Genome-wide analysis of Aux/IAA genes in Vitis vinifera: Cloning and expression profiling of a grape Aux/IAA gene in response to phytohormone and abiotic stresses

Acta Physiologiae Plantarum

Volumn 35, Issue 2, 2013, Pages 365-377

  Çakir, Birsen ^a   Kiliçkaya, Ozan ^a   Olcay, Ahmet Can ^a  

^a EGE UNIVERSITY   (Turkey)

Author keywords

Abiotic stress; Aux IAA proteins; Auxin; Gene expression; Vitis vinifera

Indexed keywords

VITACEAE; VITIS; VITIS VINIFERA;

EID: 84872660775     PISSN: 01375881     EISSN: None     Source Type: Journal    
DOI: 10.1007/s11738-012-1079-7     Document Type: Article

References (70)

1. Abbas MF, Abbas JM, Abdel-Basit IO (2000) Indole-3-acetic acid concentration during fruit development in date palm (Phoenix dactylifera L. cv. Hillawi). Fruit 55: 115-118.
2. Abel S, Theologis A (1995) A polymorphic bipartite motif signals nuclear targeting of early auxin-inducible proteins related to PS-IAA4 from pea (Pisum sativum). Plant J 8: 87-96.
3. Abel S, Theologis A (1996) Early genes and auxin action. Plant Physiol 111: 9-17.
4. Abel S, Oeller PW, Theologis A (1994) Early auxin-induced genes encode short-lived nuclear proteins. Proc Natl Acad Sci 91: 326-330.
5. Abel S, Nguyen MD, Theologis A (1995) The PS-IAA4/5-like family of early auxin-inducible mRNAs in Arabidopsis thaliana. J Mol Biol 251: 533-549.
6. Ainley WM, Walker JC, Nagao RT, Key JL (1988) Sequence and characterization of two auxin-regulated genes from soybean. J Biol Chem 263: 10658-10666.
7. Altschul SF, Madden TL, Schäffer AA, Zhang J, Zhang Z, Miller W, Lipman DJ (1997) Gapped BLAST and PSI-BLAST: a new generation of protein database search programs. Nucleic Acid Res 25: 3389-3402.
8. Böttcher C, Keyzers RA, Boss PK, Davies C (2010) Sequestration of auxin by the indole-3-acetic acid-amido synthetase GH3-1 in grape berry (Vitis vinifera L.) and the proposed role of auxin conjugation during ripening. J Exp Bot 61: 3615-3625.
9. Cakir B, Agasse A, Gaillard C, Saumonneau A, Delrot S, Atanassova R (2003) A grape ASR protein involved in sugar and abscisic acid signaling. Plant Cell 15: 2165-2180.
10. Cawton DL, Morris JR (1982) Relationship of seed number and maturity to berry development, fruit maturation, hormonal changes, and uneven ripening of 'Concord' (Vitis labrusca L.) grapes. J Am Soc Hortic Sci 107: 1099-1104.
11. Dargeviciute A, Roux C, Decreux A, Sitbon F, Perrot-Rechenmann C (1998) Molecular cloning and expression of the early auxin-responsive aux/iaa gene family in Nicotiana tabacum. Plant Cell Physiol 39: 993-1002.
12. Davies PJ (2004) Plant hormones: biosynthesis, signal transduction, action!. Springer, Berlin.
13. Davies C, Böttcher C (2009) Hormonal control of grape berry ripening. In: Roubelakis-Angelakis KA (ed) Grapevine molecular physiology & biotechnology. Springer, Netherlands, pp 229-261.
14. Davies C, Robinson SP (1996) Sugar accumulation in grape berries (cloning of two putative vacuolar invertase cdnas and their expression in grapevine tissues). Plant Physiol 111: 275-283.
15. Davies C, Boss PK, Robinson SP (1997) Treatment of grape berries, a nonclimacteric fruit with a synthetic auxin, retards ripening and alters the expression of developmentally regulated genes. Plant Physiol 115: 1155-1161.
16. Dowd C, Wilson IW, McFadden H (2004) Gene expression profile changes in cotton root and hypocotyl tissues in response to infection with Fusarium oxysporum f. sp. vasinfectum. Mol Plant-Microbe Interact 17: 654-667.
17. Flagel LE, Wendel JF (2009) Gene duplication and evolutionary novelty in plants. New Phytol 183: 557-564.
18. Friml J (2003) Auxin transport-shaping the plant. Curr Opin Plant Biol 6: 7-12.
19. Garcia O, Bouige P, Forestier C, Dassa E (2004) Inventory and comparative analysis of rice and arabidopsis atp-binding cassette (abc) systems. J Mol Biol 343: 249-265.
20. Ghanashyam C, Jain M (2009) Role of auxin-responsive genes in biotic stress responses. Plant Signal Behav 4: 846-848.
21. Gray WM, Estelle M (2000) Function of the ubiquitin-proteasome pathway in auxin response. Trends Biochem Sci 25: 133-138.
22. Guilfoyle TJ (1999) Auxin-regulated genes and promoters. In: Hooykaas PJJ, Hall MA, Libbenga KR (eds) New comprehensive biochemistry: biochemistry and molecular biology of plant hormones. Elsevier, Amsterdam, pp 423-459.
23. Guilfoyle TJ, Hagen G (2001) Auxin response factors: recent advances in auxin biology. J Plant Growth Regul 10: 281-291.
24. Guilfoyle TJ, Ulmasov T, Hagen G (1998) The ARF family of transcription factors and their role in plant hormone-responsive transcription. Cell Mol Life Sci 54: 619-627.
25. Hagen G, Guilfoyle T (2002) Auxin-responsive gene expression: genes, promoters and regulatory factors. Plant Mol Biol 49: 373-385.
26. Hale C (1968) Growth and senescence of the grape berry. Aust J Agric Res 19: 939-945.
27. Hardtke CS, Ckurshumova W, Vidaurre DP, Singh SA, Stamatiou G, Tiwari SB, Hagen G, Guilfoyle TJ, Berleth T (2004) Overlapping and non-redundant functions of the Arabidopsis auxin response factors MONOPTEROS and NONPHOTOTROPIC HYPOCOTYL 4. Development 131: 1089-1100.
28. Inaba A, Ishida M, Sobajima Y (1976) Changes in endogenous hormone concentrations during berry development in relation to ripening of Delaware grapes. J Jpn Soc Hortic Sci 45: 245-252.
29. Jaillon O, Aury J, Noel B, Policriti A, Clepet C, Casagrande A, Choisne N, Aubourg S, Vitulo N, Jubin C, Vezzi A, Legeai F, Hugueney P, Dasilva C, Horner D, Mica E, Jublot D, Poulain J, Bruyère C, Billault A, Segurens B, Gouyvenoux M, Ugarte E, Cattonaro F, Anthouard V, Vico V, Del Fabbro C, Alaux M, Di Gaspero G, Dumas V, Felice N, Paillard S, Juman I, Moroldo M, Scalabrin S, Canaguier A, Le Clainche I, Malacrida G, Durand E, Pesole G, Laucou V, Chatelet P, Merdinoglu D, Delledonne M, Pezzotti M, Lecharny A, Scarpelli C, Artiguenave F, Pè M, Valle G, Morgante M, Caboche M, Adam-Blondon A, Weissenbach J, Quétier F, Wincker P (2007) The grapevine genome sequence suggests ancestral hexaploidization in major angiosperm phyla. Nature 449: 463-467.
30. Jain M, Khurana JP (2009) Transcript profiling reveals diverse roles of auxin-responsive genes during reproductive development and abiotic stress in rice. FEBS J 276: 3148-3162.
31. Jain M, Kaur N, Garg R, Thakur JK, Tyagi AK, Khurana JP (2006a) Structure and expression analysis of early auxin-responsive Aux/IAA gene family in rice (Oryza sativa). Funct Integr Genomics 6: 47-59.
32. Jain M, Kaur N, Tyagi A, Khurana J (2006b) The auxin-responsive GH3 gene family in rice (Oryza sativa). Funct Integr Genomics 6: 36-46.
33. Jain M, Tyagi AK, Khurana JP (2006c) Genome-wide analysis, evolutionary expansion, and expression of early auxin-responsive SAUR gene family in rice (Oryza sativa). Genomics 88: 360-371.
34. Jans DA (1995) The regulation of protein transport to the nucleus by phosphorylation. Biochem J 311(3): 705-716.
35. Kepinski S, Leyser O (2004) Auxin-induced SCFTIR1-Aux/IAA interaction involves stable modification of the SCFTIR1 complex. Proc Natl Acad Sci USA 101: 12381-12386.
36. Kim J, Harter K, Theologis A (1997) Protein-protein interactions among the Aux/IAA proteins. Proc Natl Acad Sci 94: 11786-11791.
37. Kim BC, Soh MS, Hong SH, Furuya M, Nam HG (1998) Photomorphogenic development of the Arabidopsis shy2-1D mutation and its interaction with phytochromes in darkness. Plant J 15: 61-68.
38. Kumar S, Nei M, Dudley J, Tamura K (2008) MEGA: a biologist-centric software for evolutionary analysis of DNA and protein sequences. Brief Bioinform 9: 299-306.
39. Leyser O (2002) Molecular genetics of auxin signaling. Annu Rev Plant Biol 53: 377-398.
40. Liscum E, Reed JW (2002) Genetics of Aux/IAA and ARF action in plant growth and development. Plant Mol Biol 49: 387-400.
41. Mishra BS, Singh M, Aggrawal P, Laxmi A (2009) Glucose and auxin signaling interaction in controlling Arabidopsis thaliana seedlings root growth and development. PLoS ONE 4: e4502.
42. Nagpal P, Walker LM, Young JC, Sonawala A, Timpte C, Estelle M, Reed JW (2000) AXR2 encodes a member of the Aux/IAA protein family. Plant Physiol 123: 563-574.
43. Osborne MA, Silver PA (1993) Nucleocytoplasmic transport in the yeast Saccharomyces Cerevisiae. Annu Rev Biochem 62: 219-254.
44. Ouellet F, Overvoorde PJ, Theologis A (2001) IAA17/AXR3: biochemical insight into an auxin mutant phenotype. Plant Cell 13: 829-842.
45. Paponov IA, Paponov M, Teale W, Menges M, Chakrabortee S, Murray JAH, Palme K (2008) Comprehensive transcriptome analysis of auxin responses in Arabidopsis. Mol Plant 1: 321-337.
46. Phillips SEV (1994) The beta-ribbon DNA recognition motif. Annu Rev Biophys Biomol Struct 23: 671-701.
47. Purgatto E, Oliveira do Nascimento JR, Lajolo FM, Cordenunsi BR (2002) The onset of starch degradation during banana ripening is concomitant to changes in the content of free and conjugated forms of indole-3-acetic acid. J Plant Physiol 159: 1105-1111.
48. Ramos J, Zenger N, Leyser O, Callis J (2001) Rapid degradation of auxin/indoleacetic acid proteins requires conserved amino acids of domain II and is proteasome dependent. Plant Cell 13: 2349-2360.
49. Reed JW (2001) Roles and activities of Aux/IAA proteins in Arabidopsis. Trends Plant Sci 6: 420-425.
50. Reed JW, Elumalai RP, Chory J (1998) Suppressors of an Arabidopsis thaliana phyB mutation identify genes that control light signaling and hypocotyl elongation. Genetics 148: 1295-1310.
51. Remington DL, Vision TJ, Guilfoyle TJ, Reed JW (2004) Contrasting modes of diversification in the Aux/IAA and ARF gene families. Plant Physiol 135: 1738-1752.
52. Soh M, Hong S, Kim B, Vizir I, Park D, Choi G, Hong M, Chung Y-Y, Furuya M, Nam H (1999) Regulation of both light- and auxin-mediated development by the ArabidopsisIAA3/SHY2 gene. J Plant Biol 42: 239-246.
53. Song Y, You J, Xiong L (2009) Characterization of the OsIAA1 gene, a member of rice Aux/IAA family involved in auxin and brassinosteroid hormone responses and plant morphogenesis. Plant Mol Biol 70: 297-309.
54. Thakur JK, Tyagi AK, Khurana JP (2001) OsIAA1, an Aux/IAA cDNA from rice, and changes in its expression as influenced by auxin and light. DNA Res 8: 193-203.
55. Thakur JK, Jain M, Tyagi AK, Khurana JP (2005) Exogenous auxin enhances the degradation of a light down-regulated and nuclear-localized OsiIAA1, an Aux/IAA protein from rice, via proteasome. BBA-Gene Struct Expr 1730: 196-205.
56. Theologis A, Huynh TV, Davis RW (1985) Rapid induction of specific messenger-RNAs by auxin in pea epicotyl tissue. J Mol Biol 183: 53-68.
57. Tiwari SB, Wang X-J, Hagen G, Guilfoyle TJ (2001) AUX/IAA proteins are active repressors, and their stability and activity are modulated by auxin. Plant Cell 13: 2809-2822.
58. Tiwari SB, Hagen G, Guilfoyle T (2003) The roles of auxin response factor domains in auxin-responsive transcription. Plant Cell 15: 533-543.
59. Tiwari SB, Hagen G, Guilfoyle TJ (2004) Aux/IAA proteins contain a potent transcriptional repression domain. Plant Cell 16: 533-543.
60. Ulmasov T, Liu ZB, Hagen G, Guilfoyle TJ (1995) Composite structure of auxin response elements. Plant Cell 7: 1611-1623.
61. Ulmasov T, Hagen G, Guilfoyle TJ (1997a) ARF1, a transcription factor that binds to auxin response elements. Science 276: 1865-1868.
62. Ulmasov T, Murfett J, Hagen G, Guilfoyle TJ (1997b) Aux/IAA proteins repress expression of reporter genes containing natural and highly active synthetic auxin response elements. Plant Cell 9: 1963-1971.
63. Vendrell M, Paomer X (1998) Hormonal control of fruit ripening in climacteric fruits. Acta Hortic 463: 325-334.
64. Walker L, Estelle M (1998) Molecular mechanisms of auxin action. Curr Opin Plant Biol 1: 434-439.
65. Wang S, Bai Y, Shen C, Wu Y, Zhang S, Jiang D, Guilfoyle TJ, Chen M, Qi Y (2010) Auxin-related gene families in abiotic stress response in Sorghum bicolor. Funct Integr Genomics 10: 533-546.
66. Went FW, Thimann KV (1937) Phytohormones. The Macmillan Company, New York.
67. Woodward AW, Bartel B (2005) Auxin: regulation, action, and interaction. Ann Bot 95: 707-735.
68. Worley CK, Zenser N, Ramos J, Rouse D, Leyser O, Theologis A, Callis J (2000) Degradation of Aux/IAA proteins is essential for normal auxin signalling. Plant J 21: 553-562.
69. Xiao H, Nassuth A (2006) Stress- and development-induced expression of spliced and unspliced transcripts from two highly similar dehydrin 1 genes in V. riparia and V. vinifera. Plant Cell Rep 25: 968-977.
70. Zhang X, Luo G, Wang R, Wang J, Himelrick D (2003) Growth and development responses of seeded and seedless grape berries to shoot girdling. J Am Soc Hortic Sci 128: 316-323.