Published November 30, 2020 | Version v1

Detection of candidate proteins in the indican biosynthetic pathway of Persicaria tinctoria (Polygonum tinctorium) using protein-protein interactions and transcriptome analyses

  • 1. * & Okayama University of Science, Department of Biochemistry, Faculty of Science, 1-1 Ridai-cho, Kita-ku, Okayama, 700-0005, Japan

Description

Inoue, Shintaro, Morita, Rihito, Kuwata, Keiko, Ishii, Kazuo, Minami, Yoshiko (2020): Detection of candidate proteins in the indican biosynthetic pathway of Persicaria tinctoria (Polygonum tinctorium) using protein-protein interactions and transcriptome analyses. Phytochemistry (112507) 179: 1-11, DOI: 10.1016/j.phytochem.2020.112507, URL: http://dx.doi.org/10.1016/j.phytochem.2020.112507

Files

Restricted

The record is publicly accessible, but files are restricted. <a href="https://zenodo.org/account/settings/login?next=https://zenodo.org/records/8293300">Log in</a> to check if you have access.

Linked records

Additional details

Identifiers

LSID
urn:lsid:plazi.org:pub:FFE46341FFC9FFC8CB79DA2D4854FC7D

References

  • Audic, S., Claverie, J.M., 1997. The significance of digital gene expression profiles. Genome Res. 7 (10), 986-995. https://doi.org/10.1101/gr.7.10.986.
  • Bak, S., Beisson, F., Bishop, G., Hamberger, B., H¨ofer, R., Paquette, S., Werck-Reichhart, D., 2011. Cytochrome P450. Arabidopsis Book 9, e0144. https://doi.org/ 10.1199/tab.0144.
  • Bassard, J.E., Richert, L., Geerinck, J., Renault, H., Duval, F., Ullmann, P., Schmitt, M., Meyer, E., Mutterer, J., Boerjan, W., Jaeger, G.D., Mely, Y., Goossens, A., Werck-Reichhart, D., 2012. Protein-protein and protein-membrane associations in the lignin pathway. Plant Cell 24 (11), 4465-4482. https://doi.org/10.1105/tpc.112.102566.
  • Bassard, J.-E., Moller, B.L., Laursen, T., 2017. Assembly of dynamic P450-mediated metabolons-order versus chaos. Curr. Mol. Bio. Rep. 3, 37-51. https://doi.org/ 10.1007/s40610-017-0053-y.
  • Frey, M., Schullehner, K., Dick, R., Fiesselmann, A., Gierl, A., 2009. Benzoxazinoid biosynthesis, a model for evolution of secondary metabolic pathways in plants. Phytochemistry 70 (15-16), 1645-1651. https://doi.org/10.1016/j. phytochem.2009.05.012.
  • Gou, M., Ran, X., Martin, D.W., Liu, C.-J., 2018. The scaffold proteins of lignin biosynthetic cytochrome P450 enzymes. Nature Plants 4 (5), 299-310. https://doi. org/10.1038/s41477-018-0142-9.
  • Hilario, E., Caulkins, B.G., Huang, Y.M.M., You, W., Chang, C.E.A., Mueller, L.J., Dunn, M.F., Fan, L., 2016. Visualizing the tunnel in tryptophan synthase with crystallography: insights into a selective filter for accommodating indole and rejecting water. Biochem. Biophys. Acta 1864 (3), 268-279. https://doi.org/ 10.1016/j.bbapap.2015.12.006.
  • Hsu, T.M., Welner, D.H., Russ, Z.N., Cervantes, B., Prathuri, R.L., Adams, P.D., Dueber, J. E., 2018. Employing a biochemical protecting group for sustainable indigo dyeing strategy. Nat. Chem. Biol. 14 (3), 256-261. https://doi.org/10.1038/ nchembio.2552.
  • Inoue, S., Morita, R., Kuwata, K., Kunieda, T., Ueda, H., Hara-Nishimura, I., Minami, Y., 2018. Tissue-specific and intracellular localization of indican synthase from Polygonum tinctorium. Plant Physiol. Biochem. 132, 138-144. https://doi.org/ 10.1016/j.plaphy.2018.08.034.
  • Jin, Z., Kim, J.H., Park, S.U., Kim, S.U., 2016. Cloning and characterization of indole synthase (INS) and a putative tryptophan synthase α- subunit (TSA) genes from Polygonum tinctorium. Plant Cell Rep. 35 (12), 2449-2459. https://doi.org/10.1007/ s00299-016-2046-3.
  • Kleczkowski, L.A., Kunz, S., Wilczynska, M., 2010. Mechanisms of UDP-glucose synthesis in plants. Crit. Rev. Plant Sci. 29 (4), 191-203. https://doi.org/10.1080/ 07352689.2010.483578.
  • Laemmli, U.K., 1970. Cleavage of structural proteins during the assembly of the head of bacteriophage T4. Nature 227 (5259), 680-685. https://doi.org/10.1038/ 227680a0.
  • Laursen, T., Borch, J., Knudesen, C., Bavishi, K., Torta, F., Martens, H.J., Silvestro, D., Hatzakis, N.S., Motawia, M.S., Hamberger, B., Moller, B.L., Bassard, J.E., 2016. Characterization of a dynamic metabolon producing the defense compound dhurrin in sorghum. Science 354 (6314), 890-893. https://doi.org/10.1126/science. aag2347.
  • Minami, Y., Kanafuji, T., Miura, K., 1996. Purification and characterization of a β- glucosidase from Polygonum tinctorium, which catalyzes preferentially the hydrolysis of indican. Biosci. Biotechnol. Biochem. 60 (1), 147-149. https://doi.org/ 10.1271/bbb.60.147.
  • Minami, Y., Takao, H., Kanafuji, T., Miura, K., Kondo, M., Hara-Nishimura, I., Nishimura, M., Matsubara, H., 1997. β- Glucosidase in the indigo plant: intracellular localization and tissue specific expression in leaves. Plant Cell Physiol. 38 (9), 1069-1074. https://doi.org/10.1093/oxfordjournals.pcp.a029273.
  • Minami, Y., Nishimura, O., Hara-Nishimura, I., Nishimura, M., Matsubara, H., 2000. Tissue and intracellular localization of indican and the purification and characterization of indican synthase from indigo plants. Plant Cell Physiol. 41 (2), 218-225. https://doi.org/10.1093/pcp/41.2.218.
  • Minami, Y., Sarangi, B.K., Thul, S.T., 2015. Transcriptome analysis for identification of indigo biosynthesis pathway genes in Polygonum tinctorium. Biologia 70 (8), 1026-1032. https://doi.org/10.1515/biolog-2015-0131.
  • Nakayama, T., Takahashi, S., Waki, T., 2019. Formation of flavonoid metabolons: functional significance of protein-protein interactions and impact on flavonoid chemodiversity. Front. Plant Sci. 10, 821. https://doi.org/10.3389/fpls.2019.00821.
  • Nelson, D., Werck-Reichhart, D., 2011. A P450-centric view of plant evolution. Plant J. 66 (1), 194-211. https://doi.org/10.1111/j.1365-313X.2011.04529.x.
  • Nielsen, K.A., Moller, B.L., 2005. Cytochrome P450s in plants. In: Montellano, P.R., Ortiz, de (Eds.), Cytochrome P450, fourth ed. Springer international Publishing, Switzerland, pp. 553-582. https://doi.org/10.1007/978-3-319-12108-6.
  • Ralston, L., Yu, O., 2006. Metabolons involving plant cytochrome P450s. Phytochemistry Rev. 5 (2), 459-472. https://doi.org/10.1007/s11101-006-9014-4.
  • Rosenfeld, J., Capdevielle, J., Guillemot, J.C., Ferrara, P., 1992. In-gel digestion of proteins for internal sequence-analysis after 1-dimensional or 2-dimensional gelelectrophoresis. Anal. Biochem. 203 (1), 173-179. https://doi.org/10.1016/0003- 2697(92)90061-b.
  • Schuhegger, R., Nafisi, M., Mansourova, M., Petersen, B.L., Olsen, C.E., Svatos, A., Halkier, B.A., Glawischnig, E., 2019. CYP71B15 (PAD3) catalyzes the final step in camalexin biosynthesis. Plant Physiol. 141 (4), 1248-1254. https://doi.org/ 10.1104/pp.106.082024.
  • Schuler, M.A., 2005. P450s in plants, insects, and their fungal pathogens. In: Montellano, P.R., Ortiz, de (Eds.), Cytochrome P450, fourth ed. Springer international Publishing, Switzerland, pp. 409-449. https://doi.org/10.1007/978-3- 319-12108-6.
  • Shishido, Y., Tomoike, F., Kimura, Y., Kuwata, K., Yano, T., Fukui, K., Fujikawa, H., Sekido, Y., Murakami-Tonami, Y., Kameda, T., Shuto, S., Abe, H., 2017. A covalent G-site inhibitor for glutathione S-transferase Pi (GSTP1-1). Chem. Commun. 53 (81), 11138-11141. https://doi.org/10.1039/c7cc05829b.
  • Tan, J., Tu, L., Deng, F., Hu, H., Nie, Y., Zhang, X., 2013. A genetic and metabolic analysis revealed that cotton fiber cell development was retarded by flavonoid naringenin. Plant Physiol. 162 (1), 86-95. https://doi.org/10.1104/pp.112.212142. Wang, B., Zhao, Q., 2018. Membrane-bound metabolons. Nature Plants 4 (5), 245-246. https://doi.org/10.1038/s41477-018-0148-3.
  • Xu, J., Wang, X.Y., Guo, W.Z., 2015. The cytochrome P450 superfamily: key players in plant development and defense. J. Integrative Agriculture 14 (9), 1673-1686. https://doi.org/10.1016/S2095-3119(14)60980-1.