Expression pattern of GS3 during panicle development in rice under drought stress: Quantification normalized against selected housekeeping genes in real-time PCR

Asian Journal of Plant Sciences

Volumn 8, Issue 4, 2009, Pages 285-292

  Zhang, Jia Liang ^a   Liu, Dong Hua ^a   Wang, Zhi Hua ^a   Yu, Can ^a   Cao, Jin Hua ^a   Wang, Chun Tai ^b   Jin, De Ming ^a  

^a HUAZHONG AGRICULTURAL UNIVERSITY   (China)

^b SOUTH CENTRAL UNIVERSITY FOR NATIONALITIES   (China)

Author keywords

Drought stress; Expression of gene GS3; Paralogous gene for actin; Quantitative real time PCR

Indexed keywords

EID: 68949167917     PISSN: 16823974     EISSN: 18125697     Source Type: Journal    
DOI: 10.3923/ajps.2009.285.292     Document Type: Article

References (32)

1. Bustin, SA, 2000. Absolute quantification of mRNA using real-time reverse transcription polymerase chain reaction assays. J. Mol. Endocrinol., 25: 169-193.
2. Caldam, C., W.R. Scheible, B. Mueller-Roeber and S. Ruzicic, 2007. A quantitative RI-PCR platform for high-throughput expression profiling of 2500 rice transcription factors. Plant Methods, 3: 7-7.
3. Czechowski, I., R.P. Bari, M. Stitt, W.R. Scheible and M.K. Udvardi, 2004. Real time RI-PCR profiling of over 1400 Arabidopsis transcription factors: Unprecedented sensitivity reveals novel root and shoot-specific genes. Plant J., 38: 366-379.
4. Dean, J.D., P.H. Goodwin and I. Hsiang, 2002. Comparison of relative RT-PCR and Northern blot analysis to measure expression of b-l, 3-glucanase in Nicotiana benthamiana infected with Colletotrichum destructivum. Plant Mol. Biol. Rep., 20: 347-356.
5. Duan, Y.H., Y.L. Zhang, L.T. Ye, X.R. TTTFan, G.H. Xu and Q.R. Shen, 2007. Responses of rice cultivars with different nitrogen use efficiency to partial nitrate nutrition. Ann. Bot., 99: 1153-1160.
6. Fan, C.C., Y.Z. Xing, H.L. Mao, T.T. Lu, B. Han, C.G. Xu, X.H. Li and Q.F. Zhang, 2006. GS3, a major QTL for grain length and weight and minor QTL for grain width and thickness in rice, encodes a putative transmembrane protein. Theor. Applied Genet., 112: 1164-1171.
7. Fleige, S., V. Walf, S. Huch, C. Prgomet, J. Sehm and M.W. Pfaffl, 2006. Comparison of relative mRNA quantification models and the impact of RNA integrity in quantitative real-time RT-PCR. Biotechnol. Lett., 28: 1601-1613.
8. Hellemans, J., G. Mortier, A. De Paepe, F. Speleman and Vandesompele, 2007. qBase relative quantification framework and software for management and automated analysis of real-time quantitative PCR data. Genome Biol., 8: 19-19.
9. Hoogewijs, D., K. Houthoofd, F. Matthijssens, J. Vandesompele and J.R. Vanfleteren, 2008. Selection and validation of a set of reliable reference genes for quantitative sod gene expression analysis in C. elegans. BMC Mol. Biol., 9: 9-9.
10. Imin, N., T. Kerim, J.J. Weinman and B.G. Rolfe, 2006. Low temperature treatment at the young microspore stage induces protein changes in rice anthers. Mol. Cell. Proteomics, 5: 274-230.
11. Infante, C., M.P. Matsuoka, E. Asensio, J.P. Cañavate, M. Reith and M. Manuel, 2008. Selection of housekeeping genes for gene expression studies in larvae from flatfish using real-time PCR. BMC Mol. Biol., 9: 28-28.
12. Iskandar, H.M., R.S. Simpson, R.E. Casu, G.D. Bonnett, J. Donald, D.J. Maclean and J.M. Marmers, 2004. Comparison of reference genes for quantitative real-time polymerase chain reaction analysis of gene expression in sugarcane. Plant Mol. Biol. Rep., 22: 325-337.
13. Jain, M., A Nijhawan, A.K. Iyagi and J.P. Khurana, 2006a. Validation of housekeeping genes as internal control for studying gene expression in rice by quantitative real-time PCR. Biochem. Biophys. Res. Commun., 285: 645-651.
14. Jain, M., A.K. Iyagi and J.P. Khurana, 2006b. Genomewide analysis, evolutionary expansion and expression of early auxin-responsive SAUR gene family in rice (Oryza sativa). Genomics, 88: 360-371.
15. Janovick-Guretzky, N.A., H.M. Dann, D.B. Carlson, M.R. Murphy, J.J. Loor and J.K. Drackley, 2007. Housekeeping gene expression in bovine liver is affected by physiological state, feed intake and dietary treatment. J. Dairy Sci., 90: 2246-2252.
16. Kim, B.R.,H.Y. Nam, S.U. Kim, S.L. Kim and Y.J. Chang, 2003. Normalization of reverse transcription quantitative-PCR with housekeeping genes in rice. Biotechnol. Lett., 25: 1869-1872.
17. McElroy, D., M. Rothenberg, K.S. Reece and R. Wu, 1990. Characterization of the rice (Oryza sativa) actin gene family. Plant Mol. Biol., 15: 257-268.
18. Nicot, N., H. Jean-Francxois, L. Hoffmann and D. Evers, 2005. Housekeeping gene selection for real-time RTPCR normalization in potato during biotic and abiotic stress. J. Exp. Bot., 56: 2907-2914.
19. Reid, K.E., N. Olsson, I. Schlosser, F. Peng and S.T. Lund, 2006. An optimized grape vine RNA isolation procedure and statistical determination of reference genes for real-time RT-PCR during berry development. BMC Plant Biol., 6: 27-27.
20. Schrnittgen, T.D., B.A. Zakrajsek, A.G. Mills, V. Gorn, M.R. Singer and M.W. Reed, 2000. Quantitative reverse transcription±polymerase chain reaction to study mma decay: Comparison of endpoint and realtime methods. Anal. Biochem., 285: 194-204.
21. Singh, R. and M.R. Green, 1993. Sequence-specific binding of transfer RNA by glyceraldehyde-3-phosphate dehydrogenase. Science, 259: 365-368.
22. Song, X.J., W. Huang, M. Shi, M.Z. Zhu and H.X. Lin, 2007. A QTL for rice grain width and weight encodes a previously unknown RING-type E3 ubiquitin ligase. Nat. Genet., 39: 623-630.
23. Thellin, O., W. Zorzi, B. Lakaye, B.D. Borman and B. Coumans et al., 1999. Housekeeping genes as internal standards: Use and limits. J. Biotechnol., 75: 291-295.
24. Toyota, K., M. Tamura, T. Ohdan and Y. Nakamura, 2006. Expression profiling of starch metabolism-related plastidic translocator genes ill rice. Planta, 223: 248-257.
25. Tricarico, C., P. Pinzani, S. Bianchi, M. Paglierani and V. Distante et aI., 2002. Quantitative real-time reverse transcription polymerase chain reaction: Normalization to rRNA or single housekeeping genes is inappropriate for human tissue biopsies. Anal. Biochem., 309: 293-300.
26. Tsuchiya, T., T. Takesawa, H. Kanzaki and I. Nakamura, 2004. Genomic structure and differential expression of two tandem-arranged GSTZ genes in rice. Genetic, 335: 141-149.
27. Tu, L.L., X.L. Zhang, D.Q. Liu, S.X. Jin and J.L. Cao et al., 2007. Suitable internal control genes for qRT-PCR normalization in cotton fiber development and somatic embryogenesis. Chinese Sci. Bull., 52: 3110-3117.
28. Vandesompele, J., K. De Preter, F. Pattyn, B. Poppe, N. Van-Roy, A. De Paepe and F. Speleman, 2002. Accurate normalization of real-time quantitative RT-PCR data by geometric averaging of multiple internal control genes. Genome Biol., 3: 1-12.
29. Wasaki, J., R. Yonetani, T. Shinano, M. Kai and M. Osaki, 2003. Expression of the OsPI1 gene, cloned from rice roots using cDNA microarray, rapidly responds to phosphorus status. New Phytologist., 158: 239-248.
30. Xue, W.Y., Y.Z. Xing, X.Y. Weng, Y. Zhao and WJ. Tang et al., 2008. Natural variation in Ghd7 is an important regulator of heading date and yield potential in rice. Nat. Genet., 40: 761-767.
31. Yu, S.W., Y. Liu and L.J. Luo, 2007. Analysis of relative gene expression using different real-time quantitative PCR. Acta Agronomica Sinica, 33: 1214-1218.
32. Zhao, S.P., X.Q. Zhao, S.M. Li and W.M. Shi, 2006. Optimization and application of real-time PCR method for detecting the expression levels of nitrogen assimilation-related genes in rice. Russ. J. Plant Physiol., 53: 560-569.