Modeling formalin fixation and histological processing with ribonuclease A: Effects of ethanol dehydration on reversal of formaldehyde cross-links

Laboratory Investigation

Volumn 88, Issue 7, 2008, Pages 785-791

  Fowler, Carol B ^a   O'Leary, Timothy J ^b   Mason, Jeffrey T ^a  

^a ARMED FORCES INSTITUTE OF PATHOLOGY   (United States)

^b VETERANS AFFAIRS MEDICAL CENTER   (United States)

Author keywords

Antigen retrieval; Formaldehyde; Formalin fixed, paraffin embedded tissue; Histology; Proteomics; Ribonuclease A

Indexed keywords

ALCOHOL; BIOCHEMICAL MARKER; DETERGENT; FORMALDEHYDE; RIBONUCLEASE A;

ARTICLE; BETA SHEET; CHEMICAL INTERACTION; CHEMICAL MODIFICATION; CIRCULAR DICHROISM; CROSS LINKING; DEHYDRATION; ENERGY; GEL ELECTROPHORESIS; HEAT; HISTOLOGY; HYDROGEN BOND; PRIORITY JOURNAL; PROTEIN AGGREGATION; PROTEIN MODIFICATION; TISSUE FIXATION;

ANIMALS; CATTLE; CROSS-LINKING REAGENTS; DEHYDRATION; ETHANOL; FIXATIVES; FORMALDEHYDE; HISTOCYTOLOGICAL PREPARATION TECHNIQUES; PROTEIN CONFORMATION; PROTEIN DENATURATION; RIBONUCLEASE, PANCREATIC;

EID: 46049096567     PISSN: 00236837     EISSN: 15300307     Source Type: Journal    
DOI: 10.1038/labinvest.2008.43     Document Type: Article

References (36)

1. Chaurand P, Stoeckli M, Caprioli RM. Direct profiling of proteins in biological tissue sections by MALDI mass spectrometry. Anal Chem 1999;71:5263-5270.
2. Conti CJ, Larcher F, Chesner J, et al. Polyacrylamide gel electrophoresis and immunoblotting of proteins extracted from paraffin-embedded tissue sections. J Histochem Cytochem 1988;36:547-550.
3. de Noo ME, Deelder A, van der Werff M, et al. MALDI-TOF serum protein profiling for the detection of breast cancer. Onkologie 2006;29:501-506.
4. Cho WC, Cheng CH. Oncoproteomics: current trends and future perspectives. Expert Rev Proteomics 2007;4:401-410.
5. Neubauer H, Fehm T, Schutz C, et al. Proteomic expression profiling of breast cancer. Recent Results Cancer Res 2007;176:89-120.
6. Reymond MA, Schlegel W. Proteomics in cancer. Adv Clin Chem 2007;44:103-142.
7. Metz B, Kersten GFA, Hoogerhout P, et al. Identification of formaldehyde-induced modifications in proteins: reactions with model peptides. J Biol Chem 2004;279:6235-6243.
8. Metz B, Kersten GFA, Baart GJ, et al. Identification of formaldehyde-induced modifications in proteins: reactions with insulin. Bioconjug Chem 2006;17:815-822.
9. Crockett DK, Lin Z, Vaughn CP, et al. Identification of proteins from formalin-fixed paraffin-embedded cells by LC-MS/MS. Lab Invest 2005;85:1405-1415.
10. Rait VK, O'Leary TJ, Mason JT. Modeling formalin fixation and antigen retrieval with bovine pancreatic ribonuclease A: I -structural and functional alterations. Lab Invest 2004;84:292-299.
11. Rait VK, Xu L, O'Leary TJ, et al. Modeling formalin fixation and antigen retrieval with bovine pancreatic RNase A II. Interrelationship of cross-linking, immunoreactivity, and heat treatment. Lab Invest 2004;84:300-306.
12. Fowler CB, Cunningham RE, O'Leary TJ, et al. 'Tissue surrogates' as a model for archival formalin-fixed paraffin-embedded tissues. Lab Invest 2007;87:836-846.
13. Srinivasan M, Sedmak D, Jewell S. Effect of fixatives and tissue processing on the content and integrity of nucleic acids. Am J Pathol 2002;161:1961-1971.
14. Fowler CB, Cunningham RE, Waybright TJ, et al. Elevated hydrostatic pressure promotes protein recovery from formalin-fixed, paraffin-embedded tissue surrogates. Lab Invest 2008;88:185-195.
15. Watkins NG, Thorpe SR, Baynes JW. Glycation of amino groups in protein. Studies on the specificity of modification of RNase by glucose. J Biol Chem 1985;260:10629-10636.
16. Maralihalli GB, Bhagwat AS. Interaction of pyridoxal phosphate with the amino groups at the active site of 5-aminolevulinic acid dehydratase in maize. J Biosci 1985;7:359-364.
17. Shi S-R, Liu C, Balgley BM, et al. Protein extraction from formalin-fixed, paraffin-embedded tissue sections: quality evaluation by mass spectrometry. J Histochem Cytochem 2006;54:739-743.
18. Brewer J, Pesce A, Ashworth R. Experimental Techniques in Biochemistry. Prentice Hall Inc: Englewood Cliffs, NJ, 1974.
19. Bratthauer GL. Processing of tissue specimens. Methods Mol Biol 1999;115:77-84.
20. Hall JA, Maloney PC. Pyridoxal 5-phosphate inhibition of substrate selectivity mutans of UhpT, the sugar 6-phosphate carrier of Escherichia coli. J Bacteriology 2002;184:3756-3758.
21. Mason JR, Leong FC, Plaxco KW, et al. Two-step covalent modification of proteins. Selective labeling of Schiff base-forming sites and selective blockade of the sense of smell in vivo. J Am Chem Soc 1985;107:6075-6084.
22. Borch RF, Bernstein MD, Durst HD. Cyanohydridoborate anion as a selective reducing agent. J Am Chem Soc 1971;93:2897-2904.
23. Wlodawer A, Bott R, Sjölin L. The refined crystal structure of ribonuclease A at 2.0 A resolution. J Biol Chem 1982;257:1325-1332.
24. Cao A, Hu D, Lai L. Formation of amyloid fibrils from fully reduced hen egg white lysozyme. Protein Sci 2004;13:319-324.
25. Woody RW, Dunker AK. Aromatic and cysteine sidechain circular dichroism in proteins. In: Fasman GD (ed). Circular Dichroism and the Conformational Analysis of Biomolecules. Plenum Press: New York, 1996,pp 109-157.
26. Stelea SD, Pancoska P, Benight AS, et al. Thermal unfolding of ribonuclease A in phosphate at neutral pH: deviations from the two-state model. Protein Sci 2001;10:970-978.
27. Katakura Y, Kumamoto T, Iwai Y, et al. Fluorescence polarization study of a salt bridge between a single-chain Fv and its antigen ribonuclease A. Mol Immunol 1997;34:731-734.
28. Peng Z, Kim PS. A protein dissection study of a molten globule. Biochemistry 1994;33:2136-2141.
29. Dobson CM. Protein misfolding, evolution, and disease. Trends Biochem 1999;24:329-332.
30. Tanaka S, Oda Y, Ataka M, et al. Denaturation and aggregation of hen egg lysozyme in aqueous ethanol solution studies by dynamic light scattering. Biopolymers 2001;59:370-379.
31. Yan YB, Zhang J, He HW, et al. Oligomerization and aggregation of bovine pancreatic ribonuclease A: characteristic events observed by FTIR spectroscopy. Biophys J 2006;90:2525-2533.
32. Pace CN, Trevino S, Prabhakaran E, et al. Protein structure, stability and solubility in water and other solvents. Philos Trans R Soc Lond B Biol Sci 2004;359:1225-1235.
33. Kamatari YO, Konno T, Kataoka M, et al. The methanol-induced transition and the expanded helical conformation in hen lysozyme. Protein Sci 1998;7:681-688.
34. Herskovits TT, Jaullet H. On the structural stability and solvent denaturation of proteins. J Biol Chem 1970;245:2588-2598.
35. Goda S, Takano K, Yamagata Y, et al. Amyloid protofilament formation of hen egg lysozyme in highly concentrated ethanol solution. Protein Sci 2000;9:369-375.
36. Guijarro JI, Sunde M, Jones JA, et al. Amyloid fibril formation by an SH3 domain. Proc Natl Acad Sci USA 1998;95:4224-4228.