Molecular identification of clinical “difficult-to-identify” microbes from sequencing 16S ribosomal DNA and internal transcribed spacer 2

Cheng, Cancan; Sun, Jingjing; Zheng, Fen; Wu, Kuihai; Rui, Yongyu

doi:10.1186/1476-0711-13-1

Annals of Clinical Microbiology and Antimicrobials

Table 1 16S rDNA-based identification of a collection of 47 “difficult-to-identify” bacteria clinical isolates

From: Molecular identification of clinical “difficult-to-identify” microbes from sequencing 16S ribosomal DNA and internal transcribed spacer 2

Genus/strain	No. of isolates	Source of isolates	GenBank accession no.	BLAST
				E-value	% ID
Gram-negative	22
Acinetobacter johnsonii	1	Secretion	KF381212	0.0	100
Aggregatibacter aphrophilus	1	Blood	KF410885	0.0	100
Agrobacterium tumefaciens ^a	1	Blood	JF487939	0.0	100
Bacteroides fragilis	1	Blood	KF381209	0.0	100
Bilophila wadsworthia ^a,	1	Pleural fluid	KF414628	0.0	99
Campylobacter fetus	1	Blood	KF372434	0.0	100
Capnocytophaga sputigena ^a	3	Blood, secretion	JF422019	0.0	99
Delftia sp.	1	Puncture fluid	KF410887	0.0	--^c
Dialister pneumosintes ^a	1	Cerebrospinal fluid	KF410890	0.0	100
Eikenella corrodens	1	Blood	KF372435	0.0	100
Enterobacter sp.	1	Blood	KC148534	0.0	--^c
Haemophilus influenzae	1	Blood	JF487936	0.0	100
Massilia sp.^a	1	Puncture fluid	KF410886	0.0	100
Moraxella osloensis	3	Blood, secretion	KF372432	0.0	100
Neisseria meningitidis	2	Cerebrospinal fluid, blood	KF372431	0.0	99
Pontibacter sp.^b	1	Puncture fluid	KF410889	0.0	--^c
Prevotella bivia	1	Secretion	KF372433	0.0	99
Gram-positive	23
Bacillus amyloliquefaciens	1	Puncture fluid	KF410881	0.0	99
Bacillus niabensis ^b	1	Puncture fluid	KF381217	0.0	100
Bacillus pumilus	1	Secretion	KF381216	0.0	99
Brachybacterium sp.	1	Secretion	KF410892	0.0	--^c
Corynebacterium amycolatum	1	Blood	JF487935	0.0	99
Corynebacterium falsenii	1	Blood	KF414626	0.0	100
Corynebacterium sp.	2	Blood, secretion	KF414627	0.0	--^c
Corynebacterium xerosis	1	Blood	KF410882	0.0	100
Granulicatella adiacens	1	Blood	KF381213	0.0	100
Janibacter sp.^a	1	Blood	KF410884	0.0	--^c
Leifsonia sp.^a	2	Blood	KF410883	0.0	--^c
Nocardia sp.	6	Secretion	KF381210	0.0	--^c
Paenibacillus massiliensis ^a	1	Puncture fluid	KF381215	0.0	100
Propionibacterium acnes	1	Blood	KF381211	0.0	100
Rhodococcus equi	1	Secretion	KF410888	0.0	100
Streptomyces sp.	1	Secretion	KF410891	0.0	--^c
Acid-fast staining positive^d	2
Mycobacterium abscessus	1	Secretion	JF487938	0.0	100
Mycobacterium tuberculosis	1	Sputum	KF410893	0.0	100

^aThe clinical isolates first reported in China.
^bThe clinical isolates first reported in the international literature.
^cMore than two species in the same genus with the % ID ≥ 99%.
^dAll these isolates are not available to be identified by Phoneix or Microscan, and exception of these were attempted to identify by Phoneix.

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ISSN: 1476-0711

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