Ptr-miR397a is a negative regulator of laccase genes affecting lignin content in Populus trichocarpa

Proceedings of the National Academy of Sciences of the United States of America

Volumn 110, Issue 26, 2013, Pages 10848-10853

  Lu, Shanfa ^a   Li, Quanzi ^b,c   Wei, Hairong ^d   Chang, Mao Ju ^e   Tunlaya Anukit, Sermsawat ^b   Kim, Hoon ^f   Liu, Jie ^b   Song, Jingyuan ^a   Sun, Ying Hsuan ^g   Yuan, Lichai ^a   Yeh, Ting Feng ^e   Peszlen, Ilona ^b   Ralph, John ^f   Sederoff, Ronald R ^b   Chiang, Vincent L ^b  

^a INSTITUTE OF MEDICINAL PLANT DEVELOPMENT   (China)

^b NORTH CAROLINA STATE UNIVERSITY   (United States)

^c SHANDONG AGRICULTURAL UNIVERSITY   (China)

^d MICHIGAN TECHNOLOGICAL UNIVERSITY   (United States)

^e NATIONAL TAIWAN UNIVERSITY   (Taiwan)

^f USA   (United States)

^g NATIONAL CHUNG HSING UNIVERSITY   (Taiwan)

Author keywords

[No Author keywords available]

Indexed keywords

LACCASE; LIGNIN; MICRORNA; MICRORNA 397A; TRANSCRIPTOME; UNCLASSIFIED DRUG;

ARTICLE; DOWN REGULATION; GENE OVEREXPRESSION; GENE REGULATORY NETWORK; GENETIC TRANSCRIPTION; NONHUMAN; POPULUS TRICHOCARPA; PRIORITY JOURNAL; PROTEIN DOMAIN; RNA SEQUENCE; TRANSGENICS;

BASE SEQUENCE; DOWN-REGULATION; GENE EXPRESSION REGULATION, ENZYMOLOGIC; GENE EXPRESSION REGULATION, PLANT; GENE REGULATORY NETWORKS; GENES, PLANT; LACCASE; LIGNIN; MICRORNAS; PHYLOGENY; PLANT PROTEINS; POPULUS; RNA, PLANT;

ARABIDOPSIS; POPULUS TRICHOCARPA;

EID: 84879518951     PISSN: 00278424     EISSN: 10916490     Source Type: Journal    
DOI: 10.1073/pnas.1308936110     Document Type: Article

References (41)

1. Sarkanen K (1971) Lignin, Occurrence, Formation, Structure and Reactions, eds Sarkanen KV, Kudwig CH (Wiley-Interscience, New York), pp 95-163.
2. Chen F, Dixon RA (2007) Lignin modification improves fermentable sugar yields for biofuel production. Nat Biotechnol 25(7):759-761.
3. Chiang VL (2002) From rags to riches. Nat Biotechnol 20(6):557-558.
4. Sarkanen KV (1976) Renewable resources for the production of fuels and chemicals. Science 191(4228):773-776.
5. Higuchi T (2003) Pathways for monolignol biosynthesis via metabolic grids: Coniferyl aldehyde 5-hydroxylase, a possible key enzyme in angiosperm syringyl lignin biosynthesis. Proc Jpn Acad Ser B 79(8):227-236.
6. Freudenberg K (1959) Biosynthesis and constitution of lignin. Nature 183(4669): 1152-1155.
7. Ralph J, et al. (2004) Lignins: Natural polymers from oxidative coupling of 4-hydroxyphenyl- propanoids. Phytochem Rev 3(1-2):29-60.
8. Dean J, Eriksson K (1994) Laccase and the deposition of lignin in vascular plants. Holzforschung 48(Suppl):21-33.
9. Sato Y, Wuli B, Sederoff Rs Whetten R (2001) Molecular cloning and expression of eight laccase cDNAs in loblolly pine (pinus taeda). J Plant Res 114(2):147-155.
10. Bao W, O'malley DM, Whetten R, Sederoff RR (1993) A laccase associated with lignification in loblolly pine xylem. Science 260(5108):672-674.
11. Ranocha P, et al. (1999) Biochemical characterization, molecular cloning and expression of laccases - a divergent gene family - in poplar. Eur J Biochem 259(1-2): 485-495.
12. Ranocha P, et al. (2002) Laccase down-regulation causes alterations in phenolic metabolism and cell wall structure in poplar. Plant Physiol 129(1):145-155.
13. Berthet S, et al. (2011) Disruption of LACCASE4 and 17 results in tissue-specific alterations to lignification of Arabidopsis thaliana stems. Plant Cell 23(3):1124-1137.
14. Zhou J, Lee C, Zhong R, Ye ZH (2009) MYB58 and MYB63 are transcriptional activators of the lignin biosynthetic pathway during secondary cell wall formation in Arabidopsis. Plant Cell 21(1):248-266.
15. Lu S, Sun YH, Chiang VL (2008) Stress-responsive microRNAs in Populus. Plant J 55(1): 131-151.
16. Kozomara A, Griffiths-Jones S (2011) miRBase: Integrating microRNA annotation and deep-sequencing data. Nucleic Acids Res 39(Database issue):D152-D157.
17. Lu S, Sun YH, Chiang VL (2009) Adenylation of plant miRNAs. Nucleic Acids Res 37(6): 1878-1885.
18. Lu S, Yang C, Chiang VL (2011) Conservation and diversity of microRNA-associated copper-regulatory networks in Populus trichocarpa. J Integr Plant Biol 53(11): 879-891.
19. Jones-Rhoades MW, Bartel DP (2004) Computational identification of plant micro- RNAs and their targets, including a stress-induced miRNA. Mol Cell 14(6):787-799.
20. Zhukhlistova NE, Zhukova YN, Lyashenko AV, Zaitsev VN, Mikhailov AM (2008) Threedimensional organization of three-domain copper oxidases: A review. Crystallogr Rep 53(1):92-109.
21. Dai X, Zhuang Z, Zhao PX (2011) Computational analysis of miRNA targets in plants: Current status and challenges. Brief Bioinform 12(2):115-121.
22. Lu S, et al. (2005) Novel and mechanical stress-responsive MicroRNAs in Populus trichocarpa that are absent from Arabidopsis. Plant Cell 17(8):2186-2203.
23. Song J, Lu S, Chen ZZ, Lourenco R, Chiang VL (2006) Genetic transformation of Populus trichocarpa genotype Nisqually-1: A functional genomic tool for woody plants. Plant Cell Physiol 47(11):1582-1589.
24. Balakshin M, Capanema E, Gracz H, Chang HM, Jameel H (2011) Quantification of lignin-carbohydrate linkages with high-resolution NMR spectroscopy. Planta 233(6): 1097-1110.
25. Kim H, Ralph J (2010) Solution-state 2D NMR of ball-milled plant cell wall gels in DMSO-d(6)/pyridine-d(5). Org Biomol Chem 8(3):576-591.
26. Ralph J, Landucci LL (2010) Lignin and Lignans: Advances in Chemistry, eds Heitner C, Dimmel DR, Schmidt JA (CRC Press, Boca Raton, FL), pp 137-234.
27. Robinson MD, McCarthy DJ, Smyth GK (2010) edgeR: A Bioconductor package for differential expression analysis of digital gene expression data. Bioinformatics 26(1): 139-140.
28. Shi R, et al. (2010) Towards a systems approach for lignin biosynthesis in Populus trichocarpa: transcript abundance and specificity of the monolignol biosynthetic genes. Plant Cell Physiol 51(1):144-163.
29. Wei H, et al. (2013) Global transcriptomic profiling of aspen trees under elevated [CO2] to identify potential molecular mechanisms responsible for enhanced radial growth. J Plant Res 126(2):305-320.
30. Li Q, et al. (2012) Splice variant of the SND1 transcription factor is a dominant negative of SND1 members and their regulation in Populus trichocarpa. Proc Natl Acad Sci USA 109(36):14699-14704.
31. Ko JH, Kim WC, Han KH (2009) Ectopic expression of MYB46 identifies transcriptional regulatory genes involved in secondary wall biosynthesis in Arabidopsis. Plant J 60(4): 649-665.
32. Kim WC, Ko JH, Han KH (2012) Identification of a cis-acting regulatory motif recognized by MYB46, a master transcriptional regulator of secondary wall biosynthesis. Plant Mol Biol 78(4-5):489-501.
33. Hiraga S, Sasaki K, Ito H, Ohashi Y, Matsui H (2001) A large family of class III plant peroxidases. Plant Cell Physiol 42(5):462-468.
34. Blee KA, et al. (2003) A lignin-specific peroxidase in tobacco whose antisense suppression leads to vascular tissue modification. Phytochemistry 64(1):163-176.
35. Li Y, Kajita S, Kawai S, Katayama Y, Morohoshi N (2003) Down-regulation of an anionic peroxidase in transgenic aspen and its effect on lignin characteristics. J Plant Res 116(3):175-182.
36. Solomon EI, Sundaram UM, Machonkin TE (1996) Multicopper oxidases and oxygenases. Chem Rev 96(7):2563-2606.
37. Wong M, Bradshaw A (1982) A comparison of the toxicity of heavy metals, using root elongation of rye grass, lolium perenne. New Phytol 91(2):255-261.
38. Arredondo M, Núñez MT (2005) Iron and copper metabolism. Mol Aspects Med 26(4-5):313-327.
39. Zhang H, Xia Y, Wang G, Shen Z (2008) Excess copper induces accumulation of hydrogen peroxide and increases lipid peroxidation and total activity of copper-zinc superoxide dismutase in roots of Elsholtzia haichowensis. Planta 227(2):465-475.
40. Chen E, Chen Y, Chen L, Liu Z (2002) Effect of copper on peroxidase activity and lignin content in raphanus sativus. Plant Physiol Biochem 40(5):439-444.
41. Robson A, Hartley R, Jarvis S (1981) Effect of copper deficiency on phenolic and other constituents of wheat cell walls. New Phytol 89(3):361-371. Research Consortium