The DUF579 domain containing proteins IRX15 and IRX15-L affect xylan synthesis in Arabidopsis

Plant Journal

Volumn 66, Issue 3, 2011, Pages 387-400

  Jensen, Jacob K ^a,b   Kim, Hoon ^b   Cocuron, Jean Christophe ^a,b   Orler, Robert ^a,b   Ralph, John ^b,c   Wilkerson, Curtis G ^a,b,d  

^a MICHIGAN STATE UNIVERSITY   (United States)

^b UNIVERSITY OF WISCONSIN MADISON   (United States)

^c University of Wisconsin Madison   (United States)

^d Michigan State University   (United States)

Author keywords

degree of polymerization; DUF579; irx; psyllium; secondary cell wall; xylan

Indexed keywords

DEGREE OF POLYMERIZATION; DUF579; IRX; PSYLLIUM; SECONDARY CELL WALL; XYLAN;

BIOCHEMISTRY; BIOSYNTHESIS; GENES; GLUCOSE; PLANTS (BOTANY); POLYMERIZATION; POLYMERS; PROTEINS; TISSUE;

CELLS;

ARABIDOPSIS PROTEIN; GLUCURONOXYLAN; XYLAN; XYLOSE;

ARABIDOPSIS; ARTICLE; BIOSYNTHESIS; CELL WALL; EXPRESSED SEQUENCE TAG; GENE EXPRESSION PROFILING; GENE EXPRESSION REGULATION; GENE INACTIVATION; GENETICS; METABOLISM; MUTATION; PLANT SEED; PLANTAGO; ULTRASTRUCTURE; XYLEM;

ARABIDOPSIS; ARABIDOPSIS PROTEINS; CELL WALL; EXPRESSED SEQUENCE TAGS; GENE EXPRESSION PROFILING; GENE EXPRESSION REGULATION, PLANT; GENE KNOCKOUT TECHNIQUES; MUTATION; PLANTAGO; SEEDS; XYLANS; XYLEM; XYLOSE;

ARABIDOPSIS; ARABIDOPSIS THALIANA; PLANTAGO OVATA; POACEAE;

EID: 79955443980     PISSN: 09607412     EISSN: 1365313X     Source Type: Journal    
DOI: 10.1111/j.1365-313X.2010.04475.x     Document Type: Article

References (53)

1. Albersheim, P., Nevins, D.J., English, P.D., and, Karr, A., (1967) A method for the analysis of sugars in plant cell wall polysaccharides by gas-liquid chromatography. Carbohydr. Res. 5, 340-345.
2. Altschul, S.F., Madden, T.L., Schäffer, A.A., Zhang, J., Zhang, Z., Miller, W., and, Lipman, D.J., (1997) Gapped BLAST and PSI-BLAST: a new generation of protein database search programs. Nucleic Acids Res. 25, 3389-3402. (Pubitemid 27359211)
3. Aspeborg, H., Schrader, J., Coutinho, P.M., et al. (2005) Carbohydrate-active enzymes involved in the secondary cell wall biogenesis in hybrid aspen. Plant Physiol. 137, 983-997. (Pubitemid 43138170)
4. Batoko, H., Zheng, H.Q., Hawes, C., and, Moore, I., (2000) A rab1 GTPase is required for transport between the endoplasmic reticulum and Golgi apparatus and for normal Golgi movement in plants. Plant Cell, 12, 2201-2218.
5. Bauer, S., Vasu, P., Persson, S., Mort, A.J., and, Somerville, C.R., (2006) Development and application of a suite of polysaccharide-degrading enzymes for analyzing plant cell walls. Proc. Natl Acad. Sci. USA, 103, 11417-11422. (Pubitemid 44156532)
6. Boevink, P., Oparka, K., Santa Cruz, S., Martin, B., Betteridge, A., and, Hawes, C., (1998) Stacks on tracks: the plant Golgi apparatus traffics on an actin/ER network. Plant J. 15, 441-447.
7. Brown, D.M., Zeef, L.A.H., Ellis, J., Goodacre, R., and, Turner, S.R., (2005) Identification of novel genes in Arabidopsis involved in secondary cell wall formation using expression profiling and reverse genetics. Plant Cell, 17, 2281-2295. (Pubitemid 41672947)
8. Brown, D.M., Goubet, F., Wong, V.W., Goodacre, R., Stephens, E., Dupree, P., and, Turner, S.R., (2007) Comparison of five xylan synthesis mutants reveals new insight into the mechanisms of xylan synthesis. Plant J. 52, 1154-1168. (Pubitemid 350231158)
9. Brown, D.M., Zhang, Z., Stephens, E., Dupree, P., and, Turner, S.R., (2009) Characterization of IRX10 and IRX10-like reveals an essential role in glucuronoxylan biosynthesis in Arabidopsis. Plant J. 57, 732-746.
10. Brown, D.M., Wightman, R., Zhang, Z., Atanassov, I., Bukowski, J.P., Tryfona, T., Dupree, P., and, Turner, S.R., (2011) IRREGULAR XYLEM (IRX15) and IRX15L encode DUF579 containing proteins that are essential for normal xylan deposition in the secondary cell wall. Plant J., DOI:10.1111/j.1365-313X.2011. 04501.x.
11. Cantarel, B.L., Coutinho, P.M., Rancurel, C., Bernard, T., Lombard, V., and, Henrissat, B., (2009) The Carbohydrate-Active EnZymes database (CAZy): an expert resource for glycogenomics. Nucleic Acids Res. 37, D233-D238.
12. Clough, S.J., and, Bent, A.F., (1998) Floral dip: a simplified method for Agrobacterium-mediated transformation of Arabidopsis thaliana. Plant J. 16, 735-743.
13. Cocuron, J.-C., Lerouxel, O., Drakakaki, G., Alonso, A.P., Liepman, A.H., Keegstra, K., Raikhel, N., and, Wilkerson, C.G., (2007) A gene from the cellulose synthase-like C family encodes a beta-1,4 glucan synthase. Proc. Natl Acad. Sci. USA, 104, 8550-8555. (Pubitemid 47175525)
14. Dhugga, K., Barreiro, R., Whitten, B., et al. (2004) Guar seed beta-mannan synthase is a member of the cellulose synthase super gene family. Science, 303, 363-366. (Pubitemid 38095774)
15. Ebringerova, A., and, Heinze, T., (2000) Xylan and xylan derivatives-biopolymers with valuable properties. 1. Naturally occurring xylans structures, isolation procedures and properties. Macromol. Rapid Commun. 21, 542-556.
16. Ebringerova, A., Hromadkova, Z., and, Heinze, T., (2005) Hemicellulose. Adv. Polym. Sci. 186, 1-67.
17. Edwards, M.E., Dickson, C.A., Chengappa, S., Sidebottom, C., Gidley, M.J., and, Reid, J.S., (1999) Molecular characterisation of a membrane-bound galactosyltransferase of plant cell wall matrix polysaccharide biosynthesis. Plant J. 19, 691-697.
18. Edwards, S., Chaplin, M.F., Blackwood, A.D., and, Dettmar, P.W., (2003) Primary structure of arabinoxylans of ispaghula husk and wheat bran. Proc. Nutr. Soc. 62, 217-222. (Pubitemid 36569832)
19. Finn, R.D., Mistry, J., Tate, J., et al. (2010) The Pfam protein families database. Nucleic Acids Res. 38, D211-D222.
20. Fischer, M.H., Yu, N., Gray, G.R., Ralph, J., Anderson, L., and, Marlett, J.A., (2004) The gel-forming polysaccharide of psyllium husk (Plantago ovata Forsk). Carbohydr. Res. 339, 2009-2017. (Pubitemid 38917043)
21. Freshour, G., Clay, R.P., Fuller, M.S., Albersheim, P., Darvill, A.G., and, Hahn, M.G., (1996) Developmental and tissue-specific structural alterations of the cell-wall polysaccharides of Arabidopsis thaliana roots. Plant Physiol. 110, 1413-1429. (Pubitemid 126630753)
22. Gibeaut, D.M., and, Carpita, N.C., (1994) Biosynthesis of plant cell wall polysaccharides. FASEB J. 8, 904-915. (Pubitemid 24286853)
23. Huang, X., and, Madan, A., (1999) CAP3: a DNA sequence assembly program. Genome Res. 9, 868-877. (Pubitemid 29488446)
24. Ishii, T., Konishi, T., Ono, H., and, Ohnishi-Kameyama, M., (2008) Assignment of the 1H and 13C NMR spectra of 2-aminobenzamide-labeled xylo-oligosaccharides. Carbohydr. Polym. 74, 579-589.
25. Ishii, T., Konishi, T., Yamasaki, T., Enomoto, A., Yoshida, M., Maeda, I., and, Shimizu, K., (2010) NMR characterization of acidic xylo- oligosaccharides containing two methylglucuronic acid residues from Japanese cedar and Hinoki cypress. Carbohydr. Polym. 81, 964-968.
26. 5. Org. Biomol. Chem. 8, 576-591.
27. Ko, J.-H., Beers, E.P., and, Han, K.-H., (2006) Global comparative transcriptome analysis identifies gene network regulating secondary xylem development in Arabidopsis thaliana. Mol. Genet. Genomics, 276, 517-531. (Pubitemid 44691591)
28. Krogh, A., Larsson, B., von Heijne, G., and, Sonnhammer, E.L., (2001) Predicting transmembrane protein topology with a hidden Markov model: application to complete genomes. J. Mol. Biol. 305, 567-580. (Pubitemid 33032862)
29. Kupce, E., and, Freeman, R., (2007) Compensated adiabatic inversion pulses: broadband INEPT and HSQC. J. Magn. Reson. 187, 258-265. (Pubitemid 47069017)
30. Larkin, M.A., Blackshields, G., Brown, N.P., et al. (2007) ClustalW and ClustalX version 2.0. Bioinformatics, 23, 2947-2948.
31. Lee, C., O'Neill, M.A., Tsumuraya, Y., Darvill, A.G., and, Ye, Z.-H., (2007a) The irregular xylem9 mutant is deficient in xylan xylosyltransferase activity. Plant Cell Physiol. 48, 1624-1634. (Pubitemid 350135519)
32. Lee, C., Zhong, R., Richardson, E.A., Himmelsbach, D.S., McPhail, B.T., and, Ye, Z.-H., (2007b) The PARVUS gene is expressed in cells undergoing secondary wall thickening and is essential for glucuronoxylan biosynthesis. Plant Cell Physiol. 48, 1659-1672. (Pubitemid 350262245)
33. Lee, C., Teng, Q., Huang, W., Zhong, R., and, Ye, Z.-H., (2009) The F8H glycosyltransferase is a functional paralog of FRA8 involved in glucuronoxylan biosynthesis in Arabidopsis. Plant Cell Physiol. 50, 812-827.
34. Lee, C., Teng, Q., Huang, W., Zhong, R., and, Ye, Z.-H., (2010) The Arabidopsis family GT43 glycosyltransferases form two functionally nonredundant groups essential for the elongation of glucuronoxylan backbone. Plant Physiol. 153, 526-541.
35. Marcus, S.E., Verhertbruggen, Y., Hervé, C., Ordaz-Ortiz, J.J., Farkas, V., Pedersen, H.L., Willats, W.G.T., and, Knox, J.P., (2008) Pectic homogalacturonan masks abundant sets of xyloglucan epitopes in plant cell walls. BMC Plant Biol. 8, 60.
36. McCartney, L., Marcus, S.E., and, Knox, J.P., (2005) Monoclonal antibodies to plant cell wall xylans and arabinoxylans. J. Histochem. Cytochem. 53, 543-546. (Pubitemid 40463508)
37. Mitchell, R.A.C., Dupree, P., and, Shewry, P.R., (2007) A novel bioinformatics approach identifies candidate genes for the synthesis and feruloylation of arabinoxylan. Plant Physiol. 144, 43-53. (Pubitemid 46941602)
38. Mortimer, J.C., Miles, G.P., Brown, D.M., et al. (2010) Absence of branches from xylan in Arabidopsis gux mutants reveals potential for simplification of lignocellulosic biomass. Proc. Natl Acad. Sci. USA, 107, 17409-17414.
39. Nakagawa, T., Suzuki, T., Murata, S., et al. (2007) Improved Gateway binary vectors: high-performance vectors for creation of fusion constructs in transgenic analysis of plants. Biosci. Biotechnol. Biochem. 71, 2095-2100. (Pubitemid 350113146)
40. Peña, M.J., Zhong, R., Zhou, G.-K., Richardson, E.A., O'Neill, M.A., Darvill, A.G., York, W.S., and, Ye, Z.-H., (2007) Arabidopsis irregular xylem8 and irregular xylem9: implications for the complexity of glucuronoxylan biosynthesis. Plant Cell, 19, 549-563. (Pubitemid 46941678)
41. Persson, S., Wei, H., Milne, J., Page, G.P., and, Somerville, C.R., (2005) Identification of genes required for cellulose synthesis by regression analysis of public microarray data sets. Proc. Natl Acad. Sci. USA, 102, 8633-8638. (Pubitemid 40862787)
42. Persson, S., Caffall, K.H., Freshour, G., Hilley, M.T., Bauer, S., Poindexter, P., Hahn, M.G., Mohnen, D., and, Somerville, C., (2007) The Arabidopsis irregular xylem8 mutant is deficient in glucuronoxylan and homogalacturonan, which are essential for secondary cell wall integrity. Plant Cell, 19, 237-255. (Pubitemid 46852714)
43. Schmid, M., Davison, T.S., Henz, S.R., Pape, U.J., Demar, M., Vingron, M., Schölkopf, B., Weigel, D., and, Lohmann, J.U., (2005) A gene expression map of Arabidopsis thaliana development. Nat. Genet. 37, 501-506. (Pubitemid 40617278)
44. Toufighi, K., Brady, S.M., Austin, R., Ly, E., and, Provart, N.J., (2005) The Botany Array Resource: e-Northerns, expression angling, and promoter analyses. Plant J. 43, 153-163. (Pubitemid 40962743)
45. Turner, S.R., and, Somerville, C.R., (1997) Collapsed xylem phenotype of Arabidopsis identifies mutants deficient in cellulose deposition in the secondary cell wall. Plant Cell, 9, 689-701. (Pubitemid 28104500)
46. Ubeda-Tomas, S., Edvardsson, E., Eland, C., et al. (2007) Genomic-assisted identification of genes involved in secondary growth in Arabidopsis utilising transcript profiling of poplar wood-forming tissues. Physiol. Plantarum, 129, 415-428. (Pubitemid 46072496)
47. Voinnet, O., Rivas, S., Mestre, P., and, Baulcombe, D., (2003) An enhanced transient expression system in plants based on suppression of gene silencing by the p19 protein of tomato bushy stunt virus. Plant J. 33, 949-956. (Pubitemid 36339384)
48. Wu, A.-M., Rihouey, C., Seveno, M., Hörnblad, E., Singh, S.K., Matsunaga, T., Ishii, T., Lerouge, P., and, Marchant, A., (2009) The Arabidopsis IRX10 and IRX10-LIKE glycosyltransferases are critical for glucuronoxylan biosynthesis during secondary cell wall formation. Plant J. 57, 718-731.
49. Wu, A.-M., Hornblad, E., Voxeur, A., Gerber, L., Rihouey, C., Lerouge, P., and, Marchant, A., (2010) Analysis of the Arabidopsis IRX9/IRX9-L and IRX14/IRX14-L pairs of glycosyltransferase genes reveals critical contributions to biosynthesis of the hemicellulose glucuronoxylan. Plant Physiol. 153, 542-554.
50. York, W.S., and, O'Neill, M.A., (2008) Biochemical control of xylan biosynthesis-which end is up? Curr. Opin. Plant Biol. 11, 258-265.
51. Yu, L.L., Lutterodt, H., and, Cheng, Z., (2009) Beneficial health properties of psyllium and approaches to improve its functionalities. Adv. Food Nutr. Res. 55, 193-220.
52. Zeng, W., Jiang, N., Nadella, R., Killen, T.L., Nadella, V., and, Faik, A., (2010) A glucurono(arabino)xylan synthase complex from wheat (Triticum aestivum L.) contains members of the GT43, 47, and 75 families and functions cooperatively. Plant Physiol. 154, 78-97.
53. Zhong, R., Peña, M.J., Zhou, G.-K., et al. (2005) Arabidopsis fragile fiber8, which encodes a putative glucuronyltransferase, is essential for normal secondary wall synthesis. Plant Cell, 17, 3390-3408.