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Screening of Specific Genes Expressed in the Swine Tissues and Development of a Functional cDNA Chip
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Screening of Specific Genes Expressed in the Swine Tissues and Development of a Functional cDNA Chip
Kim, Chul Wook; Chang, Kyu Tae; Hong, Yeon Hee; Kwon, Eun Jung; Jung, Won Yong; Cho, Kwang Keun; Chung, Ki Hwa; Kim, Byeong Woo; Lee, Jung Gyu; Yeo, Jung-Sou; Kang, Yang Su; Joo, Young Kuk;
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To develop a functional cDNA chip, specific genes expressed in the tissues of swine Kagoshima Berkshire were screened. A total of 4,434 ESTs were obtained by constructing a cDNA library from total RNA isolated from the muscle and fat tissues, affirming their functions by investigating similarity of nucleotide sequences with the database at the NCBI. Among them, 1,230 ESTs were confirmed as novel genes, which, to date, have not been identified. Attaching the genes to a cDNA microarray slide revealed expression patterns of genes in muscle and fat according to the growth stages of swine. As specific genes expressed in the muscle tissues of swine with body weight of 30 kg, 60 genes including actin, myosin, tropomysin, transfer RNA-trp synthetase, Kel-like protein 23, KIAA0182 and COI, Foocen-m, etc were obtained. In addition, 18 novel genes were obtained. As specific genes expressed in fat tissues of swine with body weight of 30 kg, 47 genes including annexin II, Collagen, Fibronectin, Pleckstrin homology domain, serine protease, etc were obtained. 21 novel genes were also obtained. The genes specifically expressed in the muscle and fat tissues of swine affect contraction and relaxation of the muscle and the fat. However, studies on the expression mechanisms of the genes are insufficient. To reveal species of structural genes in swine muscle and fat tissue, interrelation studies in expression and function of genes by using the cDNA chip should be conducted.
Swine Tissues;cDNA Chip;EST;Microarray;
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Bretscher, A., B. Drees, E. Harsay, D. Schott and T. Wang. 1994. What are the basic functions of microfilaments? Insights from studies in budding yeast. J. Cell Biol. 126:821-825.

Brown, P. O. and D. Botstein. 1999. Exploring the new world of the genome with DNA microarrays. Nat. Genet. 21:33-37.

Chee, M., R. Yang, E. Hubbell, A. Berno, X. C. Huang, D. Stern, J. Winkler, D. J. Lockhart, M. S. Morris and S. P. A. Fodor. 1996. Accessing genetic information with high-density DNA arrays. Science 274:610-614.

Chen, Y., E. R. Dougherty and M. L. Bittner. 1997. Ratio-based decisions and the quantitative analysis of cDNA microarray images. J. Biomed. Optics 2:364-374.

Cheng, X., R. H. E. Friesen and J. C. Lee. 1996. Effects of conserved residues on the regulation of rabbit muscle pyruvate kinase. J. Biol. Chem. 271:6313-6321.

Davoli, R., P. Zambonelli, D. Bigi, L. Fontanesi and V. Russo. 1999. Analysis of expressed sequence tags of porcine skeletal muscle. Gene 233:181-188.

DeRisi, J., L. Penland, P. O. Brown, M. L. Bittner, P. S. Meltzer, M. Ray, Y. Chen, Y. A. Su and J. M. Trent. 1996. Use of a cDNA microarray to analyse gene expression patterns in human cancer. Nat. Genet. 14:457-460.

Duggan, D. J., M. Bittner, Y. Chen, P. Meltzer and J. M. Trent. 1999. Expression profiling using cDNA microarrays. Nat. Genet. 21:S10-14. crossref(new window)

Ermolaeva, O., M. Rastogi, K. D. Pruitt, G. D. Schuler, M. L. Bittner, Y. Chen, R. Simon, P. Meltzer, J. M. Trent and M. S. Boguski. 1998. Data management and analysis for gene expression arrays. Nat. Genet. 20:19-23.

Gress, T. M., J. D. Hoheisel, G. G. Lennon, G. Zehetner and H. Lehrach. 1992. Hybridization fingerprinting of high-density cDNA-library arrays with cDNA pools derived from whole tissues. Mammalian Genome 3:609-619.

Hay, E. D. 1991. Cell Biology of Extracellular Matrix. New York, Plenum 419-462.

Heller, R. A., M. Schena, A. Chai, D. Shalon, T. Bedilion, J. Gilmore, D. E. Woolley and R. W. Davis. 1997. Discovery and analysis of inflammatory disease-rdlated genes using cDNA microarrays. Proceedings of the National Academy of Sciences USA 94, pp. 2150-2155.

Hieter, P. and M. Boguski. 1997. Functional genomics: it's all how you read it. Sci. 278:601-602.

Krempler, A., S. Kollers, R. Fries and B. Brenig. 2000. Isolation and characterization of a new FHL1 variant (FHL1C) from porcine skeletal muscle. Cytogenetics and Cell Genetics 1-2:106-114.

Lanfranchi, G., T. Muraro, F. Caldara, B. Pacchione, A. Pallavicini, D. Pandolfo, S. Toppo, S. Trevisan, S. Scarso and G. Valle. 1996. Identification of 470 expressed sequences tags from a 3'-end specific cDNA library of human skeletal muscle by DNA sequencing and filter hybridization. Genome Research 6:35-42.

Linsenmayer, T. F. and E. D. Hay. 1991. Cell biology of extracellular matrix. New York. plenum press 7-44.

Lorkin, P. A. and H. Lehmann. 1983. Malignant hyperthermia in swines: a search for abnormalities in $Ca^{2+}$ binding proteins. FEBS Letter 1:81-87.

Nakamura, N., M. Shida, K. Hirayoshi and K. Nagata. 1995. Transcriptional regulation of the vimentin-encoding gene in mouse myeloid leukemia M1 cells. Gene 166:281-286.

Okubo, K., N. Hori, R. Matoba, T. Niiyama, A. Fukushima, Y. Kojima and K. Matsubara. 1992. Large scale cDNA sequencing for analysis of quantitative and qualitative aspects of gene expression. Nat. Genet. 2:173-179.

Putney, S. D., W. C. Herlihy and P. Schimmel. 1983. A new troponin T and cDNA clones for 13 different muscle proteins found by shotgun sequencing. Nature (Lond) 302:718-721.

Rehn, M. and T. Pihlajaniemi. 1994. Alpha 1 (XVIII), a collagen chain with frequent interruptions in the collagenous sequence, a distinct tissue distribution, and homology with type XV collagen. Proceedings of the National Academy of Sciences USA 91, pp. 4234-4288.

Ruan, Y., J. Gilmore and T. Conner. 1998. Towards Arabidopsis genome analysis: monitoring expression profiles of 1,400 genes using cDNA microarray. Plant J. 15:821-833.

Ruiz-Opazo, N., J. Weinberger and B. Nadal-Ginard. 1985. Comparison of alpha-tropomyosin sequences from smooth and striated muscle. Nature 6014:67-70.

Schena, M., R. A. Heller, T. P. Theriault, K. Konrad, E. Lachenmeir and R. W. Davis. 1998. Microarrays; Biotechnology's discovery platform for functional genomics. Trends in Biotechnology 16:301-306.

Schena, M., D. Shalon, R. Helle, A. Chai, P. O. Brown and R. W. Davis. 1996. Parallel human genome analysis: Microarraybased expression monitoring of 1,000 genes. Proceedings of the National Academy of Sciences USA 93:10614-10619.

Schuler, D., S. J. Smith and P. O. Brown. 1996. A DNA microarray system for analyzing complex DNA samples using two-color fluorescent probe hybridization. Genome Research 6:639-645.

Southern, E., K. Mir, and M. Shchepinov. 1999. Molecular interactions on microarrays. Nature Genetics 21:5-9.

Takenaka, M., T. Noguchi, S. Sadahiro, H. Hirai, K. Yamada, T. Matsuda, E. Imai and T. Tanaka, 1991. Isolation and characterization of the human pyruvate kinase M gene. Europ. J. Biochem. 1:101-106.

Tosser-Klopp, G., F. Benne, A. Bonnet, P. Mulsant, F. Gasser and F. Hatey. 1997. A first catalog of gene involved in swine ovarian follicular differentiation. Mammalian Genome 8:250-204.

Tuggle, C. K. and C. B. Schmits. 1994. Cloning and characterization of swine muscle cDNAs by an expressed sequence tags approach. Animal Biotechnology 5:1-13.

Velculescu, V. E., L. Zhang, B. Vogelstein and K. W. Kinzler. 1995. Serial analysis of gene expression. Sci. 270:484-487.

Watson, A., A. Mazumder, M. Stewart and S. Balasubramanian. 1998. Technology for microarray analysis of gene expression. Current Opinion in Biotechnology 9:609-614.

Welford, S. M., J. Gregg, E. Chen, D. Garrison, P. H. Sorensen, C. T. Denny and S. Nelson. 1998. Detection of differentially expressed genes in primary tumor tissues using representational differences analysis coupled to microarray hybridization. Nucleic Acids Research 26:3059-3065.

Wodicka, L., H. Dong, M. Mittmann, M. H. Ho and D. J. Lockhart. 1997. Genome-wide expression monitoring in Saccharomyces cerevisiae. Nat. Biotechnol. 15:1359-1367.