PCR , detection

Tanabe, S., Hase, M., Yano, T., Sato, M., Pujimura, T., and Akiyama, H. (2007). Real-time quantitative PCR detection method for pork, chicken, beef, mutton, and horseflesh in foods. Biosci. Biotechnol. Biochem. 71, 3131-3135. 

Kulski JK, Pryce T. Preparation of mycobacterial DNA from blood culture fluids by simple alkali wash and heat lysis method for PCR detection. J. Clin. Microbiol. 1996 34 1985-1991. 

Niessen, M. L., and Vogel, R. F. (1998). Group specific PCR-detection of potential trichothecene-producing Fusarium-spedes in pure cultures and cereal samples. Syst. Appl. Microbiol. 21, 618-631. 

Niessen, L., Schmidt, H., and Vogel, R. F. (2004). The use of triS gene-sequences for PCR detection and taxonomy of trichothecene-producing species in the Fusarium section Sporotrichiella. Int. J. Food Microbiol. 95, 305-319. 

Patino, B., Mirete, S., Gonzalez-Jaen, M. T., Mule, G., Rodriguez, T., and Velazquez, C. (2004). PCR detection assay of the fumonisin producing Fusarium verticillioides strains. J. Food Prot. 67,1278-1283. 

Straumfors Halstensen, A., Nordby, K. C., Eduard, W., and Sletner Klemsdal, S. (2006a). Real-time PCR detection of toxigenic Fusarium in airborne and settled grain dust and associations with trichothecene mycotoxms. /. Environ. Monit. 8,1235-1241. 

Strausbaugh, C. A., Overturf, K., and Koehn, A. C. (2005). Pathogenicity and real-time PCR detection of Fusarium spp. in wheat and barley roots. Can. J. Plant Pathol, in, 430-438. 

Turner, A. S., Lees, A. K., Rezanoor, H. N., and Nicholson, P. (1998). Refinement of PCR-detection of Fusarium avenaceum and evidence from DNA marker studies for phenetic relatedness to Fusarium tricinctum. Plant Pathol. (Oxford) 47, 278-288. 

Immunocapture-polymerase chain reaction (IC-PCR) is a synthesis of two commonly used diagnostic tools. This method exploits the high-affinity binding of antibodies to provide a facile method of purification, usually from a complex matrix, supplying the substrate for PCR detection. PCR exponentially amplifies a deoxyribonucleic acid (DNA) template in a temperature-dependent fashion by the annealing of oligonucleotide primers, enzymatic extension of bound primers by a heat-stable polymerase, followed by denaturation of... 

Sefc, K. M., Leonhardt, W., and Steinkellner, H. (2000) Partial sequence identification of grapevine-leafroll-associated virus-1 and development of a highly sensitive IC-RT-PCR detection method. J. Virol. Methods 86, 101-106. 

Zhang Z, Irie RF, Chi DD, Hoon DS. Cellular immuno-PCR. Detection of a carbohydrate tumor marker. Am J Pathol 1998 152(6) 1427-1432. 

HaUin, S., and Lindgren, P. E. (1999). PCR detection of genes encoding nitrile reductase in denitrifying bacteria. Appl. Environ. Microbiol. 65, 1652—1657. 

Fujii N, Kubota T, Shirakawa S et al. (1996) Characterization of component-1 gene of botulinum C2 toxin and PCR detection of its gene in clostridial species. In Biochemical and Biophysical Research Communications 220 353-9... 

The TRAP (telomeric repeat amplification protocol) assay is a widely used method for detection of telomerase activity. This technique measures the telomerase activity present in cell extracts. Briefly, cellular extract containing telomerase activity is incubated with a telomeric substrate (a short strand of DNA onto which the telomerase wiU. attach the telomeric repeats) followed by polymerase chain reaction (PCR) amplification of the elongated telomere. Detection of the PCR product is by a number of methods, including gel electrophoresis, radiometric detection, ELISA, and real-time PCR detection. ... 

Conventional cytogenetics, FISH, and RT-PCR have been reliably used for the laboratory detection of the t(9 22). RT-PCR detection is possible in up to 95% of cases, and may detect up to 10% of cases missed by conventional cytogenetics, and is an important modality for minimal residual disease detection. Recently, quantitative real-time PCR-based approaches have improved the ability to detect and quantify BCR-ABL transcripts in CML patients (Figure 39-15 Color Plate 4]). The recent availability the tyrosine kinase inhibitor imatinib mesylate for CML is an important development in the treatment of CML and further underscores the importance of methods for sensitive and specific identification and quantification of the BCR-ABL fusions in patients with a clinical suspicion of a CML. 

Steenbergen EJ, Verhagen OJ, van Leeuwen EF, van den Berg H, Behrendt H, Slater RM, et al. Prolonged persistence of PCR-detectable minimal residual disease after diagnosis or first relapse predicts poor outcome in childhood B-precursor acute lymphoblastic leukemia. Leukemia 1995 9 1726-34. 

Provan D, Bartlett-Pandite L, Zwicky C, et al. Eradication of PCR detectable chronic lymphocytic leukemia cells is associated with improved outcome after bone marrow transplantation. Blood 1996 88 2228-2235. 

It is applicable to a wide variety of clinical, pathologic, or forensic specimens, as well as to formalin-fixed tissne, inactivated bacterial cultnres, and archaeological specimens. However, since PCR detects nucleic acids from both living and dead microbes, this mnst be taken into account if PCR is used to monitor response to therapy. 

The rjbe gene of the 0157 antigen cluster was targeted by a primer pair in an assay described by Desmarchelier et al. (1998). The PCR detected less than 1 CPU of E. coli 0157 per ml in raw milk following enrichment. 

FIGURE 2.3 Post-PCR detection of amplification products. (A) Agarose gel electrophoresis showing two PCR products obtained using DNA from two tumor samples, T1 and T2, which are of similar size. L, DNA ladder (size marker) NC, negative control. (B) Capillary gel electrophoresis showing two PCR products of different sizes. 

Singh HB, Katoch VM, Natrajan M, et al. Improved protocol for PCR detection of Mycobacterium leprae in buffered formalin-fixed skin biopsies. Int J Lepr Other Mycobact Dis. 2004 72 175-178. 

Wang, R.-F., A. Luneau, W.-W. Cao, and C.E. Cerniglia. 1996b. PCR detection of polycyclic hydrocarbon-degrading mycobacteria. Environ. Sci. Technol. 30 307-311. 

Key words Proximity ligation, PLA, Aptamer, Selection, Real-time PCR, Detection. 

---