Identification of the flavin-dependent monooxygenase-encoding YUCCA gene family in Populus trichocarpa and their expression in vegetative tissues and in response to hormone and environmental stresses

Plant Cell, Tissue and Organ Culture

Volumn 97, Issue 3, 2009, Pages 271-283

  Ye, Xia ^a   Kang, Byung Guk ^a   Osburn, Lori D ^a   Li, Yi ^b   Zong Ming, Cheng ^a  

^a UNIVERSITY OF TENNESSEE   (United States)

^b UNIVERSITY OF CONNECTICUT   (United States)

Author keywords

Auxin biosynthesis; Flavin monooxygenase; Gene expression; Populus; YUCCA

Indexed keywords

A PLANTS; ADVENTITIOUS ROOTING; APICAL DOMINANCES; ARABIDOPSIS; AUXIN BIOSYNTHESIS; ENVIRONMENTAL CUES; ENVIRONMENTAL STRESS; FLAVIN DEPENDENTS; FLAVIN MONOOXYGENASE; GENE FAMILIES; GENOME DATABASE; GROWTH AND DEVELOPMENT; MRNA LEVELS; PHYLOGENETIC GROUPS; PLANT GROWTH REGULATORS; PLANT GROWTHS; POPULUS; SEED DEVELOPMENT; SHOOT TIPS; VEGETATIVE TISSUES; YUCCA;

BIOACTIVITY; BIOCHEMICAL ENGINEERING; BIOCHEMISTRY; BIOSYNTHESIS; CELL GROWTH; GENE ENCODING; GENE EXPRESSION; HISTOLOGY; PLANT LIFE EXTENSION;

GROWTH KINETICS;

ARABIDOPSIS; POPULUS; POPULUS TRICHOCARPA;

EID: 67349278019     PISSN: 01676857     EISSN: None     Source Type: Journal    
DOI: 10.1007/s11240-009-9526-x     Document Type: Article

References (36)

1. TL Bailey N Williams C Misleh WW Li 2006 MEME: discovering and analyzing DNA and protein sequence motifs Nucleic Acids Res 34 369 373 10.1093/nar/gkl198
2. F Bao J Shen SR Brady GK Muday T Asami Z Yang 2004 Brassinosteroids interact with auxin to promote lateral root development in Arabidopsis Plant Physiol 134 1624 1631 10.1104/pp.103.036897
3. W Boerjan MT Cervera M Delarue T Beeckman W Dewitte C Bellini M Caboche HV Onckelen MV Montagu D Inze 1995 Superroot, a recessive mutation in Arabidopsis, confers auxin overproduction Plant Cell 7 1405 1419
4. AM Brunner IA Yakovlev SH Strauss 2004 Validating internal controls for quantitative plant gene expression studies BMC Plant Biol 4 14 10.1186/1471-2229-4-14
5. Y Cheng X Dai Y Zhao 2006 Auxin biosynthesis by the YUCCA flavin monooxygenases controls the formation of floral organs and vascular tissues in Arabidopsis Genes Dev 20 1790 1799 10.1101/gad.1415106
6. Y Cheng X Dai Y Zhao 2007 Auxin synthesized by the YUCCA flavin monooxygenases is essential for embryogenesis and leaf formation in Arabidopsis Plant Cell 19 2430 2439 10.1105/tpc.107.053009
7. Y Cheng G Qin X Dai Y Zhao 2007 NPY1, a BTB-NPH3-like protein, plays a critical role in auxin-regulated organogenesis in Arabidopsis Proc Natl Acad Sci USA 104 18825 18829 10.1073/pnas.0708506104
8. Davies PJ (2004) The plant hormones: their nature, occurrence, and functions. In: Davies PJ (ed) Plant hormones, biosynthesis, signal transduction, action!, 3rd edn. Kluwer Academic Publishers, Dordrecht, pp 1-15
9. M Delarue E Prinsen H Van Onckelen M Caboche C Bellini 1998 Sur2 mutations of Arabidopsis thaliana define a new locus involved in the control of auxin homeostasis Plant J 14 603 611 10.1046/j.1365-313X.1998.00163.x
10. A Dereeper V Guignon G Blanc S Audic S Buffet F Chevenet JF Dufayard S Guindon V Lefort M Lescot JM Claverie O Gascuel 2008 Phylogeny.fr: robust phylogenetic analysis for the non-specialist Nucleic Acids Res (April 19) 36 2 w465 w469
11. RC Edgar 2004 MUSCLE: multiple sequence alignment with high accuracy and high throughput Nucleic Acids Res 32 1792 1797 10.1093/nar/gkh340
12. M Frigerio D Alabadi J Perez-Gomez L Garcia-Carcel AL Phillips P Hedden MA Blazquez 2006 Transcriptional regulation of gibberellin metabolism genes by auxin signaling in Arabidopsis Plant Physiol 142 553 563 10.1104/pp.106.084871
13. K Fujino Y Matsuda K Ozawa T Nishimura T Koshiba MW Fraaije H Sekiguchi 2008 NARROW LEAF 7 controls leaf shape mediated by auxin in rice Mol Genet Genomics 279 499 507
14. K Higo Y Ugawa M Iwamoto T Korenaga 1999 Plant cis-acting regulatory DNA elements (PLACE) database: 1999 Nucleic Acids Res 27 297 300 10.1093/nar/27.1.297
15. AK Hull R Vij JL Celenza 2000 Arabidopsis cytochrome P450s that catalyze the first step of tryptophan-dependent indole-3-acetic acid biosynthesis Proc Natl Acad Sci USA 97 2379 2384 10.1073/pnas.040569997
16. JI Kim A Sharkhuu JB Jin P Li JC Jeong D Baek SY Lee JJ Blakeslee AS Murphy HJ Bohnert PM Hasegawa D-J Yun RA Bressan 2007 Yucca6, a dominant mutation in Arabidopsis, affects auxin accumulation and auxin-related phenotypes Plant Physiol 145 722 735 10.1104/pp.107.104935
17. EM Kramer 2004 PIN and AUX/LAX proteins: their role in auxin accumulation Trends Plant Sci 9 578 582 10.1016/j.tplants.2004.10.010
18. P McSteen Y Zhao 2008 Plant hormones and signaling: common themes and new developments Dev Cell 14 467 473 10.1016/j.devcel.2008.03.013
19. T Murashige F Skoog 1962 A revised medium for rapid growth and bioassay with tobacco tissue cultures Plant Physiol 15 473 497 10.1111/j.1399-3054.1962. tb08052.x
20. Normanly J, Slovin JP, Cohen JD (2004) Auxin biosynthesis. In: Davies PJ (ed) Plant hormones: biosynthesis, signal transduction, action!, 3rd edn. Kluwer Academic Publishers, Dordrecht, pp 36-62
21. C Ramakers JM Ruijter RHL Deprez AFM Moorman 2003 Assumption-free analysis of quantitative real-time PCR data Neurosci Lett 339 62 66 10.1016/S0304-3940(02)01423-4
22. JM Ruijter C Ramakers W Hoogaars O Bakker MJB van den Hoff Y Karlen AFM Moorman 2009 Amplification efficiency: linking baseline and bias in the analysis of quantitative PCR data Nucleic Acids Res 37 e45
23. M Sauer J Balla C Luschnig J Wisniewska V Reinohl J Friml E Benkova 2006 Canalization of auxin flow by Aux/IAA-ARF-dependent feedback regulation of PIN polarity Genes Dev 20 2902 2911 10.1101/gad.390806
24. R Tobena-Santamaria M Bliek K Ljung G Sandberg JNM Mol E Souer R Koes 2002 FLOOZY of petunia is a flavin mono-oxygenase-like protein required for the specification of leaf and flower architecture Genes Dev 16 753 763 10.1101/gad.219502
25. GA Tuskan S DiFazio S Jansson J Bohlmann I Grigoriev U Hellsten N Putnam S Ralph S Rombauts A Salamov J Schein L Sterck A Aerts RR Bhalerao RP Bhalerao D Blaudez W Boerjan A Brun A Brunner V Busov M Campbell J Carlson M Chalot J Chapman G-L Chen D Cooper PM Coutinho J Couturier S Covert Q Cronk R Cunningham J Davis S Degroeve A Dejardin C dePamphilis J Detter B Dirks I Dubchak S Duplessis J Ehlting B Ellis K Gendler D Goodstein M Gribskov J Grimwood A Groover L Gunter B Hamberger B Heinze Y Helariutta B Henrissat D Holligan R Holt W Huang N Islam-Faridi S Jones M Jones-Rhoades R Jorgensen C Joshi J Kangasjarvi J Karlsson C Kelleher R Kirkpatrick M Kirst A Kohler U Kalluri F Larimer J Leebens-Mack J-C Leple P Locascio Y Lou S Lucas F Martin B Montanini C Napoli DR Nelson C Nelson K Nieminen O Nilsson V Pereda G Peter R Philippe G Pilate A Poliakov J Razumovskaya P Richardson C Rinaldi K Ritland P Rouzé D Ryaboy J Schmutz J Schrader B Segerman H Shin A Siddiqui F Sterky A Terry C-J Tsai E Uberbacher P Unneberg J Vahala K Wall S Wessler G Yang T Yin C Douglas M Marra G Sandberg Y Van de Peer D Rokhsar 2006 The genome of western black cottonwood, Populus trichocarpa (Torr. & Gray ex Brayshaw) Science 313 1596 1603 10.1126/science.1128691
26. MK Udvardi T Czechowski WR Scheible 2008 Eleven golden rules of quantitative RT-PCR Plant Cell 20 1736 1737
27. J Vandesompele K De Preter F Pattyn B Poppe N Van Roy A De Paepe F Speleman 2002 Accurate normalization of real-time quantitative RT-PCR data by geometric averaging of multiple internal control genes Genome Biol 3 34.1 34.11
28. RE Voorrips 2002 MapChart: software for the graphical presentation of linkage maps and QTLs J Hered 93 77 78 10.1093/jhered/93.1.77
29. D Weiss N Ori 2007 Mechanisms of cross talk between gibberellin and other hormones Plant Physiol 144 1240 1246 10.1104/pp.107.100370
30. YM Woo HJ Park M Su'udi J-I Yang J-J Park K Back Y-M Park G An 2007 Constitutively wilted 1, a member of the rice YUCCA gene family, is required for maintaining water homeostasis and an appropriate root to shoot ratio Plant Mol Biol 65 125 136 10.1007/s11103-007-9203-6
31. AW Woodward B Bartel 2005 Auxin: regulation, action, and interaction Ann Bot (Lond) 95 707 735 10.1093/aob/mci083
32. Y Yamamoto N Kamiya Y Morinaka M Matsuoka T Sazuka 2007 Auxin biosynthesis by the YUCCA genes in rice Plant Physiol 143 1362 1371 10.1104/pp.106.091561
33. R Yokoyama K Nishitani 2001 A comprehensive expression analysis of all members of a gene family encoding cell-wall enzymes allowed us to predict cis-regulatory regions involved in cell-wall construction in specific organs of Arabidopsis Plant Cell Physiol 42 1025 1033
34. Y Zhao 2008 The role of local biosynthesis of auxin and cytokinin in plant development Curr Opin Plant Biol 11 16 22 10.1016/j.pbi.2007.10.008
35. Y Zhao SK Christensen C Fankhauser JR Cashman JD Cohen D Weigel J Chory 2001 A role for flavin monooxygenase-like enzymes in auxin biosynthesis Science 291 306 309 10.1126/science.291.5502.306
36. Y Zhao AK Hull NR Gupta KA Goss J Alonso JR Ecker J Normanly J Chory JL Celenza 2002 Trp-dependent auxin biosynthesis in Arabidopsis: involvement of cytochrome P450s CYP79B2 and CYP79B3 Genes Dev 16 3100 3112 10.1101/gad.1035402