메뉴 건너뛰기




Volumn 108, Issue 7, 2011, Pages 2963-2968

DNA phosphorothioation is widespread and quantized in bacterial genomes

Author keywords

Bioanalytical chemistry; DNA modification; Sulfur

Indexed keywords

BACTERIAL DNA; BACTERIAL PROTEIN; PHOSPHOROTHIOIC ACID; PROTEIN DND; UNCLASSIFIED DRUG;

EID: 79952590206     PISSN: 00278424     EISSN: 10916490     Source Type: Journal    
DOI: 10.1073/pnas.1017261108     Document Type: Article
Times cited : (133)

References (37)
  • 1
    • 0024508604 scopus 로고
    • Phosphorothioates in molecular biology
    • Eckstein F, Gish G (1989) Phosphorothioates in molecular biology. Trends Biochem Sci 14:97-100. (Pubitemid 19077544)
    • (1989) Trends in Biochemical Sciences , vol.14 , Issue.3 , pp. 97-100
    • Eckstein, F.1    Gish, G.2
  • 3
    • 0024296696 scopus 로고
    • Site-specific degradation of Streptomyces lividans DNA during electrophoresis in buffers contaminated with ferrous iron
    • Zhou X, Deng Z, Firmin JL, Hopwood DA, Kieser T (1988) Site-specific degradation of Streptomyces lividans DNA during electrophoresis in buffers contaminated with ferrous iron. Nucleic Acids Res 16:4341-4352.
    • (1988) Nucleic Acids Res , vol.16 , pp. 4341-4352
    • Zhou, X.1    Deng, Z.2    Firmin, J.L.3    Hopwood, D.A.4    Kieser, T.5
  • 4
    • 65249120746 scopus 로고    scopus 로고
    • dndDB: A database focused on phosphorothioation of the DNA backbone
    • Ou HY, et al. (2009) dndDB: a database focused on phosphorothioation of the DNA backbone. PLoS ONE 4:e5132.
    • (2009) PLoS ONE , vol.4
    • Ou, H.Y.1
  • 5
    • 34249073729 scopus 로고    scopus 로고
    • A novel DNA modification by sulfur: DndA is a NifS-like cysteine desulfurase capable of assembling DndC as an iron-sulfur cluster protein in Streptomyces lividans
    • DOI 10.1021/bi602615k
    • You D, Wang L, Yao F, Zhou X, Deng Z (2007) A novel DNA modification by sulfur: DndA is a NifS-like cysteine desulfurase capable of assembling DndC as an iron-sulfur cluster protein in Streptomyces lividans. Biochemistry 46:6126-6133. (Pubitemid 46799171)
    • (2007) Biochemistry , vol.46 , Issue.20 , pp. 6126-6133
    • You, D.1    Wang, L.2    Yao, F.3    Zhou, X.4    Deng, Z.5
  • 7
    • 59849106298 scopus 로고    scopus 로고
    • Functional analysis of spfD gene involved in DNA phosphorothioation in Pseudomonas fluorescens Pf0-1
    • Yao F, Xu T, Zhou X, Deng Z, You D (2009) Functional analysis of spfD gene involved in DNA phosphorothioation in Pseudomonas fluorescens Pf0-1. FEBS Lett 583:729-733.
    • (2009) FEBS Lett , vol.583 , pp. 729-733
    • Yao, F.1    Xu, T.2    Zhou, X.3    Deng, Z.4    You, D.5
  • 8
    • 44449178480 scopus 로고    scopus 로고
    • Resource partitioning and sympatric differentiation among closely related bacterioplankton
    • DOI 10.1126/science.1157890
    • Hunt DE, et al. (2008) Resource partitioning and sympatric differentiation among closely related bacterioplankton. Science 320:1081-1085. (Pubitemid 351929550)
    • (2008) Science , vol.320 , Issue.5879 , pp. 1081-1085
    • Hunt, D.E.1    David, L.A.2    Gevers, D.3    Preheim, S.P.4    Alm, E.J.5    Polz, M.F.6
  • 9
    • 0026338873 scopus 로고
    • Restriction and modification systems
    • Wilson GG, Murray NE (1991) Restriction and modification systems. Annu Rev Genet 25:585-627. (Pubitemid 21903734)
    • (1991) Annual Review of Genetics , vol.25 , Issue.1 , pp. 585-627
    • Wilson, G.G.1    Murray, N.E.2
  • 10
    • 0032029593 scopus 로고    scopus 로고
    • Novel post-replicative DNA modification in Streptomyces: Analysis of the preferred modification site of plasmid pIJ101
    • DOI 10.1093/nar/26.5.1248
    • Dyson P, Evans M (1998) Novel post-replicative DNA modification in Streptomyces: analysis of the preferred modification site of plasmid pIJ101. Nucleic Acids Res 26: 1248-1253. (Pubitemid 28291697)
    • (1998) Nucleic Acids Research , vol.26 , Issue.5 , pp. 1248-1253
    • Dyson, P.1    Evans, M.2
  • 11
    • 34249000758 scopus 로고    scopus 로고
    • DNA modification by sulfur: Analysis of the sequence recognition specificity surrounding the modification sites
    • DOI 10.1093/nar/gkm176
    • Liang J, et al. (2007) DNA modification by sulfur: Analysis of the sequence recognition specificity surrounding the modification sites. Nucleic Acids Res 35:2944-2954. (Pubitemid 47073633)
    • (2007) Nucleic Acids Research , vol.35 , Issue.9 , pp. 2944-2954
    • Liang, J.1    Wang, Z.2    He, X.3    Li, J.4    Zhou, X.5    Deng, Z.6
  • 13
    • 0035883519 scopus 로고    scopus 로고
    • Behavior of restriction-modification systems as selfish mobile elements and their impact on genome evolution
    • Kobayashi I (2001) Behavior of restriction-modification systems as selfish mobile elements and their impact on genome evolution. Nucleic Acids Res 29:3742-3756.
    • (2001) Nucleic Acids Res , vol.29 , pp. 3742-3756
    • Kobayashi, I.1
  • 14
    • 34547660622 scopus 로고    scopus 로고
    • Analysis of a genomic island housing genes for DNA S-modification system in Streptomyces lividans 66 and its counterparts in other distantly related bacteria
    • DOI 10.1111/j.1365-2958.2007.05846.x
    • He X, et al. (2007) Analysis of a genomic island housing genes for DNA S-modification system in Streptomyces lividans 66 and its counterparts in other distantly related bacteria. Mol Microbiol 65:1034-1048. (Pubitemid 47221081)
    • (2007) Molecular Microbiology , vol.65 , Issue.4 , pp. 1034-1048
    • He, X.1    Ou, H.-Y.2    Yu, Q.3    Zhou, X.4    Wu, J.5    Liang, J.6    Zhang, W.7    Rajakumar, K.8    Deng, Z.9
  • 15
    • 33947238287 scopus 로고    scopus 로고
    • The Sorcerer II Global Ocean Sampling expedition: Northwest Atlantic through eastern tropical Pacific
    • Rusch DB, et al. (2007) The Sorcerer II Global Ocean Sampling expedition: Northwest Atlantic through eastern tropical Pacific. PLoS Biol 5:e77.
    • (2007) PLoS Biol , vol.5
    • Rusch, D.B.1
  • 17
    • 70349472694 scopus 로고    scopus 로고
    • Seasonality and vertical structure of microbial communities in an ocean gyre
    • Treusch AH, et al. (2009) Seasonality and vertical structure of microbial communities in an ocean gyre. ISME J 3:1148-1163.
    • (2009) ISME J , vol.3 , pp. 1148-1163
    • Treusch, A.H.1
  • 18
    • 79957962697 scopus 로고    scopus 로고
    • A bacterium that can grow by using arsenic instead of phosphorus
    • in press
    • Wolfe-Simon F, et al. (2010) A bacterium that can grow by using arsenic instead of phosphorus. Science, in press.
    • (2010) Science
    • Wolfe-Simon, F.1
  • 19
    • 78650700875 scopus 로고    scopus 로고
    • A novel host-specific restriction system associated with DNA backbone S-modification in Salmonella
    • Xu T, Yao F, Zhou X, Deng Z, You D (2010) A novel host-specific restriction system associated with DNA backbone S-modification in Salmonella. Nucleic Acids Res 38: 7133-7141.
    • (2010) Nucleic Acids Res , vol.38 , pp. 7133-7141
    • Xu, T.1    Yao, F.2    Zhou, X.3    Deng, Z.4    You, D.5
  • 20
    • 0025109722 scopus 로고
    • Investigation of the inhibitory role of phosphorothioate interneucleotidic linkages on the catalytic activity of the restriction endonuclease EcoRV
    • Olsen DB, Kotzorek G, Eckstein F (1990) Investigation of the inhibitory role of phosphorothioate internucleotidic linkages on the catalytic activity of the restriction endonuclease EcoRV. Biochemistry 29:9546-9551. (Pubitemid 20355201)
    • (1990) Biochemistry , vol.29 , Issue.41 , pp. 9546-9551
    • Olsen, D.B.1    Kotzorek, G.2    Eckstein, F.3
  • 21
    • 0025102646 scopus 로고
    • Inhibition of the restriction endonuclease BanII using modified DNA substrates. Determination of phosphate residues critical for the formation of an active enzyme-DNA complex
    • Olsen DB, Kotzorek G, Sayers JR, Eckstein F (1990) Inhibition of the restriction endonuclease BanII using modified DNA substrates. Determination of phosphate residues critical for the formation of an active enzyme-DNA complex. J Biol Chem 265: 14389-14394.
    • (1990) J Biol Chem , vol.265 , pp. 14389-14394
    • Olsen, D.B.1    Kotzorek, G.2    Sayers, J.R.3    Eckstein, F.4
  • 22
    • 0015089527 scopus 로고
    • Pathogenesis of Escherichia coli diarrhea
    • DuPont HL, et al. (1971) Pathogenesis of Escherichia coli diarrhea. N Engl J Med 285: 1-9.
    • (1971) N Engl J Med , vol.285 , pp. 1-9
    • DuPont, H.L.1
  • 24
    • 1442359901 scopus 로고    scopus 로고
    • Pulsed-field gel electrophoresis-based subtyping of DNA degradation-sensitive Salmonella enterica subsp. enterica serovar Livingstone and serovar Cerro isolates obtained from a chicken layer farm
    • DOI 10.1016/j.vetmic.2003.11.014, PII S037811350300422X
    • Murase T, Nagato M, Shirota K, Katoh H, Otsuki K (2004) Pulsed-field gel electrophoresis-based subtyping of DNA degradation-sensitive Salmonella enterica subsp. enterica serovar Livingstone and serovar Cerro isolates obtained from a chicken layer farm. Vet Microbiol 99:139-143. (Pubitemid 38281246)
    • (2004) Veterinary Microbiology , vol.99 , Issue.2 , pp. 139-143
    • Murase, T.1    Nagato, M.2    Shirota, K.3    Katoh, H.4    Otsuki, K.5
  • 26
    • 63449132936 scopus 로고    scopus 로고
    • Bermanella marisrubri gen. nov., sp. nov., a genome-sequenced gammaproteobacterium from the Red Sea
    • Pinhassi J, et al. (2009) Bermanella marisrubri gen. nov., sp. nov., a genome-sequenced gammaproteobacterium from the Red Sea. Int J Syst Evol Microbiol 59: 373-377.
    • (2009) Int J Syst Evol Microbiol , vol.59 , pp. 373-377
    • Pinhassi, J.1
  • 30
    • 0037043731 scopus 로고    scopus 로고
    • Cultivation of the ubiquitous SAR11 marine bacterioplankton clade
    • Rappé MS, Connon SA, Vergin KL, Giovannoni SJ (2002) Cultivation of the ubiquitous SAR11 marine bacterioplankton clade. Nature 418:630-633.
    • (2002) Nature , vol.418 , pp. 630-633
    • Rappé, M.S.1    Connon, S.A.2    Vergin, K.L.3    Giovannoni, S.J.4
  • 33
    • 59949093527 scopus 로고    scopus 로고
    • De novo fragment assembly with short mate-paired reads: Does the read length matter?
    • Chaisson MJ, Brinza D, Pevzner PA (2009) De novo fragment assembly with short mate-paired reads: Does the read length matter? Genome Res 19:336-346.
    • (2009) Genome Res , vol.19 , pp. 336-346
    • Chaisson, M.J.1    Brinza, D.2    Pevzner, P.A.3
  • 34
    • 77949511368 scopus 로고    scopus 로고
    • Pebble and rock band: Heuristic resolution of repeats and scaffolding in the velvet short-read de novo assembler
    • Zerbino DR, McEwen GK, Margulies EH, Birney E (2009) Pebble and rock band: heuristic resolution of repeats and scaffolding in the velvet short-read de novo assembler. PLoS ONE 4:e8407.
    • (2009) PLoS ONE , vol.4
    • Zerbino, D.R.1    McEwen, G.K.2    Margulies, E.H.3    Birney, E.4
  • 35
    • 3042666256 scopus 로고    scopus 로고
    • MUSCLE: Multiple sequence alignment with high accuracy and high throughput
    • Edgar RC (2004) MUSCLE: Multiple sequence alignment with high accuracy and high throughput. Nucleic Acids Res 32:1792-1797.
    • (2004) Nucleic Acids Res , vol.32 , pp. 1792-1797
    • Edgar, R.C.1
  • 36
    • 0242578620 scopus 로고    scopus 로고
    • A Simple, Fast, and Accurate Algorithm to Estimate Large Phylogenies by Maximum Likelihood
    • DOI 10.1080/10635150390235520
    • Guindon S, Gascuel O (2003) A simple, fast, and accurate algorithm to estimate large phylogenies by maximum likelihood. Syst Biol 52:696-704. (Pubitemid 37365050)
    • (2003) Systematic Biology , vol.52 , Issue.5 , pp. 696-704
    • Guindon, S.1    Gascuel, O.2
  • 37
    • 33845873289 scopus 로고    scopus 로고
    • Interactive Tree of Life (iTOL): An online tool for phylogenetic tree display and annotation
    • DOI 10.1093/bioinformatics/btl529
    • Letunic I, Bork P (2007) Interactive Tree Of Life (iTOL): An online tool for phylogenetic tree display and annotation. Bioinformatics 23:127-128. (Pubitemid 46017867)
    • (2007) Bioinformatics , vol.23 , Issue.1 , pp. 127-128
    • Letunic, I.1    Bork, P.2


* 이 정보는 Elsevier사의 SCOPUS DB에서 KISTI가 분석하여 추출한 것입니다.