Volume 18, Number 3—March 2012
Research
A Systematic Approach for Discovering Novel, Clinically Relevant Bacteria
Table 2
Tentative novel taxa represented by >5 clinical isolates*†
| Family | Identity, % | Initial cluster size | Reviewed cluster size | Gram stain morphology | Result |
|---|---|---|---|---|---|
| Micrococcaceae | 98.5 | 15 | 0 | GPR | Rothia aeria, short reference sequence |
| Actinomycetaceae | 98.7 | 12 | 11 | GPR | 1 strain with >1% dissimilarity |
| Thermoactinomycetaceae | 91.8 | 12 | 12 | GPR | Belong to Kroppenstedtia eburnea gen. nov., sp. nov. |
| Moraxellaceae | 96.4 | 11 | 11 | GNR | Most similar to Acinetobacter ursingii |
| Corynebacteriaceae | 98.1 | 10 | 10 | GPR | Most similar to Corynebacterium. mucifaciens |
| Corynebacteriaceae | 98.6 | 10 | 5 | GPR | Most similar to C. jeikeium, 5 isolates are C. jeikeium |
| Enterobacteriaceae | 98.9 | 10 | 10 | GNR | Most similar to Enterobacter cloacae |
| Streptomycetaceae | 98.5 | 9 | 0 | GPR | Streptomyces thermoviolaceus subsp. thermoviolaceus |
| Nocardiaceae | 98.9 | 9 | 9 | GPR | Most similar to Nocardia vermiculata |
| Cardiobacteriaceae | 98.9 | 8 | 0 | GNR | Belong to Cardiobacterium hominis, poor reference sequence |
| Flavobacteriaceae | 86.5 | 7 | 7 | GNR | Most similar to Chryseobacterium daecheongense |
| Actinomycetaceae | 96.9 | 7 | 7 | GPR | Most similar to Actinomyces odontolyticus |
| Actinomycetaceae | 98.5 | 6 | 6 | GPR | Most similar to Actinomyces meyeri |
| Thermoactinomycetaceae | 90.8 | 5 | 5 | GPR | Most similar to Laceyella putida |
| Actinomycetaceae | 95.0 | 5 | 3+2 | GPR | 2 separate taxa |
| Streptococcaceae | 96.7 | 5 | 5 | GPC | Most similar to Streptococcus oralis |
| Enterobacteriaceae | 97.3 | 5 | 5 | GNR | Most similar to Dickeya dieffenbachiae |
| Actinomycetaceae | 97.8 | 5 | 3+2 | GPR | 2 separate taxa |
| Streptococcaceae | 97.9 | 5 | 5 | GPC | Most similar to Streptococcus mitis |
*GPR, gram-positive rods; GNR, gram-negative rods; GPC, gram-positive cocci.
†initial and reviewed clusters sizes indicate number of isolates in each cluster before and after manual review, outcome of manual review, and most similar valid species names are listed. Manual review was performed for all clusters with at least 5 isolates. Sequences were aligned with type strain sequences, and manual BLAST (23) analysis was performed to calculate pairwise sequence identities.
1These authors contributed equally to this article.
