A specific and versatile genome walking technique

Gene

Volumn 381, Issue 1-2, 2006, Pages 18-23

  Guo, Haitao ^a   Xiong, Jin ^a  

^a TEXAS A AND M UNIVERSITY   (United States)

Author keywords

Heliophilum fasciatum; Nested PCR; Partial degenerate primers; Rhodobacter capsulatus; Touchdown PCR

Indexed keywords

ARTICLE; CONTROLLED STUDY; DNA FLANKING REGION; DNA SEQUENCE; GENE AMPLIFICATION; GENE LOCUS; GENE SEQUENCE; GENOME WALKING TECHNIQUE; NONHUMAN; NUCLEIC ACID ANALYSIS; PHOTOTROPHIC BACTERIUM; POLYMERASE CHAIN REACTION; PRIORITY JOURNAL; RHODOBACTER CAPSULATUS;

CHROMOSOME WALKING; DNA, BACTERIAL; GENOME, BACTERIAL; GRAM-POSITIVE BACTERIA; POLYMERASE CHAIN REACTION; RHODOBACTER CAPSULATUS;

HELIOPHILUM FASCIATUM; RHODOBACTER CAPSULATUS;

EID: 33748935118     PISSN: 03781119     EISSN: None     Source Type: Journal    
DOI: 10.1016/j.gene.2006.06.002     Document Type: Article

References (20)

1. Arnold C., and Hodgson I.J. Vectorette PCR: a novel approach to genomic walking. PCR Methods Appl. 1 (1991) 29-42
2. Carraro D.M., et al. PCR-assisted contig extension: stepwise strategy for bacterial genome closure. Biotechniques 34 (2003) 626-632
3. Haselkorn R., et al. The Rhodobacter capsulatus genome. Photosynth. Res. 70 (2001) 43-52
4. Huang G., Zhang L., and Birch R.G. Rapid amplification and cloning of Tn5 flanking fragments by inverse PCR. Lett. Appl. Microbiol. 31 (2000) 149-153
5. Jones D.H., and Winistorfer S.C. Genome walking with 2- to 4-kb steps using panhandle PCR. PCR Methods Appl. 2 (1993) 197-203
6. Levano-Garcia J., Verjovski-Almeida S., and da Silva A.C.R. Mapping transposon insertion sites by touchdown PCR and hybrid degenerate primers. Biotechniques 38 (2005) 225-229
7. Lindahl T. Instability and decay of the primary structure of DNA. Nature 362 (1993) 709-715
8. Liu Y.-G., and Whittier R.F. Thermal asymmetric interlaced PCR: automatable amplification and sequencing of insert end fragments from P1 and YAC clones for chromosome walking. Genomics 25 (1995) 674-681
9. Min H., Guo H., and Xiong J. Rhythmic gene expression in a purple photosynthetic bacterium, Rhodobacter sphaeroides. FEBS Lett. 579 (2005) 808-812
10. Myrick K.V., and Gelbart W.M. Universal fast walking for direct and versatile determination of flanking sequence. Gene 284 (2002) 125-131
11. Ochman H., GeRer A.S., and Hartl D.L. Genetic applications of an inverse polymerase chain reaction. Genetics 120 (1988) 621-623
12. Parker J.D., Rabinovitch P.S., and Burmer G.C. Targeted gene walking polymerase chain reaction. Nucleic Acids Res. 19 (1991) 3055-3060
13. Pfeifer G.P., Steigerwald S.D., Mueller P.R., Wold B., and Riggs A.D. Genomic sequencing and methylation analysis by ligation mediated PCR. Science 246 (1989) 810-813
14. Pomp D., and Medrano J.F. Organic solvents as facilitators of polymerase chain reaction. Biotechniques 10 (1991) 58-59
15. Pospiech A., and Neumann B. A versatile quick-prep of genomic DNA from gram-positive bacteria. Trends Genet. 11 (1995) 217-218
16. Regier J.C., and Shi D. Increase yield of PCR product from degenerate primers with nondegenerate, nonhomologous 5′ tails. Biotechniques 38 (2005) 34-38
17. Rogers Y.C., Munk A.C., Meincke L.J., and Han C.S. Closing bacterial genomic sequence gaps with adaptor-PCR. Biotechniques 39 (2005) 31-34
18. Sachse K. Specificity and performance of diagnostic PCR assays. Methods Mol. Biol. 216 (2003) 3-29
19. Triglia T., Peterson M.G., and Kemp D.J. A procedure for in vitro amplification of DNA segments that lie outside the boundaries of known sequence. Nucleic Acids Res. 16 (1988) 8186
20. Young D.A., Bauer C.E., Williams J.C., and Marrs B.L. Genetic evidence for superoperonal organization of genes for photosynthetic pigments and pigment-binding proteins in Rhodobacter capsulatus. Mol. Gen. Genet. 218 (1989) 1-12