Table 3.

16S rRNA-targeted oligonucleotide probes developed in this study.

Probe	Probe sequence (5′–3′)	Specificity	E. coli position no.a	% FA FISHb
EXma1271	GCT TTC AGG GAT TTG CGC CT	Cluster I	1271–1290	45
H1229	TTG TAC CGG CCA TTG TAG TAC G	1229–1250
H1251	CTC GCG AAG TGG CTG CCC G	1251–1269
EXaa430	TTT CTT CCC TTC TGA CAG GGT TT	Cluster II	430–452	45
H409	TAC GAC CCG AAA GCC TTC CTC	409–429
C432	CTT CTT CCC TTC TGA CAG GGC	432–452
C444	CCC ATA AGC ACT TCT TCC C	444–462
EXco1016	CTC TCA AAG AGA GCA CTT CCC TA	Cluster III, IV	1016–1038	45
H994	TTT CTA GGG CTT TTT CGG GAT G	994–1015
ENni1437	CCC GAA GGT CCG CCC AGC T	Cluster V	1437–1455	50
ENpa1421c	CCA GCT GCT TCT GGT GCA ATC G	Cluster VI	1421–1442	45

^aProbe target position on E. coli 16S rRNA according to [6].

^bFormamide concentration (v/v) in FISH hybridization buffer at 46 °C.

^cUse Probe ENpa1421 together with probe DSB706 for specific detection.