Comprehensive detection of bacterial populations by PCR amplification of the 16S-23S rRNA spacer region

Journal of Microbiological Methods

Volumn 55, Issue 1, 2003, Pages 91-97

  González, Narjol ^a   Romero, Jaime ^a   Espejo, Romilio T ^a  

^a UNIVERSITY OF CHILE   (Chile)

Author keywords

ISR; Ribosomal RNA spacer; Spacer

Indexed keywords

RNA 16S; RNA 23S; SPACER DNA;

ANALYTIC METHOD; ARTICLE; BACTERIAL FLORA; BACTERIUM COLONY; BACTERIUM DETECTION; CONTROLLED STUDY; GENE AMPLIFICATION; NONHUMAN; OYSTER; POLYMERASE CHAIN REACTION; POPULATION SIZE; PRIORITY JOURNAL;

BACTERIA (MICROORGANISMS);

EID: 0142123526     PISSN: 01677012     EISSN: None     Source Type: Journal    
DOI: 10.1016/S0167-7012(03)00110-6     Document Type: Article

References (17)

1. Amann R.I., Ludwig W., Schleifer K.-H. Phylogenetic identification and in situ detection of individual microbial cells without cultivation. Microbiol. Rev. 59:1995;143-169.
2. Andersson S.G., Stothard D.R., Fuerst P., Kurland C.G. Molecular phylogeny and rearrangement of rRNA genes in Rickettsia species. Mol. Biol. Evol. 16:1999;987-995.
3. Bensaadi-Merchermek N., Salvado J.-C., Cagnon C., Karama S., Mouchès C. Characterization of the unlinked 16S rDNA and 23S-5S rRNA operon of Wolbachia pipientis, a prokaryotic parasite of insect gonads. Gene. 165:1995;81-86.
4. Espejo R.T., Romero J. Bacterial community in copper sulfide ores inoculated and leached with solution from a commercial-scale copper leaching plant. Appl. Environ. Microbiol. 63:1997;1344-1348.
5. Fukunaga M., Mifuchi I. Unique organization of Leptospira interrogans rRNA genes. J. Bacteriol. 171:1989;5763-5767.
6. García-Martinez J., Acinas S.G., Anton A.I., Rodriguez-Valera F. Use of the 16S-23S ribosomal genes spacer region in studies of prokaryotic diversity. J. Microbiol. Methods. 36:1999;55-64.
7. Gürtler V., Stanisich V. New approaches to typing and identification of bacteria using the 16S-23S rDNA spacer region. Microbiology. 142:1996;3-16.
8. Jensen M.A., Webster J.A., Straus N. Rapid identification of bacteria on the basis of polymerase chain reaction-amplified ribosomal DNA spacer polymorphisms. Appl. Environ. Microbiol. 59:1993;945-952.
9. Maidak B.L., Cole J.R., Lilburn T.G., Parker C.T. Jr., Saxman P.R., Farris R.J., Garrity G.M., Olsen G.J., Schmidt T.M., Tiedje J.M. The RDP-II (Ribosomal Database Project). Nucleic Acids Res. 29:2001;173-174.
10. Martin-Laurent F., Philippot L., Hallet S., Chaussod R., Germon J.C., Soulas G., Nagpal M.L., Fox K.F., Fox A. Utility of 16S-23S rRNA spacer region methodology: how similar are interspace regions within a genome and between strains for closely related organisms? J. Microbiol. Methods. 33:1998;211-219.
11. Nei M., Li W.H. Mathematical model for studying genetic variation in terms of restriction endonucleases. Proc. Natl. Acad. Sci. U. S. A. 76:1979;5269-5273.
12. Ojaimi C., Davidson B.E., Saint Girons I., Old I.G. Conservation of gene arrangement and an unusual organization of rRNA genes in the linear chromosomes of the Lyme disease spirochaetes Borrelia burgdorferi, B. garinii and B. afzelii. Microbiology. 140:1994;2931-2940.
13. Romero J., García-Varela M., Laclette J.P., Espejo R.T. Bacterial 16S rRNA gene analysis revealed that bacterial related to Arcobacter spp. constitute an abundant and common component of the oyster microflora (Tiostrea chilensis). Microb. Ecol. 44:2002;365-371.
14. Tajima K., Aminov R.I., Nagamine T., Matsui H., Nakamura M., Benno Y. Diet-dependent shifts in the bacterial population of the rumen revealed with real-time PCR. Appl. Environ. Microbiol. 67:2001;2766-2774.
15. Tomb J.F., White O., Kerlavage A.R., Clayton R.A., Sutton G.G., Fleischmann R.D., Ketchum K.A., Klenk H.P., Gill S., Dougherty B.A., Nelson K., Quackenbush J., Zhou L., Kirkness E.F., Peterson S., Loftus B., Richardson D., Dodson R., Khalak H.G., Glodek A., McKenney K., Fitzegerald L.M., Lee N., Adams M.D., Venter J.C.et al. The complete genome sequence of the gastric pathogen Helicobacter pylori. Nature. 388:1997;539-547.
16. Van de Peer Y., De Wachter R. TREECON for Windows: a software package for the construction and drawing of evolutionary trees for the Microsoft Windows environment. Comput. Appl. Biosci. 10:1994;569-570.
17. Zhongtang Y., Mohn W.W. Bacterial diversity and community structure in an aerated lagoon revealed by ribosomal intergenic spacer analyses and 16S ribosomal DNA sequencing. Appl. Environ. Microbiol. 67:2001;1565-1574.