Carbon Flux and Carbohydrate Gene Families in Pineapple
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Amor Y, Haigler CH, Johnson S, Wainscott M, Delmer DP (1995) A membrane-associated form of sucrose synthase and its potential role in synthesis of cellulose and callose in plants. Proc Natl Acad Sci U S A 92:9353–9357
Barakat A, Bagniewska-Zadworna A, Choi A, Plakkat U, DiLoreto DS, Yellanki P, Carlson JE (2009) The cinnamyl alcohol dehydrogenase gene family in Populus: phylogeny, organization, and expression. BMC Plant Biol 9:26
Barakat A, Yassin NBM, Park JS, Choi A, Herr J, Carlson JE (2011) Comparative and phylogenomic analyses of cinnamoyl-CoA reductase and cinnamoyl-CoA-reductase-like gene family in land plants. Plant Sci 181:249–257
Bowles D, Isayenkova J, Lim EK, Poppenberger B (2005) Glycosyltransferases: managers of small molecules. Current Opinion in Plant Biol 8:254–263
Burton RA, Wilson SM, Hrmova M, Harvey AJ, Shirley NJ, Medhurst A, Stone BA, Newbigin EJ, Bacic A, Fincher GB (2006) Cellulose synthase-like CslF genes mediate the synthesis of cell wall (1,3;1,4)-beta-D-glucans. Science 311:1940–1942
Cantarel BL, Coutinho PM, Rancurel C, Bernard T, Lombard V, Henrissat B (2009) The Carbohydrate-Active EnZymes database (CAZy): an expert resource for glycogenomics. Nucleic Acids Res 37:D233–D238
Cao PJ, Bartley LE, Jung KH, Ronald PC (2008) Construction of a rice glycosyltransferase phylogenomic database and identification of rice-diverged glycosyltransferases. Mol Plant 1:858–877
Capita NC, Ralph J, McCann MC (2015) The call wall. P 45–110, In. Buchanan BB, Gruissem W, Jones RL (2015) Biochemistry and Molecular Biology of Plants, 2nd Edition, American Society of Plant Biologists (Rockville, MD), Wiley Blackwell
Carpita NC (2011) Update on mechanisms of plant cell wall biosynthesis: how plants make cellulose and other (1 → 4)-β-d-glycans. Plant Physiol 155:171–184
Carpita N, Gibeaut DM (1993) Structural models of primary cell walls in flowering plants: consistency of molecular structure with physical properties of the walls during growth. Plant J 3:1–30
Chen CC, Paull RE (2000) Sugar metabolism and pineapple fruit translucency. J Am Soc Hort Sci 125:558–562
Constabel CP, Yip L, Patton JJ, Christopher ME (2000) Polyphenol oxidase from hybrid poplar. cloning and expression in response to wounding and herbivory. Plant Physiol 124:285–296
Criscuolo A, Gribaldo S (2010) BMGE (Block Mapping and Gathering with Entropy): A new software for selection of phylogenetic informative regions from multiple sequence alignments. BMC Evol Biol 10:210
Doblin MS, Pettolino FA, Wilson SM, Campbell R, Burton RA, Fincher GB, Newbigin E, Bacic A (2009) A barley cellulose synthase-like CSLH gene mediates (1,3;1,4)-β-d-glucan synthesis in transgenic Arabidopsis. Proc Natl Acad Sci U S A 106:5996–6001
Doblin MS, Pettolino F, Bacic A (2010) Plant cell walls: the skeleton of the plant world. Func Plant Biol 37:357–381
Edgar RC (2004) MUSCLE: multiple sequence alignment with high accuracy and high throughput. Nucleic Acids Res 32:1792–1797
Emanuelsson O, Nielsen H, Brunak S, Von Heijne G (2000) Predicting subcellular localization of proteins based on their N-terminal amino acid sequence. J Mol Biol 300(4):1005–1016
Emanuelsson O, Brunak S, von Heijne G, Nielsen H (2007) Locating proteins in the cell using TargetP, Signal P, and related tools. Nat Protoc 2:953–971
Fincher GB (2009) Revolutionary times in our understanding of cell wall biosynthesis and remodeling in the grasses. Plant Physiol 149:27–37
Fry SC (2004) Primary cell wall metabolism: tracking the careers of wall polymers in living plant cells. New Phytol 161:641–675
Guerriero G, Fugelstad J, Bulone V (2010) What do we really know about cellulose biosynthesis in higher plants? J Integr Plant Biol 52:161–175
Henrissat B, Coutinho PM, Davies GJ (2001) A census of carbohydrate-active enzymes in the genome of Arabidopsis thaliana. Plant Mol Biol 47:55–72
Hsieh YS, Harris PJ (2009) Xyloglucans of monocotyledons have diverse structures. Molecular Plant 2:943-965
Keegstra K, Cavalier D (2010) Glycosyltransferases of the GT34 and GT37 Families. In: Ulvskov P (ed) Annual plant reviews: plant polysaccharides, biosynthesis and bioengineering, vol 41. Blackwell Publishing, Oxford, pp 235–249
Liu L, Paulitz J, Pauly M (2015) The Presence of Fucogalactoxyloglucan and Its Synthesis in Rice Indicates Conserved Functional Importance in Plants. Plant Physiol 168:549–560
Lombard V, Golaconda Ramulu H, Drula E, Coutinho PM, Henrissat B (2014) The carbohydrate-active enzymes database (CAZy) in 2013. Nucleic Acids Res 42:D490–D495
Madden TL, Tatusov RL, Zhang J (1996) Applications of network BLAST server. Methods Enzymol 266:131–141
Ming R, Van Buren R, Wai CM, Tang H, Schatz MC, Bowers JE, et al. (2015) The pineapple genome and the evolution of CAM photosynthesis. Nat Genet 45:1435–1442
Nothnagel AL, Nothnagel E (2007) Primary cell wall structure in the evolution of land plants. J Integr Plant Biol 49:1271–1278
Park BH, Karpinets TV, Syed MH, Leuze MR, Uberbacher EC (2010) CAZymes Analysis Toolkit (CAT): web service for searching and analyzing carbohydrate-active enzymes in a newly sequenced organism using CAZy database. Glycobiology 20:1574–1584
Passardi F, Longet D, Penel C, Dunand C (2004) The class III peroxidase multigenic family in rice and its evolution in land plants. Phytochemistry 65:1879–1893
Patrick JW, Botha FC, Birch RG (2013) Metabolic engineering of sugars and simple sugar derivatives in plants. Plant Biotechnol J 11:142–156
Paull RE, Lobo M (2012) Pineapple p333–357. In: Tropical and Subtropical Fruit Processing and Packaging, Siddiq M (ed). Wiley, Ames, Iowa, USA
Popper ZA (2008) Evolution and diversity of green plant cell walls. Current Opin Plant Biol 11:286–292
Pourcel L, Routaboul JM, Cheynier V, Lepiniec L, Debeaujon I (2006) Flavonoid oxidation in plants: from biochemical properties to physiological functions. Trends Plant Sci 12:29–36
Reiter WD (2008) Biochemical genetics of nucleotide sugar interconversion reactions. Curr Opin Plant Biol 11:236–243
Ross J, Li Y, Lin EK, Bowles DJ (2001) Higher plant glycosyltransferases. Genome Biol 2:3004.1–3004.6
Routaboul JM, Cheynier V, Lepiniec L, Debeaujon I (2006) Flavonoid oxidation in plants: from biochemical properties to physiological functions. Trends Plant Sci 12:29–36
Sampedro J, Guttman M, Li L-C, Cosgrove DJ (2015) Evolutionary divergence of β–expansin structure and function in grasses parallels emergence of distinctive primary cell wall traits. Plant J 81:108–120
Sarkar P, Bosneaga E, Auer M (2009) Plant cell walls throughout evolution: towards a molecular understanding of their design principles. J Exp Bot 60:3615–3635
Schwerdt JG, MacKenzie K, Wright F, Oehme D, Wagner JM, Harvey AJ, et al. (2015) Evolutionary dynamics of the cellulose synthase gene superfamily in grasses. Plant Physiol 168:968–983
Small I, Peeters N, Legeai F, Lurin C (2004) Predotar: A tool for rapidly screening proteomes for N-terminal targeting sequences. Proteomics 4:1581–1590
Smith BG, Harris PJ (1995) Polysaccharide composition of unlignified cell walls of pineapple [Ananas comosus (L.) Merr.] fruit. Plant Physiol 107:1399–1409
Smith BG, Harris PJ (2001) Ferulic acid is esterified to glucuronoarabinoxylans in pineapple cell walls. Phytochem 56:513–519
Stamatakis A (2014) RAxML version 8: a tool for phylogenetic analysis and post-analysis of large phylogenies. Bioinformatics 30:1312–1313
Stewart RJ, Sawyer BJ, Bucheli CS, Robinson SP (2001) Polyphenol oxidase is induced by chilling and wounding in pineapple. Func Plant Biol 28:181–191
Tanaka K, Murata K, Yamazaki M, Onosato K, Miyao A, Hirochika H (2003) Three distinct rice cellulose synthase catalytic subunit genes required for cellulose synthesis in the secondary wall. Plant Physiol 133:73–83
Tompson JD, Higgins DG, Gibson TJ (1994) CLUSTAL W: improving the sensitivity of progressive multiple sequence alignment through sequence weighting, position-specific gap penalties and weight matrix choice. Nucleic Acids Res 22:4673–4680
Trethewey JA, Campbell LM, Harris PJ (2005) (1 → 3),(1 → 4)-ß-d-Glucans in the cell walls of the Poales (sensu lato): an immunogold labeling study using a monoclonal antibody. Amer J Botany 92:1660–1674.
Turlapati PV, Kim KW, Davin LB, Lewis NG (2011) The laccase multigene family in Arabidopsis thaliana: towards addressing the mystery of their gene function(s). Planta 233:439–470
Valdivia ER, Sampedro J, Lamb JC, Chopra S, Cosgrove DJ (2007) Recent proliferation and translocation of pollen group 1 allergen genes in the maize genome. Plant Physiol 143:1269–1281
Valerio L, De Meyer M, Penel C, Dunand C (2004) Expression analysis of the Arabidopsis peroxidase multigenic family. Phytochemistry 65:1331–1342
Vanholme R, Morreel K, Ralph J, Boerjan W (2008) Lignin Engineering. Curr Opin Plant Biol 11:278–285
Vanholme R, Demedts B, Morreel K, Ralph J, Boerjan W (2010) Lignin biosynthesis and structure. Plant Physiol 153:895–905
Wang YW, Wang WC, Jin SH, Wang J, Wang B, Hou BK (2012) Over-expression of a putative poplar glycosyltransferase gene, PtGT1, in tobacco increases lignin content and causes early flowering. J. Exp Bot 63:2799–2808
Willats WG, Orfila C, Limberg G, Buchholt HC, van Alebeek G-J WM, Voragen AGJ, et al. (2001) Modulation of the degree and pattern of methyl-esterification of pectic homogalacturonan in plant cell walls. Implications for pectin methyl esterase action, matrix properties, and cell adhesion. J Biol Chem 276:19404–19413