High taxonomic level fingerprint of the human intestinal microbiota by Ligase Detection Reaction - Universal Array approach

Candela, Marco; Consolandi, Clarissa; Severgnini, Marco; Biagi, Elena; Castiglioni, Bianca; Vitali, Beatrice; De Bellis, Gianluca; Brigidi, Patrizia

doi:10.1186/1471-2180-10-116

Table 1 Probe set of the HTF-Microbi.Array.

From: High taxonomic level fingerprint of the human intestinal microbiota by Ligase Detection Reaction - Universal Array approach

PROBE	N.	TAXONOMIC LEVEL	CLUSTER	ORDER	DIVISION	ECO	H.G. AB %
Bacteroides/Prevotella	16	Cluster	Bacteroides/Prevotella	Bacteroidales	Bacteroidetes	M	20
Ruminococcus bromii	38	Sub cluster	Cl IV	Clostridiales	Firmicutes	M
Ruminococcus albus	39	Sub cluster	Cl IV	Clostridiales	Firmicutes	M
Faecalibacterium prausnitzii	40	Sub cluster	Cl IV	Clostridiales	Firmicutes	M
Oscillospira guillermondii	41	Sub cluster	Cl IV	Clostridiales	Firmicutes	M	65
Clostridium IX	37	Cluster	Cl IX	Clostridiales	Firmicutes	M
Veilonella	20	Species (et rel)	Cl IX	Clostridiales	Firmicutes	M
Clostridium XIVa	22	Cluster	Cl XIVa	Clostridiales	Firmicutes	M
Eubacterium rectale	19	Species (et rel)	Cl XIVa	Clostridiales	Firmicutes	M
Bifidobacteriaceae	25B	Family	Bifidobacterium	Bifidobacteriales	Actinobacteria	M	5
B. longum	3	Species (et rel)	Bifidobacterium	Bifidobacteriales	Actinobacteria	M
Lactobacillaceae	21B	Family	Lactobacillaceae	Lactobacillales	Firmicutes	M
L. plantarum	33	Species (et rel)	Lactobacillaceae	Lactobacillales	Firmicutes	M	<1
L. casei	12	Species (et rel)	Lactobacillaceae	Lactobacillales	Firmicutes	M
L. salivarius	14	Species (et rel)	Lactobacillaceae	Lactobacillales	Firmicutes	M
Bacillus clausii	32	Species (et rel)	Bacillaceae	Bacillales	Firmicutes	M	<1
Bacillus subtilis	8	Species (et rel)	Bacillaceae	Bacillales	Firmicutes	M	<1
Fusobacterium	15	Genus	Fusobacteriaceae	Fusobacteria	Fusobacteria	M	<0.5
Cyanobacteria	42	Family	Cyanobacteria	Cyanobacteria	Cyanobacteria	M	<0.1
Clostridium XI	36	Cluster	Cl XI	Clostridiales	Firmicutes	O	0
Clostridium difficile	18	Species (et rel)	Cl XI	Clostridiales	Firmicutes	O
Clostridium I and II	35	Cluster	Cl I and II	Clostridiales	Firmicutes	O	0
Clostridium perfringens	17	Species (et rel)	Cl I and II	Clostridiales	Firmicutes	O
Enterococcus faecalis	9	Species (et rel)	Enterococcales	Lactobacillales	Firmicutes	O	<1
Enterococcus faecium	10	Species (et rel)	Enterococcales	Lactobacillales	Firmicutes	O	<1
Bacillus cereus	7	Species (et rel)	Bacillaceae	Bacillales	Firmicutes	P	0
Enterobacteriaceae	23B	Family	Enterobacteraceae	Enterobacterales	Proteobacteria	O/P	<8
Yersinia enterocolitica	4	Species (et rel)	Enterobacteraceae	Enterobacterales	Proteobacteria	O/P	0
Proteus	5	Genus	Enterobacteraceae	Enterobacterales	Proteobacteria	O/P	0
Campylobacter	6	Genus	Campylobacteraceae	Campylobacterales	Proteobacteria	P	0

For each probe is indicated the spot number, the phylogenetic level, the phylogeny of the target group, the ecology in the gastrointestinal ecosystem [mutualistic (M), opportunistic (O), pathogen (P)]. The relative abundance in a healthy gut ecosystem of the principal microbial groups is also indicated.

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ISSN: 1471-2180

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