TABLE 3.
Phylogenetic assignment of clones from mineral soil from three different natural forests corresponding to highly abundant TRFs in community profilesa
| Site and TRF size (bp) | Predicted TRF size (bp) | Mean peak height (FU) | Corres- ponding clone | Closest NCBI match/% homology | Phylogenetic group |
|---|---|---|---|---|---|
| Oak-hornbeam forest (Kolmberg) | |||||
| 146 | 146 | 872 | N08K | Bacterium Ellin428 (AF432252)/95 | Verrucomicrobia |
| 148 | 148 | 1,843 | M18K | Uncultured cupper smeltery bacterium D69 (AF337838)/94 | Verrucomicrobia |
| 148 | 148 | 1,843 | J02K | Uncultured bacterial clone Ac57 (AF388362)/98 | Verrucomicrobia |
| 148 | 148 | 1,843 | M05K | Uncultured bacterial clone Ac57 (AF388362)/98 | Verrucomicrobia |
| 154 | 155 | 703 | L03K | Uncultured acidobacterium UA1 (AF200696)/98 | Holophaga/Acidobacterium |
| 161 | 162 | 642 | M02K | Verrucomicrobial clone N42.61PG (AF431600)/99 | Verrucomicrobia |
| 161 | 162 | 642 | L16K | Agricultural soil bacterial clone SC-1-74 (AJ252653)/96 | Verrucomicrobia |
| 162 | 162 | 442 | G05k | Uncultured bacterial clone Ac49 (AF388313)/97 | Verrucomicrobia |
| 203 | 204 | 765 | H01K | Uncultured bacterium GKS2-164 (AJ290028)/96 | Cytophaga/Flexibacter/Bacteroides |
| 207 | 208 | 1,536 | M01K | Uncultured alphaproteobacterial clone N27.63SM (AF431139)/99 | Alphaproteobacteria |
| 208 | 208 | 1,772 | H29K | Uncultured gold mine bacterium D17 (AF337873)/95 | Cytophaga/Flexibacter/Bacteroides |
| 208 | 210 | 1,772 | H20K | Uncultured bacterial clone BCM3S-34B (AY102909)/99 | Alphaproteobacteria |
| 208 | 210 | 1,772 | L08K | Uncultured alphaproteobacterial clone glen99_6 (AY150881)/99 | Alphaproteobacteria |
| 220 | 222 | 1,539 | H24K | Uncultured acidobacterium clone SMS9 (AY043842)/99 | Holophaga/Acidobacterium |
| 245 | 249 | 635 | J01K | Uncultured bacterium clone CCM3a (AY221061)/98 | Holophaga/Acidobacterium |
| Spruce-fir-beech forest (Rothwald) | |||||
| 153 | 157 | 727 | A05R | Uncultured Acidobacteriales clone WS044 (AY174199)/98 | Holophaga/Acidobacterium |
| 154 | 155 | 1,003 | A16R | Uncultured eubacterium WR896 (AJ292801)/99 | Holophaga/Acidobacterium |
| 154 | 155 | 1,003 | C11R | Uncultured acidobacterium UA1 (AF200696)/99 | Holophaga/Acidobacterium |
| 154 | 155 | 1,003 | B25R | Agricultural soil bacterial clone SC-1-45 (AJ252636)/99 | Betaproteobacteria |
| 154 | 157 | 1,003 | A03R | Uncultured bacterial clone N12.55WL (AF432710)/99 | Deltaproteobacteria |
| 154 | 157 | 1,003 | A15R | Uncultured bacterial clone N26.112SM (AF432735)/99 | Deltaproteobacteria |
| 154 | 158 | 1,003 | Roth04 | Uncultured bacterial clone C46 (AF432770)/99 | Deltaproteobacteria |
| 203 | 206 | 628 | C07R | Uncultured bacterial clone CCU18 (AY221076)/98 | Alphaproteobacteria |
| 208 | 210 | 2,503 | B06R | Unidentified eubacterial clone DA122 (Y12598)/98 | Alphaproteobacteria |
| 208 | 210 | 2,503 | B26R | Uncultured eubacterium WR8100 (AJ292844)/99 | Alphaproteobacteria |
| 208 | 210 | 2,503 | Roth06 | Uncultured eubacterial clone IAFR109 (AF270944)/99 | Alphaproteobacteria |
| 209 | 206 | 1,808 | A09R | Uncultured bacterial clone CCU18 (AY221076)/99 | Alphaproteobacteria |
| 220 | 222 | 2,334 | C15R | Uncultured earthworm cast bacterial clone c234 (AY154590)/99 | Holophaga/Acidobacterium |
| 235 | 236 | 1,070 | B29R | Uncultured eubacterium WD235 (AJ292680)/98 | Gammaproteobacteria |
| 235 | 236 | 1,070 | C19R | Uncultured eubacterium WD235 (AJ292680)/100 | Gammaproteobacteria |
| 236 | 237 | 1,045 | A04R | Uncultured acidobacterial clone NOS7.146WL (AY043714)/96 | Holophaga/Acidobacterium |
| 237 | 238 | 785 | C16R | Uncultured acidobacterial clone NOS7.146WL (AY043714)/97 | Holophaga/Acidobacterium |
| 237 | 237 | 785 | A14R | Uncultured planctomycete YNPRH54A (AF465657)/92 | Planctomycetales |
| 244 | 246 | 1,010 | B11R | Uncultured bacterial clone BCTP21 (AF485788)/94 | Holophaga/Acidobacterium |
| Austrian pine forest (Stampfltal) | |||||
| 69 | 70 | 1,313 | F10ST | Actinobacterium dtb36 (AJ309984)/96 | High-G+C gram positive |
| 70 | 73 | 1,601 | E07ST | Unidentified actinobacterium d13 (AJ292034)/97 | High-G+C gram positive |
| 124 | 127 | 371 | D02ST | Pedomicrobium manganicum (X97691)/97 | Alphaproteobacteria |
| 140 | 142 | 654 | D07ST | Rhizosphere soil bacterial clone RSC-II-66 (AJ252690)/96 | Cytophaga/Flexibacter/Bacteroides |
| 146 | 147 | 1,111 | D22ST | Uncultured gold mine bacterium D (AF337867)/99 | Betaproteobacteria |
| 153 | 156 | 621 | D11ST | Uncultured soil bacterial clone Tc127-88 (AY242751)/94 | High-G+C gram positive |
| 153 | 156 | 621 | D31ST | Unidentified eubacterium (AF010117)/93 | High-G+C gram positive |
| 161 | 162 | 368 | F13ST | Unidentified eubacterium (AF010030)/98 | Verrucomicrobia |
| 200 | 204 | 337 | E01ST | Uncultured actinobacterial clone GCPF6 (AY129782)/96 | High-G+C gram positive |
| 200 | 204 | 337 | D12ST | Uncultured soil bacterial clone Tc120-G03 (Ay242750)/97 | High-G+C gram positive |
| 208 | 210 | 728 | D10ST | Uncultured gold mine bacterium D23 (AF337879)/95 | Alphaproteobacteria |
a
Mean peak heights are average values of 10 profiles.