Combined histochemical staining, RNA amplification, regional, and single cell cDNA analysis within the hippocampus

Laboratory Investigation

Volumn 84, Issue 8, 2004, Pages 952-962

  Ginsberg, Stephen D ^a   Che, Shaoli ^a  

^a NEW YORK UNIVERSITY SCHOOL OF MEDICINE   (United States)

Author keywords

Acridine orange; CA1 pyramidal neurons; cDNA microarray; Expression profiling; In vitro transcription; Nissl stain

Indexed keywords

ACRIDINE ORANGE; BETA ACTIN; COMPLEMENTARY DNA; CRESYL VIOLET; DYE; EOSIN; GLYCERALDEHYDE 3 PHOSPHATE DEHYDROGENASE; HEMATOXYLIN; RNA; SILVER; THIONINE; UNCLASSIFIED DRUG;

ADULT; AGED; ANIMAL TISSUE; ARTICLE; AUTOPSY; BRAIN NERVE CELL; CONTROLLED STUDY; DNA MICROARRAY; GENE AMPLIFICATION; GENE EXPRESSION PROFILING; HIPPOCAMPUS; HISTOCHEMISTRY; HUMAN; HUMAN TISSUE; IMMUNOCYTOCHEMISTRY; IN VITRO STUDY; LASER CAPTURE MICRODISSECTION; MALE; MICRODISSECTION; MOUSE; NEUROFILAMENT; NISSL STAINING; NONHUMAN; POLYMERASE CHAIN REACTION; PRIORITY JOURNAL; RNA HYBRIDIZATION; RNA TRANSCRIPTION;

AGED; AGED, 80 AND OVER; ANIMALS; COLORING AGENTS; DNA, COMPLEMENTARY; GENE EXPRESSION PROFILING; HIPPOCAMPUS; HISTOCYTOCHEMISTRY; HUMANS; IMMUNOHISTOCHEMISTRY; MALE; MICE; MICE, INBRED C57BL; MIDDLE AGED; NUCLEIC ACID AMPLIFICATION TECHNIQUES; OLIGONUCLEOTIDE ARRAY SEQUENCE ANALYSIS; POLYMERASE CHAIN REACTION; PYRAMIDAL CELLS; RNA; STAINING AND LABELING;

EID: 3543053392     PISSN: 00236837     EISSN: None     Source Type: Journal    
DOI: 10.1038/labinvest.3700110     Document Type: Article

References (50)

1. Kadkol SS, Gage WR, Pasternack GR. In situ hybridization-theory and practice. Mol Diagn 1999;4:169-183.
2. Van Deerlin VMD, Ginsberg SD, Lee VM-Y, et al. The use of fixed human post mortem brain tissue to study mRNA expression in neurodegenerative diseases: applications of microdissection and mRNA amplification. In: Geschwind DH, Gregg JP (eds). Microarrays for the Neurosciences: An Essential Guide. MIT Press: Boston, 2002, pp 201-235.
3. Mirnics K, Middleton FA, Marquez A, et al. Molecular characterization of schizophrenia viewed by microarray analysis of gene expression in prefrontal cortex. Neuron 2000;28:53-67.
4. Ginsberg SD, Che S. RNA amplification in brain tissues. Neurochem Res 2002;27:981-992.
5. Ginsberg SD, Hemby SE, Lee VM-Y, et al. Expression profile of transcripts in Alzheimer's disease tangle-bearing CA1 neurons. Ann Neurol 2000;48:77-87.
6. Ginsberg SD, Crino PB, Hemby SE, et al. Predominance of neuronal mRNAs in individual Alzheimer's disease senile plaques. Ann Neurol 1999;45:174-181.
7. Mufson EJ, Counts SE, Ginsberg SD. Single cell gene expression profiles of nucleus basalis cholinergic neurons in Alzheimer's disease. Neurochem Res 2002;27:1035-1048.
8. Eberwine J, Kacharmina JE, Andrews C, et al. mRNA expression analysis of tissue sections and single cells. J Neurosci 2001;21:8310-8314.
9. Fink L, Kinfe T, Seeger W, et al. Immunostaining for cell picking and real-time mRNA quantitation. Am J Pathol 2000;157:1459-1466.
10. Chow N, Cox C, Callahan LM, et al. Expression profiles of multiple genes in single neurons of Alzheimer's disease. Proc Natl Acad Sci USA 1998;95:9620-9625.
11. Hemby SE, Ginsberg SD, Brunk B, et al. Gene expression profile for schizophrenia: discrete neuron transcription patterns in the entorhinal cortex. Arch Gen Psychiatry 2002;59:631-640.
12. Hemby SE, Trojanowski JQ, Ginsberg SD. Neuronspecific age-related decreases in dopamine receptor subtype mRNAs. J Comp Neurol 2003;456:176-183.
13. Crino PB, Khodakhah K, Becker K, et al. Presence and phosphorylation of transcription factors in dendrites. Proc Natl Acad Sci USA 1998;95:2313-2318.
14. Ginsberg SD, Elarova I, Ruben M, et al. Single cell gene expression analysis: implications for neurodegenerative and neuropsychiatric disorders. Neurochem Res 2004;29:1054-1065.
15. Goldsworthy SM, Stockton PS, Trempus CS, et al. Effects of fixation on RNA extraction and amplification from laser capture microdissected tissue. Mol Carcinog 1999;25:86-91.
16. Luzzi V, Holtschlag V, Watson MA. Expression profiling of ductal carcinoma in situ by laser capture microdissection and high-density oligonucleotide arrays. Am J Pathol 2001;158:2005-2010.
17. To MD, Done SJ, Redston M, et al. Analysis of mRNA from microdissected frozen tissue sections without RNA isolation. Am J Pathol 1998;153:47-51.
18. Becker I, Becker K-F, Röhrl MH, et al. Single cell mutation analysis of tumors from stained histologic slides. Lab Invest 1996;75:801-807.
19. Tanji N, Ross MD, Cara A, et al. Effect of tissue processing on the ability to recover nucleic acid from specific renal tissue compartments by laser capture microdissection. Exp Nephrol 2001;9:229-234.
20. Murase T, Inagaki H, Eimoto T. Influence of histochemical and immunohistochemical stains on polymerase chain reaction. Mod Pathol 2000;13:147-151.
21. Ehrig T, Abdulkadir SA, Dintzis SM, et al. Quantitative amplification of genomic DNA from histological tissue sections after staining with nuclear dyes and laser capture microdissection. J Mol Diagn 2001;3:22-25.
22. Luo L, Salunga RC, Guo H, et al. Gene expression profiles of laser-captured adjacent neuronal subtypes. Nat Med 1999;5:117-122.
23. Vincent VA, DeVoss JJ, Ryan HS, et al. Analysis of neuronal gene expression with laser capture microdissection. J Neurosci Res 2002;69:578-586.
24. Ginsberg SD. Gene expression profiling using single cell microdissection combined with cDNA microarrays. In: Geschwind DH (ed). DNA Microarrays: The New Frontier in Gene Discovery and Gene Expression Analysis. Society for Neuroscience Press: Washington, 2001, pp 61-70.
25. Arakawa H, Neault JF, Tajmir-Riahi HA. Silver(I) complexes with DNA and RNA studied by fourier transform infrared spectroscopy and capillary electrophoresis. Biophys J 2001;81:1580-1587.
26. Somerville LL, Wang K. The ultrasensitive silver "protein" stain also detects nanograms of nucleic acids. Biochem Biophys Res Commun 1981;102:53-58.
27. von Bertalanffy L, Bickis I. Identification of cytoplasmic basophilia (ribonucleic acid) by fluorescence microscopy. J Histochem Cytochem 1956;4: 481-493.
28. Mikel UV, Becker Jr RL. A comparative study of quantitative stains for DNA in image cytometry. Analyt Quant Cytol Histol 1991;13:253-260.
29. Mai JK, Schmidt-Kastner R, Tefett H-B. Use of acridine orange for histologic analysis of the central nervous system. J Histochem Cytochem 1984;32:97-104.
30. Ginsberg SD, Galvin JE, Chiu T-S, et al. RNA sequestration to pathological lesions of neuro-degenerative disorders. Acta Neuropathol 1998;96: 487-494.
31. Ginsberg SD, Crino PB, Lee VM-Y, et al. Sequestration of RNA in Alzheimer's disease neurofibrillary tangles and senile plaques. Ann Neurol 1997;41:200-209.
32. Ginsberg SD, Martin LJ. Axonal transection in adult rat brain induces transsynaptic apoptosis and persistent atrophy of target neurons. J Neurotrauma 2002;19: 99-109.
33. Ginsberg SD, Portera-Cailliau C, Martin LJ. Fimbria-fornix transection and excitotoxicity produce similar neurodegeneration in septum. Neuroscience 1999;88: 1059-1071.
34. Ginsberg SD, Hof PR, Young WG, et al. Noradrenergic innervation of the hypothalamus of rhesus monkeys: distribution of dopamine-β-hydroxylase- immunoreactive fibers and a quantitative analysis of varicosities in the paraventricular nucleus. J Comp Neurol 1993; 327:597-611.
35. Ginsberg SD, Hof PR, McKinney WT, et al. The noradrenergic innervation density of the monkey paraventricular nucleus is not altered by early social deprivation. Neurosci Lett 1993;158:130-134.
36. Ginsberg SD, Galvin JE, Lee VM-Y, et al. Accumulation of intracellular amyloid-β peptide (Aβ 1-40) in mucopolysaccharidosis brains. J Neuropathol Exp Neurol 1999;58:815-824.
37. Gallyas F. A principle for silver staining of tissue elements by physical development. Acta Morphol Acad Sci Hung 1971;19:57-71.
38. Gallyas F. Silver staining of Alzheimer's neurofibrillary changes by means of physical development. Acta Morphol Acad Sci Hung 1971;19:1-8.
39. Lee VM-Y, Carden MJ, Schlaepfer WW, et al. Monoclonal antibodies distinguish several differentially phosphorylated states of the two largest rat neurofilament subunits (NF-H and NF-M) and demonstrate their existence in the normal nervous system of adult rats. J Neurosci 1987;7:3474-3488.
40. Che S, Ginsberg SD. Amplification of transcripts using terminal continuation. Lab Invest 2004;84:131-137.
41. Ginsberg SD, Schmidt ML, Crino PB, et al. Molecular pathology of Alzheimer's disease and related disorders. In: Peters A, Morrison JH (eds). Cerebral Cortex, Vol. 14, Neurodegenerative and Age-related Changes in Structure and Function of Cerebral Cortex Kluwer Academic/Plenum: New York, 1999, pp 603-653.
42. Fasulo WH, Hemby SE. Time-dependent changes in gene expression profiles of midbrain dopamine neurons following haloperidol administration. J Neurochem 2003;87:205-219.
43. Tang WX, Fasulo WH, Mash DC, et al. Molecular profiling of midbrain dopamine regions in cocaine overdose victims. J Neurochem 2003;85:911-924.
44. Craven RA, Totty N, Harnden P, et al. Laser capture microdissection and two-dimensional polyacrylamide gel electrophoresis: evaluation of tissue preparation and sample limitations. Am J Pathol 2002;160: 815-822.
45. Peters A, Palay SL, DeF Webster H. The Fine Structure of the Nervous System. Neurons and Their Supporting Cells, 3rd edn. Oxford University Press, New York, 1991.
46. Su X. A refined method for silver staining of nucleic acids fixed on nitrocellulose. Anal Biochem 1987;163: 535-536.
47. Skopp RN, Lane LC. Agarose gel electrophoresis of denatured RNA with silver staining. Anal Biochem 1988;169:132-137.
48. Schümmelfeder N. Histochemical significance of the polychromatic fluorescence induced in tissue stained with acridine orange. J Histochem Cytochem 1958;6: 392-393.
49. McMaster GK, Carmichael GG. Analysis of single- and double-stranded nucleic acids on polyacrylamide and agarose gels by using glyoxal and acridine orange. Proc Natl Acad Sci USA 1977;74:4835-4838.
50. Lerman LS. Structural considerations in the interaction of DNA and acridines. J Mol Biol 1961;3:18-30.