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Volumn 194, Issue 16, 2012, Pages 4169-4177

Stable isotope peptide mass spectrometry to decipher amino acid metabolism in dehalococcoides strain CBDB1

Author keywords

[No Author keywords available]

Indexed keywords

ALANINE; AMINO ACID; ARGININE; ASPARAGINE; ASPARTIC ACID; BICARBONATE; CARBON; CITRATE SYNTHASE; CYSTEINE; FRUCTOSE BISPHOSPHATE ALDOLASE; GLUTAMIC ACID; GLUTAMINE; GLYCINE; HISTIDINE; ISOLEUCINE; LEUCINE; LYSINE; METHIONINE; OXALOACETIC ACID; PHENYLALANINE; PROLINE; PYRUVIC ACID; SERINE; THREONINE; TYROSINE; VALINE;

EID: 84866330737     PISSN: 00219193     EISSN: 10985530     Source Type: Journal    
DOI: 10.1128/JB.00049-12     Document Type: Article
Times cited : (24)

References (29)
  • 1
    • 0034735782 scopus 로고    scopus 로고
    • Bacterial dehalorespiration with chlorinated benzenes
    • Adrian L, Szewzyk U, Wecke J, Görisch H. 2000. Bacterial dehalorespiration with chlorinated benzenes. Nature 408:580-583.
    • (2000) Nature , vol.408 , pp. 580-583
    • Adrian, L.1    Szewzyk, U.2    Wecke, J.3    Görisch, H.4
  • 2
    • 78049442430 scopus 로고    scopus 로고
    • Characterizing the metabolism of Dehalococcoides with a constraint-based model
    • doi:10.1371/journal.pcbi.1000887.
    • Ahsanul Islam M, Edwards EA, Mahadevan R. 2010. Characterizing the metabolism of Dehalococcoides with a constraint-based model. PLoS Comput. Biol. 6:e100887. doi:10.1371/journal.pcbi.1000887.
    • (2010) PLoS Comput. Biol. , vol.6
    • Ahsanul Islam, M.1    Edwards, E.A.2    Mahadevan, R.3
  • 3
    • 77956511890 scopus 로고    scopus 로고
    • Systems-level metabolic flux profiling elucidates a complete, bifurcated tricarboxylic acid cycle in Clostridium acetobutylicum
    • Amador-Noguez D, et al. 2010. Systems-level metabolic flux profiling elucidates a complete, bifurcated tricarboxylic acid cycle in Clostridium acetobutylicum. J. Bacteriol. 192:4452-4461.
    • (2010) J. Bacteriol. , vol.192 , pp. 4452-4461
    • Amador-Noguez, D.1
  • 4
    • 0015962952 scopus 로고
    • Amino acid biosynthesis in the spirochete Leptospira: evidence for a novel pathway of isoleucine biosynthesis
    • Charon NW, Johnson RC, Peterson D. 1974. Amino acid biosynthesis in the spirochete Leptospira: evidence for a novel pathway of isoleucine biosynthesis. J. Bacteriol. 117:203-2011.
    • (1974) J. Bacteriol. , vol.117 , pp. 203-2011
    • Charon, N.W.1    Johnson, R.C.2    Peterson, D.3
  • 5
    • 67651241570 scopus 로고    scopus 로고
    • Characterization of the central metabolic pathways in Thermoanaerobacter sp. strain X514 via isotopomer-assisted metabolite analysis
    • Feng X, et al. 2009. Characterization of the central metabolic pathways in Thermoanaerobacter sp. strain X514 via isotopomer-assisted metabolite analysis. Appl. Environ. Microbiol. 75:5001-5008.
    • (2009) Appl. Environ. Microbiol. , vol.75 , pp. 5001-5008
    • Feng, X.1
  • 6
    • 0032924783 scopus 로고    scopus 로고
    • (R)-citramalate synthase in methanogenic archaea
    • Howell DM, Xu H, White RH. 1999. (R)-citramalate synthase in methanogenic archaea. J. Bacteriol. 181:331-333.
    • (1999) J. Bacteriol. , vol.181 , pp. 331-333
    • Howell, D.M.1    Xu, H.2    White, R.H.3
  • 7
    • 42549160544 scopus 로고    scopus 로고
    • Biochemical and phylogenetic characterization of a novel diaminopimelate biosynthesis pathway in prokaryotes identifies a diverged form of LL-diaminopimelate aminotransferase
    • Hudson AO, Gilvarg C, Leustek T. 2008. Biochemical and phylogenetic characterization of a novel diaminopimelate biosynthesis pathway in prokaryotes identifies a diverged form of LL-diaminopimelate aminotransferase. J. Bacteriol. 190:3256-3263.
    • (2008) J. Bacteriol. , vol.190 , pp. 3256-3263
    • Hudson, A.O.1    Gilvarg, C.2    Leustek, T.3
  • 8
    • 34249798717 scopus 로고    scopus 로고
    • 2 fixation pathway of the archaeon Ignicoccus hospitalis: comprehensive analysis of the central carbon metabolism
    • 2 fixation pathway of the archaeon Ignicoccus hospitalis: comprehensive analysis of the central carbon metabolism. J. Bacteriol. 189:4108-4119.
    • (2007) J. Bacteriol. , vol.189 , pp. 4108-4119
    • Jahn, U.1    Huber, H.2    Eisenreich, W.3    Hügler, M.4    Fuchs, G.5
  • 9
    • 78649957273 scopus 로고    scopus 로고
    • Protein-based stable isotope probing
    • Jehmlich N, et al. 2010. Protein-based stable isotope probing. Nat. Protoc. 5:1957-1966.
    • (2010) Nat. Protoc. , vol.5 , pp. 1957-1966
    • Jehmlich, N.1
  • 10
    • 55549089274 scopus 로고    scopus 로고
    • Protein-based stable isotope probing (protein-SIP) reveals active species within anoxic mixed cultures
    • Jehmlich N, Schmidt F, von Bergen M, Richnow HH, Vogt C. 2008. Protein-based stable isotope probing (protein-SIP) reveals active species within anoxic mixed cultures. ISME J. 2:1122-1133.
    • (2008) ISME J. , vol.2 , pp. 1122-1133
    • Jehmlich, N.1    Schmidt, F.2    von Bergen, M.3    Richnow, H.H.4    Vogt, C.5
  • 11
    • 33746930864 scopus 로고    scopus 로고
    • A uniform proteomics MS/MS analysis platform utilizing open XML file formats
    • doi:10.1038/msb4100024.
    • Keller A, Eng J, Zhang N, Li XJ, Aebersold R. 2005. A uniform proteomics MS/MS analysis platform utilizing open XML file formats. Mol. Syst. Biol. 1:2005.0017. doi:10.1038/msb4100024.
    • (2005) Mol. Syst. Biol. , vol.1
    • Keller, A.1    Eng, J.2    Zhang, N.3    Li, X.J.4    Aebersold, R.5
  • 12
    • 27144500225 scopus 로고    scopus 로고
    • Genome sequence of the chlorinated compoundrespiring bacterium Dehalococcoides species strain CBDB1
    • Kube M, et al. 2005. Genome sequence of the chlorinated compoundrespiring bacterium Dehalococcoides species strain CBDB1. Nat. Biotechnol. 23:1269-1273.
    • (2005) Nat. Biotechnol. , vol.23 , pp. 1269-1273
    • Kube, M.1
  • 13
    • 79951649442 scopus 로고    scopus 로고
    • Transformation and carbon isotope fractionation of tetra- and trichloroethene to transdichloroethene by Dehalococcoides sp. strain CBDB1
    • Marco-Urrea E, Nijenhuis I, Adrian L. 2011. Transformation and carbon isotope fractionation of tetra- and trichloroethene to transdichloroethene by Dehalococcoides sp. strain CBDB1. Environ. Sci. Technol. 45:1555-1562.
    • (2011) Environ. Sci. Technol. , vol.45 , pp. 1555-1562
    • Marco-Urrea, E.1    Nijenhuis, I.2    Adrian, L.3
  • 14
    • 80053614033 scopus 로고    scopus 로고
    • Identification and characterization of a Recitrate synthase in Dehalococcoides strain CBDB1
    • Marco-Urrea E, et al. 2011. Identification and characterization of a Recitrate synthase in Dehalococcoides strain CBDB1. J. Bacteriol. 193:5171-5178.
    • (2011) J. Bacteriol. , vol.193 , pp. 5171-5178
    • Marco-Urrea, E.1
  • 15
    • 73649122427 scopus 로고    scopus 로고
    • Localized plasticity in the streamlined genomes of vinyl chloride respiring Dehalococcoides
    • doi:10.1371/journal.pgen.1000714.
    • McMurdie PJ, et al. 2009. Localized plasticity in the streamlined genomes of vinyl chloride respiring Dehalococcoides. PLoS Genet. 5:e1000714. doi:10.1371/journal.pgen.1000714.
    • (2009) PLoS Genet. , vol.5
    • McMurdie, P.J.1
  • 16
    • 0033404080 scopus 로고    scopus 로고
    • A prokaryotic gene cluster involved in synthesis of lysine through the amino adipate pathway: a key to the evolution of amino acid biosynthesis
    • Nishida H, et al. 1999. A prokaryotic gene cluster involved in synthesis of lysine through the amino adipate pathway: a key to the evolution of amino acid biosynthesis. Genome Res. 9:1175-1183.
    • (1999) Genome Res. , vol.9 , pp. 1175-1183
    • Nishida, H.1
  • 17
    • 29244448703 scopus 로고    scopus 로고
    • Parts per million mass accuracy on an Orbitrap mass spectrometer via lock mass injection into a C-trap
    • Olsen JV, et al. 2005. Parts per million mass accuracy on an Orbitrap mass spectrometer via lock mass injection into a C-trap. Mol. Cell. Proteomics 4:2010-2021.
    • (2005) Mol. Cell. Proteomics , vol.4 , pp. 2010-2021
    • Olsen, J.V.1
  • 18
    • 79953305843 scopus 로고    scopus 로고
    • Quantitative tracking of isotope flows in proteomes of microbial communities
    • doi:10.1074/mcp.M110.006049.
    • Pan C, et al. 2011. Quantitative tracking of isotope flows in proteomes of microbial communities. Mol. Cell. Proteomics 10:M110.006049. doi:10.1074/mcp.M110.006049.
    • (2011) Mol. Cell. Proteomics , vol.10
    • Pan, C.1
  • 19
    • 41549147373 scopus 로고    scopus 로고
    • Elucidation of an alternate isoleucine biosynthesis pathway in Geobacter sulfurreducens
    • Risso C, Van Dien SJ, Orloff A, Lovley DR, Coppi MV. 2008. Elucidation of an alternate isoleucine biosynthesis pathway in Geobacter sulfurreducens. J. Bacteriol. 190:2266-2274.
    • (2008) J. Bacteriol. , vol.190 , pp. 2266-2274
    • Risso, C.1    Van Dien, S.J.2    Orloff, A.3    Lovley, D.R.4    Coppi, M.V.5
  • 20
    • 0024854674 scopus 로고
    • 13C-NMR study of acetate assimilation in Thermoproteus neutrophilus
    • Schäfer S, Paalme T, Vilu R, Fuchs G. 1989. 13C-NMR study of acetate assimilation in Thermoproteus neutrophilus. Eur. J. Biochem. 186:695-700.
    • (1989) Eur. J. Biochem. , vol.186 , pp. 695-700
    • Schäfer, S.1    Paalme, T.2    Vilu, R.3    Fuchs, G.4
  • 21
    • 19944426081 scopus 로고    scopus 로고
    • Genome sequence of the PCE-dechlorinating bacterium Dehalococcoides ethenogenes
    • Seshadri R, et al. 2005. Genome sequence of the PCE-dechlorinating bacterium Dehalococcoides ethenogenes. Science 307:105-108.
    • (2005) Science , vol.307 , pp. 105-108
    • Seshadri, R.1
  • 22
    • 0001606526 scopus 로고
    • Stable carbon isotope analysis of amino acid enantiomers by conventional isotope ratio mass spectrometry and combined gas chromatography/isotope ratio mass spectrometry
    • Silfer JA, Engel MH, Macko SA, Jumeau EJ. 1991. Stable carbon isotope analysis of amino acid enantiomers by conventional isotope ratio mass spectrometry and combined gas chromatography/isotope ratio mass spectrometry. Anal. Chem. 63:370-374.
    • (1991) Anal. Chem. , vol.63 , pp. 370-374
    • Silfer, J.A.1    Engel, M.H.2    Macko, S.A.3    Jumeau, E.J.4
  • 23
    • 77952980825 scopus 로고    scopus 로고
    • mMass 3: a cross-platform software environment for precise analysis of mass spectrometric data
    • Strohalm M, Kavan D, Nová;k P, Volný M, Havlícček V. 2010. mMass 3: a cross-platform software environment for precise analysis of mass spectrometric data. Anal. Chem. 82:4648-4651.
    • (2010) Anal. Chem. , vol.82 , pp. 4648-4651
    • Strohalm, M.1    Kavan, D.2    Nová3    k, P.4    Volný, M.5    Havlícček, V.6
  • 24
    • 67749139566 scopus 로고    scopus 로고
    • Investigation of carbon metabolism in "Dehalococcoides ethenogenes" strain 195 by use of isotopomer and transcriptomic analyses
    • Tang YJ, et al. 2009. Investigation of carbon metabolism in "Dehalococcoides ethenogenes" strain 195 by use of isotopomer and transcriptomic analyses. J. Bacteriol. 191:5224-5231.
    • (2009) J. Bacteriol. , vol.191 , pp. 5224-5231
    • Tang, Y.J.1
  • 25
    • 79956270353 scopus 로고    scopus 로고
    • Time resolved protein-based stable isotope probing (protein-SIP) analysis allows quantification of induced proteins in substrate shift experiments
    • Taubert M, et al. 2011. Time resolved protein-based stable isotope probing (protein-SIP) analysis allows quantification of induced proteins in substrate shift experiments. Proteomics 11:2265-2274.
    • (2011) Proteomics , vol.11 , pp. 2265-2274
    • Taubert, M.1
  • 26
    • 34247365096 scopus 로고    scopus 로고
    • Relative quantification of stable isotope labeled peptides using a linear ion trap-Orbitrap hybrid mass spectrometer
    • Venable JD, et al. 2007. Relative quantification of stable isotope labeled peptides using a linear ion trap-Orbitrap hybrid mass spectrometer. Anal. Chem. 79:3056-3064.
    • (2007) Anal. Chem. , vol.79 , pp. 3056-3064
    • Venable, J.D.1
  • 27
    • 60749119754 scopus 로고    scopus 로고
    • Systems biology: functional analysis of natural microbial consortia using community proteomics
    • VerBerkmoes NC, Denef VJ, Hettich RL, Banfield JF. 2009. Systems biology: functional analysis of natural microbial consortia using community proteomics. Nat. Rev. Microbiol. 7:196-205.
    • (2009) Nat. Rev. Microbiol. , vol.7 , pp. 196-205
    • VerBerkmoes, N.C.1    Denef, V.J.2    Hettich, R.L.3    Banfield, J.F.4
  • 28
    • 0036365460 scopus 로고    scopus 로고
    • Metabolic flux analysis using mass spectrometry
    • Wittmann C. 2002. Metabolic flux analysis using mass spectrometry. Adv. Biochem. Eng. Biotechnol. 74:39-64.
    • (2002) Adv. Biochem. Eng. Biotechnol. , vol.74 , pp. 39-64
    • Wittmann, C.1
  • 29
    • 83155178366 scopus 로고    scopus 로고
    • Selective utilization of exogenous amino acids by Dehalococcoides ethenogenes strain 195 and its effects on growth and dechlorination activity
    • Zhuang WQ, et al. 2011. Selective utilization of exogenous amino acids by Dehalococcoides ethenogenes strain 195 and its effects on growth and dechlorination activity. Appl. Environ. Microbiol. 77:7797-7803.
    • (2011) Appl. Environ. Microbiol. , vol.77 , pp. 7797-7803
    • Zhuang, W.Q.1


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