Example 2

CF319 (5' - TGGTCCGTRTCTCAGTAC - 3'), is an antisense 16S rRNA probe designed to target CFB bacteria[1].  It targets the region of the 16S rRNA gene from bases 319 to 336, relative to Escherichia coli.  In this example we want to assess how good this probe is at describing the CFB division (as described by the RDP release 8.1) to the exclusion of all other bacteria.  In addition we want to see how well it targets some novel uncultured CFB bacteria of our own.  

We will action the following steps:
  1. Construct database.
  2. Enter probe.
  3. Do analysis.
  4. View results.
Next Page.

[1] Manz, W., Amann, R., Ludwig, W., Vancanneyt, M. and Schleifer, K.-H. (1996) Application of a suite of 16S rRNA-specific oligonucleotide probes designed to investigate bacteria of the phylum Cytophaga-Flavobacter-Bacteroides in the natural environment. Microbiology, 142, 1097-1106