Design and evaluation of useful bacterium-specific PCR primers that amplify genes coding for bacterial 16S rRNA

Applied and Environmental Microbiology

Volumn 64, Issue 2, 1998, Pages 795-799

  Marchesi, Julian R ^a   Sato, Takuichi ^d   Weightman, Andrew J ^a   Martin, Tracey A ^a   Fry, John C ^a   Hiom, Sarah J ^b   Wade, William G ^c  

^a CARDIFF UNIVERSITY   (United Kingdom)

^b BRISTOL DENTAL HOSPITAL   (United Kingdom)

^c GUY S HOSPITAL   (United Kingdom)

^d NIIGATA UNIVERSITY   (Japan)

Author keywords

[No Author keywords available]

Indexed keywords

PRIMER RNA; RNA 16S;

ARTICLE; BACTERIAL GENE; CONTROLLED STUDY; ECOLOGY; ENVIRONMENT; GENE AMPLIFICATION; NONHUMAN; POLYMERASE CHAIN REACTION; RNA GENE;

BACTERIA (MICROORGANISMS);

EID: 0031937375     PISSN: 00992240     EISSN: None     Source Type: Journal    
DOI: 10.1128/aem.64.2.795-799.1998     Document Type: Article

References (15)

1. Amann, R. I., W. Ludwig, and K.-H. Schleifer. 1995. Phylogenetic identification and in situ detection of individual microbial cells without cultivation Microbiol. Rev. 59:143-169.
2. Ausubel, F. M., R. Brent, R. E. Kingston, D. D. Moore, J. G. Seidman, J. A. Smith, and K. Struhl. 1989. Current protocols in molecular biology. Greene Publishing Associates-Wiley Interscience, New York, N.Y.
3. Baranton, G. Personal communication.
4. Brosius, J., J. L. Palmer, H. P. Kennedy, and H. F. Noller. 1978. Complete nucleotide sequence of a 16S ribosomal RNA gene from Escherichia coli. Proc. Natl. Acad. Sci. USA 75:4801-4805.
5. Brunk, C. F., E. Avaniss-Aghajani, and C. A. Brunk. 1996. A computer analysis of primer and probe hybridization potential with bacterial small-subunit rRNA sequences. Appl. Environ. Microbiol. 62:872-879.
6. Delong, E. F. 1992. Archaea in coastal marine environments. Proc. Natl. Acad. Sci. USA 89:5685-5689.
7. Lane, D. J. 1991. 16S/23S rRNA sequencing, p. 115-175. In E. Stackebrandt and M. Goodfellow (ed.), Nucleic acid techniques in bacterial systematics. John Wiley & Sons, Chichester, United Kingdom.
8. Parkes, R. J., B. A. Cragg, J. C. Fry, R. A. Herbert, and J. W. T. Wimpenny. 1990. Bacterial biomass and activity in deep sediment layers from the Peru margin. Philos. Trans. R. Soc. Lond. B 133:139-153.
9. Reysenbach, A.-L., G. S. Wickham, and N. R. Pace. 1994. Phylogenetic analysis of the hyperthermophilic pink filament community in Octopus Spring, Yellowstone National Park. Appl. Environ. Microbiol. 60:2113-2119.
10. Rochelle, P. A., J. C. Fry, R. J. Parkes, and A. J. Weightman. 1992. DNA extraction for 16S rRNA gene analysis to determine genetic diversity in deep sediment communities. FEMS Microbiol. Lett. 100:59-66.
11. Rochelle, P. A., J. A. K. Will, J. C. Fry, G. J. S. Jenkins, R. J. Parkes, C. M. Turley, and A. J. Weightman. 1995. Extraction and amplification of 16S rRNA genes from deep marine sediments and seawater to assess bacterial community diversity, p. 219-239. In J. D. van Elsas and J. T. Trevors (ed.), Nucleic acids in the environment: methods and applications. Springer-Verlag, Berlin, Germany.
12. Sambrook, J., E. F. Fritsch, and T. Maniatis. 1989. Molecular cloning: a laboratory manual, 2nd ed. Cold Spring Harbor Laboratory Press, Cold Spring Harbor, N.Y.
13. Van de Peer, Y., J. Jansen, P. De Rijk, and R. De Wachter. 1997. Database on the structure of small ribosomal subunit RNA. Nucleic Acids Res. 25: 111-116.
14. Wheeler Alm, E., D. B. Oerther, N. Larsen, D. A. Stahl, and L. Raskin. 1996. The Oligonucleotide Probe Database. Appl. Environ. Microbiol 62:3557-3559.
15. Woese, C. R. 1987. Bacterial evolution. Microbiol. Rev. 51:221-271.