Published June 30, 2021 | Version v1

Characterization of the PRODUCTION of ANTHOCYANIN PIGMENT 1 Arabidopsis dominant mutant using DLEMMA dual isotope labeling approach

  • 1. * & Department of Plant Sciences, Weizmann Institute of Science, Rehovot, 7610001, Israel

Description

Dong, Yonghui, Feldberg, Liron, Rogachev, Ilana, Aharoni, Asaph (2021): Characterization of the PRODUCTION of ANTHOCYANIN PIGMENT 1 Arabidopsis dominant mutant using DLEMMA dual isotope labeling approach. Phytochemistry (112740) 186: 1-10, DOI: 10.1016/j.phytochem.2021.112740, URL: http://dx.doi.org/10.1016/j.phytochem.2021.112740

Files

Restricted

The record is publicly accessible, but files are restricted. Log in to check if you have access.

Linked records

Additional details

Identifiers

LSID
urn:lsid:plazi.org:pub:FFCC921DFF95FFBEFF825F4AFFAF3A0F

References

  • Borevitz, J.O., Xia, Y., Blount, J., Dixon, R.A., Lamb, C., 2000. Activation tagging identifies a conserved MYB regulator of phenylpropanoid biosynthesis. Plant Cell 12, 2383-2393. https://doi.org/10.1105/tpc.12.12.2383.
  • Chen, Z.A., Fischer, L., Cox, J., Rappsilber, J., 2016. Quantitative cross-linking/mass spectrometry using isotope-labeled cross-linkers and MaxQuant. Mol. Cell. Proteomics 15, 2769-2778. https://doi.org/10.1074/mcp.M115.056481.
  • Deng, Y., Lu, S., 2017. Biosynthesis and regulation of phenylpropanoids in plants. Crit. Rev. Plant Sci. 36, 257-290. https://doi.org/10.1080/07352689.2017.1402852.
  • Dong, Y., Feldberg, L., Aharoni, A., 2019. Miso: an R package for multiple isotope labeling assisted metabolomics data analysis. Bioinformatics 35, 3524-3526. https://doi.org/10.1093/bioinformatics/btz092.
  • Doppler, M., Bueschl, C., Kluger, B., Koutnik, A., Lemmens, M., Buerstmayr, H., Rechthaler, J., Krska, R., Adam, G., Schuhmacher, R., 2019. Stable isotope-assisted plant metabolomics: combination of global and tracer-based labeling for enhanced untargeted profiling and compound annotation. Front. Plant Sci. 10, 1366. https:// doi.org/10.3389/fpls.2019.01366.
  • Feldberg, L., Dong, Y., Heinig, U., Rogachev, I., Aharoni, A., 2018. DLEMMA-MS-Imaging for identification of spatially localized metabolites and metabolic network map reconstruction. Anal. Chem. 90, 10231-10238. https://doi.org/10.1021/acs. analchem.8b01644.
  • Feldberg, L., Venger, I., Malitsky, S., Rogachev, I., Aharoni, A., 2009. Dual labeling of metabolites for metabolome analysis (DLEMMA): a new approach for the identification and relative quantification of metabolites by means of dual isotope labeling and liquid Chromatography Mass spectrometry. Anal. Chem. 81, 9257-9266. https://doi.org/10.1021/ac901495a.
  • Fraser, C.M., Chapple, C., 2011. The phenylpropanoid pathway in arabidopsis. Arabidopsis Book 9, e0152. https://doi.org/10.1199/tab.0152.
  • Kessner, D., Chambers, M., Burke, R., Agus, D., Mallick, P., 2008. ProteoWizard: open source software for rapid proteomics tools development. Bioinformatics 24, 2534-2536. https://doi.org/10.1093/bioinformatics/btn323.
  • Kluger, B., Bueschl, C., Neumann, N., Stuckler, R., Doppler, M., Chassy, A.W., Waterhouse, A.L., Rechthaler, J., Kampleitner, N., Thallinger, G.G., Adam, G., Krska, R., Schuhmacher, R., 2014. Untargeted profiling of tracer-derived metabolites using stable isotopic labeling and fast polarity-switching LC-ESI-HRMS. Anal. Chem. 86, 11533-11537. https://doi.org/10.1021/ac503290j.
  • Kurepa, J., Shull, T.E., Karunadasa, S.S., Smalle, J.A., 2018. Modulation of auxin and cytokinin responses by early steps of the phenylpropanoid pathway. BMC Plant Biol. 18, 278. https://doi.org/10.1186/s12870-018-1477-0.
  • Lee, W.J., Jeong, C.Y., Kwon, J., Van Kien, V., Lee, D., Hong, S.-W., Lee, H., 2016. Drastic anthocyanin increase in response to PAP1 overexpression in fls1 knockout mutant confers enhanced osmotic stress tolerance in Arabidopsis thaliana. Plant Cell Rep. 35, 2369-2379. https://doi.org/10.1007/s00299-016-2040-9.
  • Mahmud, T., 2007. Isotope tracer investigations of natural products biosynthesis: the discovery of novel metabolic pathways. J. Label. Compd. Radiopharm. 50, 1039-1051. https://doi.org/10.1002/jlcr.1391.
  • Matuszewski, B.K., Constanzer, M.L., Chavez-Eng, C.M., 2003. Strategies for the assessment of matrix effect in quantitative bioanalytical methods based on
  • Mitsunami, T., Nishihara, M., Galis, I., Alamgir, K.M., Hojo, Y., Fujita, K., Sasaki, N., Nemoto, K., Sawasaki, T., Arimura, G., 2014. Overexpression of the PAP1 transcription factor reveals a complex regulation of flavonoid and phenylpropanoid metabolism in nicotiana tabacum plants attacked by spodoptera litura. PloS One 9, e108849. https://doi.org/10.1371/journal.pone.0108849.
  • Nakabayashi, R., Yonekura-Sakakibara, K., Urano, K., Suzuki, M., Yamada, Y., Nishizawa, T., Matsuda, F., Kojima, M., Sakakibara, H., Shinozaki, K., Michael, A.J., Tohge, T., Yamazaki, M., Saito, K., 2014. Enhancement of oxidative and drought tolerance in Arabidopsis by overaccumulation of antioxidant flavonoids. Plant J. 77, 367-379. https://doi.org/10.1111/tpj.12388.
  • Noel, J.P., Austin, M.B., Bomati, E.K., 2005. Structure-function relationships in plant phenylpropanoid biosynthesis. Curr. Opin. Plant Biol. 8, 249-253. https://doi.org/ 10.1016/j.pbi.2005.03.013.
  • Oh, J.E., Kim, Y.H., Kim, J.H., Kwon, Y.R., Lee, H., 2011. Enhanced level of anthocyanin leads to increased salt tolerance in arabidopsis PAP1-D plants upon sucrose treatment. J. Korean Soc. Appl. Biol. Chem. 54, 79-88. https://doi.org/10.3839/ jksabc.2011.011.
  • Ouyang, J., Wang, X., Zhao, B., Wang, Y., 2005. Enhanced production of phenylethanoid glycosides by precursor feeding to cell culture of Cistanche deserticola. Process Biochem. 40, 3480-3484. https://doi.org/10.1016/j.procbio.2005.02.025.
  • Park, S.-S., Wu, W.W., Zhou, Y., Shen, R.-F., Martin, B., Maudsley, S., 2012. Effective correction of experimental errors in quantitative proteomics using stable isotope labeling by amino acids in cell culture (SILAC). J. Proteomics 75, 3720-3732. https://doi.org/10.1016/j.jprot.2012.04.035.
  • Raghavendra, S., Ramesh, C.K., Kumar, V., Moinuddin Khan, M.H., 2011. Elicitors and precursor induced effect on L-Dopa production in suspension cultures of Mucuna pruriens L. Front. Life Sci. 5, 127-133. https://doi.org/10.1080/ 21553769.2011.649188.
  • Rasmussen, S., Dixon, R.A., 1999. Transgene-mediated and elicitor-induced perturbation of metabolic channeling at the entry point into the phenylpropanoid pathway. Plant Cell 11, 1537-1551. https://doi.org/10.1105/tpc.11.8.1537.
  • Schulz, E., Tohge, T., Zuther, E., Fernie, A.R., Hincha, D.K., 2016. Flavonoids are determinants of freezing tolerance and cold acclimation in Arabidopsis thaliana. Sci. Rep. 6, 34027. https://doi.org/10.1038/srep34027.
  • Shahaf, N., Rogachev, I., Heinig, U., Meir, S., Malitsky, S., Battat, M., Wyner, H., Zheng, S., Wehrens, R., Aharoni, A., 2016. The WEIZMASS spectral library for high-confidence metabolite identification. Nat. Commun. 7, 12423. https://doi.org/ 10.1038/ncomms12423.
  • Silvestro, L., Tarcomnicu, I., Rizea, S., 2013. Matrix effects in mass spectrometry combined with separation methods - comparison HPLC, GC and discussion on methods to control these effects. In: Coelho, A.V. (Ed.), Tandem Mass Spectrometry - Molecular Characterization. InTech. https://doi.org/10.5772/55982.
  • Smith, C.A., Want, E.J., O' Maille, G., Abagyan, R., Siuzdak, G., 2006. XCMS: processing mass spectrometry data for metabolite profiling using nonlinear peak alignment, matching, and identification. Anal. Chem. 78, 779-787. https://doi.org/10.1021/ ac051437y.
  • Stelzner, J., Roemhild, R., Garibay-HernĀ“andez, A., Harbaum-Piayda, B., Mock, H.-P., Bilger, W., 2019. Hydroxycinnamic acids in sunflower leaves serve as UV-A screening pigments. Photochem. Photobiol. Sci. 18, 1649-1659. https://doi.org/ 10.1039/C8PP00440D.
  • Tohge, T., Nishiyama, Y., Hirai, M.Y., Yano, M., Nakajima, J., Awazuhara, M., Inoue, E., Takahashi, H., Goodenowe, D.B., Kitayama, M., Noji, M., Yamazaki, M., Saito, K., 2005. Functional genomics by integrated analysis of metabolome and transcriptome of Arabidopsis plants over-expressing an MYB transcription factor: metabolomics and transcriptomics. Plant J. 42, 218-235. https://doi.org/10.1111/j.1365- 313X.2005.02371.x.
  • Xiao, J.F., Zhou, B., Ressom, H.W., 2012. Metabolite identification and quantitation in LC-MS/MS-based metabolomics. Trac. Trends Anal. Chem. 32, 1-14. https://doi. org/10.1016/j.trac.2011.08.009.
  • Zhang, X., Liu, C.-J., 2015. Multifaceted regulations of gateway enzyme phenylalanine ammonia-lyase in the biosynthesis of phenylpropanoids. Mol. Plant 8, 17-27. https://doi.org/10.1016/j.molp.2014.11.001.
  • Zhou, W., Yang, S., Wang, P.G., 2017. Matrix effects and application of matrix effect factor. Bioanalysis 9, 1839-1844. https://doi.org/10.4155/bio-2017-0214.