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Identification of spatial specifically expressed genes in rice (Oryza sativa) seedlings using cDNA microarray

Published online by Cambridge University Press:  12 February 2007

Sun Liang-Xian ,
Dong Hai-Tao ,
Zhuang Xiao-Feng ,
Zhang Feng  and
Li De-Bao
Sun Liang-Xian
Affiliation:
Institute of Biotechnology, Zhejiang University, Hangzhou 310029, China
Dong Hai-Tao
Affiliation:
Institute of Biotechnology, Zhejiang University, Hangzhou 310029, China
Zhuang Xiao-Feng
Affiliation:
Institute of Biotechnology, Zhejiang University, Hangzhou 310029, China
Zhang Feng
Affiliation:
Institute of Biotechnology, Zhejiang University, Hangzhou 310029, China
Li De-Bao*
Affiliation:
Institute of Biotechnology, Zhejiang University, Hangzhou 310029, China
*
*Corresponding author: Email: [email protected]
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Abstract

Membranous cDNA microarrays containing 2200 unique rice transcripts were designed for screening the characteristics of spatially expressed genes in post-germination rice seedlings. By comparing the profiles obtained, 31 genes were identified as expressed specifically in the plumule, 36 in the mesocotyl and 73 in the radicle. Several genes, such as polyubiquitin, UDP-glucose pyrophosphorylase, sucrose synthase and phosphoglycerate kinase, which encode components of the carbohydrate or protein metabolic reaction cascades, were expressed specifically in the mesocotyl, indicating that degradation reactions of the endospermous reserve starch and proteins occur mainly in the mesocotyl during the post-germination stage. A number of genes involved in defence mechanisms or in the processes of replication, transcription and translation were identified as expressed specifically in the plumule or radicle. Among plumule specifically expressed genes, translation initiation factor 5a, 40s ribosomal protein s28 and ribosomal protein 136 are considered to have a critical role in protein biosynthesis; while allergenic protein, β-D-glucan exohydrolase and actin 11 are genes with defending functions. Among the catalogue of radicle specifically expressed genes, EF-1a, Tat binding protein, replication protein A2, histone h3.2, ribosomal protein s29a and 40s ribosomal protein s19 are genes that function in the process of replication, transcription or translation; whereas glycine-rich protein, wound-induced basic protein, Bowman-Birk proteinase inhibitor and lipid transfer protein-2 are genes involved in defence responses. Results of this experiment have provided insight into post-germination molecular physiology at the genomic level of gene expression.

Keywords

Oryza sativacDNA microarraypost-germinationyoung seedlingexpressiongene
Type
Research Article
Information
Chinese Journal of Agricultural Biotechnology , Volume 1 , Issue 2 , August 2004 , pp. 133 - 139
Copyright
Copyright © China Agricultural University and Cambridge University Press 2004

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References

Arondel, V, Vergnolle, C and Cantrel, C et al. . (2000) Lipid transfer proteins are encoded by a small multigene family in Arabidopsis thaliana. Plant Science 157: 1–12.CrossRefGoogle Scholar
Blilou, I, Ocampo, GJA and Garcia, JM (2000) Induction of Ltp (lipid transfer protein) and Pal (phenylalanine ammonia-lyase) gene expression in rice roots colonized by the arbuscular mycorrhizal fungus Glomus mosseae. Journal of Experimental Botany 51: 1969–1977.CrossRefGoogle ScholarPubMed
Buchanan, BB, Schürmann, P, Wolosiuk, RA and Jacquot, JP (2002) The ferredoxin/thioredoxin system: from discovery to molecular structures and beyond. Photosynthesis Research 73: 215–222.CrossRefGoogle ScholarPubMed
Garcia, GJM, Menossi, M and Puigdomenech, P et al. . (1998) Characterization of a gene encoding an abscisic acid-inducible type-2 lipid transfer protein from rice. FEBS Letters 428: 193–199.CrossRefGoogle Scholar
Girke, T, Todd, J and Ruuska, S et al. . (2000) Microarray analysis of developing Arabidopsis seeds. Plant Physiology 124: 1570–1581.CrossRefGoogle ScholarPubMed
Harmer, SL (2000) Microarrays. Determining the balance of cellular transcription. Plant Cell 12: 613–615.CrossRefGoogle ScholarPubMed
Kawasaki, S, Borchert, C and Deyholos, M et al. . (2001) Gene expression profiles during the initial phase of salt stress in rice. Plant Cell 13: 889–905.CrossRefGoogle ScholarPubMed
Lange, H, Kaut, A, Kispal, G and Lill, R (2000) A mitochondrial ferredoxin is essential for biogenesis of cellular iron–sulfur proteins. Proceedings of the National Academy of Sciences of the USA 97: 1050–1055.CrossRefGoogle ScholarPubMed
Matsuo, T, Futsuhara, Y and Kikuohi, F (1995) Science of the Rice Plant. Vol. 2: Physiology. Tokyo: Food and Agriculture Policy Research Center, pp. 38–42.Google Scholar
Nakamura, R and Matsuda, T (1996) Rice allergenic protein and molecular-genetic approach for hypoallergenic rice. Bioscience Biotechnology and Biochemistry 60: 1215–1221.CrossRefGoogle ScholarPubMed
Neuffer, MG and Sheridan, MT (1980) Detection of kernel mutants of maize. I. Genetic and lethality studies. Genetics 95: 929–944.CrossRefGoogle Scholar
Nishio, T (1993) Mutants having a low content of 16-kDa allergenic protein in rice (Oryza sativa L.). Theoretical and Applied Genetics 86: 2–3.Google ScholarPubMed
Olsen, OA, Potter, RH and Kalla, R (1992) Histo-differentiation and molecular biology of developing cereal endosperm. Seed Science Research 2: 117–131.CrossRefGoogle Scholar
Richmond, T and Somerville, S (2000) Chasing the dream: plant EST microarray. Current Opinion in Plant Biology 3: 108–116.CrossRefGoogle Scholar
Ruan, Y, Gilmore, J and Conner, T (1998) Towards Arabidopsis genome analysis: monitoring expression profiles of 1400 genes using cDNA microarrays. The Plant Journal 6: 821–833.CrossRefGoogle Scholar
Sambrook, J, Fritsch, EF, Maniatis, TM (1989) Molecular Cloning: A Laboratory Manual, 2nd ed. Cold Spring Harbor, NY: Cold Spring Harbor Laboratory Press.Google Scholar
Schaffer, R, Landgraf, J and Accerbi, M et al. . (2001) Microarray analysis of diurnal and circadian-regulated genes in Arabidopsis. Plant Cell 13: 113–123.CrossRefGoogle ScholarPubMed
Schenk, PM, Kazan, K and Wilson, L et al. . (2000) Coordinated plant defense responses in Arabidopsis revealed by microarray analysis. Proceedings of the National Academy of Sciences of the USA 97: 11655–11660.CrossRefGoogle ScholarPubMed
Sossountzov, L, Ruiz, AL and Vignols, F et al. . (1991) Spatial and temporal expression of a maize lipid transfer protein gene. Plant Cell 3: 923–933.Google ScholarPubMed
Xu, JR, Stainger, CJ, Hamer, JE. (1998) Inactivation of the mitogen-activated protein kinase MpsI from the rice blast fungus prevents penetration of host cell but allow activation of plant defense responses. Proceedings of the National Academy of Sciences of the USA 95: 12713–12718.CrossRefGoogle Scholar
Zhai, ZH (1995) Cell Biology. Beijing: High Education Press, pp. 122–129.Google Scholar
Zumi, H, Adachi, T, Fujii, N et al. . (1992) Nucleotide sequence of a cDNA clone encoding a major allergenic protein in rice seeds. Homology of the deduced amino acid sequence with members of alpha-amylase/trypsin inhibitor family. FEBS Letters 302: 213–216.Google Scholar