Table S 2. Morphological features, phylogenetic affiliation and distribution of archaeal clones analyzed from libraries.

Phylogenetic group / OTU / Clones / Closest sequence-microorganisms / Acession no. / Identity (%) / Habitat of closest relative
Methanomicrobiales / OHW5 / 1 / Uncultured archaeon clone ATB-EN5733 / EU636881 / 98 / Biogas plant with cattle liquid manure and maize silage
LC1 / 4 / Uncultured archaeon clone ATB-EN5716 / EU636892 / 97 / Mesophilic biogas plant supplied with cattle liquid manure and maize silage
LC2 / 5 / Uncultured archaeon clone ATB-EN5821 / EU636886 / 98 / Mesophilic biogas plant supplied with cattle liquid manure and maize silage
LC3 / 8 / Uncultured archaeon clone ATB-EN5607 / EU636871 / 98 / Mesophilic biogas plant supplied with cattle liquid manure and maize silage
LC4 / 16 / Uncultured archaeon clone ATB-EN5611 / EU636873 / 98 / Mesophilic biogas plant supplied with cattle liquid manure and maize silage
LC5 / 1 / Uncultured archaeon clone ATB-EN5612 / EU636874 / 96 / Mesophilic biogas plant supplied with cattle liquid manure and maize silage
LC6 / 6 / Uncultured Methanomicrobiaceae archaeon MRR-mcr54 / AY125654 / 98 / Rice roots
LC7 / 2 / Uncultured archaeon clone ATB-EN5717 / EU636891 / 93 / Biogas plantsupplied with cattle liquid manure and maize silage
LC14 / 5 / Uncultured archaeon clone ATB-EN5733 / EU636881 / 97 / Biogas plant supplied with cattle liquid manure and maize silage
LC15 / 25 / Uncultured Methanomicrobiaceae archaeon MRR-mcr54 / AY125650 / 98 / Rice roots
LC16 / 7 / Uncultured archaeon clone ATB-EN10715 / EU636841 / 98 / Biogas plant supplied with cattle liquid manure and maize silage
LC17 / 1 / Uncultured Methanomicrobiaceae archaeon MRR-mcr55 / AY125651 / 97 / Rice roots
LC18 / 1 / Uncultured Methanomicrobiaceae archaeon clone KM82 / DQ085329 / 95 / Landfill leachate
LC19 / 3 / Uncultured Methanomicrobiaceae archaeon MRR-mcr56 / AY125652 / 96 / Rice roots


Table S 2. Continued

Phylogenetic group / OTU / Clones / Closest sequence- microorganisms / Acession no. / Identity (%) / Habitat of closest relative
Methanomicrobiales / OT44-1 / 18 / Uncultured Methanomicrobiaceae archaeon MRR-mcr54 / AY125650 / 98 / Rice root
OT44-2 / 9 / Uncultured archaeon clone ATB-EN5599 / EU636867 / 98 / Biogas plant supplied with cattle liquid manure and maize silage
OT44-3 / 4 / Uncultured archaeon clone ATB-EN5612 / EU636874 / 96 / Biogas plant supplied with cattle liquid manure and maize silage
OT44-4 / 1 / Uncultured Methanomicrobiaceae archaeon clone KM72 / DQ085327 / 99 / Landfill leachate
OT44-5 / 1 / Uncultured archaeon clone ATB-EN5834 / EU636894 / 93 / Biogas plant supplied with cattle liquid manure and maize silage
OT44-6 / 1 / Methanoculleus bourgensis - strain: MS2 / AB300787 / 94 / Japanese paddy field soil
OT44-8 / 2 / Uncultured archaeon clone ATB-EN5611 / EU636873 / 98 / Biogas plant supplied with cattle liquid manure and maize silage
A-LC1 / 25 / Uncultured euryarchaeote clone C35_D21_H_A_A09 / EF552160 / 99 / Thermophilic anaerobic solid waste digestor
A-LC2 / 1 / Uncultured archaeon clone MCSArc_B5 / EU591668 / 92 / Sludge pretreatment in methanogenic systems
Methanobacteriales / OHW1 / 35 / Uncultured methanogenic archaeon clone VAL-17 / EF628128 / 95 / Sewer
OHW2 / 11 / Uncultured methanogenic archaeon clone VAL-14 / EF628125 / 98 / Sewer
OHW3 / 2 / Uncultured methanogenic archaeon clone CWL-22 / EF628183 / 96 / Sewer
OHW4 / 5 / Uncultured methanogenic archaeon clone JPL-10 / EF628155 / 85 / Sewer
LC9 / 5 / Uncultured methanogenic archaeon clone VAL-17 / EF628128 / 96 / Sewer
LC13 / 2 / Uncultured methanogenic archaeon clone VAL-14 / EF628125 / 95 / Sewer


Table S 2. Continued

Phylogenetic group / OTU / Clones / Closest sequence- microorganisms / Acession no. / Identity (%) / Habitat of closest relative
Methanobacteriales / OT44-7 / 1 / Uncultured methanogenic archaeon clone VAL-17 / EF628128 / 98 / Sewer
LC11 / 1 / Uncultured methanogenic archaeon clone GranMCR4M3 / AY937284 / 98 / Uasb bioreactor granules treating brewery waste water
LC12 / 1 / Methanosphaera stadtmanae / EU034643 / 92 / Human intestinal microbiota
LC8 / 2 / Methanosphaera stadtmanae DSM 3091 / AJ584650 / 92 / Methanosphaera stadtmanae DSM 3091
LC10 / 1 / Uncultured archaeon clone H1RTCR208 / DQ260483 / 95 / Biogas reactor
Unclassified / OHW6 / 1 / Uncultured archaeon clone SI_2 / DQ994834 / 85 / Upland pasture soil