메뉴 건너뛰기




Volumn 3, Issue 1, 2014, Pages 1-10

Multivariate statistical models of metabolomic data reveals different metabolite distribution patterns in isonitrosoacetophenone-elicited Nicotiana tabacum and Sorghum bicolor cells

Author keywords

HCA; Isonitrosoacetophenone; Metabolic trees; Metabolomics; Nicotiana tabacum; OPLS DA; PCA; Sorghum bicolor; SUS; UHPLC Q TOF MS

Indexed keywords


EID: 84904014565     PISSN: None     EISSN: 21931801     Source Type: Journal    
DOI: 10.1186/2193-1801-3-254     Document Type: Article
Times cited : (51)

References (51)
  • 1
    • 73349121270 scopus 로고    scopus 로고
    • Introduction to liquid chromatography - mass spectrometry instrumentation applied in plant metabolomic analyses
    • Allwood JW, Goodacre R: Introduction to liquid chromatography - mass spectrometry instrumentation applied in plant metabolomic analyses. Phytochem Anal 2010, 21: 33-47.
    • (2010) Phytochem Anal , vol.21 , pp. 33-47
    • Allwood, J.W.1    Goodacre, R.2
  • 2
    • 0033836809 scopus 로고    scopus 로고
    • Transgenic tobacco and Arabidopsis plants expressing the two multifunctional sorghum cytochrome P450 enzymes, CYP79A1 and CYP71E1, are cyanogenic and accumulate metabolites derived from intermediates
    • Bak S, Olsen CE, Halkier BA, Møller BL: Transgenic tobacco and Arabidopsis plants expressing the two multifunctional sorghum cytochrome P450 enzymes, CYP79A1 and CYP71E1, are cyanogenic and accumulate metabolites derived from intermediates. Plant Physiol 2000, 123: 1437-1448.
    • (2000) Plant Physiol , vol.123 , pp. 1437-1448
    • Bak, S.1    Olsen, C.E.2    Halkier, B.A.3    Møller, B.L.4
  • 3
    • 34249335649 scopus 로고    scopus 로고
    • OPLS discriminant analysis: combining the strengths of PLS-DA and SIMCA classification
    • Bylesj M, Rantalainen M, Cloarec O, Nicholson JK, Holmes E, Trygg J: OPLS discriminant analysis: combining the strengths of PLS-DA and SIMCA classification. J Chemomet 2006, 20: 341-351.
    • (2006) J Chemomet , vol.20 , pp. 341-351
    • Bylesj, M.1    Rantalainen, M.2    Cloarec, O.3    Nicholson, J.K.4    Holmes, E.5    Trygg, J.6
  • 4
    • 33645265985 scopus 로고    scopus 로고
    • Clustering methods and their uses in computational chemistry
    • K. B. Lipkowitz and D. B. Boyd (Eds.), UK: Wiley
    • Downs GM, Barnard JM: Clustering methods and their uses in computational chemistry. In Reviews in computational chemistry. Edited by: Lipkowitz KB, Boyd DB. UK: Wiley; 2002: 1-40.
    • (2002) Reviews in Computational Chemistry , pp. 1-40
    • Downs, G.M.1    Barnard, J.M.2
  • 5
    • 0009881556 scopus 로고
    • Characterization of a gamma-radiation induced antifungal stress metabolite in citrus peel
    • Dubery IA, Holzapfel CW, Kruger CJ, Schabort JC, van Dyk M: Characterization of a gamma-radiation induced antifungal stress metabolite in citrus peel. Phytochemistry 1988, 27: 2769-2772.
    • (1988) Phytochemistry , vol.27 , pp. 2769-2772
    • Dubery, I.A.1    Holzapfel, C.W.2    Kruger, C.J.3    Schabort, J.C.4    van Dyk, M.5
  • 6
    • 0033103852 scopus 로고    scopus 로고
    • Synthesis and evaluation of 4-(3-methyl-2 butenoxy) isonitrosoacetophenone, a radiation-induced stress metabolite in Citrus
    • Dubery IA, Louw AE, van Heerden FR: Synthesis and evaluation of 4-(3-methyl-2 butenoxy) isonitrosoacetophenone, a radiation-induced stress metabolite in Citrus. Phytochemistry 1999, 50: 983-989.
    • (1999) Phytochemistry , vol.50 , pp. 983-989
    • Dubery, I.A.1    Louw, A.E.2    van Heerden, F.R.3
  • 7
    • 18844406001 scopus 로고    scopus 로고
    • Measuring the metabolome: current analytical technologies
    • Dunn WB, Bailey NJC, Johnson HE: Measuring the metabolome: current analytical technologies. Analyst 2005, 130: 606-625.
    • (2005) Analyst , vol.130 , pp. 606-625
    • Dunn, W.B.1    Bailey, N.J.C.2    Johnson, H.E.3
  • 9
    • 14744298521 scopus 로고    scopus 로고
    • Fluorescence microplate assay for the detection of oxidative burst products in tobacco cell suspensions using 2′,7′-dichlorofluorescein
    • Gerber IB, Dubery IA: Fluorescence microplate assay for the detection of oxidative burst products in tobacco cell suspensions using 2′, 7′-dichlorofluorescein. Meth Cell Sci 2003, 25: 115-122.
    • (2003) Meth Cell Sci , vol.25 , pp. 115-122
    • Gerber, I.B.1    Dubery, I.A.2
  • 10
    • 33846055395 scopus 로고    scopus 로고
    • Metabolomics of a superorganism
    • Goodacre R: Metabolomics of a superorganism. J Nutr 2007, 137: 259-266.
    • (2007) J Nutr , vol.137 , pp. 259-266
    • Goodacre, R.1
  • 11
    • 33645070537 scopus 로고    scopus 로고
    • Plant metabolomics: from holistic hope, to hype, to hot topic
    • Hall RD: Plant metabolomics: from holistic hope, to hype, to hot topic. New Phytol 2006, 169: 453-468.
    • (2006) New Phytol , vol.169 , pp. 453-468
    • Hall, R.D.1
  • 12
    • 84856162572 scopus 로고    scopus 로고
    • Predicting the in vivo mechanism of action for drug leads using NMR metabolomics
    • Halouska S, Fenton RJ, Barletta RG, Powers R: Predicting thein vivomechanism of action for drug leads using NMR metabolomics. Am Chem Soc Chem Biol 2012, 7: 166-171.
    • (2012) Am Chem Soc Chem Biol , vol.7 , pp. 166-171
    • Halouska, S.1    Fenton, R.J.2    Barletta, R.G.3    Powers, R.4
  • 14
    • 77749320523 scopus 로고    scopus 로고
    • NMR-based metabolomic analysis of plants
    • Kim HK, Choi YH, Verpoorte R: NMR-based metabolomic analysis of plants. Nat Protocols 2010, 5: 536-549.
    • (2010) Nat Protocols , vol.5 , pp. 536-549
    • Kim, H.K.1    Choi, Y.H.2    Verpoorte, R.3
  • 16
    • 33747815789 scopus 로고    scopus 로고
    • Metabolomics: methodologies and applications in the environmental sciences
    • Lin CY, Viant MR, Tjeerdema RS: Metabolomics: methodologies and applications in the environmental sciences. J Pest Sci 2006, 31: 245-251.
    • (2006) J Pest Sci , vol.31 , pp. 245-251
    • Lin, C.Y.1    Viant, M.R.2    Tjeerdema, R.S.3
  • 18
    • 84862123535 scopus 로고    scopus 로고
    • Biotransformation of isonitrosoacetophenone (2-keto-2-phenyl-acetaldoxime) in tobacco cell suspensions
    • Madala NE, Piater LA, Steenkamp PA, Dubery IA: Biotransformation of isonitrosoacetophenone (2-keto-2-phenyl-acetaldoxime) in tobacco cell suspensions. Biotech Lett 2012, 34: 1351-1356.
    • (2012) Biotech Lett , vol.34 , pp. 1351-1356
    • Madala, N.E.1    Piater, L.A.2    Steenkamp, P.A.3    Dubery, I.A.4
  • 19
    • 84865528158 scopus 로고    scopus 로고
    • Collision energy alteration during mass spectrometric acquisition is essential to ensure unbiased metabolomic-based analyses
    • Madala NE, Steenkamp PA, Piater LA, Dubery IA: Collision energy alteration during mass spectrometric acquisition is essential to ensure unbiased metabolomic-based analyses. Analyt Bioanalyt Chem 2012, 404: 367-372.
    • (2012) Analyt Bioanalyt Chem , vol.404 , pp. 367-372
    • Madala, N.E.1    Steenkamp, P.A.2    Piater, L.A.3    Dubery, I.A.4
  • 20
    • 84897927448 scopus 로고    scopus 로고
    • Metabolomic analysis of isonitrosoacetophenone-induced perturbations in phenolic metabolism of Nicotiana tabacum cells
    • Madala NE, Steenkamp PA, Piater LA, Dubery IA: Metabolomic analysis of isonitrosoacetophenone-induced perturbations in phenolic metabolism ofNicotiana tabacumcells. Phytochemistry 2013, 94: 82-90.
    • (2013) Phytochemistry , vol.94 , pp. 82-90
    • Madala, N.E.1    Steenkamp, P.A.2    Piater, L.A.3    Dubery, I.A.4
  • 21
    • 84878376968 scopus 로고    scopus 로고
    • The short and long of it: shorter chromatographic analysis suffice for sample classification during UPLC-MS based metabolic fingerprinting
    • Madala NE, Tugizimana F, Steenkamp PA, Piater LA, Dubery IA: The short and long of it: shorter chromatographic analysis suffice for sample classification during UPLC-MS based metabolic fingerprinting. Chromatographia 2013, 75: 279-285.
    • (2013) Chromatographia , vol.75 , pp. 279-285
    • Madala, N.E.1    Tugizimana, F.2    Steenkamp, P.A.3    Piater, L.A.4    Dubery, I.A.5
  • 22
    • 78649710230 scopus 로고    scopus 로고
    • Dynamic metabolons
    • Møller BL: Dynamic metabolons. Science 2010, 330: 1328-1329.
    • (2010) Science , vol.330 , pp. 1328-1329
    • Møller, B.L.1
  • 24
    • 41749098586 scopus 로고    scopus 로고
    • Establishment of sorghum cell suspension culture system for proteomics studies
    • Ngara R, Rees J, Ndimba BK: Establishment of sorghum cell suspension culture system for proteomics studies. Afr J Biotech 2008, 7: 744-749.
    • (2008) Afr J Biotech , vol.7 , pp. 744-749
    • Ngara, R.1    Rees, J.2    Ndimba, B.K.3
  • 25
    • 0032694577 scopus 로고    scopus 로고
    • Metabonomics': understanding the metabolic responses of living systems to pathophysiological stimuli via multivariate statistical analysis of biological NMR spectroscopic data
    • Nicholson JK, Lindon JC, Holmes E: 'Metabonomics': understanding the metabolic responses of living systems to pathophysiological stimuliviamultivariate statistical analysis of biological NMR spectroscopic data. Xenobiotica 1998, 29: 1181-1189.
    • (1998) Xenobiotica , vol.29 , pp. 1181-1189
    • Nicholson, J.K.1    Lindon, J.C.2    Holmes, E.3
  • 27
    • 84857232529 scopus 로고    scopus 로고
    • A metabolomics approach to characterise and identify various Mycobacterium species
    • Olivier I, Loots DT: A metabolomics approach to characterise and identify various Mycobacterium species. J Microbiol Meth 2012, 88: 419-426.
    • (2012) J Microbiol Meth , vol.88 , pp. 419-426
    • Olivier, I.1    Loots, D.T.2
  • 28
    • 79952074453 scopus 로고    scopus 로고
    • Xenobiotic metabolism, disposition, and regulation by receptors: from biochemical phenomenon to predictors of major toxicities
    • Omiecinski CJ, Heuvel JPV, Perdew GH, Peters JM: Xenobiotic metabolism, disposition, and regulation by receptors: from biochemical phenomenon to predictors of major toxicities. Toxicol Sci 2011, 120: 49-75.
    • (2011) Toxicol Sci , vol.120 , pp. 49-75
    • Omiecinski, C.J.1    Heuvel, J.P.V.2    Perdew, G.H.3    Peters, J.M.4
  • 29
    • 33644847988 scopus 로고    scopus 로고
    • High throughput and high sensitivity LC/MS-OA-TOF and UPLC/TOF-MS for the identification of biomarkers of toxicity and disease using a metabonomics approach
    • Plumb RS, Wilson ID: High throughput and high sensitivity LC/MS-OA-TOF and UPLC/TOF-MS for the identification of biomarkers of toxicity and disease using a metabonomics approach. Abstr Am Chem Soc 2004, 228: U164.
    • (2004) Abstr Am Chem Soc , vol.228
    • Plumb, R.S.1    Wilson, I.D.2
  • 30
    • 81355135430 scopus 로고    scopus 로고
    • Combinatorial biosynthesis in plants: a review on its potential and future exploitation
    • Pollier J, Mosesab T, Goossens A: Combinatorial biosynthesis in plants: a review on its potential and future exploitation. Nat Prod Rep 2011, 28: 1897-1916.
    • (2011) Nat Prod Rep , vol.28 , pp. 1897-1916
    • Pollier, J.1    Mosesab, T.2    Goossens, A.3
  • 31
    • 0033990046 scopus 로고    scopus 로고
    • Phylogenetic analysis using PHYLIP
    • Retief JD: Phylogenetic analysis using PHYLIP. Meth Molec Biol 2000, 132: 243-258.
    • (2000) Meth Molec Biol , vol.132 , pp. 243-258
    • Retief, J.D.1
  • 32
    • 20544466649 scopus 로고    scopus 로고
    • Metabonomics in toxicology: a review
    • Robertson DG: Metabonomics in toxicology: a review. Toxicol Sci 2005, 85: 809-822.
    • (2005) Toxicol Sci , vol.85 , pp. 809-822
    • Robertson, D.G.1
  • 34
    • 33646164665 scopus 로고    scopus 로고
    • Differential display profiling of the Nicotiana response to LPS reveals elements of plant basal resistance
    • Sanabria NM, Dubery IA: Differential display profiling of theNicotianaresponse to LPS reveals elements of plant basal resistance. Biochem Biophys Res Commun 2006, 344: 1001-1007.
    • (2006) Biochem Biophys Res Commun , vol.344 , pp. 1001-1007
    • Sanabria, N.M.1    Dubery, I.A.2
  • 35
    • 85079929922 scopus 로고    scopus 로고
    • Time-resolved metabolomics reveals metabolic modulation in rice foliage
    • Sato S, Arita M, Soga T, Nishioka T, Tomita M: Time-resolved metabolomics reveals metabolic modulation in rice foliage. BMC Syst Biol 2008, 13: 1-13.
    • (2008) BMC Syst Biol , vol.13 , pp. 1-13
    • Sato, S.1    Arita, M.2    Soga, T.3    Nishioka, T.4    Tomita, M.5
  • 36
    • 84860354598 scopus 로고    scopus 로고
    • Pair-wise multicomparison and OPLS analyses of cold-acclimation phases in Siberian spruce
    • Shiryaeva L, Antti H, Schröder WP, Strimbeck R, Shiriaev AS: Pair-wise multicomparison and OPLS analyses of cold-acclimation phases in Siberian spruce. Metabolomics 2012, 8: S123-S130.
    • (2012) Metabolomics , vol.8
    • Shiryaeva, L.1    Antti, H.2    Schröder, W.P.3    Strimbeck, R.4    Shiriaev, A.S.5
  • 39
    • 79960495785 scopus 로고    scopus 로고
    • Mass spectrometry-based holistic analytical approaches for metabolite profiling in systems biology studies
    • Theodoridis H, Gika G, Wilson ID: Mass spectrometry-based holistic analytical approaches for metabolite profiling in systems biology studies. Mass Spec Rev 2011, 30: 884-906.
    • (2011) Mass Spec Rev , vol.30 , pp. 884-906
    • Theodoridis, H.1    Gika, G.2    Wilson, I.D.3
  • 40
    • 0036083139 scopus 로고    scopus 로고
    • Orthogonal projections to latent structures (O-PLS)
    • Trygg J, Wold S: Orthogonal projections to latent structures (O-PLS). J Chemomet 2002, 16: 119-128.
    • (2002) J Chemomet , vol.16 , pp. 119-128
    • Trygg, J.1    Wold, S.2
  • 41
    • 84879342954 scopus 로고    scopus 로고
    • Plant metabolomics: a new frontier in phytochemical analysis
    • Tugizimana F, Piater LA, Dubery IA: Plant metabolomics: a new frontier in phytochemical analysis. Sth Afr J Sci 2013, 109: 1-11.
    • (2013) Sth Afr J Sci , vol.109 , pp. 1-11
    • Tugizimana, F.1    Piater, L.A.2    Dubery, I.A.3
  • 42
    • 84900391000 scopus 로고    scopus 로고
    • Multi-platform metabolomic analyses of ergosterol-induced dynamic changes in Nicotiana tabacum cells
    • doi:10.1371/journal.pone.0087 846
    • Tugizimana F, Steenkamp PA, Piater LA, Dubery IA: Multi-platform metabolomic analyses of ergosterol-induced dynamic changes inNicotiana tabacumcells. PloS ONE 2014, 9: e87846. doi: 10. 1371/journal. pone. 0087 846.
    • (2014) PloS ONE , vol.9
    • Tugizimana, F.1    Steenkamp, P.A.2    Piater, L.A.3    Dubery, I.A.4
  • 43
    • 32444433438 scopus 로고    scopus 로고
    • Symbiosis of chemometrics and metabolomics: past, present, and future
    • van der Greef J, Smilde AK: Symbiosis of chemometrics and metabolomics: past, present, and future. J Chemometr 2005, 19: 376-386.
    • (2005) J Chemometr , vol.19 , pp. 376-386
    • van der Greef, J.1    Smilde, A.K.2
  • 45
    • 34047109055 scopus 로고    scopus 로고
    • Metabolomics of aquatic organisms: the new 'omics' on the block
    • Viant MR: Metabolomics of aquatic organisms: the new 'omics' on the block. Mar Ecol Progr Ser 2007, 332: 301-306.
    • (2007) Mar Ecol Progr Ser , vol.332 , pp. 301-306
    • Viant, M.R.1
  • 46
    • 84944178665 scopus 로고
    • Hierarchical grouping to optimize an objective function
    • Ward JH: Hierarchical grouping to optimize an objective function. J Am Stat Assoc 1963, 58: 236-245.
    • (1963) J Am Stat Assoc , vol.58 , pp. 236-245
    • Ward, J.H.1
  • 47
    • 27344453869 scopus 로고    scopus 로고
    • Metabolomics: from pattern recognition to biological interpretation
    • Weckwerth W, Morgenthal K: Metabolomics: from pattern recognition to biological interpretation. Drug Disc Today 2005, 10: 1551-1558.
    • (2005) Drug Disc Today , vol.10 , pp. 1551-1558
    • Weckwerth, W.1    Morgenthal, K.2
  • 50
    • 17444404226 scopus 로고    scopus 로고
    • High resolution "Ultra performance" liquid chromatography coupled to oa-TOF mass spectrometry as a tool for differential metabolic pathway profiling in functional genomic studies
    • Wilson ID, Nicholson JK, Castro-Perez J, Granger JH, Johnson KA, Smith BW, Plumb RS: High resolution "Ultra performance" liquid chromatography coupled to oa-TOF mass spectrometry as a tool for differential metabolic pathway profiling in functional genomic studies. J Proteom Res 2005, 4: 591-598.
    • (2005) J Proteom Res , vol.4 , pp. 591-598
    • Wilson, I.D.1    Nicholson, J.K.2    Castro-Perez, J.3    Granger, J.H.4    Johnson, K.A.5    Smith, B.W.6    Plumb, R.S.7
  • 51
    • 69349089454 scopus 로고    scopus 로고
    • Chemometrics and intelligent laboratory systems dimensionality reduction for metabolome data using PCA, PLS, OPLS, and RFDA with differential penalties to latent variables
    • Yamamoto H, Yamaji H, Abe Y, Harada K, Waluyo D, Fukusaki E, Kondo A, Ohno H, Fukuda H: Chemometrics and intelligent laboratory systems dimensionality reduction for metabolome data using PCA, PLS, OPLS, and RFDA with differential penalties to latent variables. Chemometr Intell Lab Syst 2009, 98: 136-142.
    • (2009) Chemometr Intell Lab Syst , vol.98 , pp. 136-142
    • Yamamoto, H.1    Yamaji, H.2    Abe, Y.3    Harada, K.4    Waluyo, D.5    Fukusaki, E.6    Kondo, A.7    Ohno, H.8    Fukuda, H.9


* 이 정보는 Elsevier사의 SCOPUS DB에서 KISTI가 분석하여 추출한 것입니다.