RT-PCR technique and its applications. State-of the-art

Journal of Animal and Feed Sciences

Volumn 12, Issue 3, 2003, Pages 403-416

  Malewski, T ^a   Malewska, A ^b   Rutkowski, R ^b  

^a INSTITUTE OF GENETICS AND ANIMAL BREEDING   (Poland)

^b MUSEUM AND INSTITUTE OF ZOOLOGY   (Poland)

Author keywords

Gene expression; Molecular diagnostics; mRNA; Real time PCR; RT PCR

Indexed keywords

EID: 0141836840     PISSN: 12301388     EISSN: None     Source Type: Journal    
DOI: 10.22358/jafs/67719/2003     Document Type: Review

References (56)

1. Baugh L R., Hill A.A., Brown E.L., Hunter C.P., 2001. Quantitative analysis of mRNA amplification by in vitro transcription. Nucl. Acid Res. 29, E29
2. Brooks E.M., Sheflin L.G., Spaulding S.W., 1995. Secondary structure in the 3_UTR of EGF and the choice of reverse transcriptases affect the detection of message diversity by RT-PCR. Biotechniques 19, 806-815
3. Bustin S.A., 2000. Absolute quantification of mRNA using real-time reverse transcription polymerase chain reaction assays. J. Molecular Endocrinol. 25, 169-193
4. Bustin S.A., Dorudi S., 1998. Molecular assessment of tumour stage and disease recurrence using PCR-based assays. Mol. Med. Today 4, 389-396
5. Chiocchia G., Smith K.A., 1997. Highly sensitive method to detect mRNAs in individual cells by direct RT-PCR using Tth DNA polymerase. Biotechniques 22, 312-318
6. Cheung R.C., Matsui S.M., Greenberg H.B., 1994. Rapid and sensitive method for detection of hepatitis C virus RNA by using silica particles. J. Clin. Microbiol. 32, 2593-2597
7. Chomczynski P., Sacchi N., 1987. Single-step method of RNA isolation by acid guanidinium thiocyanate-phenol-chloroform extraction. Anal. Biochem. 162, 156-159
8. Chonmaitree T., Menegus M., Powell K.L., 1982. The clinical relevance of 'CSF viral culture'. A two-year experience with aseptic meningitis in Rochester, NY. JAMA 247, 1843-1847
9. Cross N.C.P., Lin F., Chase A., Bungey J., Hugness T.P., Goldmann J.M., 1993. Competitive polymerase chain reaction to estimate the number of BCR-ABL transcripts in chronic myeloid leukemia patients after bone marrow transplantation. Blood 82, 1929-1939
10. Decker R., Troonen H., 1997. Diagnosing hepatitis C: overview. In: C.R. Decker, H. Troonen (Editors). Hepatitis. Abbot Diagnostics Division, Denkelheim
11. Desjardin L.E., Perkins M.D., Wolski K., Haun S., Teixeira L., Chen Y., Johnson J.L., Ellner J.J., Dietze R., Bates J., Cave M.D., Eisenach K.D., 1999. Measurement of sputum Mycobacterium tuberculosis messenger RNA as a surrogate for response to chemotherapy. Amer. J. Respir. Crit. Care Med. 160, 203-210
12. Diamandis E.P., Yousef G.M., 2002. Human tissue kallikreins: a family of new cancer biomarkers. Clin. Chem. 48, 1198-1205
13. Fend F., Kremer M., Quintanilla-Martinez L., 2000. Laser capture microdissection: methodical aspects and applications with emphasis on immuno-laser capture microdissection. Pathobiology 68, 209-214
14. Folz R.J., Nepluev I., 2000. Poly(A) cDNA-specific (PACS) RT-PCR: a quantitative method for the measurement of any poly(A)-containing mRNA not affected by contaminating genomic DNA. Biotechniques 29, 762, 764-5, 766-768
15. Fromant M., Blanquet S., Plateau P., 1995. Direct random mutagenesis of gene-sized DNA fragments using polymerase chain reaction. Anal. Biochem. 224, 347-353
16. Funaki N.O., Tanaka J., Ohshio G., Onodera H., Maetani H., Imamura M., 1998. Cytokeratin 20 mRNA in peripheral venous blood of colorectal carcinoma patients. Brit. J. Cancer 77, 1327-1332
17. Gerard G.F., Fox D.K., Nathan M., D'Alessio J.M., 1997. Reverse transcriptase. The use of cloned Moloney murine leukemia virus reverse transcriptase to synthesize DNA from RNA. Mol. Biotechnol. 8, 61-77
18. Ghossein R.A., Rosai J., 1996. Polymerase chain reaction in the detection of micrometastases and circulating tumor cells. Cancer 78, 10-16
19. Gogas H., Kefala G., Bafaloukos D., Frangia K., Polyzos A., Pectasides D., Tsoutsos D., Panagiotou P., Ioannovich J., Loukopoulos D., 2002. Prognostic significance of the sequential detection of circulating melanoma cells by RT-PCR in high-risk melanoma patients receiving adjuvant interferon. Brit. J. Cancer 87, 181-186
20. Grabko V.I., Chistyakova L.G., Lyapustin V.N., Korobko V.G., Miroshnikov A.I., 1996. Reverse transcription, amplification and sequencing of poliovirus RNA by Taq DNA polymerase. FEBS Lett. 387, 189-192
21. Guarino H., Goyal S.M., Murtaugh M.P., 1997. Comparison of four RNA extraction methods for the detection of porcine reproductive and respiratory syndrome vires by RT-PCR. New Microbiol. 20, 319-24
22. Heid C.A., Stevens J., Livak K.J., Williams P.M., 1996. Real-time quantitative PCR. Genome Res. 6, 986-994
23. Hein I., Klein D., Lehner A., Bubert A., Brandl E., Wagner M., 2001. Detection and quantification of the iap gene of Listeria monocytogenes and Listeria innocua by a new real-time quantitative PCR assay. Res. Microbiol. 152, 37-46
24. Hill W.E., 1996. The polymerase chain reaction: applications for the detection of foodborne pathogens. Crit. Rev. Food Sci. Nutr. 36, 23-173
25. Holodniy M., 1994. Clinical application of reverse transcription-polymerase chain reaction for HIV infection. Clin. Lab. Med. 14, 335-349
26. Israeli R.S., Miller W.H. Jr., Su S.L., Powell C.T., Fair W.R., Samadi D.S., Huryk R.F., DeBlasio A., Edwards E.T, Wise G.J., 1994. Sensitive nested reverse transcription polymerase chain reaction detection of circulating prostatic tumor cells: comparison of prostate-specific membrane antigen and prostate-specific antigen-based assays. Cancer Res. 54, 6306-6310
27. Jordan J.J., 2000. Real-time detection of PCR products and microbiology. New Technol. Life Sci. A Trends Guide, 8, 61-66
28. Jungerman M., 1997. Quantitative PCR and its application in haematologic molecular diagnostics (in Polish). Post. Biochem. 43, 250-256
29. Kammerer U., Kunkel B., Korn I., Nested K., 1994. Nested PCR for specific detection and rapid identification of human picornaviruses. J. Clin. Microbiol. 32, 285-291
30. Kantarjian H.M, Talpaz M., Cortes J., O'Brien S., Faded S., Thomas D., Giles F., Rios M.B., Shan J., Arlinghaus R., 2003 Quantitative polymerase chain reaction monitoring of BCR-ABL during therapy with imatinib mesylate (STI571; Gleevec) in chronic-phase chronic myelogenous leukemia. Clin. Cancer Res. 9, 160-166
31. Klein D., 2002. Quantification using real-time PCR technology: applications and limitations. Trends Mol. Med. 8, 257-260
32. Klein D., Leutenegger C.M., Bahula C., Gold P., Hofmann-Lehmann R., Salmons B., Lutz H., Gunzburg W.H., 2001. Influence of preassay and sequence variations on viral load determination by a multiplex real-time reverse transcriptase-polymerase chain reaction for feline immunodeficiency virus. J. Acq. Immun. Defic. Syndr. 26, 8-20
33. Klein C.A., Seidl S., Petat-Dutter K., Offner S., Geigl J.B., Schmidt-Kittler O., Wendler N., Passlick B., Huber R.M., Schlimok G., Baeuerle P.A., Riethmuller G., 2002. Combined transcriptome and genome analysis of single micrometastatic cells. Nat. Biotechnol. 20, 387-392
34. Knemeyer J.P., Marme N., Sauer M., 2000. Probes for detection of specific DNA sequences at the single-molecule level. Anal. Chem. 72, 3717-3724
35. Larrick J.W. (Editor), 1997. The PCR Technique: Quantitative PCR. Natick, MA, BioTechniques Books, pp. 313
36. Lion T., Henn T., Gaiger A., Kahls P., Gadner H., 1993. Early detection of relapse after bone marrow transplantation in patients with chronic myelogenous leukaemia. Lancet 341, 275-276
37. Liu J., Feldman P., Chung T.D., 2002. Real-time monitoring in vitro transcription using molecular beacons. Anal. Biochem. 300, 40-45
38. Mandigers C.M., Meijerink J.P., Raemaekers J.M., Schattenberg A.V., Mensink E.J., 1998. Graft-versus-lymphoma effect of donor leucocyte infusion shown by real-time quantitative PCR analysis of t(14;18). Lancet 352, 1522-1523
39. Ohyama H., Zhang X., Kohno Y., Alevizos I., Posner M., Wong D.T., Todd R., 2000. Laser capture microdissection-generated target sample for high-density oligonucleotide array hybridization. Biotechniques 29, 530-536
40. Pine S.R., Moy F.H., Wiemels J.L., Gill R.K., Levendoglu-Tugal O., Ozkaynak M.F., Sandoval C., Jayabose S., 2003. Real-time quantitative PCR: standardized detection of minimal residual disease in pediatric acute lymphoblastic leukemia. J. Pediatr. Hematol./Oncol. 25,103-108
41. Poddar S.K., Sawyer M.H., Connor J.D., 1998. Effect of inhibitors in clinical specimens on Taq and Tth DNA polymerase-based PCR amplification of influenza A virus. J. Med. Microbiol. 47, 1131-1135
42. Pongers-Willemse M.J., Verhagen O.J., Tibbe G.J., Wijkhuijs A.J., de Haas V., Roovers E., van der Schoot C.E., van Dongen J.J., 1998. Real-time quantitative PCR for the detection of minimal residual disease in acute lymphoblastic leukemia using junctional region specific Taqman probes. Leukemia 12, 2006-2014
43. Ramachandran C., Melnick S.J., 1999. Multidrug resistance in human tumors - molecular diagnosis and clinical significance. Mol. Diagn. 4, 81-94
44. Rasool N.B., Monroe S.S., Glass R.I., 2002. Determination of a universal nucleic acid extraction procedure for PCR detection of gastroenteritis viruses in faecal specimens. J. Virol. Meth. 100, 1-16
45. Read S.T., Jeffery K.L.M., Bangham C.R.M., 1997. Aseptic meningitis and encephalitis: the role of PCR in the diagnostic laboratory J. Clin. Microbiol. 35, 691-696
46. Rotbart H.A., 1990. Diagnosis of enteroviral meningitis with the polymerase chain reaction. J. Pediat. 117, 85-89
47. Rotbart H.A., 1997. Reproducibility of AMPLICOR enterovirus PCR test results J. Clin. Microbiol. 35, 3301-3302
48. Sawyer M.H., Holland D., Aintablian N., Connor J.D., Keyser E.F., Waecker N.J. Jr., 1994. Diagnosis of enteroviral central nervous system infection by polymerase chain reaction during a large community outbreak. Pediat. Inf. Dis. J. 13, 177-182
49. Smith R.D., Ogden C.W., Penny M.A., 2001. Exclusive amplification of cDNA template (EXACT) RT-PCR to avoid amplifying contaminating genomic pseudogenes. Biotechniques 31, 776-782
50. Soeth E., Roder C., Juhl H., Kruger U., Kremer B., Kaltho H., 1996. The detection of disseminated tumor cells in bone marrow from colorectal-cancer patients by a cytokeratin-20-specific nested reverse-transcriptase-polymerase-chain reaction is related to the stage of disease. Int. J. Cancer 69, 278-282
51. Taggart E.W., Carroll K.C., Byington C.L., Crist G.A., Hillyard D.R., 2002. Use of heat labile UNG in an RT-PCR assay for enterovirus detection. J. Virol. Meth. 105, 57-65
52. Tan W., Fang X., Li J., Liu X., 2000. Molecular beacons: a novel DNA probe for nucleic acid and protein studies. Chemistry 6, 1107-1111
53. Tyagi S., Kramer F.R., 1996. Molecular beacons-probes that fluoresce upon hybridization. Nat. Biotechnol. 14, 303-308
54. Wang T, Brown M.J., 1999. mRNA quantification by real-time TaqMan polymerase chain reaction: validation and comparison with RNase protection. Anal. Biochem. 269, 198-201
55. Wasserman L., Dreilinger A., Easter D., Wallace A., 1999. A seminested RT-PCR assay for HER2/neu: initial validation of a new method for the detection of disseminated breast cancer cells. Mol. Diagn. 4, 21-28
56. Ylikoski A., Karp M., Lilja H., Lovgren T., 2001. Dual-Label detection of amplified products in quantitative RT-PCR assay using lantanide labeled probes. Biotechniques 30, 832-845