TABLE 5.

Possible ways to name organisms to capture all the information available by 16S rRNA gene sequence analysisa

Specimen nameNomenclature or possible nomenclatureReason for example
6703 Streptococcus anginosus Present system
6703 Streptococcus anginosus (0%)Designates that there are no sequence differences between the specimen sequence and type strain
6703 Streptococcus anginosus (0%) (blood, pharynx)As above, with clinical source of other genetically identical strains
VAMC5210 Streptococcus anginosus Present system
VAMC5210 Streptococcus anginosus (0.37%)Designates the percent difference between the specimen sequence and type strain
VAMC5210 Streptococcus anginosus sequevar (274A, 288A)Designates the position and base change of the two differences between the specimen sequence and type strain
S7745 Streptococcus anginosus Present system
S7745 Streptococcus anginosus (0.55%)Designates the percent difference between the specimen sequence and type strain
S7745 Streptococcus anginosus (0.55%) sequevar (137A, 288A, 487G)As above and designates the position and substitution of the three differences between the specimen sequence and type strain
S7745 Streptococcus anginosus (0.55%) sequevar (137A, 288A, 487G) (urogenital)All known information is included, including the most common site of isolation
VAMC5366 Streptococcus anginosus Present system
VAMC5366 Streptococcus anginosus (1.10%)Designates the percent difference between the specimen sequence and type strain; since there is more than 1% difference, consider naming as a new species
VAMC5366 Streptococcus anginosus sequevar: differs from type strain at positions 71, 97, 186, 274, 288, and 463Designates the position of the six differences between the specimen sequence and type strain
VAMC5366 Streptococcus anginosus (1.10%) (pharynx)Designates the percent difference between the specimen sequence and type strain and the most common site of isolation
  • a The genotypic information makes naming organisms more complex but at times may have clinical importance. All examples are of S. anginosus subspecies or sequevars shown in Fig. 4.