SpringerProtocols: Abstract: Collection and Preparation of Rodent Tissue Samples for Histopathological and Molecular Studies in Carcinogenesis

1. Collection and Preparation of Rodent Tissue Samples for Histopathological and Molecular Studies in Carcinogenesis

By: Yelena Golubeva³, Keith Rogers⁴

Abstract

Full Text

Download PDF (2027K)

Histology, as a mean of tissue visualization on a cellular level, is a fundamental tool in the study of cancer. The need for simultaneous delivery of quality histological material for pathological evaluation and subsequent genomic and proteomic studies, however, requires modification of traditional practices to include rapid isolation and stabilization of target tissue to preserve molecular integrity. Informative molecular analysis depends on the integrity of target molecules (RNA, DNA, and proteins) in the tissue during and after its collection. A reliable systematic approach to routine and genomic/proteomic sample collection and preparation presented is supported by detailed protocols.

Affiliation(s): (3) Histotechnology Laboratory, NCI-Frederick, SAIC-Frederick, Frederick, MD, USA
(4) Department of Histopathology, Biopolis Shared Facilities (BSF), Proteos, Singapore

Book Title: Inflammation and Cancer: Methods and Protocols: Volume 1: Experimental Models and Practical Approaches

Series: Methods in Molecular Biology | Volume: 511 | Pub. Date: Sep-01-2008 | Page Range: 3-60 | DOI: 10.1007/978-1-59745-447-6_1

Subject: Cancer Research

Key Words: Tissue collection - Necropsy - Histology - Molecular pathology - Cancer - Genomic - Pro-teomics - Laser capture microdissection - Nucleic acid extraction - Tissue processing - RNA integrity

References

Download References

1.	Strand, C., Enell, J., Hedenfalk, I. and Ferno, M. (2007) RNA quality in frozen breast cancer samples and the influence on gene expression analysis 449– a comparison of three evaluation methods using microcapillary electrophoresis traces. BMC Mol Biol 22, 8.

2.	Institute of Laboratory Animal Resources, Commission on Life Sciences, National Research Council. Guide for the care and use of laboratory animals/ 7th ed. (1996) Washington, D.C.: National Academy Press, 125p.

3.	Varin-Blank, N., Dondi, E., Tosi, M, Hernandez, C., Boucontet, L., Gotoh, H., et al. (1998) Male-specific transcription initiation of the C4-Slp gene in mouse liver follows activation of STAT5. PANS 15, 8750–8755.

4.	Squires, E.J. and Negishi, M. (1988) Reciprocal regulation of sex-dependent expression of testosterone 15 449α-hydroxylase (P-450 (15 alpha) in liver and kidney of male mice by androgen. Evidence for a single gene. J Biol Chem 263, 4166–4171.

5.	Naghashpour M. and Dahl G. (2000) Sensitivity of myometrium to CGRP varies during mouse estrous cycle and in response to progesterone. Am J Physiol Cell Physiol 278, C561–569.

6.	Amir-Ahmady, B. and Salati, L.M. (2001) Regulation of the processing of glucose-6-phos-phate dehydrogenase mRNA by nutritional status. J Biol Chem 276(13), 10514–10523.

7.	Lavery, D.J. and Schibler, U. (1999) Circadian timing in animals. In Development: Genetics, Epigenetics and Environmental Regulation. Heidelberg: Springer, 542p.

8.	Ross, J. (1995) mRNA stability in mammalian cells. Microbiol Rev 59, 423–450.

9.	Kabnick, K.S. and Housman, D.E. (1998) Determinants that contribute to cytoplas-mic stability of human c-fos and beta-globin mRNAs are located at several sites in each RNA. Mol Cell Biol 8, 8–13.

10.	Bancroft, J.D. and Stevens, A. (editors) (2007) Theory and Practice of Histological Techniques, 5th ed. London: Churchill Livingstone, 2000p.

11.	Kok, L.P. and Boon, M.G. (2003) Microwaves for the Art of Microscopy. Leiden: Coulomb Press Leyden, 368p.

12.	Eisenberger, S., Hoppe, G., Pyerin, W. and Ackermann, K. (2004) High-quality RNA preparation for transcript profiling of osteo-cytes from native human bone microdissec-tions. Anal Biochem 335, 260–266.

13.	Fox, G.D., Quimby, F.W., Barthold, S.W., Newcomer, C.E. and Davisson, M.T. (editors) (2006) Mouse in Biomedical Research. New York, NY: Academic, 2192 p.

14.	Hann, B. and Balmain, A. (2001) Building 449‘validated449’ mouse models of human cancer. Curr Opin Cell Biol 13(6), 778–784.

15.	Atkinson, B.G. and Walden B.D. (editors) (1985) Changes in Eukaryotic Gene Expression in Response to Environmental Stress. Imprint Orlando: Academic, 379p.

16.	Mori, N., Mizuno, D. and Goto, S. (1978) Increase in ratio of 18S RNA to 28S RNA in the cytoplasm of mouse tissues during aging. Mech Ageing Dev 8(4), 285–97.

17.	Ramos, S.D., Lee, J.M. and Peuler, J.D. (2001) An inexpensive meter to measure differences in electrical resistance in the rat vagina during the ovarian cycle. J Appl Physiol 91, 667–670.

18.	Lin, D.W., Coleman, I.M., Hawley, S., Dumpit, R., Gifford, D., Kezele, P., et al. (2006) Influence of surgical manipulation on prostate gene expression: implications for molecular correlates of treatment effects and disease prognosis. J Clin Oncol 24(23), 3763–3770.

19.	Altman, P.L. and Dittmer, D.S. (editors) (1962) Growth including reproduction and morphological development. Federation of American Societies for Experimental Biology, Washington, 608pp.

20.	Mullin, A.E., Soukatcheva, G., Verchere, C.B. and Chantler, J.K. (2006) Application of in situ ductal perfusion to facilitate isolation of high-quality RNA from mouse pancreas. BioTechniques 40(5), 617–621.

21.	Micke, P., Ohshima, M., Tahmasebpoor, S., Ren, Z.,Ostman, A.,Ponten, F., et al. (2006) Biobanking of fresh frozen tissue: RNA is stable in nonfixed surgical specimens. Lab Investig 86, 202–211.

22.	Mutter G.L., Zahrieh, D., Liu, C., Neuberg, D., Finkelstein, D., Baker, H.E., et al. (2004) Comparison of frozen and RNALater solid tissue storage methods for use in RNA expression microarrays. BMC Genom 5, 88.

23.	Ellis, M., Davis, N., Coop, A., Liu, M., Schumaker, L., Lee R.Y., et al. (2002) Development and validation of a method for using breast core needle biopsies for gene expression microarray analyses. Clin Cancer Res 8, 1155–1166.

24.	Florell, S.R., Coffin, S. M., Holden, J.A., Zimmermann, J.W., Gerwels, J.W. and Summers, B.K. (2001) Preservation of RNA for functional genomic studies: a multidiscipli-nary tumor bank protocol. Mod Pathol 14(2), 116–128.

25.	Gillespie, J.W., Best, C.J., Bichel, V.E., Cole, K.A., Greenhut, S.F., Hewitt, S.M., Ahram, M., et al. (2002) Technical advance. evaluation of non-formalin tissue fixation for molecular profiling studies. Am J Pathol 160(2), 449–457.

26.	Coombs, N.J., Gough, A.C. and Primrose, J.N. (1999) Optimization of DNA and RNA extraction from archival formalin-fixed tissue. Nucleic Acids Res 27(16), 12–15.

27.	Lehmann,U. and Kreipe, H. (2001) Real-time PCR analysis of DNA and RNA extracted from formalin-fixed and paraffin-embedded biopsies. Methods 25, 409–418.

28.	Nelson, P.T., Baldwin, D.A., Scearce, L.M., Oberholtzer, J.C., Tobias, J.W. and Mourelatos, Z. (2004) Microarray-based, high-throughput gene expression profiling of microRNAs. Nat meth 1(2), 155–161.

29.	Kube, D.M., Savci-Heijink, C.D., Lamblin, A., Kosari, F., Vasmatzis, G., Cheville, J.C., et al. (2007) Optimization of laser capture microdissection and RNA amplification for gene expression profiling of prostate cancer. BMC Mol Biol 8, 25.

30.	Espina, V., Wulfkuhle, J.D., Calvert, V.S., VanMeter, A., Zhou, W., Coukos, G., et al. (2006) Laser-capture microdissection. Nat Protocols 1(2), 586–603.

31.	Ojaniemi, H., Evengard, B., Lee, D.R., Unger, E.R. and Vernon, S.D. (2003) Impact of RNA extraction from limited samples on microarray results. BioTechniques 35(5), 1–5.

32.	Chomczynski, P. and Sacchi, N. (2006) The single-step method of RNA isolation by acid guanidinium thiocyanate-phenol-chloroform extraction: twenty-something years on. Nat Protocols 1(2), 581–585.

33.	Imbeaud S., Graudens E., Boulanger V., Barlet X., Zaborski P., Eveno E., et al. (2005) Towards standardization of RNA quality assessment using user-independent classifiers of microcapillary electrophoresis traces. Nucleic Acid Res 33(6), e56.

34.	Coposis, V., Bibeau, F., Bascoul-Mollevi, C., Salvertat, N., Chalbos, P., Bareil, C., et al. (2007) Impact of RNA degradation on gene expression profiles: assessment of different methods to reliably determine RNA quality. J Biotechnol 127(4), 549–559.

Comments (Loading...)

Post comment/View all comments