Summary
The method we describe in this chapter describes the synthesis and use of cDNA macroarrays for determining changes in gene expression due to environmental toxicants as well as the methods and materials that are required to do this work. While the details are for investigators working with nontraditional species for which commercial arrays are unavailable, anyone can design and use their own custom arrays using these protocols. We have intentionally left out details for statistical analysis for the arrays as the methods for doing this are still being developed and would need to be specific to the experiment being done. In all, gene macroarrays are a relatively easy way to generate large amounts of data in a short amount of time.
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References
Waters, M. D. and Fostel, J. M. (2004) Toxicogenomics and systems toxicology: aims and prospects. Nat. Rev. Gen. 5, 936–948.
Sambrook, J., Fritsch, E. F., and Maniatis, T. (1989). Molecular Cloning: A Laboratory Manual, 2nd ed. Cold Spring Harbor Laboratory Press, Cold Spring Harbor, New York, pp. 7.43–7.45.
Blum, J. L., Knoebl, I., Larkin, P., Kroll, K. J., and Denslow, N. D. (2004) Use of suppressive subtractive hybridization and cDNA arrays to discover patterns of altered gene expression in the liver of dihydrotestosterone and 11-ketotestosterone exposed adult male largemouth bass (Micropterus salmoides). Mar. Environ. Res. 58, 565–569.
Knoebl, I., Blum, J.L., Hemmer, M.J., and Denslow, N.D. (2006) Using gene arrays to determine temporal gene induction in sheepshead minnows exposed to 17β-estradiol. J. Exp. Zoolog A Comp Exp Biol. 305, 707–719.
Larkin, P., Sabo-Attwood, T., Kelso, J., and Denslow, N.D. (2002) Gene expression analysis of largemouth bass exposed to estradiol, nonylphenol, and p,p ′-DDE. Comp. Biochem. Phys. Part B 133, 543–557.
Brouwer, M., Larkin, P., Brown-Peterson, N., King, C., Manning, S., and Denslow, N. (2004) Effects of hypoxia on gene and protein expression in the blue crab, Callinectes sapidus. Mar. Environ. Res. 58, 787–792.
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© 2008 Humana Press, a part of Springer Science+Business Media, LLC
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Blum, J.L., Prucha, M.S., Patel, V.J., Denslow, N.D. (2008). Use of cDNA Macroarrays and Gene Profiling for Detection of Effects of Environmental Toxicants. In: Martin, C.C., Martin, C.C. (eds) Environmental Genomics. Methods in Molecular Biology, vol 410. Humana Press. https://doi.org/10.1007/978-1-59745-548-0_4
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DOI: https://doi.org/10.1007/978-1-59745-548-0_4
Publisher Name: Humana Press
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Online ISBN: 978-1-59745-548-0
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