메뉴 건너뛰기




Volumn 47, Issue 6, 2015, Pages 677-681

DNA replication fidelity in Mycobacterium tuberculosis is mediated by an ancestral prokaryotic proofreader

Author keywords

[No Author keywords available]

Indexed keywords

DNAE1 PROTEIN; EXONUCLEASE; UNCLASSIFIED DRUG; BACTERIAL DNA; BACTERIAL PROTEIN; DNA DIRECTED DNA POLYMERASE GAMMA; DNA POLYMERASE III, ALPHA SUBUNIT; TUBERCULOSTATIC AGENT;

EID: 84930090059     PISSN: 10614036     EISSN: 15461718     Source Type: Journal    
DOI: 10.1038/ng.3269     Document Type: Article
Times cited : (52)

References (41)
  • 1
    • 84857134358 scopus 로고    scopus 로고
    • Architecture and conservation of the bacterial DNA replication machinery, an underexploited drug target
    • Robinson, A., Causer, R.J. & Dixon, N.E. Architecture and conservation of the bacterial DNA replication machinery, an underexploited drug target. Curr. Drug Targets 13, 352-372 (2012).
    • (2012) Curr. Drug Targets , vol.13 , pp. 352-372
    • Robinson, A.1    Causer, R.J.2    Dixon, N.E.3
  • 3
    • 0031692027 scopus 로고    scopus 로고
    • DNA repair in Mycobacterium tuberculosis. What have we learnt from the genome sequence?
    • Mizrahi, V. & Andersen, S.J. DNA repair in Mycobacterium tuberculosis. What have we learnt from the genome sequence? Mol. Microbiol. 29, 1331-1339 (1998).
    • (1998) Mol. Microbiol. , vol.29 , pp. 1331-1339
    • Mizrahi, V.1    Andersen, S.J.2
  • 4
    • 4644335120 scopus 로고    scopus 로고
    • Lack of mismatch correction facilitates genome evolution in mycobacteria
    • Springer, B. et al. Lack of mismatch correction facilitates genome evolution in mycobacteria. Mol. Microbiol. 53, 1601-1609 (2004).
    • (2004) Mol. Microbiol. , vol.53 , pp. 1601-1609
    • Springer, B.1
  • 5
    • 79955460244 scopus 로고    scopus 로고
    • Use of whole genome sequencing to estimate the mutation rate of Mycobacterium tuberculosis during latent infection
    • Ford, C.B. et al. Use of whole genome sequencing to estimate the mutation rate of Mycobacterium tuberculosis during latent infection. Nat. Genet. 43, 482-486 (2011).
    • (2011) Nat. Genet. , vol.43 , pp. 482-486
    • Ford, C.B.1
  • 6
    • 84884992001 scopus 로고    scopus 로고
    • Genomic analysis identifes targets of convergent positive selection in drug-resistant Mycobacterium tuberculosis
    • Farhat, M.R. et al. Genomic analysis identifes targets of convergent positive selection in drug-resistant Mycobacterium tuberculosis. Nat. Genet. 45, 1183-1189 (2013).
    • (2013) Nat. Genet. , vol.45 , pp. 1183-1189
    • Farhat, M.R.1
  • 7
    • 0035931926 scopus 로고    scopus 로고
    • Massive gene decay in the leprosy bacillus
    • Cole, S.T. et al. Massive gene decay in the leprosy bacillus. Nature 409, 1007-1011 (2001).
    • (2001) Nature , vol.409 , pp. 1007-1011
    • Cole, S.T.1
  • 8
    • 79959431646 scopus 로고    scopus 로고
    • DNA replicases from a bacterial perspective
    • McHenry, C.S. DNA replicases from a bacterial perspective. Annu. Rev. Biochem. 80, 403-436 (2011).
    • (2011) Annu. Rev. Biochem. , vol.80 , pp. 403-436
    • McHenry, C.S.1
  • 10
    • 51249093024 scopus 로고    scopus 로고
    • Insights into the replisome from the structure of a ternary complex of the DNA polymerase III α-subunit
    • Wing, R.A., Bailey, S. & Steitz, T.A. Insights into the replisome from the structure of a ternary complex of the DNA polymerase III α-subunit. J. Mol. Biol. 382, 859-869 (2008).
    • (2008) J. Mol. Biol. , vol.382 , pp. 859-869
    • Wing, R.A.1    Bailey, S.2    Steitz, T.A.3
  • 11
    • 84877613987 scopus 로고    scopus 로고
    • A structural role for the PHP domain in E. Coli DNA polymerase III
    • Barros, T. et al. A structural role for the PHP domain in E. coli DNA polymerase III. BMC Struct. Biol. 13, 8 (2013).
    • (2013) BMC Struct. Biol. , vol.13 , pp. 8
    • Barros, T.1
  • 12
    • 0035940515 scopus 로고    scopus 로고
    • Comprehensive identifcation of conditionally essential genes in mycobacteria
    • Sassetti, C.M., Boyd, D.H. & Rubin, E.J. Comprehensive identifcation of conditionally essential genes in mycobacteria. Proc. Natl. Acad. Sci. USA 98, 12712-12717 (2001).
    • (2001) Proc. Natl. Acad. Sci. USA , vol.98 , pp. 12712-12717
    • Sassetti, C.M.1    Boyd, D.H.2    Rubin, E.J.3
  • 13
    • 77749301852 scopus 로고    scopus 로고
    • Synergistic effects of UdgB and Ung in mutation prevention and protection against commonly encountered DNA damaging agents in Mycobacterium smegmatis
    • Malshetty, V.S., Jain, R., Srinath, T., Kurthkoti, K. & Varshney, U. Synergistic effects of UdgB and Ung in mutation prevention and protection against commonly encountered DNA damaging agents in Mycobacterium smegmatis. Microbiology 156, 940-949 (2010).
    • (2010) Microbiology , vol.156 , pp. 940-949
    • Malshetty, V.S.1    Jain, R.2    Srinath, T.3    Kurthkoti, K.4    Varshney, U.5
  • 14
    • 84867339877 scopus 로고    scopus 로고
    • Rate and molecular spectrum of spontaneous mutations in the bacterium Escherichia coli as determined by whole-genome sequencing
    • Lee, H., Popodi, E., Tang, H. & Foster, P.L. Rate and molecular spectrum of spontaneous mutations in the bacterium Escherichia coli as determined by whole-genome sequencing. Proc. Natl. Acad. Sci. USA 109, E2774-E2783 (2012).
    • (2012) Proc. Natl. Acad. Sci. USA , vol.109 , pp. E2774-E2783
    • Lee, H.1    Popodi, E.2    Tang, H.3    Foster, P.L.4
  • 15
    • 9244225098 scopus 로고    scopus 로고
    • Mutants in the Exo i motif of Escherichia coli dnaQ: Defective proofreading and inviability due to error catastrophe
    • Fijalkowska, I.J. & Schaaper, R.M. Mutants in the Exo I motif of Escherichia coli dnaQ: defective proofreading and inviability due to error catastrophe. Proc. Natl. Acad. Sci. USA 93, 2856-2861 (1996).
    • (1996) Proc. Natl. Acad. Sci. USA , vol.93 , pp. 2856-2861
    • Fijalkowska, I.J.1    Schaaper, R.M.2
  • 16
    • 33646397599 scopus 로고    scopus 로고
    • Evolution of mutation rates in bacteria
    • Denamur, E. & Matic, I. Evolution of mutation rates in bacteria. Mol. Microbiol. 60, 820-827 (2006).
    • (2006) Mol. Microbiol. , vol.60 , pp. 820-827
    • Denamur, E.1    Matic, I.2
  • 17
    • 0035949599 scopus 로고    scopus 로고
    • A universal protein-protein interaction motif in the eubacterial DNA replication and repair systems
    • Dalrymple, B.P., Kongsuwan, K., Wijffels, G., Dixon, N.E. & Jennings, P.A. A universal protein-protein interaction motif in the eubacterial DNA replication and repair systems. Proc. Natl. Acad. Sci. USA 98, 11627-11632 (2001).
    • (2001) Proc. Natl. Acad. Sci. USA , vol.98 , pp. 11627-11632
    • Dalrymple, B.P.1    Kongsuwan, K.2    Wijffels, G.3    Dixon, N.E.4    Jennings, P.A.5
  • 18
    • 0035175673 scopus 로고    scopus 로고
    • TIGRFAMs: A protein family resource for the functional identifcation of proteins
    • Haft, D.H. et al. TIGRFAMs: a protein family resource for the functional identifcation of proteins. Nucleic Acids Res. 29, 41-43 (2001).
    • (2001) Nucleic Acids Res. , vol.29 , pp. 41-43
    • Haft, D.H.1
  • 19
    • 84896734255 scopus 로고    scopus 로고
    • Comprehensive analysis of DNA polymerase III α subunits and their homologs in bacterial genomes
    • Timinskas, K., Balvociute, M., Timinskas, A. & Venclovas, C. Comprehensive analysis of DNA polymerase III α subunits and their homologs in bacterial genomes. Nucleic Acids Res. 42, 1393-1413 (2014).
    • (2014) Nucleic Acids Res. , Issue.42 , pp. 1393-1413
    • Timinskas, K.1    Balvociute, M.2    Timinskas, A.3    Venclovas, C.4
  • 20
    • 84880648722 scopus 로고    scopus 로고
    • Advances in the development of nucleoside and nucleotide analogues for cancer and viral diseases
    • Jordheim, L.P., Durantel, D., Zoulim, F. & Dumontet, C. Advances in the development of nucleoside and nucleotide analogues for cancer and viral diseases. Nat. Rev. Drug Discov. 12, 447-464 (2013).
    • (2013) Nat. Rev. Drug Discov. , vol.12 , pp. 447-464
    • Jordheim, L.P.1    Durantel, D.2    Zoulim, F.3    Dumontet, C.4
  • 21
    • 40949138190 scopus 로고    scopus 로고
    • Structure-activity relationship for adenosine kinase from Mycobacterium tuberculosis
    • Long, M.C. et al. Structure-activity relationship for adenosine kinase from Mycobacterium tuberculosis. Biochem. Pharmacol. 75, 1588-1600 (2008).
    • (2008) Biochem. Pharmacol. , vol.75 , pp. 1588-1600
    • Long, M.C.1
  • 22
    • 67649884743 scopus 로고    scopus 로고
    • Fast and accurate short read alignment with Burrows-Wheeler transform
    • Li, H. & Durbin, R. Fast and accurate short read alignment with Burrows-Wheeler transform. Bioinformatics 25, 1754-1760 (2009).
    • (2009) Bioinformatics , vol.25 , pp. 1754-1760
    • Li, H.1    Durbin, R.2
  • 23
    • 77956295988 scopus 로고    scopus 로고
    • The Genome Analysis Toolkit: A MapReduce framework for analyzing next-generation DNA sequencing data
    • McKenna, A. et al. The Genome Analysis Toolkit: a MapReduce framework for analyzing next-generation DNA sequencing data. Genome Res. 20, 1297-1303 (2010).
    • (2010) Genome Res. , vol.20 , pp. 1297-1303
    • McKenna, A.1
  • 24
    • 79955483667 scopus 로고    scopus 로고
    • A framework for variation discovery and genotyping using next-generation DNA sequencing data
    • DePristo, M.A. et al. A framework for variation discovery and genotyping using next-generation DNA sequencing data. Nat. Genet. 43, 491-498 (2011).
    • (2011) Nat. Genet. , vol.43 , pp. 491-498
    • Depristo, M.A.1
  • 25
    • 84879682699 scopus 로고    scopus 로고
    • Mycobacterium tuberculosis mutation rate estimates from different lineages predict substantial differences in the emergence of drug-resistant tuberculosis
    • Ford, C.B. et al. Mycobacterium tuberculosis mutation rate estimates from different lineages predict substantial differences in the emergence of drug-resistant tuberculosis. Nat. Genet. 45, 784-790 (2013).
    • (2013) Nat. Genet. , vol.45 , pp. 784-790
    • Ford, C.B.1
  • 27
    • 0037100671 scopus 로고    scopus 로고
    • MAFFT: A novel method for rapid multiple sequence alignment based on fast Fourier transform
    • Katoh, K., Misawa, K., Kuma, K.-I. & Miyata, T. MAFFT: a novel method for rapid multiple sequence alignment based on fast Fourier transform. Nucleic Acids Res. 30, 3059-3066 (2002).
    • (2002) Nucleic Acids Res. , vol.30 , pp. 3059-3066
    • Katoh, K.1    Misawa, K.2    Kuma, K.-I.3    Miyata, T.4
  • 28
    • 84890037468 scopus 로고    scopus 로고
    • Infernal 1.1: 100-fold faster RNA homology searches
    • Nawrocki, E.P. & Eddy, S.R. Infernal 1.1: 100-fold faster RNA homology searches. Bioinformatics 29, 2933-2935 (2013).
    • (2013) Bioinformatics , vol.29 , pp. 2933-2935
    • Nawrocki, E.P.1    Eddy, S.R.2
  • 29
    • 77949718257 scopus 로고    scopus 로고
    • FastTree 2-approximately maximum-likelihood trees for large alignments
    • Price, M.N., Dehal, P.S. & Arkin, A.P. FastTree 2-approximately maximum-likelihood trees for large alignments. PLoS ONE 5, e9490 (2010).
    • (2010) PLoS ONE , vol.5 , pp. e9490
    • Price, M.N.1    Dehal, P.S.2    Arkin, A.P.3
  • 30
    • 84899553363 scopus 로고    scopus 로고
    • RAxML version 8: A tool for phylogenetic analysis and post-analysis of large phylogenies
    • Stamatakis, A. RAxML version 8: a tool for phylogenetic analysis and post-analysis of large phylogenies. Bioinformatics 30, 1312-1313 (2014).
    • (2014) Bioinformatics , vol.30 , pp. 1312-1313
    • Stamatakis, A.1
  • 31
    • 79960004119 scopus 로고    scopus 로고
    • Interactive Tree of Life v2: Online annotation and display of phylogenetic trees made easy
    • Letunic, I. & Bork, P. Interactive Tree Of Life v2: online annotation and display of phylogenetic trees made easy. Nucleic Acids Res. 39, W475-W478 (2011).
    • (2011) Nucleic Acids Res. , vol.39 , pp. W475-W478
    • Letunic, I.1    Bork, P.2
  • 32
    • 84895895475 scopus 로고    scopus 로고
    • Evolution and transmission of drug-resistant tuberculosis in a Russian population
    • Casali, N. et al. Evolution and transmission of drug-resistant tuberculosis in a Russian population. Nat. Genet. 46, 279-286 (2014).
    • (2014) Nat. Genet. , vol.46 , pp. 279-286
    • Casali, N.1
  • 33
    • 84885009252 scopus 로고    scopus 로고
    • Genome sequencing of 161 Mycobacterium tuberculosis isolates from China identifes genes and intergenic regions associated with drug resistance
    • Zhang, H. et al. Genome sequencing of 161 Mycobacterium tuberculosis isolates from China identifes genes and intergenic regions associated with drug resistance. Nat. Genet. 45, 1255-1260 (2013).
    • (2013) Nat. Genet. , vol.45 , pp. 1255-1260
    • Zhang, H.1
  • 34
    • 84884995578 scopus 로고    scopus 로고
    • Out-of-Africa migration and Neolithic coexpansion of Mycobacterium tuberculosis with modern humans
    • Comas, I. et al. Out-of-Africa migration and Neolithic coexpansion of Mycobacterium tuberculosis with modern humans. Nat. Genet. 45, 1176-1182 (2013).
    • (2013) Nat. Genet. , vol.45 , pp. 1176-1182
    • Comas, I.1
  • 35
    • 0031985277 scopus 로고    scopus 로고
    • Rapid, low-technology MIC determination with clinical Mycobacterium tuberculosis isolates by using the microplate Alamar Blue assay
    • Franzblau, S.G. et al. Rapid, low-technology MIC determination with clinical Mycobacterium tuberculosis isolates by using the microplate Alamar Blue assay. J. Clin. Microbiol. 36, 362-366 (1998).
    • (1998) J. Clin. Microbiol. , vol.36 , pp. 362-366
    • Franzblau, S.G.1
  • 36
    • 14844294424 scopus 로고    scopus 로고
    • Protein production by auto-induction in high-density shaking cultures
    • Studier, F.W. Protein production by auto-induction in high-density shaking cultures. Protein Expr. Purif. 41, 207-234 (2005).
    • (2005) Protein Expr. Purif. , vol.41 , pp. 207-234
    • Studier, F.W.1
  • 37
    • 84877587406 scopus 로고    scopus 로고
    • Architecture of the Pol III-clamp-exonuclease complex reveals key roles of the exonuclease subunit in processive DNA synthesis and repair
    • Toste Rêgo, A., Holding, A.N., Kent, H. & Lamers, M.H. Architecture of the Pol III-clamp-exonuclease complex reveals key roles of the exonuclease subunit in processive DNA synthesis and repair. EMBO J. 32, 1334-1343 (2013).
    • (2013) EMBO J. , vol.32 , pp. 1334-1343
    • Toste Rêgo, A.1    Holding, A.N.2    Kent, H.3    Lamers, M.H.4
  • 38
    • 48849113878 scopus 로고    scopus 로고
    • Comparative protein structure modeling using MODELLER
    • Chapter 2, Unit 2.9
    • Eswar, N. et al. Comparative protein structure modeling using MODELLER. Curr. Protoc. Protein Sci. Chapter 2, Unit 2.9 (2007).
    • (2007) Curr. Protoc. Protein Sci
    • Eswar, N.1
  • 39
    • 33748146034 scopus 로고    scopus 로고
    • The structure of T. Aquaticus DNA polymerase III is distinct from eukaryotic replicative DNA polymerases
    • Bailey, S., Wing, R.A. & Steitz, T.A. The structure of T. aquaticus DNA polymerase III is distinct from eukaryotic replicative DNA polymerases. Cell 126, 893-904 (2006).
    • (2006) Cell , vol.126 , pp. 893-904
    • Bailey, S.1    Wing, R.A.2    Steitz, T.A.3
  • 40
    • 36448991500 scopus 로고    scopus 로고
    • Clustal W and Clustal X version 2.0
    • Larkin, M.A. et al. Clustal W and Clustal X version 2.0. Bioinformatics 23, 2947-2948 (2007).
    • (2007) Bioinformatics , vol.23 , pp. 2947-2948
    • Larkin, M.A.1
  • 41
    • 0043123208 scopus 로고    scopus 로고
    • ESPript/ENDscript: Extracting and rendering sequence and 3D information from atomic structures of
    • Gouet, P. ESPript/ENDscript: extracting and rendering sequence and 3D information from atomic structures of. Nucleic Acids Res. 31, 3320-3323 (2003).
    • (2003) Nucleic Acids Res. , vol.31 , pp. 3320-3323
    • Gouet, P.1


* 이 정보는 Elsevier사의 SCOPUS DB에서 KISTI가 분석하여 추출한 것입니다.