Arabidopsis genes IRREGULAR XYLEM (IRX15) and IRX15L encode DUF579-containing proteins that are essential for normal xylan deposition in the secondary cell wall

Plant Journal

Volumn 66, Issue 3, 2011, Pages 401-413

  Brown, David ^a,d   Wightman, Raymond ^a   Zhang, Zhinong ^b   Gomez, Leonardo D ^c   Atanassov, Ivan ^a,e   Bukowski, John Paul ^a,f   Tryfona, Theodora ^b   McQueen Mason, Simon J ^c   Dupree, Paul ^b   Turner, Simon ^a  

^a UNIVERSITY OF MANCHESTER   (United Kingdom)

^b UNIVERSITY OF CAMBRIDGE   (United Kingdom)

^c UNIVERSITY OF YORK   (United Kingdom)

^d Shell Research Ltd   (United Kingdom)

^e AGROBIOINSTITUTE   (Bulgaria)

^f UNIVERSITY OF COPENHAGEN   (Denmark)

Author keywords

Arabidopsis; DUF579; secondary cell wall; xylan; xylem

Indexed keywords

ARABIDOPSIS; DUF579; SECONDARY CELL WALL; XYLAN; XYLEM;

BIOCHEMISTRY; BIOSYNTHESIS; CELLS; GLUCOSE; TRANSMISSION ELECTRON MICROSCOPY;

GENES;

ARABIDOPSIS PROTEIN; GLYCOSYLTRANSFERASE; UDP XYLOSE PROTEIN XYLOSYLTRANSFERASE; UDP XYLOSE-PROTEIN XYLOSYLTRANSFERASE; XYLAN; XYLOSE;

ARABIDOPSIS; ARTICLE; BIOSYNTHESIS; CELL WALL; CHEMISTRY; GENE EXPRESSION REGULATION; GENETICS; GOLGI COMPLEX; METABOLISM; MUTATION; PHYLOGENY; ULTRASTRUCTURE; XYLEM;

ARABIDOPSIS; ARABIDOPSIS PROTEINS; CELL WALL; GENE EXPRESSION REGULATION, PLANT; GOLGI APPARATUS; MUTAGENESIS, INSERTIONAL; MUTATION; PENTOSYLTRANSFERASES; PHYLOGENY; XYLANS; XYLEM; XYLOSE;

ARABIDOPSIS; EUKARYOTA;

EID: 79954596273     PISSN: 09607412     EISSN: 1365313X     Source Type: Journal    
DOI: 10.1111/j.1365-313X.2011.04501.x     Document Type: Article

References (41)

1. A.G.I. (2000) Analysis of the genome sequence of the flowering plant Arabidopsis thaliana. Nature, 408, 796-815.
2. Atanassov, I.I., Pittman, J.K., and, Turner, S.R., (2009) Elucidating the mechanisms of assembly and subunit interaction of the cellulose synthase complex of Arabidopsis secondary cell walls. J. Biol. Chem. 284, 3833-3841.
3. Birnbaum, K., Shasha, D.E., Wang, J.Y., Jung, J.W., Lambert, G.M., Galbraith, D.W., and, Benfey, P.N., (2003) A gene expression map of the Arabidopsis root. Science, 302, 1956-1960. (Pubitemid 37523501)
4. Brady, S.M., Orlando, D.A., Lee, J.Y., Wang, J.Y., Koch, J., Dinneny, J.R., Mace, D., Ohler, U., and, Benfey, P.N., (2007) A high-resolution root spatiotemporal map reveals dominant expression patterns. Science, 318, 801-806. (Pubitemid 351411772)
5. 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)
6. Brown, D.M., Goubet, F., Vicky, W.W.A., 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)
7. Brown, D.M., Zhang, Z.N., 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.
8. Chen, F., and, Dixon, R.A., (2007) Lignin modification improves fermentable sugar yields for biofuel production. Nat. Biotechnol. 25, 759-761. (Pubitemid 47052188)
9. Clark, K.A., and, Krysan, P.J., (2010) Chromosomal translocations are a common phenomenon in Arabidopsis thaliana T-DNA insertion lines. Plant J. 64, 990-1001.
10. Costanzo, M., Baryshnikova, A., Bellay, J., et al. (2010) The genetic landscape of a cell. Science, 327, 425-431.
11. Crowell, E.F., Bischoff, V., Desprez, T., Rolland, A., Stierhof, Y.D., Schumacher, K., Gonneau, M., Hofte, H., and, Vernhettes, S., (2009) Pausing of golgi bodies on microtubules regulates secretion of cellulose synthase complexes in Arabidopsis. Plant Cell, 21, 1141-1154.
12. Desprez, T., Juraniec, M., Crowell, E.F., Jouy, H., Pochylova, Z., Parcy, F., Hofte, H., Gonneau, M., and, Vernhettes, S., (2007) Organization of cellulose synthase complexes involved in primary cell wall synthesis in Arabidopsis thaliana. Proc. Natl Acad. Sci. USA, 104, 15572-15577. (Pubitemid 47502958)
13. Dunkley, T.P.J., Hester, S., Shadforth, I.P., et al. (2006) Mapping the Arabidopsis organelle proteome. Proc. Natl Acad. Sci. USA, 103, 6518-6523.
14. Ebringerova, A., and, Heinze, T., (2000) Xylan and xylan derivatives-biopolymers with valuable properties naturally occurring xylans structures, procedures and properties. Macromol. Rapid Commun. 21, 542-556.
15. Finn, R.D., Mistry, J., Tate, J., et al. (2010) The Pfam protein families database. Nucleic Acids Res. 38, D211-D222.
16. Gomez, L.D., Whitehead, C., Barakate, A., Halpin, C., and, McQueen-Mason, S.J., (2010) Automated saccharification assay for determination of digestibility in plant materials. Biotechnol. Biofuels, 3, 23.
17. Grabber, J.H., (2005) How do lignin composition, structure, and cross-linking affect degradability? A review of cell wall model studies. Crop Sci. 45, 820-831. (Pubitemid 40670262)
18. Gutierrez, R., Lindeboom, J.J., Paredez, A.R., Emons, A.M.C., and, Ehrhardt, D.W., (2009) Arabidopsis cortical microtubules position cellulose synthase delivery to the plasma membrane and interact with cellulose synthase trafficking compartments. Nat. Cell Biol. 11, 797-806.
19. Lee, C.H., 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)
20. Lee, C.H., Zhong, R.Q., 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)
21. Lee, C.H., Teng, Q., Huang, W.L., Zhong, R.Q., 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.
22. Lee, C., Teng, Q., Huang, W.L., Zhong, R.Q., 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.
23. 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)
24. 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.
25. Murashige, T., and, Skoog, F., (1962) A revised medium for rapid growth and bio assays with tobacco tissue cultures. Physiol. Plant. 15, 473-480.
26. Ohashi-Ito, K., Oda, Y., and, Fukuda, H., (2010) Arabidopsis VASCULAR-RELATED NAC-DOMAIN6 directly regulates the genes that govern programmed cell death and secondary wall formation during xylem differentiation. Plant Cell, 22, 3461-3473.
27. Paredez, A.R., Somerville, C.R., and, Ehrhardt, D.W., (2006) Visualization of cellulose synthase demonstrates functional association with microtubules. Science, 312, 1491-1495. (Pubitemid 43865881)
28. 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)
29. Persson, S., Wei, H.R., 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)
30. 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)
31. Sadowski, P.G., Groen, A.J., Dupree, P., and, Lilley, K.S., (2008) Sub-cellular localization of membrane proteins. Proteomics, 8, 3991-4011.
32. Schwacke, R., Schneider, A., van der Graaff, E., Fischer, K., Catoni, E., Desimone, M., Frommer, W.B., Flugge, U.I., and, Kunze, R., (2003) ARAMEMNON, a novel database for Arabidopsis integral membrane proteins. Plant Physiol. 131, 16-26. (Pubitemid 36141203)
33. Srinivasasainagendra, V., Page, G.P., Mehta, T., Coulibaly, I., and, Loraine, A.E., (2008) CressExpress: a tool for large-scale mining of expression data from Arabidopsis. Plant Physiol. 147, 1004-1016. (Pubitemid 352844257)
34. 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)
35. Wightman, R., and, Turner, S.R., (2008) The roles of the cytoskeleton during cellulose deposition at the secondary cell wall. Plant J. 54, 794-805. (Pubitemid 351752299)
36. Wightman, R., and, Turner, S., (2010) Trafficking of the cellulose synthase complex in developing xylem vessels. Biochem. Soc. Trans. 38, 755-760.
37. Wu, A.M., Rihouey, C., Seveno, M., Hornblad, 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.
38. 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.
39. Yang, B., and, Wyman, C.E., (2004) Effect of xylan and lignin removal by batch and flowthrough pretreatment on the enzymatic digestibility of corn stover cellulose. Biotechnol. Bioeng. 86, 88-95. (Pubitemid 38339395)
40. 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.
41. Zhong, R.Q., Pena, M.J., Zhou, G.K., Nairn, C.J., Wood-Jones, A., Richardson, E.A., Morrison, W.H., Darvill, A.G., York, W.S., and, Ye, Z.H., (2005) Arabidopsis fragile fiber8, which encodes a putative glucuronyltransferase, is essential for normal secondary wall synthesis. Plant Cell, 17, 3390-3408.