TABLE 2.

Names and sequences of 16S rRNA-targeting oligonucleotide probes and 16S rRNA gene-targeting primers used in this study

Primer/probe name (no.)	Sequence	Reference or source
Primers
Trep-46F	5′-GTY TTA AGC ATG CAA GTC-3′	8
10FX	5′-AGA GTT TGA TCC TGG CTN AG-3′	38
519F	5′-CCA GCA GCC GCG GTA ATA C-3′	22
519R	5′-GTA TTA CCG CGG CTG CTG G-3′	22
1054FX	5′-CAT GGY YGT CGT CAG CTC GT-3′	38
1054RX	5′-ACG AGC TGA CGA CRR CCA TG-3′	38
1509R	5′-GTT ACC TTG TTA CGA CTT CAC-3′	21
Oligonucleotide probes
S-D-eub-338-alexa (79)	5′-GTC ATT CCA TCG AAA CAT A-3′	1
S-S-Trep-HW-170 (178)	5′-CAA GGC CGT AGC CTC CTT-3′	This study
S-S-Trep-T16-432 (198)	5′-CAT CTC ACA GGC ATT CCC-3′	This study
S-S-Trep-DDK3-481 (189)	5′-CCC TTA TTC ACA TGA TTA CCG T-3′	8
S-S-Trep-I:B:C7-432 (199)	5′-CAT CAG ATG AGC ATT CCC-3′	This study
S-S-Trep-DDKL12-432 (201)	5′-CAT CTC AAG GTC ATT CCC-3′	This study
S-S-Trep-Dig3-432 (188)	5′-CAT CCC AGT ATC ATT CCC-3′	This study
S-S-Trep-Dig4-432 (192)	5′-CAT CTC AGT GTC ATT CCC-3′	This study
S-S-Trep-T5-432 (200)	5′-CAT CTT TGC ATC ATT ACC-3′	This study
S-S-T.brenna-133 (179)	5′-CCT CAC AGC TCT CTA ACC TC-3′	31
S-S-TrepGenus-725 (202)	5′-CAG AAA CYC GCC TTC GCC-3′	This study
S-S-Trep-DD7-T143-196 (214)	5′-CTT TCC TTA CTA TCT CTT G-3′	This study
S-S-F.necro-183-Cy3 (114)	5′-GAT TCC TCC ATG CGA AAA-3′	5