tuberculosis in chronically infected mice. Infect Immun 73 : 546 551.[PubMed][CrossRef]
148. Gill WP,, Harik NS,, Whiddon MR,, Liao RP,, Mittler JE,, Sherman DR . 2009. A replication clock for Mycobacterium tuberculosis. Nat Med 15 : 211 214.[PubMed][CrossRef]
149. Sanyal G,, Doig P . 2012. Bacterial DNA replication enzymes as targets for antibacterial drug discovery. Expert Opin Drug Discov 7 : 327 339.[PubMed][CrossRef]
150. Dallmann HG,, Fackelmayer OJ,, Tomer G,, Chen J,, Wiktor-Becker A,, Ferrara T,, Pope C,, Oliveira MT,, Burgers PM,, Kaguni LS,, McHenry CS . 2010. Parallel multiplicative target screening against divergent bacterial replicases: identification of specific inhibitors with broad spectrum potential. Biochemistry 49 : 2551 2562.[PubMed][CrossRef]
151. Yamaichi Y,, Duigou S,, Shakhnovich EA,, Waldor MK . 2009. Targeting the replication initiator of the second Vibrio chromosome: towards generation of Vibrionaceae-specific antimicrobial agents. PLoS Pathog 5 : e1000663. [PubMed][CrossRef]
152. Sexton JZ,, Wigle TJ,, He Q,, Hughes MA,, Smith GR,, Singleton SF,, Williams AL,, Yeh LA . 2010. Novel inhibitors of E. coli RecA ATPase activity. Curr Chem Genomics 4 : 34 42.[PubMed][CrossRef]
153. Karkare S,, Chung TT,, Collin F,, Mitchenall LA,, McKay AR,, Greive SJ,, Meyer JJ,, Lall N,, Maxwell A . 2013. The naphthoquinone diospyrin is an inhibitor of DNA gyrase with a novel mechanism of action. J Biol Chem 288 : 5149 5156.[PubMed][CrossRef]
154. Georgescu RE,, Yurieva O,, Kim SS,, Kuriyan J,, Kong XP,, O'Donnell M . 2008. Structure of a small-molecule inhibitor of a DNA polymerase sliding clamp. Proc Natl Acad Sci USA 105 : 11116 11121.[PubMed][CrossRef]
155. Wolff P,, Olieric V,, Briand JP,, Chaloin O,, Dejaegere A,, Dumas P,, Ennifar E,, Guichard G,, Wagner J,, Burnouf DY . 2011. Structure-based design of short peptide ligands binding onto the E. coli processivity ring. J Med Chem 54 : 4627 4637.[PubMed][CrossRef]
156. Wijffels G,, Johnson WM,, Oakley AJ,, Turner K,, Epa VX,, Briscoe SJ,, Polley M,, Liepa AJ,, Hofmann A,, Buchardt J,, Christensen C,, Prosselkov P,, Dalrymple BP,, Alewood PF,, Jennings PA,, Dixon NE,, Winkler DA . 2011. Binding inhibitors of the bacterial sliding clamp by design. J Med Chem 54 : 4831 4838.[PubMed][CrossRef]
157. Marceau AH,, Bernstein DA,, Walsh BW,, Shapiro W,, Simmons LA,, Keck JL . 2013. Protein interactions in genome maintenance as novel antibacterial targets. PLoS One 8 : e58765. [PubMed][CrossRef]
158. Cui T,, Zhang L,, Wang X,, He ZG . 2009. Uncovering new signaling proteins and potential drug targets through the interactome analysis of Mycobacterium tuberculosis. BMC Genomics 10 : 118. [PubMed][CrossRef]
159. Wang Y,, Cui T,, Zhang C,, Yang M,, Huang Y,, Li W,, Zhang L,, Gao C,, He Y,, Li Y,, Huang F,, Zeng J,, Huang C,, Yang Q,, Tian Y,, Zhao C,, Chen H,, Zhang H,, He ZG . 2010. Global protein-protein interaction network in the human pathogen Mycobacterium tuberculosis H37Rv. J Proteome Res 9 : 6665 6677.[PubMed][CrossRef]
160. Schaeffer PM,, Headlam MJ,, Dixon NE . 2005. Protein-protein interactions in the eubacterial replisome. IUBMB Life 57 : 5 12.[PubMed][CrossRef]
161. Noirot-Gros MF,, Dervyn E,, Wu LJ,, Mervelet P,, Errington J,, Ehrlich SD,, Noirot P . 2002. An expanded view of bacterial DNA replication. Proc Natl Acad Sci USA 99 : 8342 8347.[PubMed][CrossRef]
162. Osorio NS,, Rodrigues F,, Gagneux S,, Pedrosa J,, Pinto-Carbo M,, Castro AG,, Young D,, Comas I,, Saraiva M . 2013. Evidence for diversifying selection in a set of Mycobacterium tuberculosis genes in response to antibiotic- and nonantibiotic-related pressure. Mol Biol Evol 30 : 1326 1336.[PubMed][CrossRef]
163. Dos Vultos T,, Mestre O,, Rauzier J,, Golec M,, Rastogi N,, Rasolofo V,, Tonjum T,, Sola C,, Matic I,, Gicquel B . 2008. Evolution and diversity of clonal bacteria: the paradigm of Mycobacterium tuberculosis. PLoS One 3 : e1538. [PubMed][CrossRef]
164. Buckstein MH,, He J,, Rubin H . 2008. Characterization of nucleotide pools as a function of physiological state in Escherichia coli. J Bacteriol 190 : 718 726.[PubMed][CrossRef]
165. Aldridge BB,, Fernandez-Suarez M,, Heller D,, Ambravaneswaran V,, Irimia D,, Toner M,, Fortune SM . 2012. Asymmetry and aging of mycobacterial cells lead to variable growth and antibiotic susceptibility. Science 335 : 100 104.[PubMed][CrossRef]
166. Wakamoto Y,, Dhar N,, Chait R,, Schneider K,, Signorino-Gelo F,, Leibler S,, McKinney JD . 2013. Dynamic persistence of antibiotic-stressed mycobacteria. Science 339 : 91 95.[PubMed][CrossRef]
167. Hu Y,, Coates AR . 2001. Increased levels of sigJ mRNA in late stationary phase cultures of Mycobacterium tuberculosis detected by DNA array hybridisation. FEMS Microbiol Lett 202 : 59 65.[PubMed][CrossRef]
168. Fang G,, Munera D,, Friedman DI,, Mandlik A,, Chao MC,, Banerjee O,, Feng Z,, Losic B,, Mahajan MC,, Jabado OJ,, Deikus G,, Clark TA,, Luong K,, Murray IA,, Davis BM,, Keren-Paz A,, Chess A,, Roberts RJ,, Korlach J,, Turner SW,, Kumar V,, Waldor MK,, Schadt EE . 2012. Genome-wide mapping of methylated adenine residues in pathogenic Escherichia coli using single-molecule real-time sequencing. Nat Biotechnol 30 : 1232 1239.[PubMed][CrossRef]

Tables

Generic image for table
Table 1

Genes involved in purine and pyrimidine salvage pathways in

Citation: Warner D, Evans J, Mizrahi V. 2014. Nucleotide Metabolism and DNA Replication, p 635-656. In Hatfull G, Jacobs W (ed), Molecular Genetics of Mycobacteria, Second Edition. ASM Press, Washington, DC. doi: 10.1128/microbiolspec.MGM2-0001-2013
Generic image for table
Table 2

Genes known to be involved in DNA replication in

Citation: Warner D, Evans J, Mizrahi V. 2014. Nucleotide Metabolism and DNA Replication, p 635-656. In Hatfull G, Jacobs W (ed), Molecular Genetics of Mycobacteria, Second Edition. ASM Press, Washington, DC. doi: 10.1128/microbiolspec.MGM2-0001-2013

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