Evaluation of RNA isolation methods and reference genes for RT-PCR analyses of rare target RNA

Clinical Chemistry and Laboratory Medicine

Volumn 38, Issue 2, 2000, Pages 171-177

  Mannhalter, Christine ^a   Koizar, Daniela ^a   Mitterbauer, Gerlinde ^a  

^a MEDICAL UNIVERSITY OF VIENNA   (Austria)

Author keywords

BCR ABL; Multiplex RT PCR; RNA isolation methods; RT PCR reference genes

Indexed keywords

BCR ABL PROTEIN; COMPLEMENTARY DNA; DNA; INTERFERON; MESSENGER RNA; PORPHOBILINOGEN DEAMINASE; REAGENT; RETINOIC ACID RECEPTOR;

AGAR GEL ELECTROPHORESIS; BLOOD SAMPLING; BONE MARROW TRANSPLANTATION; CASE REPORT; CHROMOSOME 22; CHROMOSOME TRANSLOCATION 9; CHRONIC MYELOID LEUKEMIA; CONFERENCE PAPER; CONTAMINATION; CONTROLLED STUDY; GENE AMPLIFICATION; GENETIC TRANSCRIPTION; HEMOLYSIS; HUMAN; HUMAN CELL; LABORATORY DIAGNOSIS; LEUKOCYTOSIS; MONONUCLEAR CELL; PRIORITY JOURNAL; PROGNOSIS; REVERSE TRANSCRIPTION POLYMERASE CHAIN REACTION; RNA ANALYSIS; SPECTROPHOTOMETRY; STANDARD;

EID: 0034109932     PISSN: 14346621     EISSN: None     Source Type: Journal    
DOI: 10.1515/CCLM.2000.026     Document Type: Conference Paper

References (26)

1. Kawasaki ES, Clark SS, Coyne MY, Smith SD, Champlin R, Witte ON, McCormick FP. Diagnosis of chronic myeloid and acute lymphocytic leukemias by detection of leukemia specific mRNA sequences amplified in vitro. Proc Natl Acad Sci USA 1988; 85:5698-702.
2. Borrow J, Goddard AD, Gibbons B, Katz F, Swirsky D, Fioretos T, et al. Diagnosis of acute promyelocytic leukemia by RT-PCR. Detection of PML-RARA and RARA-PML fusion transcripts. Br J Haematol 1992; 82:529-40.
3. Korninger L, Knöbl P, Laczika K, Mustafa S, Quehenberger P, Schwarzinger I, et al. PML-RARα PCR positivity in the bone marrow of patients with APL precedes haematological relapse by 2-3 months. Brit J Haematol 1994; 88: 427-31.
4. Mitterbauer G, Födinger M, Scherrer R, Knöbl P, Jäger U, Laczika K, et al. PCR-monitoring of minimal residual leukemia after conventional chemotherapy and bone marrow transplantation in BCR-ABL-positive acute lymphoblastic leukemia. Brit J Haematol 1995; 89:937-41.
5. Claxton DF, Liu P, Hsu HB, Marlton P, Hester J, Collins F, et al. Detection of fusion transcripts generated by the inversion 16 chromosome in acute myelogenous leukemia. Blood 1994; 83:1750-6.
6. Okamoto R, Harano H, Matsuzaki M, Motomura S, Maruta A, Kodama F, et al. Predicting relapse of chronic myelogeneous leukemis after allogeneic bone marrow transplantation by BCR-ABL mRNA and fingerprinting. Am J Clin Pathol 1995; 104:510-6.
7. Mitterbauer G, Nemeth P, Wacha S, Cross NCP, Schwarzinger I, Jäger U, et al. Quantification of minimal residual disease in patients with BCR-ABL-positive acute lymphoblastic leukemia using quantitative competitive polymerase chain reaction. Brit J Haematol 1999; 106:634-43.
8. Chirgwin JM, Przybyla AE, MacDonald RJ, Rutter WJ. Isolation of biologically active ribonucleic acid from sources enriched in ribonuclease. Biochemistry 1979; 18:5294-9.
9. Sambrook J, Fritsch EF, Maniatis T. Extraction and purification of RNA. In: Nolan C, editor. Molecular cloning. Cold Spring Harbor: Cold Spring Harbor Laboratory, 1989: 7.3-7.9.
10. Chomczynski P and Sacchi N. Single step method of RNA isolation by guanidium thiocyanate-phenol-chloroform. Anal Biochem 1987; 162:156-9.
11. Kawasaki ES. Sample preparation from blood, cells and other fluids. In: Innis MA, Gelfand DH, Sninsky JJ, White TJ, editors. PCR protocols: a guide to methods and applications. San Diego: Academic Press, 1990:146pp.
12. Simms D, Cizdziel PE, Chomczynski P. TRIzol™: a new reagent for optimal single step isolation of RNA. Focus 1993; 15:99-102.
13. Nolte FS, Thurmond C, Mitchell PS. Isolation of hepatitis C virus RNA from serum for reverse transcription-PCR. J Clin Microbiol 1994; 32:519-20.
14. Gruffat D, Piot C, Durand D, Bauchart D. Comparison of four methods for isolating large mRNA: apolipoprotein B mRNA in bovine and rat livers. Anal Biochem 1996; 242:77-83.
15. Chadderton T, Wilson C, Bewick M, Glück S. Evaluation of three rapid RNA extraction reagents: relevance for use in RT-PCR and measurement of low level gene expression in clinical samples. Cell Mol Biol 1997; 43:1227-34.
16. Moss M, Gallwitz D. Structure of two human beta-actin related processed genes, one of which is located next to a simple repetitive sequence. EMBO J 1983; 2:757-61.
17. Lion T. Appropriate controls for RT-PCR. Leukemia 1996; 10:1843.
18. Kidd V, Lion T. Debate round-table. Appropriate controls for RT-PCR. Leukemia 1997; 11:871-81.
19. Watzinger F and Lion T. Multiplex PCR for quality control of template RNA/cDNA in RT-PCR assays. Leukemia 1998; 12:1983-6.
20. Sambrook J, Fritsch EF, Maniatis T. Analysis of RNA. In: Nolan C, editor. Molecular cloning. Cold Spring Harbor: Cold Spring Harbor Laboratory, 1989:7.37-7.38.
21. Cross NCR Lin F, Chase A, Bungey J, Hughes TP, Goldman JM. Competitive polymerase chain reaction to estimate the number of BCR-ABL transcripts in chronic myeloid leukemis patients after bone marrow transplantation. Blood 1993; 82:1929-36.
22. van Rhee F, Marks DI, Lin F, Szydlo RM, Treleaven J, Delord C, et al. Quantification of residual disease in Philadelphia-positive acute lymphoblastic leukemia: comparison of blood and bone marrow. Leukemia 1995; 9:329-35.
23. Eskola JU, Hämäläinen M, Näntä V, Rajamäki A, Dahlen P, litiä A, et al. Detection of Philadelphia chromosome using PCR and europium-labeled DNA probes. Clin Biochem 1994; 27: 373-9.
24. Dirnhofer S, Berger C, Untergasser G, Geley S, Berger P. Human β-actin retropseudogenes interfere with RT-PCR. TIG 1995; 11:380-1.
25. Kawasaki ES. Sample preparation from blood, cells, and other fluids. In: Innis MA, Gelfand DH, Sninsky JJ, White TJ, editors. PCR protocols: a guide to methods and applications. San Diego: Academic Press, 1990:146-52.
26. Hämäläinen MM, Eskola JU, Hellman J, Pulkki K. Major interference from leukocytes in reverse transcription-PCR identified as neurotoxin ribonuclease from eosinophils: detection of residual chronic myelogenous leukemia from cell lysates by use of an eosinophil-depleted cell preparation. Clin Chem 1999; 45:465-71.