A 13C isotope labeling method for the measurement of lignin metabolic flux in Arabidopsis stems

Wang, Peng; Guo, Longyun; Jaini, Rohit; Klempien, Antje; McCoy, Rachel M.; Morgan, John A.; Dudareva, Natalia; Chapple, Clint

doi:10.1186/s13007-018-0318-3

A 13C isotope labeling method for the measurement of lignin metabolic flux in Arabidopsis stems

Journal Article · Sat Jun 23 00:00:00 EDT 2018 · Plant Methods

DOI:https://doi.org/10.1186/s13007-018-0318-3· OSTI ID:1618906

Wang, Peng; Guo, Longyun; Jaini, Rohit; Klempien, Antje; McCoy, Rachel M.; ; ;

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Research Organization:: Purdue Univ., West Lafayette, IN (United States)

Sponsoring Organization:: USDOE Office of Science (SC), Biological and Environmental Research (BER); USDOE Office of Science (SC), Biological and Environmental Research (BER) (SC-23)

Grant/Contract Number:: SC0008628

OSTI ID:: 1618906

Alternate ID(s):: OSTI ID: 1499868

Journal Information:: Plant Methods, Journal Name: Plant Methods Journal Issue: 1 Vol. 14; ISSN 1746-4811

Publisher:: Springer Science + Business MediaCopyright Statement

Country of Publication:: United Kingdom

Language:: English

References (62)

Targeted Metabolomics of the Phenylpropanoid Pathway in Arabidopsis thaliana using Reversed Phase Liquid Chromatography Coupled with Tandem Mass Spectrometry : Measuring Lignin Precursors by LC-MS Jaini, Rohit; Wang, Peng; Dudareva, Natalia Phytochemical Analysis, Vol. 28, Issue 4 https://doi.org/10.1002/pca.2672	journal	February 2017
Application of Dynamic Flux Analysis in Plant Metabolic Networks Colón, Amy J. M.; Morgan, John A.; Dudareva, Natalia Plant Metabolic Networks https://doi.org/10.1007/978-0-387-78745-9_10	book	April 2008
Selectivity in xylem to phloem transfer of amino acids in fruiting shoots of white lupin (Lupinus albus L.) Sharkey, P. J.; Pate, J. S. Planta, Vol. 127, Issue 3 https://doi.org/10.1007/BF00380722	journal	January 1975
Down-regulation of the AtCCR1 gene in Arabidopsis thaliana: effects on phenotype, lignins and cell wall degradability Goujon, Thomas; Ferret, Valérie; Mila, Isabelle Planta, Vol. 217, Issue 2 https://doi.org/10.1007/s00425-003-0987-6	journal	February 2003
Redirection of the phenylpropanoid pathway to feruloyl malate in Arabidopsis mutants deficient for cinnamoyl-CoA reductase 1 Mir Derikvand, Mohammad; Sierra, Jimmy Berrio; Ruel, Katia Planta, Vol. 227, Issue 5 https://doi.org/10.1007/s00425-007-0669-x	journal	November 2007
Functional characterization of two p-coumaroyl ester 3′-hydroxylase genes from coffee tree: evidence of a candidate for chlorogenic acid biosynthesis Mahesh, Venkataramaiah; Million-Rousseau, Rachel; Ullmann, Pascaline Plant Molecular Biology, Vol. 64, Issue 1-2 https://doi.org/10.1007/s11103-007-9141-3	journal	February 2007
Strategies for metabolic flux analysis in plants using isotope labelling Roscher, Albrecht; Kruger, Nicholas J.; Ratcliffe, R. George Journal of Biotechnology, Vol. 77, Issue 1 https://doi.org/10.1016/S0168-1656(99)00209-6	journal	January 2000
Rewriting the lignin roadmap Humphreys, John M.; Chapple, Clint Current Opinion in Plant Biology, Vol. 5, Issue 3 https://doi.org/10.1016/S1369-5266(02)00257-1	journal	June 2002
Genetic manipulation of lignocellulosic biomass for bioenergy Wang, Peng; Dudareva, Natalia; Morgan, John A. Current Opinion in Chemical Biology, Vol. 29 https://doi.org/10.1016/j.cbpa.2015.08.006	journal	December 2015
Can genetic engineering of lignin deposition be accomplished without an unacceptable yield penalty? Bonawitz, Nicholas D.; Chapple, Clint Current Opinion in Biotechnology, Vol. 24, Issue 2 https://doi.org/10.1016/j.copbio.2012.11.004	journal	April 2013
Kinetic and inhibition studies of cinnamoyl-CoA reductase 1 from Arabidopsis thaliana Baltas, M.; Lapeyre, C.; Bedos-Belval, F. Plant Physiology and Biochemistry, Vol. 43, Issue 8 https://doi.org/10.1016/j.plaphy.2005.06.003	journal	August 2005
Rapid, Microscale, Acetyl Bromide-Based Method for High-Throughput Determination of Lignin Content in Arabidopsis thaliana Chang, Xue Feng; Chandra, Richard; Berleth, Thomas Journal of Agricultural and Food Chemistry, Vol. 56, Issue 16 https://doi.org/10.1021/jf800775f	journal	August 2008
Derivatization Followed by Reductive Cleavage (DFRC Method), a New Method for Lignin Analysis: Protocol for Analysis of DFRC Monomers Lu, Fachuang; Ralph, John Journal of Agricultural and Food Chemistry, Vol. 45, Issue 7 https://doi.org/10.1021/jf970258h	journal	July 1997
Metabolic networks in motion: ¹³ C‐based flux analysis Sauer, Uwe Molecular Systems Biology, Vol. 2, Issue 1 https://doi.org/10.1038/msb4100109	journal	January 2006
Disruption of Mediator rescues the stunted growth of a lignin-deficient Arabidopsis mutant Bonawitz, Nicholas D.; Kim, Jeong Im; Tobimatsu, Yuki Nature, Vol. 509, Issue 7500, p. 376-380 https://doi.org/10.1038/nature13084	journal	March 2014
Lignin modification improves fermentable sugar yields for biofuel production Chen, Fang; Dixon, Richard A. Nature Biotechnology, Vol. 25, Issue 7, p. 759-761 https://doi.org/10.1038/nbt1316	journal	June 2007
Multi-level engineering facilitates the production of phenylpropanoid compounds in tomato Zhang, Yang; Butelli, Eugenio; Alseekh, Saleh Nature Communications, Vol. 6, Issue 1 https://doi.org/10.1038/ncomms9635	journal	October 2015
Changes in secondary metabolism and deposition of an unusual lignin in the ref8 mutant of Arabidopsis Franke, Rochus; Hemm, Matthew R.; Denault, Jeff W. The Plant Journal, Vol. 30, Issue 1, p. 47-59 https://doi.org/10.1046/j.1365-313X.2002.01267.x	journal	April 2002
Membrane protein complexes catalyze both 4- and 3-hydroxylation of cinnamic acid derivatives in monolignol biosynthesis Chen, H. -C.; Li, Q.; Shuford, C. M. Proceedings of the National Academy of Sciences, Vol. 108, Issue 52 https://doi.org/10.1073/pnas.1116416109	journal	December 2011
Quantitative relationship between phenylalanine ammonia-lyase levels and phenylpropanoid accumulation in transgenic tobacco identifies a rate-determining step in natural product synthesis. Bate, N. J.; Orr, J.; Ni, W. Proceedings of the National Academy of Sciences, Vol. 91, Issue 16 https://doi.org/10.1073/pnas.91.16.7608	journal	August 1994
Lignin monomer composition is determined by the expression of a cytochrome P450-dependent monooxygenase in Arabidopsis Meyer, K.; Shirley, A. M.; Cusumano, J. C. Proceedings of the National Academy of Sciences, Vol. 95, Issue 12 https://doi.org/10.1073/pnas.95.12.6619	journal	June 1998
New routes for lignin biosynthesis defined by biochemical characterization of recombinant ferulate 5-hydroxylase, a multifunctional cytochrome P450-dependent monooxygenase Humphreys, J. M.; Hemm, M. R.; Chapple, C. Proceedings of the National Academy of Sciences, Vol. 96, Issue 18 https://doi.org/10.1073/pnas.96.18.10045	journal	August 1999
CYP98A3 from Arabidopsis thaliana Is a 3′-Hydroxylase of Phenolic Esters, a Missing Link in the Phenylpropanoid Pathway Schoch, Guillaume; Goepfert, Simon; Morant, Marc Journal of Biological Chemistry, Vol. 276, Issue 39 https://doi.org/10.1074/jbc.M104047200	journal	June 2001
Arogenate Dehydratase Isoenzymes Profoundly and Differentially Modulate Carbon Flux into Lignins Corea, Oliver R. A.; Ki, Chanyoung; Cardenas, Claudia L. Journal of Biological Chemistry, Vol. 287, Issue 14 https://doi.org/10.1074/jbc.M111.322164	journal	February 2012
Purification, Cloning, and Properties of an Acyltransferase Controlling Shikimate and Quinate Ester Intermediates in Phenylpropanoid Metabolism Hoffmann, Laurent; Maury, Stéphane; Martz, Françoise Journal of Biological Chemistry, Vol. 278, Issue 1 https://doi.org/10.1074/jbc.M209362200	journal	October 2002
Metabolic Flux Analysis of the Phenylpropanoid Pathway in Wound-Healing Potato Tuber Tissue using Stable Isotope-Labeled Tracer and LC-MS Spectroscopy Matsuda, Fumio; Morino, Keiko; Miyashita, Masahiro Plant and Cell Physiology, Vol. 44, Issue 9 https://doi.org/10.1093/pcp/pcg127	journal	September 2003
Metabolic Flux Analysis of the Phenylpropanoid Pathway in Elicitor-treated Potato Tuber Tissue Matsuda, Fumio; Morino, Keiko; Ano, Rieko Plant and Cell Physiology, Vol. 46, Issue 3 https://doi.org/10.1093/pcp/pci042	journal	March 2005
The Diurnal Project: Diurnal and Circadian Expression Profiling, Model-based Pattern Matching, and Promoter Analysis Mockler, T. C.; Michael, T. P.; Priest, H. D. Cold Spring Harbor Symposia on Quantitative Biology, Vol. 72, Issue 1 https://doi.org/10.1101/sqb.2007.72.006	journal	January 2007
Understanding in Vivo Benzenoid Metabolism in Petunia Petal Tissue Boatright, Jennifer; Negre, Florence; Chen, Xinlu Plant Physiology, Vol. 135, Issue 4 https://doi.org/10.1104/pp.104.045468	journal	July 2004
Cuticular Lipid Composition, Surface Structure, and Gene Expression in Arabidopsis Stem Epidermis Suh, Mi Chung; Samuels, A. Lacey; Jetter, Reinhard Plant Physiology, Vol. 139, Issue 4 https://doi.org/10.1104/pp.105.070805	journal	November 2005
Analysis of Metabolic Flux Phenotypes for Two Arabidopsis Mutants with Severe Impairment in Seed Storage Lipid Synthesis Lonien, Joachim; Schwender, Jörg Plant Physiology, Vol. 151, Issue 3 https://doi.org/10.1104/pp.109.144121	journal	September 2009
Down-Regulation of Kelch Domain-Containing F-Box Protein in Arabidopsis Enhances the Production of (Poly)phenols and Tolerance to Ultraviolet Radiation Zhang, Xuebin; Gou, Mingyue; Guo, Chunrong Plant Physiology, Vol. 167, Issue 2 https://doi.org/10.1104/pp.114.249136	journal	December 2014
Quantitative Multilevel Analysis of Central Metabolism in Developing Oilseeds of Oilseed Rape during in Vitro Culture Schwender, Jörg; Hebbelmann, Inga; Heinzel, Nicolas Plant Physiology, Vol. 168, Issue 3 https://doi.org/10.1104/pp.15.00385	journal	May 2015
Transport, Metabolism, and Redistribution of Xylem-Borne Amino Acids in Developing Pea Shoots Urquhart, Aileen A.; Joy, Kenneth W. Plant Physiology, Vol. 69, Issue 5 https://doi.org/10.1104/pp.69.5.1226	journal	May 1982
Nitrogen Redistribution during Grain Growth in Wheat ( Triticum aestivum L.) : IV. Development of a Quantitative Model of the Translocation of Nitrogen to the Grain Simpson, Richard J.; Lambers, Hans; Dalling, Michael J. Plant Physiology, Vol. 71, Issue 1 https://doi.org/10.1104/pp.71.1.7	journal	January 1983
¹⁴ C Tracer Evidence for Synthesis of Choline and Betaine via Phosphoryl Base Intermediates in Salinized Sugarbeet Leaves Hanson, Andrew D.; Rhodes, David Plant Physiology, Vol. 71, Issue 3 https://doi.org/10.1104/pp.71.3.692	journal	March 1983
Comparative Distribution and Metabolism of Xylem-Borne Amino Compounds and Sucrose in Shoots of Populus deltoides Vogelmann, Thomas C.; Dickson, Richard E.; Larson, Philip R. Plant Physiology, Vol. 77, Issue 2 https://doi.org/10.1104/pp.77.2.418	journal	February 1985
Molecular Phenotyping of the pal1 and pal2 Mutants of Arabidopsis thaliana Reveals Far-Reaching Consequences on Phenylpropanoid, Amino Acid, and Carbohydrate Metabolism Rohde, Antje; Morreel, Kris; Ralph, John The Plant Cell, Vol. 16, Issue 10 https://doi.org/10.1105/tpc.104.023705	journal	September 2004
Transgene-Mediated and Elicitor-Induced Perturbation of Metabolic Channeling at the Entry Point into the Phenylpropanoid Pathway Rasmussen, Susanne; Dixon, Richard A. The Plant Cell, Vol. 11, Issue 8 https://doi.org/10.1105/tpc.11.8.1537	journal	August 1999
Altered Xylem-Phloem Transfer of Amino Acids Affects Metabolism and Leads to Increased Seed Yield and Oil Content in Arabidopsis Zhang, Lizhi; Tan, Qiumin; Lee, Raymond The Plant Cell, Vol. 22, Issue 11 https://doi.org/10.1105/tpc.110.073833	journal	November 2010
Contribution of CoA Ligases to Benzenoid Biosynthesis in Petunia Flowers Klempien, Antje; Kaminaga, Yasuhisa; Qualley, Anthony The Plant Cell, Vol. 24, Issue 5 https://doi.org/10.1105/tpc.112.097519	journal	May 2012
Protein–Protein and Protein–Membrane Associations in the Lignin Pathway Bassard, Jean-Etienne; Richert, Ludovic; Geerinck, Jan The Plant Cell, Vol. 24, Issue 11 https://doi.org/10.1105/tpc.112.102566	journal	November 2012
A Systems Biology View of Responses to Lignin Biosynthesis Perturbations in Arabidopsis Vanholme, Ruben; Storme, Véronique; Vanholme, Bartel The Plant Cell, Vol. 24, Issue 9 https://doi.org/10.1105/tpc.112.102574	journal	September 2012
Metabolic Fluxes in an Illuminated Arabidopsis Rosette Szecowka, Marek; Heise, Robert; Tohge, Takayuki The Plant Cell, Vol. 25, Issue 2 https://doi.org/10.1105/tpc.112.106989	journal	February 2013
Mediator Complex Subunits MED2, MED5, MED16, and MED23 Genetically Interact in the Regulation of Phenylpropanoid Biosynthesis Dolan, Whitney L.; Dilkes, Brian P.; Stout, Jake M. The Plant Cell, Vol. 29, Issue 12 https://doi.org/10.1105/tpc.17.00282	journal	December 2017
An Arabidopsis mutant defective in the general phenylpropanoid pathway. Chapple, C. C.; Vogt, T.; Ellis, B. E. The Plant Cell, Vol. 4, Issue 11 https://doi.org/10.1105/tpc.4.11.1413	journal	November 1992
Measuring multiple fluxes through plant metabolic networks Ratcliffe, R. G.; Shachar-Hill, Y. The Plant Journal, Vol. 45, Issue 4 https://doi.org/10.1111/j.1365-313X.2005.02649.x	journal	February 2006
Estimation of metabolic fluxes, expression levels and metabolite dynamics of a secondary metabolic pathway in potato using label pulse-feeding experiments combined with kinetic network modelling and simulation: Method for metabolic flux and control analysis Heinzle, Elmar; Matsuda, Fumio; Miyagawa, Hisashi The Plant Journal, Vol. 50, Issue 1 https://doi.org/10.1111/j.1365-313X.2007.03037.x	journal	March 2007
Improvement of biomass through lignin modification Li, Xu; Weng, Jing-Ke; Chapple, Clint The Plant Journal, Vol. 54, Issue 4 https://doi.org/10.1111/j.1365-313X.2008.03457.x	journal	May 2008
Cell-wall carbohydrates and their modification as a resource for biofuels Pauly, Markus; Keegstra, Kenneth The Plant Journal, Vol. 54, Issue 4, p. 559-568 https://doi.org/10.1111/j.1365-313X.2008.03463.x	journal	May 2008
Mutations in the cinnamate 4-hydroxylase gene impact metabolism, growth and development in Arabidopsis: Arabidopsis C4H mutants Schilmiller, Anthony L.; Stout, Jake; Weng, Jing-Ke The Plant Journal, Vol. 60, Issue 5 https://doi.org/10.1111/j.1365-313X.2009.03996.x	journal	December 2009
The genetic control of lignin deposition during plant growth and development: Tansley review Rogers, Louisa A.; Campbell, Malcolm M. New Phytologist, Vol. 164, Issue 1 https://doi.org/10.1111/j.1469-8137.2004.01143.x	journal	July 2004
Caffeoyl Shikimate Esterase (CSE) Is an Enzyme in the Lignin Biosynthetic Pathway in Arabidopsis Vanholme, R.; Cesarino, I.; Rataj, K. Science, Vol. 341, Issue 6150 https://doi.org/10.1126/science.1241602	journal	August 2013
Metabolism of Phenylpropanoid Compounds in Salvia: ii. Biosynthesis of Phenolic Cinnamic Acids McCalla, D. R.; Neish, A. C. Canadian Journal of Biochemistry and Physiology, Vol. 37, Issue 4 https://doi.org/10.1139/o59-057	journal	April 1959
Studies of Lignin Biosynthesis Using Isotopic Carbon: xii. the Biosynthesis and Metabolism of Sinapic acid Higuchi, Takayoshi; Brown, Stewart A. Canadian Journal of Biochemistry and Physiology, Vol. 41, Issue 3 https://doi.org/10.1139/o63-073	journal	March 1963
The Genetics of Lignin Biosynthesis: Connecting Genotype to Phenotype Bonawitz, Nicholas D.; Chapple, Clint Annual Review of Genetics, Vol. 44, Issue 1, p. 337-363 https://doi.org/10.1146/annurev-genet-102209-163508	journal	December 2010
Lignin Biosynthesis Boerjan, Wout; Ralph, John; Baucher, Marie Annual Review of Plant Biology, Vol. 54, Issue 1, p. 519-546 https://doi.org/10.1146/annurev.arplant.54.031902.134938	journal	June 2003
Metabolic Flux Analysis in Plants: From Intelligent Design to Rational Engineering Libourel, Igor G. L.; Shachar-Hill, Yair Annual Review of Plant Biology, Vol. 59, Issue 1 https://doi.org/10.1146/annurev.arplant.58.032806.103822	journal	June 2008
Lignins Brown, S. A. Annual Review of Plant Physiology, Vol. 17, Issue 1 https://doi.org/10.1146/annurev.pp.17.060166.001255	journal	June 1966
Enzymic Controls in the Biosynthesis of Lignin and Flavonoids Hahlbrock, K.; Grisebach, H. Annual Review of Plant Physiology, Vol. 30, Issue 1 https://doi.org/10.1146/annurev.pp.30.060179.000541	journal	June 1979
Lignin biosynthesis perturbations affect secondary cell wall composition and saccharification yield in Arabidopsis thaliana Van Acker, Rebecca; Vanholme, Ruben; Storme, Véronique Biotechnology for Biofuels, Vol. 6, Article No. 46 https://doi.org/10.1186/1754-6834-6-46	journal	January 2013
Integration of a constraint-based metabolic model of Brassica napus developing seeds with 13C-metabolic flux analysis Hay, Jordan O.; Shi, Hai; Heinzel, Nicolas Frontiers in Plant Science, Vol. 5 https://doi.org/10.3389/fpls.2014.00724	journal	December 2014

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A 13C isotope labeling method for the measurement of lignin metabolic flux in Arabidopsis stems

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