Summary
Recent advances in microdissection have succeeded the molecular biological approaches on specific cells of interest within tissue specimens by overcoming the obstacle of tissue complexity. Recently, we found that methacam is suitable for analysis of RNA, protein, and genomic DNA in small tissue samples using paraffin-embedded tissue (PET) sections in conjunction with microdissection technique. By application of sensitive quantitation methods, such as those utilizing fluorescent dyes specific for RNA or protein, molecules of small quantity can be normalized between samples, and thus quantitative expression analysis for RNA or protein can be applied in microdissected small tissue specimens. In addition, methacarn-fixation extends its availability for genomic DNA analysis in terms of target fragment size and number of microdissected cells required. Paraffin embedding permits ease of handling tissues that extend the availability of methacarn fixation for genetic analysis in large-scale experiments. In addition, considering its advantages for immunohistochemistry, tissue embedding after methacarn-fixation should be recommended as a valuable approach for routine application possibly in combination with targeted genetic analysis of immunophenotypically defined cell populations. In combination with techniques such as expression library construction, microarray and subtractive hybridization or differential display, microdissection will permit the establishment of “genetic fingerprints” of specific cellular areas.
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References
Berger DH, Chang H, Wood M, Huang L, Heath CW, Lehman T, Ruggeri B (1999) Mutational activation of K-ras in nonneoplastic exocrine pancreatic lesions in relation to cigarette smoking status. Cancer 85: 326–332.
Blomeke B, Bennett WP, Harris CC, Shields PG (1997) Serum, plasma and paraffinembedded tissues as sources of DNA for studying cancer susceptibility genes. Carcinogenesis 18: 1271–1275.
Conti CJ, Larcher F, Chesner J, Aldaz CM (1988) Polyacrylamide gel electrophoresis and immunoblotting of proteins extracted from paraffin-embedded tissue sections. J Histochem Cytochem 36: 547–550.
Coombs NJ, Gough AC, Primrose JN (1999) Optimisation of DNA and RNA extraction from archival formal in-fixed tissue. Nucleic Acids Res 27:e12.
Diaz-Cano SJ, Brady SP (1997) DNA extraction from formalin-fixed, paraffin-embedded tissues: protein digestion as a limiting step for retrieval of high-quality DNA. Diagn Mol Pathol 6: 342–346.
Emmert-Buck MR, Bonner RF, Smith PD, Chuaqui RF, Zhuang Z, Goldstein SR, Weiss RA, Liotta LA (1996) Laser capture microdissection. Science 274: 998–1001.
Fend F, Raffeld M (2000) Laser capture microdissection in pathology. J Clin Pathol 53: 666–672.
Foss RD, Guha-Thakurta N, Conran RM, Gutman P (1994) Effects of fixative and fixation time on the extraction and polymerase chain reaction amplification of RNA from paraffin-embedded tissue. Comparison of two housekeeping gene mRNA controls. Diagn Mol Pathol 3: 148–155.
Frank TS, Svoboda-Newman SM, Hsi ED (1996) Comparison of methods for extracting DNA from formal in-fixed paraffin sections for nonisotopic PCR. Diagn Mol Pathol 5: 220–224.
Howe JR, Klimstra DS, Cordon-Cardo C (1997) DNA extraction from paraffin-embedded tissues using a salting-out procedure: a reliable method for PCR amplification of archival material. Histol Histopathol 12: 595–601.
Ikeda K, Monden T, Kanoh T, Tsujie M, Izawa H, Haba A, Ohnishi T, Sekimoto M, Tomita N, Shiozaki H, Monden M (1998) Extraction and analysis of diagnostically useful proteins from formalin-fixed, paraffin-embedded tissue sections. J Histochem Cytochem 46: 397–403.
Merkelbach S, Gehlen J, Handt S, Fuzesi L (1997) Novel enzyme immunoassay and optimized DNA extraction for the detection of polymerase-chain-reaction-amplified viral DNA from paraffin-embedded tissue. Am J Pathol 150: 1537–1546.
Ortiz-Pallardo ME, Ko Y, Sachinidis A, Vetter H, Fischer HP, Zhou H (2000) Detection of alpha-1-antitrypsin PiZ individuals by SSCP and DNA sequencing in formal in-fixed and paraffin-embedded tissue: a comparison with immunohistochemical analysis. J Hepatol 32: 406–411.
Poncin J, Mulkens J, Arends JW, de Goeij A (1999) Optimizing the APC gene mutation analysis in archival colorectal tumor tissue. Diagn Mol Pathol 8: 11–19.
Puchtler H, Waldrop FS, Meloan SN, Terry MS, Conner HM (1970) Methacarn (methanol-Carnoy) fixation. Practical and theoretical considerations. Histochemie 21: 97–116.
Scholte GH, van Doom LJ, Quint WG, Lindeman J (1997) Polymerase chain reaction for the detection of Helicobacter pylori in formaldehyde-sublimate fixed, paraffinembedded gastric biopsies. Diagn Mol Pathol 6: 238–243.
Schütze K, Lahr G (1998) Identification of expressed genes by laser-mediated manipulation of single cells. Nat Biotechnol 16: 737–742.
Shibutani M, Uneyama C (in press) Methacarn a fixation tool for multipurpose genetic analysis from paraffin-embedded tissues. Methods Enzymol.
Shibutani M, Uneyama C. Miyazaki K, Toyoda K, Hirose M (2000) Methacarn fixation, a novel tool for analysis of gene expressions in paraffin-embedded tissue specimens. Lab Invest 80: 199–208.
Uneyama C, Shibutani M, Nakagawa K, Masutomi N, Hirose M (2000) Methacarn, a fixation tool for multipurpose gene expression analysis from paraffin-embedded tissue materials. Current Topics in Biochem Res 3: 237–242.
Whittington RJ, Reddacliff L, Marsh I, Saunders V (1999) Detection of Mycobacterium avium subsp paratuberculosis in formalin-fixed paraffin-embedded intestinal tissue by IS900 polymerase chain reaction. Aust Vet J 77: 392–397.
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Shibutani, M., Uneyama, C., Masutomi, N., Takagi, H., Hirose, M. (2003). Application of methacarn fixation for genetic analysis in microdissected paraffin-embedded tissue specimens. In: Inoue, T., Pennie, W.D. (eds) Toxicogenomics. Springer, Tokyo. https://doi.org/10.1007/978-4-431-66999-9_13
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DOI: https://doi.org/10.1007/978-4-431-66999-9_13
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