Evaluation of PCR-based methods for isolating flanking regions of genes

Molecular Biotechnology

Volumn 32, Issue 2, 2006, Pages 111-116

  Satyanarayana, K V ^a   Chandrashekar, A ^a   Ravishankar, G A ^a  

^a CENTRAL FOOD TECHNOLOGICAL RESEARCH INSTITUTE   (India)

Author keywords

Genome walking; Ligation mediated PCR; PCR; Promoter; Uneven PCR

Indexed keywords

ENZYMES; GENETIC ENGINEERING;

GENOME WALKING; PCR; PROMOTER;

GENES;

CAFFEINE; METHYLTRANSFERASE; RESTRICTION ENDONUCLEASE;

ANALYTIC METHOD; ARTICLE; BIOSYNTHESIS; COFFEE; COMPARATIVE STUDY; DNA FLANKING REGION; GENE; GENE ISOLATION; LIGATION; NONHUMAN; NUCLEOTIDE SEQUENCE; POLYMERASE CHAIN REACTION; PROMOTER REGION; RESTRICTION MAPPING;

5' FLANKING REGION; BIOTECHNOLOGY; CHROMOSOME WALKING; COFFEA; DNA, PLANT; EVALUATION STUDIES; GENES, PLANT; METHYLTRANSFERASES; POLYMERASE CHAIN REACTION; PROMOTER REGIONS (GENETICS);

COFFEA CANEPHORA;

EID: 31644450334     PISSN: 10736085     EISSN: None     Source Type: Journal    
DOI: 10.1385/MB:32:2:111     Document Type: Article

References (15)

1. Sambrook, J., Fritsch, E. F., and Maniatis, T. (1989) Molecular Cloning: a laboratory manual. 2nd ed., Cold Spring Harbor Press, Cold Spring Harbor, NY.
2. Saiki, R. K., Gelfand, D. H., Stoffel, S., Scharf, S. J., Higuchi, R., Horn, G. T., Mullis, K. B., and Erlich, H. A. (1988) Primer-directed enzymatic amplification of DNA with a thermostable DNA polymerase. Science 239, 481-491.
3. Nthangeni, M. B., Ramagoma, F., Tlou, M. G., and Litthauer, D. (2005) Development of a versatile cassette for directional genome walking using cassette ligation-mediated PCR and its application in the cloning of complete lipolytic genes from Bacillus species. J. Microbiol. Methods 61, 225-234.
4. Ochman, H., Gerber, A. S., and Hartl, D. L. (1988) Genetic applications of an inverse polymerase chain reaction. Genetics 120, 621-623.
5. Rosenthal, A. and Jones, D. S. (1990) Genomic walking and sequencing by oligo-cassette mediated polymerase chain reaction. Nucleic Acids Res. 18, 3095-3096.
6. Kilstrup, M. and Kristiansen, K. N. (2000) Rapid genome walking: a simplified oligo-cassette mediated polymerase chain reaction using a single genome-specific primer. Nucleic Acids Res. 28, e55.
7. Lagerstrom, M., Parik, J., Malmgren, H., Stewart, J., Pettersson, U., and Landegren, U. (1991) Capture PCR: efficient amplification of DNA fragments adjacent to a known sequence in human and YAC DNA. PCR Methods Appl. 1, 111-119.
8. Siebert, P. D., Chenchik, A., Kellogg, D. E., Lukyanov, K. A., and Lukyanov, S. A. (1995) An improved method for walking in uncloned genomic DNA. Nucleic Acids Res. 23, 1087-1088.
9. Padegimas, L. S., and Reichert, N. A. (1998) Adapter ligation-based polymerase chain reaction-mediated walking. Anal. Biochem. 260, 149-153.
10. Cormack, R. S. and Somssich, I. E. (1997) Rapid amplification of genomic ends (RAGE) as a simple method to clone flanking genomic DNA. Gene 194, 273-276.
11. Liu, X. and Baird, W. V. (2001) Rapid Amplification of Genomic DNA Ends by NlaIII partial digestion and polynucleotide tailing. Plant Mol. Biol. Rep. 19, 261-267.
12. Liu, Y. G. and Whittier, R. F. (1995) Thermal asymmetric interlaced PCR: Automatable amplification and sequencing of insert and fragments from P1 and YAC clones for chromosome walking. Genomics 25, 674-681.
13. Chen, X. and Ray, W. (1997) Direct amplification of unknown genes and fragments by Uneven polymerase chain reaction. Gene 185, 195-199.
14. Satyanarayana, K.V., Vinod, K., Chandrashekar, A., and Ravishankar, G.A. (2005) Isolation of promoter for N-methyltransferase gene associated with caffeine biosynthesis in Coffea canephora. J. Biotech. 119, 20-25.
15. Lukyanov, S. A., Gurskaya, N. G., Lukyanov, K. A., Tarabykin, V. S., and Sverdlov, E. D. (1994) Highly efficient subtractive hybridization of cDNA. Bioorg.Chem. 20, 701-704.