TABLE 1.

16S rRNA-targeted oligonucleotide probes used in microchip analyses

Probe no.	Target organism(s)	Probe sequence	Designation of probea	Source or reference
4	Methanobacterium [other than strains reacting with Mb(II)Mbt 1285]	5′-CGAACTACGACCTGGTTTAG-3′	Mb(I) 643	This work
5	M. thermoautotrophicum, M. wolfei, M. thermaggregans, Methanothermobacter	5′-CCCGGCCTCAAGCCTAATAG-3′	Mb(II)Mbt 1285	This work
6	Thermococcus + Pyrococcus	5′-ACTTACGGGCCCGGCTACGG-3′	TcPc 579	This work
21	Geotoga	5′-AGTTTCATGCGCACTGACAC-3′	Got 625	This work
25	Petrotoga	5′-CTGTAGTGTGTCCACTACCC-3′	Pet 454	This work
27	Petrotoga	5′-GCCCAGTAGACCAACTTCTT-3′	Pet 725	This work
30	Thermococcus	5′-CCAGTACCTCAGGCCTAT-3′	Tc 179	This work
39	Thermodesulfobacterium	5′-TAACCTATGACTTGTCCAGC-3′	Tdb 588	This work
44	Desulfurococcus	5′-TCGACCCGACCCAAGGGGCC-3′	Dco 1440	This work
46	Desulfotomaculum (D. geothermicum, D. thermobenzoicum, D. australicum)	5′-GCGGACCCATCCATTAGCGG-3′	Dfm(I) 218	This work
48	Desulfotomaculum (D. ruminis, D. nigrificans)	5′-AAGTCCACCAGTATCAGAGG-3′	Dfm(II) 634	This work
50	Thermoanaerobacter	5′-CTCGCTACTACCTGCATGTC-3′	Tab 993	This work
52	Thermus (T. thermophilus, T. flavus, T. aquaticus, but not T. filiformis and T. scotoductus)	5′-GGGTTTCGTCCCGGGTTC-3′	S-G-Thus-0438-a-A-18	18
53	Geobacillus	5′-GGGTGTGACCCCTCTAAC-3′	S-*-Tbcil-0832-a-A-18	18
54	Thermotoga + Thermosipho	5′-GTTCCGTCTCCCTCTACC-3′	S-*-Ttoga-0660-a-A-18	18
55	Aquificales + Desulfurobacterium and Thermovibrio species	5′-TCGCGCAACGCTCGGGACC-3′	S-O-Hydr-0540-a-A-19	18
58	Methanobacterium (all species) + Methanothermobacter	5′-CCACCCCGTTAAGAGTG-3′	MbMbt 408	This work

^aThe designations of the probes published earlier (17) are according to the Oligonucleotide Probe Database nomenclature (2). The designations of the probes designed in the present work include generic abbreviations adopted in the Ribosomal Database Project (27) and the target position in E. coli numbering.