Gene Expression Profile Changes in Germinating Rice

Journal of Integrative Plant Biology

Volumn 53, Issue 10, 2011, Pages 835-844

  He, Dongli ^a   Han, Chao ^a,b   Yang, Pingfang ^a  

^a Wuhan Institute of Botany Chinese Academy of Sciences   (China)

^b UNIVERSITY OF CHINESE ACADEMY OF SCIENCES   (China)

Author keywords

Germination; Imbibition; Ionization time of flight; Matrix assisted laser desorption; Proteomics; Rice seed; Semi quantitative real time polymerase chain reaction; Two dimensional gel electrophoresis

Indexed keywords

ABSORPTION; ELECTROKINESIS; GENE EXPRESSION; GERMINATION; IMBIBITION; IONIZATION; POLYMERASE CHAIN REACTION; PROTEIN; PROTEOMICS; QUANTITATIVE ANALYSIS; RICE; RNA;

ABSCISIC ACID; AMINO ACID; GIBBERELLIC ACID; GIBBERELLIN; TRANSCRIPTOME; VEGETABLE PROTEIN;

DOWN REGULATION; DRUG EFFECTS; GENE EXPRESSION REGULATION; GENETICS; GERMINATION; GROWTH, DEVELOPMENT AND AGING; METABOLISM; MOLECULAR GENETICS; NUCLEOTIDE SEQUENCE; PLANT GENE; PLANT SEED; PROMOTER REGION; REAL TIME POLYMERASE CHAIN REACTION; RICE; TWO DIMENSIONAL GEL ELECTROPHORESIS; UPREGULATION;

ABSCISIC ACID; AMINO ACIDS; BASE SEQUENCE; DOWN-REGULATION; ELECTROPHORESIS, GEL, TWO-DIMENSIONAL; GENE EXPRESSION REGULATION, DEVELOPMENTAL; GENE EXPRESSION REGULATION, PLANT; GENES, PLANT; GERMINATION; GIBBERELLINS; MOLECULAR SEQUENCE DATA; ORYZA SATIVA; PLANT PROTEINS; PROMOTER REGIONS, GENETIC; REAL-TIME POLYMERASE CHAIN REACTION; SEEDS; TRANSCRIPTOME; UP-REGULATION;

EID: 80053516185     PISSN: 16729072     EISSN: 17447909     Source Type: Journal    
DOI: 10.1111/j.1744-7909.2011.01074.x     Document Type: Article

References (37)

1. An YQ, Lin L (2011) Transcriptional regulatory programs underlying barley germination and regulatory functions of gibberellin and abscisic acid. BMC Plant Biol. 11, 105-112.
2. Bethke PC, Schuurink R, Jones RL (1997) Hormonal signaling in cereal aleurone. J. Exp. Bot. 48, 1337-1356.
3. Bewley JD (1997) Seed germination and dormancy. Plant Cell 9, 1055-1066.
4. Cui S, Huang F, Wang J, Ma X, Cheng Y, Liu J (2005) A proteomic analysis of cold stress responses in rice seedlings. Proteomics 5, 3162-3172.
5. David KM, Couch D, Braun N, Brown S, Grosclaude J, Perrot-Rechenmann C (2007) The auxin-binding protein 1 is essential for the control of cell cycle. Plant J. 50, 197-206.
6. Fkelstein R, Reeves W, Ariizumi T, Steber C (2008) Molecular aspects of seed dormancy. Annu. Rev. Plant Biol. 59, 387-415.
7. Fu Z, Jin X, Ding D, Li Y, Fu Z, Tang J (2011) Proteomic analysis of heterosis during maize seed germination. Proteomics 11, 1462-1472.
8. Gallardo K, Job C, Groot SP, PuypeM, Demol H, Vandekerckhove J, Job D (2002) Proteomics analysis of Arabidopsis seed germination. A comparative study of wild-type and GA-deficient seeds. Plant Physiol. 129, 823-837.
9. Gass N, Glagotskaia T, Mellema S, Stuurman J, Barone M, Mandel T, Roessner-Tunali U, Kuhlemeier C (2005) Pyruvate decarboxylase provides growing pollen tubes with a competitive advantage in petunia. Plant Cell 17, 2355-2368.
10. Goff SA, Ricke D, Lan TH, Presting G (2002) A Draft Sequence of the Rice Genome (Oryza sativa L. ssp. japonica). Science 296, 92-100.
11. Gómez-Porras JL, Riaño-Pachón DM, Dreyer I, Mayer JE, Mueller-Roeber B (2007) Genome-wide analysis of ABA-responsive elements ABRE and CE3 reveals divergent patterns in Arabidopsis and rice. BMC Genomics 8, 260-273.
12. Han B, Hughes DW, Galau GA, Bewley JD, Kermode AR (1996) Changes in late embryogenesis abundant (Lea) messenger RNAs and dehydrins during maturation and premature drying of Ricinus communis L. seeds. Planta 201, 27-35.
13. He D, Han C, Yao J, Shen S, Yang P (2011) Constructing the metabolic and regulatory pathways in germinating rice seeds through proteomic approach. Proteomics 11, 2693-2713.
14. Hou HW, Zhou YT, Mwange KK, Li WF, He XQ, Cui KM (2006) ABP1 expression regulated by IAA and ABA is associated with the cambium periodicity in Eucommia ulmoides Oliv. J. Exp. Bot. 14, 3857-3867.
15. Howell KA, Millar AH, Whelan J (2006) Ordered assembly of mitochondria during rice germination begins with pro-mitochondrial structures rich in components of the protein import apparatus. Plant Mol. Biol. 60, 201-2231.
16. Jain M, Nijhawan A, Tyagi AK, Khurana JP (2006) Validation of housekeeping genes as internal control for studying gene expression in rice by quantitative real-time PCR. Biochem. Biophys. Res. Commun. 345, 646-651.
17. Jiang L, Kermode AR (1994) Role of desiccation in the termination of expression of genes for storage proteins. Seed Sci. Res. 4, 149-173.
18. Johansson H, Sterky F, Amini B, Lundeberg J, Kleczkowski LA (2002) A Molecular cloning and characterization of a cDNA encoding poplar UDP-glucose dehydrogenase, a key gene of hemicellulose/ pectin formation. Biochem. Biophys. Acta 1576, 53-58.
19. Kim ST, Kang SY, Wang Y, Kim SG, Hwang DH, Kang KY (2008) Analysis of embryonic proteome modulation by GA and ABA from germinating rice seeds. Proteomics 8, 3577-3587.
20. Kim ST, Kim SG, Hwang H, Kang SY (2004a) Proteomic analysis of pathogen-responsive proteins from rice leaves induced by rice blast fungus, Magnaporthe grisea. Proteomics 4, 3569-3578.
21. Kim ST, Wang Y, Kang SY, Kim SG, Rakwal R, Kim YC, Kang KY (2009) Developing rice embryo proteomics reveals essential role for embryonic proteins in regulation of seed germination. J. Proteome Res. 8, 3598-3605.
22. Kim ST, Yu S, Kim SG, Kim HJ (2004b) Proteome analysis of rice blast fungus (Magnaporthe grisea) proteome during appressorium formation. Proteomics 4, 3579-3587.
23. Layer G, Heinz DW, Jahn D, Schubert WD (2004) Structure and function of radical SAM enzymes. Curr. Opin. Chem. Biol. 8, 468-476.
24. Leung J, Giraudat J (1998) Abscisic acid signal transduction. Annu. Rev. Plant Physiol. Plant Mol. Biol. 49, 199-222.
25. Marchler-Bauer A, Lu S, Anderson JB et al. (2011) CDD: A conserved Domain Database for the functional annotation of proteins." Nucleic Acids Res. 39, 225-229.
26. Matsuyama A, Yoshimura K, Shimizu C, Murano Y, Takeuchi H, Ishimoto M (2009) Characterization of glutamate decarboxylase mediating γ-amino butyric acid increase in the early germination stage of soybean (Glycine max [L. ] Merr). J. Biosci. Bioeng. 107, 538-543.
27. May C, Brosseron F, Chartowski P, Schumbrutzki C, Schoenebeck B, Marcus K (2011) Instruments and methods in proteomics. Meth. Mol. Biol. 696, 13-26.
28. North H, Baud S, Debeaujon I (2010) Arabidopsis seed secrets unravelled after a decade of genetic and omics-driven research 61, 971-981.
29. Ostergaard O, Finnie C, Laugesen S, Roepstorff P, Svensson B (2004) Proteome analysis of barley seeds: Identification of major proteins from two-dimensional gels (pI 4-7). Proteomics 4, 2437-2447.
30. Penfield S, King J (2009) Towards a systems biology approach to understanding seed dormancy and germination. Proc. Biol. Sci. 276, 3561-3569.
31. Rajjou L, Gallardo K, Debeaujon I, Vandekerckhove J, Job C, Job D (2004) The effect of α-Amanitin on the Arabidopsis seed proteome highlights the distinct roles of stored and neosynthesized mRNAs during germination. Plant Physiol. 4, 1598-1613.
32. Schoonheim PJ, Costa DD, Boer AH (2009) Dual role for 14-3-3 proteins and ABF transcription factors in gibberellic acid and abscisic acid signaling in barley (Hordeum vulgare) aleurone cells. Plant Cell Environ. 5, 439-47.
33. Sheoran IS, Olson DJH, Ross ARS, Sawhney VK (2005) Proteome analysis of embryo and endosperm from germinating tomato seeds. Proteomics 5, 3752-3764.
34. Shibasaki M, Suzuki S, Nemoto H, Kuroume T (1979) Allergenicity and lymphocyte-stimulating property of rice protein. J. Allergy Clin. Immunol. 4, 259-265.
35. Wasinger VC, Cordwell SJ, Cerpa-Poljak A et al. (1995) Progress with gene product mapping of the Mollicutes: Mycoplasma genitalium. Electrophoresis 16, 1090-1094.
36. Yang P, Li X, Wang X, Chen H, Chen F, Shen S (2007) Proteomic analysis of rice (Oryza sativa) seeds during germination. Proteomics 7, 3358-3368.
37. Yu J, Hu SN, Wang J, Wong GK (2002) A draft sequence of the rice genome (Oryza sativa L. ssp. Indica). Science 296, 79-92.