TABLE 2.

Characteristics of rpoB data sets and phylogenies for different taxonomic levelsa

Taxonomic groupTaxonomic levelNo. of taxaSaturated codon position(s)rpoB (complete gene)ResolutionbrpoB (DGGE fragment)Resolutionb
No. of nucleotide positionsGINo. of nucleotide positionsGI
BacteriaDomain50All774 (aa)0.670.0526/47126 (aa)0.650.088/47
ActinobacteriaPhylum11None3,3361.730.306/83902.830.345/8
ChlamydiaceaeFamily7None3,7560.590.302/43871.130.562/4
FirmicutesPhylum333rd1,9780.820.1619/302621.610.3010/30
    BacillalesOrder113rd2,3081.640.624/82620.390.245/8
    LactobacillalesOrder123rd2,3360.740.375/92620.870.364/9
    StreptococcusGenus9None3,5460.710.374/63930.49ND6/6
    MycoplasmataceaeFamily6None2,6791.70.182/33541.340.151/3
ProteobacteriaPhylum461st, 3rd1,147 (aa)0.570.0835/43127 (aa)0.520.1023/43
    AlphaproteobacteriaClass9None3,9930.4ND4/63871.880.312/6
    GammaproteobacteriaClass293rd2,6600.890.3619/262580.890.3611/26
    EnterobacterialesOrder14None4,0201.270.3411/113870.560.225/11
E. coli/S. flexneriSpecies5None4,026NDND2/2387NDND1/2
  • a ND, value cannot be defined (data set is too small and/or lacks informative positions).

  • b Number of nodes resolved (>80% bootstrap support value) out of the total nodes, with bold type indicating the gene (rpoB or 16S rRNA) displaying the most resolved node.