Spatial organization of bacterial flora in normal and inflamed intestine: A fluorescence in situ hybridization study in mice

Table 1 FISH probes.

Name	Target	Reference
Eub338	Virtually all Bacteria, Kingdom Eubacteria	6
Alf1b	Alpha group of Proteobacteria: Rhodobacter, Acetobacter, Paracoccus	7
Beta42a	Beta subclass of Proteobacteria: Rhodocyclus, Bordetella, Neisseria,Thiobacillus, Alcaligenes and other	7
Gam42a	Gamma subclass of Proteobacteria: Enterobacteriaceae, Proteus, Legionella, Azotobacter	7
Ebac	Enterobacteriaceae	8
Ec1531	Escherichia coli	9
Y16s-69	Yersinia species	10
Srb385	Sulfate reducing bacteria	11
Sgd	Desulfotomaculum subgroup	12
Hpy-1	Helicobacter pylori epsilon subclass of Proteobacteria	13
Arc1430	Arcobacter ssp. epsilon subclass of Proteobacteria	14
HGC	Gram-positive bacteria with high G+C content:Actinobacteria	15
LGC	Gram-positive bacteria with low G+C content: Firmicutes	16
Sfb	Segmented filamentous bacteria	17
Erec	Clostridium coccoides - Eubacterium rectale group	18
Lach	Subgroup of Erec	19
Ehal	Subgroup of Erec	19
Chis150	Clostridium histolyticum group (Incl. Clostridiumperfringens and Clostridium botulinum)	18
Clit135	Clostridium lituseburense group (incl. Clostridium difficile)	18
Lab158	Lactobacillus and Enterococcus group	20
Strc493	Streptococcus group	18
Enc131	Enterococcus spp and other	21
Efaec	Enterococcus faecalis, Enterococcus sulfuricus	22
Ato291	Atopobium, Coriobacterium, Eggerthella and Collinsella spp	23
Cor653	Coriobacterium group	23
Ecyl	Eubacterium cylindroides, Clostridium innocuum, Eubacterium biforme, Eubacterium tortuosum and other	19
Phasco	Phascolarctobacterium faecium, Acidaminococcus fermentans, and Succiniclasticum ruminis	19
Veil	Veillonella group	19
Rbro, Rfla	Clostridium sporosphaeroides, Ruminococcus bromii, andClostridium leptum, Ruminococcus albus and Ruminococcus flavefaciens	19
UroA, UroB	Ruminococcus obeum-like bacteria (subgroup of Erec)	24
Ser1410	Genus Brachyspira	25
Bif164	Bifidobacterium	26
CF319a	Cytophaga-Flavobacteria group	27
Bac303	Bacteroides/Prevotella group	27
Bfra602	Bacteroides fragilis group	18
Bdis656	Bacteroides distasonis group	18
Fprau	Fusobacterium prausnitzii group	28
Dss658	Sulfate reducing bacteria subgroup of delta proteobacteria	29
Arch915	Archaea	30
Non338	Nonsense probe used to test for nonspecific binding	7