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Volume 18, Number 3—March 2012


A Systematic Approach for Discovering Novel, Clinically Relevant Bacteria

Robert Schlaberg1Comments to Author , Keith E. Simmon1, and Mark A. Fisher
Author affiliations: University of Utah School of Medicine, Salt Lake City, Utah, USA (R. Schlaberg, M.A. Fisher); ARUP Laboratories, Salt Lake City (R. Schlaberg, K.E. Simmon, M.A. Fisher)

Main Article

Table 3

Anatomical sites and possible novel bacterial isolates*

Source Identity, % Best species-level match Cluster Gram stain morphology Comment†
Tissue 98.8 Acidovorax delafieldii N GNR
Tissue 97.2 Actinoallomurus fulvus N GPR
CSF 98.3 Actinomyces meyeri Y GPR
Pericardial fluid 94.4 Anaerococcus prevotii N GPC
Tissue 94.8 Capnocytophaga sputigena N GNR
CSF 93.8 Chryseobacterium taiwanense Y GNR Planobacterium taklimakanense, short reference sequence
CSF 98.3 Corynebacterium mucifaciens Y GPR
Tissue 98.6 Cupriavidus gilardii Y GNR
CSF 97.1 Erwinia chrysanthemi Y‡ GNR
Tissue 97.7 E. chrysanthemi Y‡ GNR
CSF 97.2 Globicatella sanguinis Y GPC
Tissue 96.2 Kocuria kristinae Y GPC
CSF 92.4 Desmospora activa Y GPR Kroppenstedtia eburnea
Synovial fluid 91.2 Laceyella sacchari N GVR
Tissue 96.0 Microbacterium thalassium Y‡ GPR
Tissue 95.9 M. thalassium Y‡ GVR
Tissue 96.9 Neisseria canis N GNC
Tissue 97.9 Neisseria zoodegmatis Y GNCB
Biopsy specimen 98.7 Nocardia beijingensis Y GPR
Brain 98.9 Nocardia nova Y GPR
Tissue 98.9 Nocardia transvalensis N GPR
CSF 96.1 Phenylobacterium immobile N GNR
Tissue 97.5 Prosthecomicrobium enhydrum N GVR
Tissue 95.2 Pseudomonas pohangensis Y‡ GNR
Tissue 95.2 Pseudomonas pohangensis Y‡ GNR
CSF 98.5 Rothia dentocariosa Y GPR Rothia aeria, short reference sequence
Tissue 98.0 Streptococcus mitis Y GPC
Valve 96.8 Streptococcus oralis Y GPC
CSF 98.0 Streptococcus sanguinis Y GPC
CSF 96.4 Streptomyces prasinopilosus N GPR
CSF 96.8 Terrabacter terrae N GPC
Tissue 97.8 Williamsia serinedens N GPR Williamsia deligens, short reference sequence

*GNR, gram-negative rods; GPR, gram-positive rods; CSF, cerebrospinal fluid; GPC, gram-positive cocci; GVR, gram-variable rods; GNC, gram-negative cocci; GNCB, gram-negative coccobacilli; Y, isolates belonging to tentative novel taxa represented multiple times in this study.
†Results of manual review of BLASTn analysis (23).
‡These pairs of isolates belong to the same 3 respective clusters.

Main Article

1These authors contributed equally to this article.